<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE article PUBLIC "-//NLM//DTD JATS (Z39.96) Journal Publishing DTD v1.3 20210610//EN" "JATS-journalpublishing1-3-mathml3.dtd">
<article xmlns:ali="http://www.niso.org/schemas/ali/1.0/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xml:lang="EN" article-type="research-article">
<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">Front. Microbiol.</journal-id>
<journal-title-group>
<journal-title>Frontiers in Microbiology</journal-title>
<abbrev-journal-title abbrev-type="pubmed">Front. Microbiol.</abbrev-journal-title>
</journal-title-group>
<issn pub-type="epub">1664-302X</issn>
<publisher>
<publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.3389/fmicb.2025.1647926</article-id>
<article-version article-version-type="Version of Record" vocab="NISO-RP-8-2008"/>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Original Research</subject>
</subj-group>
</article-categories>
<title-group>
<article-title>Impact of predation on the bacterial community structure of Mediterranean mussels during depuration</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author" equal-contrib="yes">
<name><surname>Blaiotta</surname> <given-names>Giuseppe</given-names></name>
<xref ref-type="aff" rid="aff1"/>
<xref ref-type="author-notes" rid="fn002"><sup>&#x2020;</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/110075/overview"/>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Software" vocab-term-identifier="https://credit.niso.org/contributor-roles/software/">Software</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Validation" vocab-term-identifier="https://credit.niso.org/contributor-roles/validation/">Validation</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Writing &#x2013; original draft" vocab-term-identifier="https://credit.niso.org/contributor-roles/writing-original-draft/">Writing &#x2013; original draft</role>
</contrib>
<contrib contrib-type="author" equal-contrib="yes">
<name><surname>Ciliberti</surname> <given-names>Ivan</given-names></name>
<xref ref-type="aff" rid="aff1"/>
<xref ref-type="author-notes" rid="fn002"><sup>&#x2020;</sup></xref>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Formal analysis" vocab-term-identifier="https://credit.niso.org/contributor-roles/formal-analysis/">Formal analysis</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Writing &#x2013; original draft" vocab-term-identifier="https://credit.niso.org/contributor-roles/writing-original-draft/">Writing &#x2013; original draft</role>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name><surname>Aponte</surname> <given-names>Maria</given-names></name>
<xref ref-type="aff" rid="aff1"/>
<xref ref-type="corresp" rid="c001"><sup>&#x002A;</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/111793/overview"/>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Conceptualization" vocab-term-identifier="https://credit.niso.org/contributor-roles/conceptualization/">Conceptualization</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Data curation" vocab-term-identifier="https://credit.niso.org/contributor-roles/data-curation/">Data curation</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Writing &#x2013; review &amp; editing" vocab-term-identifier="https://credit.niso.org/contributor-roles/writing-review-editing/">Writing &#x2013; review &amp; editing</role>
</contrib>
<contrib contrib-type="author">
<name><surname>Romano</surname> <given-names>Raffaele</given-names></name>
<xref ref-type="aff" rid="aff1"/>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Visualization" vocab-term-identifier="https://credit.niso.org/contributor-roles/visualization/">Visualization</role>
<role vocab="credit" vocab-identifier="https://credit.niso.org/" vocab-term="Writing &#x2013; original draft" vocab-term-identifier="https://credit.niso.org/contributor-roles/writing-original-draft/">Writing &#x2013; original draft</role>
</contrib>
</contrib-group>
<aff id="aff1"><institution>Department of Agricultural Sciences, University of Naples Federico II</institution>, <city>Portici</city>, <country country="it">Italy</country></aff>
<author-notes>
<corresp id="c001"><label>&#x002A;</label>Correspondence: Maria Aponte, <email xlink:href="mailto:aponte@unina.it">aponte@unina.it</email></corresp>
<fn fn-type="equal" id="fn002"><label>&#x2020;</label><p>These authors have contributed equally to this work and share first authorship</p></fn>
</author-notes>
<pub-date publication-format="electronic" date-type="pub" iso-8601-date="2025-11-06">
<day>06</day>
<month>11</month>
<year>2025</year>
</pub-date>
<pub-date publication-format="electronic" date-type="collection">
<year>2025</year>
</pub-date>
<volume>16</volume>
<elocation-id>1647926</elocation-id>
<history>
<date date-type="received">
<day>17</day>
<month>06</month>
<year>2025</year>
</date>
<date date-type="accepted">
<day>30</day>
<month>09</month>
<year>2025</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright &#x00A9; 2025 Blaiotta, Ciliberti, Aponte and Romano.</copyright-statement>
<copyright-year>2025</copyright-year>
<copyright-holder>Blaiotta, Ciliberti, Aponte and Romano</copyright-holder>
<license>
<ali:license_ref start_date="2025-11-06">https://creativecommons.org/licenses/by/4.0/</ali:license_ref>
<license-p>This is an open-access article distributed under the terms of the <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution License (CC BY)</ext-link>. The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</license-p>
</license>
</permissions>
<abstract>
<p>The Mediterranean mussel (<italic>Mytilus galloprovincialis</italic>) is the most valuable shellfish farmed and consumed in the Western Mediterranean. Like any other filter-feeding organism, mussels are exposed to a wide range of microorganisms. Before consumption, bivalves are subject to depuration to purge the gastrointestinal content, thus minimizing the risk of pathogens&#x2019; circulation. Over time, this strategy revealed several shortcomings, most notably concerning <italic>Vibrio</italic> spp. In this study, the potential use of autochthonous predatory bacteria as a biocontrol strategy to mitigate <italic>Vibrio</italic> spp. overgrowth in mussels during depuration was evaluated. Moreover, a polyphasic approach based on conventional and culture-independent strategies was used to assess the impact of predation and of depuration on the mussel microbiome during controlled depuration studies. The depuration greatly impacted the bivalve microbiota, jeopardizing its innate resilience. Moreover, the addition of a bacterial predator strain to mussels resulted in the disturbance of the microbiome. Therefore, even though the biotechnological application of bacterial predation in this context may appear promising when monitored by culture-dependent methods, the effect on the mollusks&#x2019; microbiome does not seem to be easily predictable, above all when mussels are subject to depuration after the harvest.</p>
</abstract>
<kwd-group>
<kwd><italic>Mytilus galloprovincialis</italic></kwd>
<kwd>bacterial predation</kwd>
<kwd>depuration</kwd>
<kwd><italic>Vibrio mediterranei</italic></kwd>
<kwd>HTS</kwd>
</kwd-group>
<funding-group>
<funding-statement>The author(s) declare that no financial support was received for the research and/or publication of this article.</funding-statement>
</funding-group>
<counts>
<fig-count count="6"/>
<table-count count="0"/>
<equation-count count="0"/>
<ref-count count="56"/>
<page-count count="14"/>
<word-count count="8867"/>
</counts>
<custom-meta-group>
<custom-meta>
<meta-name>section-at-acceptance</meta-name>
<meta-value>Microbial Symbioses</meta-value>
</custom-meta>
</custom-meta-group>
</article-meta>
</front>
<body>
<sec id="S1" sec-type="intro">
<label>1 </label>
<title>Introduction</title>
<p>The Mediterranean mussel (<italic>Mytilus galloprovincialis</italic>) is the most valuable shellfish produced and consumed in the Western Mediterranean. The Gulf of Naples is among the most important production sites for this type of seafood in southern Italy (<xref ref-type="bibr" rid="B41">Santoro et al., 2020</xref>). As filter-feeding organisms, marine mussels are constantly exposed to a wide range of microorganisms, including pathogenic bacteria that can endanger their survival. Additionally, agricultural runoff and sewage effluent contamination of coastal waterways can increase the level of shellfish microbial and viral contamination (<xref ref-type="bibr" rid="B46">Sharp et al., 2021</xref>). Like all macro-organisms, mussels interact not only with exogenous bacteria but also with their microbiota. This exchange between the host and its microbiota can support the preservation of their integrity (<xref ref-type="bibr" rid="B7">Cheikh et al., 2024</xref>).</p>
<p>Depuration is a controlled process that relies on the ability of bivalves to purge their gastrointestinal content by filtering clean seawater. Bivalves&#x2019; depuration is influenced by several factors, including temperature, salinity, the bivalve&#x2019;s physiological state, the type of microorganism, the degree of microbial contamination, as well as the plant&#x2019;s chemical or physical sterilizing system (<xref ref-type="bibr" rid="B29">Ottaviani et al., 2020</xref>). Depuration appeared to be a successful procedure to control fecal bacteria but proved to be less effective against naturally occurring <italic>Vibrio</italic> spp. (<xref ref-type="bibr" rid="B4">Baker, 2016</xref>). For this reason, it is necessary to develop complementary methods that, combined with conventional depuration methods, improve or extend the efficacy of depuration of live bivalves. Apart from chemical and physical methods, biological experimental applications mostly rely on the use of probiotics, bacteriocin-producing bacteria, and bacteriophages (<xref ref-type="bibr" rid="B22">Martinez-Albores et al., 2020</xref>), whilst the use of predatory bacteria has been rarely postulated. Predatory bacteria have been suggested as biocontrol agents only against <italic>Vibrio</italic> (<italic>V</italic>.) <italic>parahaemolyticus</italic> in mussels (<xref ref-type="bibr" rid="B29">Ottaviani et al., 2020</xref>), oysters (<xref ref-type="bibr" rid="B18">Li et al., 2011</xref>; <xref ref-type="bibr" rid="B34">Richard et al., 2012</xref>), and shrimp (<xref ref-type="bibr" rid="B16">Kongrueng et al., 2017</xref>; <xref ref-type="bibr" rid="B20">Lu et al., 2022</xref>).</p>
<p>Predatory bacteria have been increasingly recognized for their ubiquity in various environments and their significant functional potential in controlling unwanted microorganisms. Predatory bacteria are taxonomically and phylogenetically diverse (<xref ref-type="bibr" rid="B55">Zhang et al., 2024</xref>). The most studied groups of predatory bacteria include <italic>Bdellovibrio</italic> and <italic>Bdellovibrio</italic>-like organisms (BALOs) and myxobacteria. BALOs have similar functions to bacteriophages, but a broad prey spectrum. Moreover, BALOs may access EPS-containing biofilm structures and have so far been shown to be harmless to eukaryotic organisms, including plants and animals (<xref ref-type="bibr" rid="B23">Mookherjee and Jurkevitch, 2022</xref>). BALOs have been isolated from various habitats, including saltwater, freshwater, sewage, soils, sediments, and even animal guts and gills. BALOs are thought to play an important role in the environment as they may affect bacterial community structure and dynamics (<xref ref-type="bibr" rid="B23">Mookherjee and Jurkevitch, 2022</xref>). Although the potential use of predatory bacteria as living antibiotics in therapy has been the subject of numerous investigations, less is known about their ability to eradicate plant, animal, and food-borne diseases (<xref ref-type="bibr" rid="B55">Zhang et al., 2024</xref>). Additionally, like other biotic interactions, predation dynamics and outcomes are typically affected by abiotic and biotic factors. Nutrient availability, viscosity of the environment, surfactants, and diffusible signaling factors have all been shown to alter predation processes (<xref ref-type="bibr" rid="B55">Zhang et al., 2024</xref>). The informed application of predatory bacteria and the understanding of their functional roles and relevance in specific ecosystems requires the combination of classic culture-based approaches and culture-independent methodologies.</p>
<p>In the present study, marine predators were isolated and used as biocontrol agents against <italic>Vibrio mediterranei</italic> in mussels. Specifically, the effect of the predator on <italic>V. mediterranei</italic> was evaluated by using both depurated and non-depurated mussels. Furthermore, two distinct prey and predator inoculation levels were used. A polyphasic strategy based on both conventional and culture-independent techniques was adopted to monitor microbial dynamics.</p>
</sec>
<sec id="S2" sec-type="materials|methods">
<label>2 </label>
<title>Materials and methods</title>
<sec id="S2.SS1">
<label>2.1 </label>
<title>Sampling</title>
<p>Marine water samples were collected near the Naples coast during the autumn of 2022. The first sample (LN 40&#x00B0;49&#x2019;30&#x201D;&#x2013;LE 14&#x00B0;18&#x2019;48&#x201D;) was used for the prey&#x2019;s isolation, whilst the second one (LN 40&#x00B0;49&#x2019;32&#x201D;&#x2013;LE 14&#x00B0;18&#x2019;47&#x201D;) was used for the predator isolation. Water samples were immediately transferred to the laboratory and analyzed within 1 h. pH and water conductivity were evaluated by a pH-meter (Model pH50 Lab).</p>
</sec>
<sec id="S2.SS2">
<label>2.2 </label>
<title>Prey isolation and identification</title>
<p>Marine water was directly spread on Thiosulfate-Citrate-Bile Sucrose Agar (TCBS &#x2013; Oxoid, Basingstoke, United Kingdom) plates and incubated overnight at 32 &#x00B0;C. At the same time, marine water was subjected to enrichment according to the protocol proposed by <xref ref-type="bibr" rid="B14">Huq et al. (2012)</xref>. Briefly, marine water (50 mL) was added to 450 mL of Alkaline Peptone Water (APW) 10X (100 g/L peptone, 100 g/L NaCl, pH 8.6). After an overnight incubation at 32 &#x00B0;C, 100 &#x03BC;L of the top layer was spread plated onto TCBS agar plates. Colonies were randomly selected and, after repetitive streaking onto TCBS plates, cultures were used to inoculate ATCC medium n. 1,286 (Seawater complete), Tryptic Soy Broth (TSB), and Luria Bertani (LB) broths to point out the most suitable medium for cultivation. Specifically, both LB and TBS were supplemented with 20 and 30 g/L of NaCl, respectively.</p>
<p>A total of 10 prey isolates were identified by 16S rRNA sequencing using PCR conditions and primers - fD1 (forward, 5&#x2032;-AGAGTTTGATCCTGGCTCAG-3&#x2032;) and rP2 (reverse, 5&#x2032;-ACGGCTACCTTGTTACGACTT-3&#x2032;) - described by <xref ref-type="bibr" rid="B52">Weisburg et al. (1991)</xref>. DNA was extracted through the protocol described by <xref ref-type="bibr" rid="B50">Wang et al. (1993)</xref>. PCR amplicons were purified by QIAquick Gel Extraction Kit (Qiagen). The DNA sequences were determined by the dideoxy chain termination method (<xref ref-type="bibr" rid="B39">Sanger et al., 1977</xref>) by using the forward primers (fD1) described by <xref ref-type="bibr" rid="B52">Weisburg et al. (1991)</xref>. Research for DNA similarity was performed with the National Centre of Biotechnology Information GenBank (<xref ref-type="bibr" rid="B1">Altschul et al., 1997</xref>).</p>
</sec>
<sec id="S2.SS3">
<label>2.3 </label>
<title>Host preparation</title>
<p>Three potential prey were tested: <italic>V. mediterranei</italic> VM6 and <italic>Citrobacter</italic> (<italic>C.) portucalensis</italic> VM2 isolated during this study, plus one strain of <italic>Escherichia coli</italic> 32 isolated from meat during a previous survey. Overnight cultures of <italic>V. mediterranei</italic> and <italic>C. portucalensis</italic> in modified LB broth (20 g/L NaCl) and of <italic>E. coli</italic> 32 in LB (10 g/L NaCl) were centrifuged (6,500 rpm for 15 min), and the cell pellets were used for the predator isolation.</p>
</sec>
<sec id="S2.SS4">
<label>2.4 </label>
<title>Predator isolation, cultivation, and identification</title>
<p>The enrichment protocol described by <xref ref-type="bibr" rid="B15">Jurkevitch (2006)</xref> was followed for the marine BALOs. Cell pellets of the prey prepared as described in paragraph 2.3 were resuspended in 100 mL of marine water to obtain a prey concentration around 10<sup>9</sup>/10<sup>10</sup> cell/mL based on CFU counts. During incubation at 28 &#x00B0;C under constant stirring (Orbital shaker 300 rpm), cultures were daily monitored by spectrophotometry (600 nm) and microscope observation. Enrichments were then filtered (Minisart 0.45 &#x03BC;m) and, after decimal serial dilutions in sterile marine water, plated by the double-layer technique according to <xref ref-type="bibr" rid="B15">Jurkevitch (2006)</xref> in Pp medium (0.5 g/L tryptone, 0.5 g/L proteose-peptone, pH 7.7). Pp bottom (1.5% agar) and Pp top (1.95% agar) media were prepared in sterile marine water obtained by autoclaving water after a 0.45 &#x03BC;m filtration. Plates were sealed and incubated at 28 &#x00B0;C for 7 days. Lytic plaques were excised and resuspended in 500 &#x03BC;L of HM buffer [N-(2-Hydroxyethyl)-piperazine-N&#x2019;-(2-ethanesulfonic acid) sodium salt] at pH 7.5. After agitation for a few minutes, the liquid containing the released BALOs was serially diluted in HM buffer up to 10<sup>&#x2013;4</sup>.</p>
<p>Plaque purification was carried out according to <xref ref-type="bibr" rid="B15">Jurkevitch (2006)</xref> with some modifications. Cell pellets of the prey were diluted in HM buffer up to a concentration of 5 &#x00D7; 10<sup>9</sup> cells/mL. Pp bottom (1.5% agar) and Pp top (0.7% agar) media were prepared in artificial seawater (ASW) according to <xref ref-type="bibr" rid="B11">Ettensohn et al. (2004)</xref>. A total of 400 &#x03BC;L of the prey was added to 5 mL of Pp top and 100 &#x03BC;L of each sample&#x2019;s dilution. Plates were incubated at 28 &#x00B0;C and monitored daily.</p>
<p>Predator enrichments were obtained by transferring single plaques in tubes containing the prey resuspended in 20 mL of ASW. The prey without the plaque served as a control. After 24, 48, and 72 h of incubation at 28 &#x00B0;C under constant shaking, tubes were monitored by spectrophotometer and microscope observation. The prey population level was assessed by the drop method (<xref ref-type="bibr" rid="B9">Collins et al., 1989</xref>) on modified LB agar plates. After dilution (10<sup>1</sup> to 10<sup>6</sup>) in sterile Ringer&#x2019;s solution (Oxoid), 12 &#x03BC;L aliquots were dropped onto agar plates using a pre-calibrated 20 &#x03BC;L micropipette. After incubation, individual colonies in drop areas were counted. The test allowed for obtaining indications about predatory efficiency.</p>
<p>For the identification of predators, enrichments were filtered (0.45 &#x03BC;m), and DNA was extracted by the protocol described by <xref ref-type="bibr" rid="B50">Wang et al. (1993)</xref>. The PCR for <italic>Bacteriovoracaceae</italic> with primers Bac676F (forward, 5&#x2032;- ATTTCGCATGTAGGGGTA-3&#x2032;) and Bac1442R (reverse, 5&#x2032;-GCCACGGCTTCAGGTAAG-3&#x2032;) described by <xref ref-type="bibr" rid="B10">Davidov et al. (2006)</xref> was carried out according to the protocol detailed by the authors.</p>
</sec>
<sec id="S2.SS5">
<label>2.5 </label>
<title>Strain BV5 application in mussel depuration</title>
<sec id="S2.SS5.SSS1">
<label>2.5.1 </label>
<title>Experimental plan</title>
<p>Mussels (<italic>Mytilus galloprovincialis</italic>) not depurated and still with socks, coming from the Campania Region (Italy) coasts (FAO area 37.1.3), were used for the first experiment. Mussels were sorted in the laboratory to obtain 100 individuals of the same size range (mean size = 5.83 cm &#x00B1; 0.72 SD). The static method for depuration as described by <xref ref-type="bibr" rid="B8">Chinnadurai et al. (2023)</xref> was followed. Four batches of 20 healthy adult mussels were transferred to vessels containing one Liter of ASW for a single individual. Vessels were kept at 17 &#x00B0;C, and water was constantly aerated. Bivalves were not washed before immersion in ASW and were not fed during the depuration.</p>
</sec>
<sec id="S2.SS5.SSS2">
<label>2.5.2 </label>
<title>Prey and predator inocula</title>
<p>Overnight cultures of <italic>V. mediterranei</italic> VM6 in Luria-Bertani NaCl-added (2%) were centrifuged, resuspended in ASW, and used as inoculum up to a final population level of about 10<sup>2</sup> CFU (Colony-Forming Units)/mL. Before the predator was introduced, mussels were allowed to gather the prey for 5 h (<xref ref-type="bibr" rid="B29">Ottaviani et al., 2020</xref>).</p>
<p>The enrichment to be used as inoculum for the predator was prepared by transferring a plaque in 80 mL of a cell suspension of <italic>V. mediterranei</italic> in ASW. The suspension was obtained by centrifuging an overnight culture (20 mL) of the prey in Luria-Bertani with NaCl (2%). After 48 h of incubation at 28 &#x00B0;C under stirring, the enrichment was filtered (Minisart 0.45 &#x03BC;m) to remove the prey and used for inoculation at a level of about 10<sup>6</sup> PFU (Plaque-Forming Unit)/mL.</p>
</sec>
<sec id="S2.SS5.SSS3">
<label>2.5.3 </label>
<title>Experimental plan</title>
<p>The experimental plan may be schematized as follows: Trial (A) Not depurated mussels plus prey (strain VM6) plus predator (strain BV5); Trial (B) Not depurated mussels plus prey (VM6); Trial (C) Not depurated mussels plus predator (BV5); Trial (D) Not depurated mussels (control). Moreover, two further trials were carried out in ASW without mussels, and specifically, Trial (E) hosted the sole prey (VM6), while Trial (F) included both prey (VM6) and predator (BV5). The experimental design is detailed in <xref ref-type="fig" rid="F1">Figure 1</xref>.</p>
<fig id="F1" position="float">
<label>FIGURE 1</label>
<caption><p>Experimental design used for the depuration. <bold>(A)</bold> Mussels inoculated with prey (<italic>V. mediterranei</italic> VM6) plus predator (BV5); <bold>(B)</bold> Mussels plus <italic>V. mediterranei</italic> VM6; <bold>(C)</bold> Mussels plus BV5; <bold>(D)</bold> Mussels control; <bold>(E)</bold> (Only prey) and <bold>(F)</bold> (Prey and predator) in artificial seawater (ASW) without mussels.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g001.tif">
<alt-text content-type="machine-generated">Six containers are arranged in two rows, each labeled with letters A to F. Containers A to D contain mussels with symbols representing prey and predator. B holds mussels with prey and predator symbols. B only prey. C only predator. D only mussels, labeled control. E is labeled prey, and F is labeled prey and predator, containing respective symbols</alt-text>
</graphic>
</fig>
<p>The same experiment, organized in six distinct trials, was repeated by using depurated mussels coming from the same farm and the prey at a higher level of inoculum (10<sup>4</sup>CFU/mL).</p>
</sec>
<sec id="S2.SS5.SSS4">
<label>2.5.4 </label>
<title>Microbial populations monitoring by culture-dependent methods</title>
<p>Mussels, in the adult stage and of similar size, were used for microbial counts and DNA extraction. Bivalves were scrubbed to remove epibionts, opened with a sterile knife, and the whole content (digestive gland, gills, foot, mantle, and liquid) was placed in a stomacher bag. At time 0, and after 5, 24, and 48 h, at least three mussels from each trial were collected for microbial counts. ASW was monitored as well. At each sampling point, heterotrophic bacteria were counted on Water Plate Count agar (WPCA) after incubation at 22 &#x00B0;C for 3 or 7 days. <italic>Enterobacteriaceae</italic> and coliforms were monitored on Violet Red Bile Glucose agar (VRBGA) and Violet Red Bile Lactose agar (VRBLA), respectively, in both cases after incubation at 37 &#x00B0;C for 24&#x2013;48 h in microaerophilic conditions generated by the double layer technique. <italic>Vibrionaceae</italic> were enumerated on TCBS after incubation at 37 &#x00B0;C for 24 h, Enterococci and <italic>E. coli</italic> on Slanetz &#x0026; Bartley (SB) and Tryptone Bile X-Gluc Medium (TBX), respectively, in both cases after incubation at 37 &#x00B0;C for 24&#x2013;48 h. Analyses were performed in duplicate. All media and supplements were provided by Oxoid.</p>
<p>During the first experiment, predators were monitored at each sampling point uniquely in ASW by the plaques forming method described in &#x201C;see section 2.3 Host preparation.&#x201D; Conversely, in the second experiment, predators were searched in mussels from trial A, too.</p>
</sec>
<sec id="S2.SS5.SSS5">
<label>2.5.5. </label>
<title>High-throughput sequencing (HTS) analysis of bacterial communities</title>
<p>The microbiome of mussels and waters after 24 and 48 h of depuration by trials A, B, C, and D of the first and the second set of experiments (Depurated and Not-depurated mussels) was monitored by HTS. Mussel samples for total DNA extraction (about 200 mg) were collected as described in &#x201C;see section 2.5.4 Microbial populations monitoring by culture-dependent methods.&#x201D; For water samples, an amount of 200 mg of wet biomass was gathered by sequential centrifugations at 14,000 &#x00D7; <italic>g</italic> for 10 min at 4 &#x00B0;C. In both cases, DNA extraction was carried out by using the NucleoSpin<sup>&#x00AE;</sup> Food Kit (Macherey-Nagel, D&#x00FC;ren, Germany). Bacterial communities were assessed by HTS of the amplified V3&#x2013;V4 regions within the 16S rRNA gene (&#x223C;460 bp). PCR was carried out with primers (S-D-Bact-0341-b-S-17/S-D-Bact0785-a-A-21) connecting with barcodes (<xref ref-type="bibr" rid="B3">Aponte et al., 2022</xref>). PCR products with the proper size were selected by 2% agarose gel electrophoresis. The same amount of PCR products from each sample was pooled, end-repaired, A-tailed, and further ligated with Illumina adapters. The library was checked with Qubit and real-time PCR for quantification and bioanalyzer for size distribution detection. Quantified libraries were pooled and sequenced on a paired-end Illumina platform Novaseq PE250, to generate 250 bp paired-end raw reads. Paired-end reads were joined by using FLASH (<xref ref-type="bibr" rid="B21">Mago&#x010D; and Salzberg, 2011</xref>). The DADA2 method (<xref ref-type="bibr" rid="B6">Callahan et al., 2016</xref>) was used for noise reduction. ASVs (Amplicon Sequence Variants) were further filtered by using QIIME2 software (Version QIIME2-202202) and identified by using the Silva Database 138.1. Unassigned sequences and those assigned to eukaryotes (i.e., chloroplasts and mitochondrial ones) were discarded. Statistical analyses and plotting were carried out in R environment.<sup><xref ref-type="fn" rid="footnote1">1</xref></sup> Shannon and Simpson alpha-diversity indices were calculated through the function &#x201C;diversity.&#x201D;</p>
<p>Furthermore, upon arrival, 10&#x2013;12 mussels in the adult stage, either depurated or not, were pooled and subject to DNA extraction by using the NucleoSpin<sup>&#x00AE;</sup> Food Kit and analyzed by HTS.</p>
</sec>
</sec>
<sec id="S2.SS6">
<label>2.6. </label>
<title>Statistical analysis</title>
<p>Results of CFU, PFU, and OD600 values were expressed as mean &#x00B1; standard deviation. Significant differences among data were computed by using ANOVA and Tukey <italic>t</italic>-test (<italic>p</italic> &#x003C; 0.05) (XLStat 2012.6.02 statistical pocket, Addinsoft Corp., Paris, France).</p>
</sec>
</sec>
<sec id="S3" sec-type="results">
<label>3 </label>
<title>Results</title>
<sec id="S3.SS1">
<label>3.1 </label>
<title>Prey isolation and identification</title>
<p>Based on the colonies&#x2019; appearance on TCBS agar plates seeded with marine water (pH 7.91 &#x00B1; 0.01; conductivity &#x2212;52 &#x00B1; 0.01 mV) and from plates seeded with the enrichments, ten colonies in total were chosen. According to the results obtained by the 16S rRNA partial sequencing, one strain could be reported to <italic>V. mediterranei</italic> (99% similarity), two to <italic>Photobacterium</italic> spp. (98% similarity with <italic>Photobacterium</italic> sp. strain 7&#x2013;11 KX806606.1 in both cases), two to <italic>C. portucalensis</italic> (99 and 100% similarity with <italic>C. portucalensis</italic> strain 68soilLBA LC717361.1), three to <italic>V. harveyi</italic> (98 or 99% with <italic>V. harveyi</italic> strain B8-1MK102617.1), and two to <italic>V. chagasii</italic> (99% with <italic>V. chagasii</italic> strain GCZ10 MH613265.1).</p>
</sec>
<sec id="S3.SS2">
<label>3.2 </label>
<title>Predator isolation and identification</title>
<p>Upon enrichment with the three prey (<italic>V. mediterranei</italic> VM6, <italic>C. portucalensis</italic> VM2, and <italic>E. coli</italic> 32), the faster clarification was noticed only against the unique strain of <italic>V. mediterranei</italic> (Data not shown). At the microscope, small, speedy motile cells could be observed. Five lysis plaques were purified. None of the five strains - BV1, BV2, BV3, BV4, and BV5 &#x2013; generated an amplicon by the family-specific PCR, so despite the morphological and physiological similarities with BALOs, strains isolated during this study cannot be considered members of this group.</p>
</sec>
<sec id="S3.SS3">
<label>3.3 </label>
<title>Evaluation of predatory efficiency</title>
<p>Cultures BV1, BV2, BV3, BV4, and BV5 exhibited a rather variable predatory efficiency. Strain BV4 proved to induce a significant decrease in OD values at 24 (1.841 &#x00B1; 0.002) and 48 h (1.149 &#x00B1; 0.001); strain BV5 induced the highest clarification at 48 h (0.997 &#x00B1; 0.001). Moreover, this strain produced a significant decrease in <italic>V. mediterranei</italic> CFU/mL at 48 h (from 9.00 &#x00B1; 0.23 to 7.73 &#x00B1; 0.09 CFU/mL) (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 1</xref>). Based on results, strain BV5 was selected for further experiments.</p>
</sec>
<sec id="S3.SS4">
<label>3.4 </label>
<title>BV5 application in mussel depuration</title>
<p>First, the growth of <italic>V. mediterranei</italic> strain VM6 on TCBS was compared with that on WPCA and TSA media. The counts levels on TCBS and TSA were equal, whereas it was ascertained that the prey was unable to grow on WPCA, thus proving that counts on this medium could not be affected by the prey inoculum.</p>
<p>In the first experiment, mussels not previously subject to depuration were used. The prey inoculum was fixed at about 10<sup>2</sup> CFU/mL in trials A, B, E, and F. <italic>Vibrionaceae</italic> were monitored on TCBS. Still, specifically, only yellow colonies similar to those produced by <italic>V. mediterranei</italic> VM6 on this medium were selectively counted. <italic>Vibrio</italic> populations in mussels were in all trials (A&#x2013;D) in the range of 10<sup>2</sup>&#x2013;10<sup>3</sup> CFU/mL, namely, the same adopted for the prey inoculation in this experiment (<xref ref-type="fig" rid="F2">Figure 2A</xref>). However, by comparing TCBS counts in mussels collected by trials A and B, namely those inoculated with BV5 plus VM6 and strain VM6 alone, respectively, an interesting outcome may be pointed out: after 24 h, the decline in <italic>Vibrio</italic> populations in trial A, which included both prey and predator, was greater than one Log. Such difference disappeared after 48 h, likely as a result of the prey growth due to nutrients released by mussels (<xref ref-type="fig" rid="F2">Figure 2A</xref>).</p>
<fig id="F2" position="float">
<label>FIGURE 2</label>
<caption><p>Mussel depuration, experiment 1. Dynamics of <italic>Vibrio</italic> spp. counts (Log CFU/mL or gr &#x00B1; sd) on TCBS in non-depurated mussels (NM &#x2013; Panel <bold>A</bold>) and waters (NW &#x2013; Panel <bold>B</bold>) at 0, 5, 24, and 48 h. ANM and ANW: <italic>V. mediterranei</italic> VM6 plus BV5; BNM and BNW: only VM6; CNM and CNW: only BV5; DNM and DNW: mussel control. ENW and FNW: prey and prey plus predator in ASW without mussels. For data with the same letter, differences between trials are not statistically significant (<italic>p</italic> &#x003C; 0.05).</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g002.tif">
<alt-text content-type="machine-generated">Two line graphs show bacterial counts over time. Graph A (Mussels) depicts bacteria levels in mussels from different treatments: ANM, BNM, CNM, and DNM over 50 hours. Graph B (Water) shows bacterial counts in water treatments: ANW, BNW, CNW, DNW, ENW, and FNW over the same period. Both graphs illustrate changes in Log CFU per unit over time with error bars, indicating variability in measurements. The curves rise to peaks around 25 hours before stabilizing or declining slightly, with variations among treatments.</alt-text>
</graphic>
</fig>
<p>In trial C, the predator addition did not induce any changes, and this might be linked to the high specificity of the strain BV5 regarding the prey. As a general consideration, <italic>Vibrionaceae</italic> increased by more than one Log in the control (Trial D).</p>
<p>The monitoring of <italic>Vibrionaceae</italic> in the depuration water showed a rather different trend, and the difference between trials A and B became statistically significant only after 48 h of purification (<xref ref-type="fig" rid="F2">Figure 2A</xref>). In the control (Trial D), vibrios grew exponentially, demonstrating that a transfer from mussels into water occurs during depuration. The monitoring of the prey (Trial E) and of prey plus predator (Trial F) in ASW without mussels confirmed the predatory efficiency of the strain BV5: <italic>Vibrio</italic> reduction after 48 h was higher than one Log (<xref ref-type="fig" rid="F2">Figure 2B</xref>).</p>
<p>Predators were monitored by PFU counts in water collected from trials A, C, and F (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 2</xref>). Populations increased by more than one Log after 48 h in trial F, namely when prey and predator were alone in sterile ASW, stayed constant in trial C (predator inoculated into mussel depuration water), and slightly decreased in trial A despite the prey presence.</p>
<p>Heterotrophic microflora was monitored in both water and mussels (<xref ref-type="supplementary-material" rid="SF1">Supplementary Table 1</xref>). Counts were almost stable in mussels, whilst a slight decrease characterized counts in water. The high contamination level in water, around 3 Log CFU/mL, could be due to the high bacterial release from mussels that were not washed and still with the socket. Despite not being depurated, <italic>Enterobacteriaceae</italic> on VRBGA, <italic>Coli-aerogenes</italic> group on VRBLA, <italic>E. coli</italic> on TBX, and enterococci on SB were undetectable throughout the monitoring (<xref ref-type="supplementary-material" rid="SF1">Supplementary Table 1</xref>).</p>
<p>The same set of experiments was repeated by using mussels already depurated and a higher level of inoculum for the prey (about 4 Logs CFU/mL of water). Despite depuration, the level of countable yellow colonies on TCBS was around 2 Log CFU/mL in trials C and D carried out without the prey addition (<xref ref-type="fig" rid="F3">Figure 3A</xref>). However, in this case, the adoption of a higher level of inoculum for <italic>V. mediterranei</italic> allowed the discrimination of the prey from the naturally occurring vibrios in mussels. In fact, in trials A and B, after 5 h, the level of vibrios in mussels was almost one Log higher than trial C (only the predator added), and control trial D (<xref ref-type="fig" rid="F3">Figure 3A</xref>).</p>
<fig id="F3" position="float">
<label>FIGURE 3</label>
<caption><p>Mussel depuration experiment 2. Dynamics of <italic>Vibrio</italic> spp. counts on Thiosulfate-Citrate-Bile Sucrose Agar (TCBS) in depurated mussels [M - <bold>(A)</bold>] and waters [W &#x2013; <bold>(B)</bold>] at 0, 5, 24, and 48 h Trials are described in <xref ref-type="fig" rid="F1">Figure 1</xref>. For data with the same letter, differences between trials are not statistically significant (<italic>p</italic> &#x003C; 0.05).</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g003.tif">
<alt-text content-type="machine-generated">Line graphs showing microbial load changes over time in mussels and water. Graph A (Mussels) shows different treatments with varying log CFU per gram. Graph B (Water) displays similar treatment effects with log CFU per milliliter. Both graphs feature multiple time points, error bars for variability, and label different treatments with letters.</alt-text>
</graphic>
</fig>
<p>Also in this depuration experiment, the maximum predation occurred after 24 h, and, exactly as for the first set of experiments, the BV5 inoculum in trial C did not affect the autochthonous <italic>Vibrio</italic> population (<xref ref-type="fig" rid="F3">Figure 3A</xref>).</p>
<p>In the water, a significant drop in <italic>Vibrio</italic> population can be linked to predation: the difference in <italic>Vibrio</italic> loads between trials A and B at 24 h was higher than two Logs (<xref ref-type="fig" rid="F3">Figure 3B</xref>). In trials E and F, carried out without mussels, the outcomes were even more remarkable: after 48 h, <italic>V. mediterranei</italic> counts dropped below the method&#x2019;s detection limit. PFU monitoring confirmed the evidence collected during the first experiment: predators in water from trials in which the strain BV5 was added did not change in number (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 3A</xref>). As expected, plaques were not retrieved in trial E, containing only the prey in ASW, whereas in trial B (prey and mussels), as well as in trial D &#x2013; the control &#x2013; autochthonous predators were found despite being undetectable at time 0 (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 3A</xref>). The level reached was around 3 Log PFU/mL. Furthermore, in the unique case of trial A, predators were monitored in mussels as well: after 24 h, a noticeable predator concentration inside mussels was evidenced (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 3B</xref>).</p>
<p>Water Plate Count agar counts were by two Logs higher in depurated mussels and stayed almost stable in both mussels and ASW in all trials, thus proving that the presence of strain BV5 does not affect the naturally occurring microflora in both environments. Despite being depurated, mussels hosted <italic>Enterobacteriaceae</italic> and coliforms, whereas enterococci were only seldom detected (<xref ref-type="supplementary-material" rid="SF1">Supplementary Table 2</xref>). In mussels from trial B and control sample D, blue colonies on TBX revealed a low occurrence of <italic>E. coli</italic> (<xref ref-type="supplementary-material" rid="SF1">Supplementary Table 2</xref>).</p>
</sec>
<sec id="S3.SS5">
<label>3.5 </label>
<title>Microbial dynamics in mussels and water by HTS</title>
<p>16S rRNA gene amplification and amplicon sequencing were successful for all samples. A total of 1,381,261 classified reads were obtained. The mean number of reads per sample was 38,368 &#x00B1; 15,897. The phylum <italic>Campylobacterota</italic> was the most abundant in mussels from the experiment carried out with non-depurated mussels; conversely, in bivalves already subject to depuration, a higher biodiversity could be noticed (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 4</xref>). In water samples, <italic>Proteobacteria</italic> (now <italic>Pseudomonadota</italic>) were prevalent, especially in the second set of the experiment. Subdominant phyla were <italic>Firmicutes</italic> (now <italic>Bacillota</italic>), <italic>Bacteroidota</italic>, <italic>Fusobacteriota</italic>, and <italic>Patescibacteria</italic>. The abundance of <italic>Bdellovibrionota</italic> was significant only in water samples from non-depurated mussels and not exclusively in predator-added trials (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 4</xref>).</p>
<p>The phylum <italic>Campylobacterota</italic> was essentially represented by species within the family <italic>Arcobacteraceae</italic> in trials carried out with non-depurated mussels (<xref ref-type="fig" rid="F4">Figure 4A</xref>); conversely, in depurated mussels, a higher variability could be recorded, above all in samples where strain BV5 was added (Trials A and C): after 48 h, a noticeable increase in the <italic>Bacteroidaceae</italic>, <italic>Lachnospiraceae</italic>, and <italic>Ruminococcaceae</italic> occurrence could be observed (<xref ref-type="fig" rid="F4">Figure 4B</xref>).</p>
<fig id="F4" position="float">
<label>FIGURE 4</label>
<caption><p>Barplots showing the mean relative abundance of bacterial families in non-depurated (NM) and depurated (M) mussels and relative waters (NW and W). The first letter of the code refers to the trial <bold>(A&#x2013;D)</bold>, and the final number indicates the sampling time (24 and 48 h). Only taxa with a mean relative abundance &#x003E; 1% are plotted.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g004.tif">
<alt-text content-type="machine-generated">Bar charts labeled A, B, C, and D depict microbial diversity in mussels and artificial seawater (ASW) samples. Each chart shows the relative abundance of various bacterial genera, represented by different colors in stacked bars. The legend identifies the genera, including Shewanella, Acetobacter, Pseudohodobacter, and others. Samples are labeled on the x-axis, while the y-axis indicates relative abundance percentage.</alt-text>
</graphic>
</fig>
<p>Moreover, in the first set of trials, the presence of <italic>Vibrionaceae</italic> was almost identical in all trials (<xref ref-type="fig" rid="F4">Figure 4A</xref>). As already evidenced by microbial count, the adjunct of 2 Log/mL of <italic>V. mediterranei</italic> VM6 was hidden by the occurrence of autochthonous vibrios at about the same population level. In mussels from trials carried out by using a higher inoculum level for the prey, the relative abundance of <italic>Vibrionaceae</italic> in mussels increased with time in both trials A and B (<xref ref-type="fig" rid="F4">Figure 4B</xref>): in other terms, the predator&#x2019;s adjunct does not seem to control the <italic>Vibrio</italic> accumulation due to mussels&#x2019; filtration (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 3</xref>). Indeed, the abundance of <italic>Vibrionaceae</italic> in mussels increased over time in the control (Trial D) as well (<xref ref-type="fig" rid="F4">Figure 4B</xref>).</p>
<p>Concerning water, the relative abundance of <italic>Vibrionaceae</italic> markedly decreased in trials A of both depuration experiments (<xref ref-type="fig" rid="F4">Figures 4C, D</xref>). The family <italic>Bacteriovoracaceae</italic> was detected in all samples. The relative abundance increased by passing from 24 to 48 h in almost all trials, independently of the type of mussels used for the experiments.</p>
<p><italic>Enterobacteriaceae</italic> appeared to be more represented in depurated mussels and, in trial A, after 24 h, this family dominated the microbiota (<xref ref-type="fig" rid="F4">Figure 4B</xref>). Such an outcome corroborated results obtained by counting on selective media.</p>
<p><italic>Arcobacteraceae</italic> were, as expected, dominant in water coming from trials with non-depurated mussels (<xref ref-type="fig" rid="F4">Figure 4C</xref>), whereas, in the water of experiments with depurated mussels, <italic>Pseudoalteromonadaceae</italic> exhibited the highest relative abundance (<xref ref-type="fig" rid="F4">Figure 4D</xref>).</p>
<p>By passing to genera, the percentage of reads that could not be reported to any taxa ranged from 2.04 to 25.93% and from 8.92% to 24.19% for mussels and waters, respectively (<xref ref-type="fig" rid="F5">Figure 5</xref>). In non-depurated mussels, the genus <italic>Halarcobacter</italic> spp. dominated (<xref ref-type="fig" rid="F5">Figure 5A</xref>). The genus <italic>Pseudoalteromonas</italic> spp. &#x2013; was prevalent in depurated mussels (<xref ref-type="fig" rid="F5">Figure 5B</xref>).</p>
<fig id="F5" position="float">
<label>FIGURE 5</label>
<caption><p>Barplots showing the mean relative abundance of bacterial genera in non-depurated (NM) and depurated (M) mussels <bold>(A,B)</bold> and depuration waters (NW and W in <bold>C, D</bold>) at 24 and 48 h of depuration. Sample codes are detailed in the caption of <xref ref-type="fig" rid="F3">Figure 3</xref>. Only taxa with a mean relative abundance &#x003E;1% are plotted.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g005.tif">
<alt-text content-type="machine-generated">Bar chart showing the relative abundance of different bacterial families in mussels and ASW samples. Panels A and B represent mussels, and C and D represent ASW. Each panel includes multiple samples, indicated on the x-axis, with the bacterial families color-coded in the legend to the right. The chart demonstrates the diversity and relative proportions of bacteria present in each sample.</alt-text>
</graphic>
</fig>
<p>The genera <italic>Mycoplasma</italic>, <italic>Polaribacter</italic>, and <italic>Rubritalea</italic> spp. were detected in all mussel samples with relative abundances in the range 0.26&#x2013;3.84, 0.15&#x2013;2.63, and 0.02-2.17, respectively. Concerning the genus <italic>Vibrio</italic> spp., in the first set of experiments, the low level of the inoculum did not allow for highlighting any change. The relative abundance in trial A after 24 h is comparable with that of the control (<xref ref-type="fig" rid="F5">Figure 5A</xref>). The second set of experiments, with a higher inoculum level, allows some considerations to be inferred. The relative abundance of vibrios increased by passing from 24 to 48 h in mussels from trial A with non-depurated mussels, allowing to confirm that a vibrios migration in bivalves takes place during depuration (<xref ref-type="fig" rid="F5">Figure 5B</xref>). In waters, the relative abundance of the <italic>Vibrio</italic> genus was noticeably high only after 24 h in trial A, and, in all cases, the abundance of this genus decreased after 48 h (<xref ref-type="fig" rid="F5">Figure 5C</xref>).</p>
<p>In waters, only one BALOs was detected and was reported as unidentified <italic>Bacteriovoracaceae</italic> by HTS. The relative abundance was quite low in water from both sets of experiments, regardless of the trial. Nevertheless, the relative abundance significantly increased by passing from 24 to 48 h in ASW from trial A, where the strain BV5 was inoculated together with the prey (<xref ref-type="fig" rid="F5">Figure 5C</xref>).</p>
</sec>
<sec id="S3.SS6">
<label>3.6 </label>
<title>Effect of commercial depuration on mussel microbiome</title>
<p>The microbiome of depurated and non-depurated mussels was analyzed by HTS (number of reads 50,957 and 42,458, respectively). Distribution appeared to be rather different at both family and genus levels (<xref ref-type="fig" rid="F6">Figures 6A, B</xref>). In mussels that were not previously depurated, <italic>Arcobacteraceae</italic> were dominant, followed by <italic>Fusobacteriaceae</italic> and <italic>Mycoplasmataceae</italic>. In depurated mussels, <italic>Mycoplasmataceae</italic> were almost equally represented as <italic>Arcobacteraceae</italic>.</p>
<fig id="F6" position="float">
<label>FIGURE 6</label>
<caption><p>Barplots showing the mean relative abundance of bacterial families <bold>(A)</bold> and genera <bold>(B)</bold> in non-depurated (NM0) and depurated (M0) mussels upon arrival. Alpha diversity boxplot of NM0 and M0 bacterial communities based on the Shannon <bold>(C)</bold> and Simpson <bold>(D</bold>) indices. Only taxa with a mean relative abundance &#x003E; 1% are plotted.</p></caption>
<graphic mimetype="image" mime-subtype="tiff" xlink:href="fmicb-16-1647926-g006.tif">
<alt-text content-type="machine-generated">Two sets of graphs analyzing microbial communities. Top row: Stacked bar charts (A and B) comparing bacterial families for groups NM0 and M0, color-coded by family. Bottom row: Box plots (C and D) displaying diversity indices (Shannon and Simpson) for NM0 and M0 groups, highlighting higher diversity in M0.</alt-text>
</graphic>
</fig>
<p>At the genus level, apart from <italic>Halarcobacter</italic> and <italic>Mycoplasma</italic> - which were retrieved in mussels subject to depuration in the lab as well, it is remarkable the relative abundance of the <italic>Psychrilyobacter</italic> spp. This genus was instead poorly represented in all mussel samples coming from trials A, B, C, and D.</p>
<p>The alpha diversity analysis, especially the Simpson&#x2019;s diversity index, revealed a higher biodiversity in depurated mussels (<xref ref-type="fig" rid="F6">Figures 6C, D</xref>).</p>
</sec>
</sec>
<sec id="S4" sec-type="discussion">
<label>4 </label>
<title>Discussion</title>
<sec id="S4.SS1">
<label>4.1 </label>
<title>Selection of prey and predator</title>
<p><italic>V. mediterranei</italic> VM6 was selected as prey since it is more susceptible to lysis than the <italic>C. portucalensis</italic> VM2 and <italic>E. coli</italic> 32, regardless of the predator. The lytic capabilities of bacterial predators against hosts may greatly vary, resulting in wildly disparate prey spectrum ranges. While some predators exhibit large ranges that cover numerous Gram-negative and even some Gram-positive bacteria, others have very narrow ranges, covering only a few species or strains (<xref ref-type="bibr" rid="B27">Najnine et al., 2020</xref>). The species <italic>V. mediterranei</italic> has been recognized as a pathogen of the razor clam - <italic>Sinonovacula constricta</italic> - (<xref ref-type="bibr" rid="B12">Fan et al., 2023</xref>), and of the noble pen shell - <italic>Pinna nobilis</italic> - a large bivalve on the brink of extinction in the Mediterranean (<xref ref-type="bibr" rid="B2">Andree et al., 2021</xref>). Recently, this species has been demonstrated to provoke significant acute immune responses and tissue-level reactions in <italic>M. galloprovincialis</italic> (<xref ref-type="bibr" rid="B48">Ter et al., 2024</xref>). Furthermore, the presence of a strain-specific pathogenicity island was established by the comparative investigation of 21 strains of <italic>V. mediterranei</italic>, underscoring the species&#x2019; pathogenicity toward bivalves (<xref ref-type="bibr" rid="B54">Zhang et al., 2025</xref>). From this angle, in addition to the hypothesized control of <italic>Vibrio</italic> populations during depuration, the one-log reduction of <italic>V. mediterranei</italic> VM6 ensured by the strain BV5 after 48 h could prevent larval vibriosis in the shellfish farming.</p>
</sec>
<sec id="S4.SS2">
<label>4.2 </label>
<title>Impact of the predator and laboratory-scale depuration on the mussel microbiome</title>
<p>In all depuration experiments, <italic>Vibrionaceae</italic> naturally occurring in mussels were around 10<sup>2</sup>&#x2013;10<sup>3</sup> CFU/mL. Several authors have already reported a prevalence of <italic>Vibrio</italic> spp. in seafood samples collected in Italy (<xref ref-type="bibr" rid="B30">Parisi et al., 2004</xref>; <xref ref-type="bibr" rid="B43">Serracca et al., 2007</xref>; <xref ref-type="bibr" rid="B45">Sferlazzo et al., 2018</xref>). Moreover, during depuration, <italic>Vibrionaceae</italic> increased by more than one Log in the control (trial D), thus confirming that, as previously reported (<xref ref-type="bibr" rid="B44">Serratore et al., 2014</xref>; <xref ref-type="bibr" rid="B45">Sferlazzo et al., 2018</xref>), the purification treatment, worldwide utilized to purge bivalve mollusk from fecal contaminants, is unsatisfactory for seawater autochthonous <italic>Vibrio</italic> spp. These results might be related to the vibrios&#x2019; release dynamics by bivalves in depuration (<xref ref-type="bibr" rid="B47">Suffredini et al., 2014</xref>). At any rate, during the second set of trials carried out with a higher level of prey inoculum, the predator addition provided satisfactory outcomes. Indeed, prey concentration is well-known to influence the efficacy of BALOs&#x2019; predation. Specifically, predatory activity seems to be inhibited at prey levels below 10<sup>4</sup> CFU/mL (<xref ref-type="bibr" rid="B53">Williams et al., 2016</xref>). Results were in agreement with those reported by <xref ref-type="bibr" rid="B29">Ottaviani et al. (2020)</xref> for the <italic>Halobacteriovorax</italic> sp. strain HBXCO1: the predator at 10<sup>3</sup> PFU/mL was able to keep 10<sup>5</sup> CFU/mL of <italic>V. parahaemolyticus</italic> to about 2 Logs lower than that of the control during mussels&#x2019; depuration.</p>
<p>During the experiment conducted with non-depurated mussels, the predators monitoring in the water revealed that populations increased only in trial F, namely when prey and predator were alone in sterile ASWF (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 2</xref>). This discrepancy might be explained by the predator migration inside mussels. In fact, PFU monitoring validated the results when the experiment was conducted again using depurated mussels. After a day, the number of predators in trial A mussels increased, supporting the theory that predators migrate into mussels (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 3B</xref>).</p>
<p>By HTS, the phylum <italic>Campylobacterota</italic> was the most abundant in non-depurated mussels (<xref ref-type="supplementary-material" rid="SF1">Supplementary Figure 4</xref>). Results did not match those reported for Australian <italic>M. galloprovincialis</italic> mussels. According to <xref ref-type="bibr" rid="B28">Odeyemi et al. (2019)</xref>, the three major phyla in the mussel meat and pouch water of non-depurated and depurated mussels were <italic>Proteobacteria</italic>, <italic>Cyanobacteria</italic>, and <italic>Firmicutes</italic>. <italic>Proteobacteria</italic>, <italic>Tenericutes</italic>, and <italic>Bacteroidetes</italic> are indicated as dominant taxa at the phylum level in Greek mussels in both winter and summer months by <xref ref-type="bibr" rid="B42">Schoinas et al. (2023)</xref>.</p>
<p>More info can be obtained by analyzing the families&#x2019; dynamics in the four trials and during the time (<xref ref-type="fig" rid="F4">Figure 4</xref>). <italic>Arcobacteraceae</italic> dominated the microbiome of non-depurated mussels, whilst depurated mussels were characterized by a higher variability, above all in trials with the predator: <italic>Bacteroidaceae</italic>, <italic>Lachnospiraceae</italic>, and <italic>Ruminococcaceae</italic> increased along time (<xref ref-type="fig" rid="F4">Figure 4B</xref>). The mussel microbiota appeared to include well-known animal microbial commensals involved in carbohydrate oxidation or fermentation and are likely able to influence the gastrointestinal metabolism of the host, as demonstrated in terrestrial animals. Indeed, the description of mussel microbiome on the tissue scale has revealed that the microbiota of each tissue is characterized by a specific pattern, with the digestive gland microbiota being dominated by <italic>Ruminococcaceae</italic> and <italic>Lachnospiraceae</italic>: bacteria able to ferment complex polysaccharides into short-chain fatty acids, and thus well matching the general assets of the animal gut microbiota (<xref ref-type="bibr" rid="B26">Musella et al., 2020</xref>).</p>
<p>Regardless of the trial, the abundance of <italic>Vibrionaceae</italic> in mussels increased over time. An expanding number of environmental studies have contributed to improving knowledge about the family <italic>Vibrionaceae</italic>, and some new species, such as <italic>V. crassostreae</italic>, <italic>V. breoganii</italic>, and <italic>V. celticus</italic>, are described as forming part of the molluscan microbiota (<xref ref-type="bibr" rid="B36">Romalde et al., 2014</xref>).</p>
<p>In non-depurated mussels, the genus <italic>Halarcobacter</italic> spp. dominated all samples (<xref ref-type="fig" rid="F5">Figure 5</xref>). This genus is one of the six obtained by the split of <italic>Arcobacter</italic> spp. (<xref ref-type="bibr" rid="B32">P&#x00E9;rez-Catalu&#x00F1;a et al., 2018</xref>). Natural inhabitants of environmental waters, including surface water, groundwater, rivers, lakes, and seawater, members of this genus have also been found in sewage and plankton (<xref ref-type="bibr" rid="B56">Zhang et al., 2019</xref>). The overall prevalence of <italic>Arcobacter</italic> spp. in bivalves has been previously reported (<xref ref-type="bibr" rid="B17">Laishram et al., 2016</xref>; <xref ref-type="bibr" rid="B24">Morej&#x00F3;n et al., 2017</xref>; <xref ref-type="bibr" rid="B33">Rathlavath et al., 2017</xref>; <xref ref-type="bibr" rid="B38">Salas-Mass&#x00F3; et al., 2016</xref>; <xref ref-type="bibr" rid="B56">Zhang et al., 2019</xref>). High percentages have been reported in Italy as well. <xref ref-type="bibr" rid="B25">Mottola et al. (2016)</xref> isolated <italic>Arcobacter</italic> spp. from shellfish samples in the Apulian region in Italy, while <xref ref-type="bibr" rid="B13">Fera et al. (2004)</xref> detected this genus in seawater and plankton samples collected from the Strait of Messina. The genus <italic>Arcobacter</italic> spp., previously known as the aero-tolerant <italic>Campylobacter</italic>, has gained clinical significance as an emerging diarrheagenic pathogen associated with water reservoirs in recent years. The complete clinical significance of <italic>Arcobacter</italic> remains rather speculative due to the virulence and antibiotic susceptibility of individual strains (<xref ref-type="bibr" rid="B5">Barel and Yildirim, 2023</xref>). On the other hand, the microbiome of depurated mussels appeared to be dominated by <italic>Pseudoalteromonas</italic> spp. This genus is widely distributed in various marine environments. Many <italic>Pseudoalteromonas</italic> species may induce the settlement of larvae of several invertebrates, including <italic>Mytilus coruscus</italic> (<xref ref-type="bibr" rid="B51">Wang et al., 2019</xref>).</p>
<p>The genera <italic>Mycoplasma</italic>, <italic>Polaribacter</italic>, and <italic>Rubritalea</italic> spp. detected in all mussel samples have been reported as dominant in the mussel microbiome by <xref ref-type="bibr" rid="B42">Schoinas et al. (2023)</xref>. On the other hand, other genera reported as dominant by the authors, such as <italic>Anaplasma</italic>, <italic>Ruegeria</italic>, and <italic>Mariniblastus</italic> spp., were not detected in the present study.</p>
<p>The only BALOs family detected in waters by HTS was an unidentified <italic>Bacteriovoracaceae</italic>. The relative abundance in trials with both prey and strain BV5 increased over time (<xref ref-type="fig" rid="F5">Figure 5C</xref>). Since genus-specific PCR did not provide amplification when tested on strain BV5, it is not reasonable to guess that the added predator was the unidentified <italic>Bacteriovoraceae</italic> detected by HTS. In general, the addition of the strain BV5 to depurated mussels, even in the absence of prey (Trial C), resulted in a disturbance of the microbiome at both the family and genus levels. The circumstance that mussels had previously undergone a depuration treatment may have caused a loss of the microbiome&#x2019;s innate resilience, raising the risk that the bacterial communities would be altered.</p>
</sec>
<sec id="S4.SS3">
<label>4.3 </label>
<title>Impact of commercial depuration on the microbiota of mussels</title>
<p>The mussels used for the two decontamination experiments were provided by the same supplier, and they were non-depurated for the first set of trials and already depurated for the second. Since both types of mussels were analyzed immediately upon arrival, HTS might offer insights into how commercial depuration affects the mussel microbiome. A considerable decrease in the relative abundance of <italic>Psychrilyobacter</italic> spp. suggests that depuration may have a major effect on the mussel microbiome (<xref ref-type="fig" rid="F6">Figure 6</xref>). <italic>Psychrilyobacter</italic> spp. is a globally distributed bacterial genus with an inhabiting preference for the gut of marine invertebrates such as the European abalone (<italic>Haliotis tuberculata</italic>), regardless of the season and feeding diet, but also of oysters, sea vases, Atlantic salmon, deep-sea snails, green-lipped mussels, Chilean mussels, and even deep-sea hydrothermal vent crabs (<xref ref-type="bibr" rid="B19">Liu et al., 2023</xref>). In the present survey, the relative abundance of this genus decreases along with the mussels&#x2019; permanence in water, and this evidence does not seem to prove its role as a mussel holobiont. As a matter of fact, in <italic>Mytilus chilensis</italic>, the genus <italic>Psychrilyobacter</italic> spp. appeared to be dominant in mussels living in natural conditions (<xref ref-type="bibr" rid="B40">Santib&#x00E1;&#x00F1;ez et al., 2022</xref>), and its presence could be linked uniquely to the marine sediments: an ecosystem where the genus <italic>Psychrilyobacter</italic> is associated as an important protein and/or amino acid degrader (<xref ref-type="bibr" rid="B31">Pelikan et al., 2021</xref>). Additionally, in oysters, this genus increases in flesh during the moribund peak of the Pacific Oyster Mortality Syndrome caused by Ostreid Herpesvirus 1 infection (<xref ref-type="bibr" rid="B35">Richard et al., 2021</xref>).</p>
<p>The decrease in the relative abundance of both <italic>Psychrilyobacter</italic> and <italic>Halarcobacter</italic> genera goes along with the increase of <italic>Mycoplasma</italic> spp. (<xref ref-type="fig" rid="F6">Figure 6</xref>). Indeed, the proliferation of subdominant phyla after a depuration of 15 h has already been reported for the mussel hepatopancreas bacteriome (<xref ref-type="bibr" rid="B37">Rubiolo et al., 2018</xref>) and the haemolymph (<xref ref-type="bibr" rid="B49">Vezzulli et al., 2018</xref>).</p>
</sec>
</sec>
<sec id="S5" sec-type="conclusion">
<label>5 </label>
<title>Conclusion</title>
<p>The initial goal of the present study was to evaluate the potential of predators for controlling vibrios populations during mussel depuration. In fact, traditional depuration methods can significantly reduce coliforms and other transient bacteria in farmed bivalve tissues, but are only somewhat unsuccessful in eliminating other microorganisms, such as naturally occurring marine vibrios.</p>
<p>Based on results, the biotechnological application of predators in this context might appear promising when monitored by culture-dependent methods. Conversely, the effect on the mollusk microbiome does not seem to be easily predictable, especially when mussels have been subjected to transfer in water after the harvest. Furthermore, according to the gathered outcomes, depuration significantly affects the bivalve microbiota and may favor opportunistic members of the bacterial community. The loss of resilience of the mussel microbiome upon depuration is also revealed by the deep impact that the predator addition proved to exert on the microbial ecosystem. Such an outcome poses several criticisms of the opportunity to adopt this approach. Nevertheless, the role of natural predation during depuration has not been investigated yet, but its contribution to decontamination by Gram-negative bacteria certainly needs more attention.</p>
</sec>
</body>
<back>
<sec id="S6" sec-type="data-availability">
<title>Data availability statement</title>
<p>The 16S rRNA gene sequences are available at the Sequence Read Archive (SRA) of the National Center for Biotechnology Information (NCBI), under accession number <ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="PRJNA1298280">PRJNA1298280</ext-link>.</p>
</sec>
<sec id="S7" sec-type="ethics-statement">
<title>Ethics statement</title>
<p>The manuscript presents research on animals that do not require ethical approval for their study.</p>
</sec>
<sec id="S8" sec-type="author-contributions">
<title>Author contributions</title>
<p>GB: Software, Validation, Writing &#x2013; original draft. IC: Formal analysis, Methodology, Writing &#x2013; original draft. MA: Conceptualization, Data curation, Writing &#x2013; review and editing. RR: Visualization, Writing &#x2013; original draft.</p>
</sec>
<ack><p>We would like to thank Maddalena Pauciullo and Ciro Borrelli for their technical support.</p>
</ack>
<sec id="S10" sec-type="COI-statement">
<title>Conflict of interest</title>
<p>The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.</p>
</sec>
<sec id="S11" sec-type="ai-statement">
<title>Generative AI statement</title>
<p>The authors declare that no Generative AI was used in the creation of this manuscript.</p>
<p>Any alternative text (alt text) provided alongside figures in this article has been generated by Frontiers with the support of artificial intelligence and reasonable efforts have been made to ensure accuracy, including review by the authors wherever possible. If you identify any issues, please contact us.</p>
</sec>
<sec id="S12" sec-type="disclaimer">
<title>Publisher&#x2019;s note</title>
<p>All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.</p>
</sec>
<sec id="S13" sec-type="supplementary-material">
<title>Supplementary material</title>
<p>The Supplementary Material for this article can be found online at: <ext-link ext-link-type="uri" xlink:href="https://www.frontiersin.org/articles/10.3389/fmicb.2025.1647926/full#supplementary-material">https://www.frontiersin.org/articles/10.3389/fmicb.2025.1647926/full#supplementary-material</ext-link></p>
<supplementary-material xlink:href="Supplementary_file_1.docx" id="SF1" mimetype="application/vnd.openxmlformats-officedocument.wordprocessingml.document"/>
</sec>
<ref-list>
<title>References</title>
<ref id="B1"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Altschul</surname> <given-names>S. F.</given-names></name> <name><surname>Madden</surname> <given-names>T. L.</given-names></name> <name><surname>Sch&#x00E4;ffer</surname> <given-names>A. A.</given-names></name> <name><surname>Zhang</surname> <given-names>J.</given-names></name> <name><surname>Zhang</surname> <given-names>Z.</given-names></name> <name><surname>Miller</surname> <given-names>W.</given-names></name><etal/></person-group> (<year>1997</year>). <article-title>Gapped BLAST and PSI-BLAST: A new generation of protein database search programs.</article-title> <source><italic>Nucl Acids Res.</italic></source> <volume>25</volume> <fpage>3389</fpage>&#x2013;<lpage>3402</lpage>. <pub-id pub-id-type="doi">10.1093/nar/25.17.3389</pub-id> <pub-id pub-id-type="pmid">9254694</pub-id></mixed-citation></ref>
<ref id="B2"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Andree</surname> <given-names>K. B.</given-names></name> <name><surname>Carrasco</surname> <given-names>N.</given-names></name> <name><surname>Carella</surname> <given-names>F.</given-names></name> <name><surname>Furones</surname> <given-names>D.</given-names></name> <name><surname>Prado</surname> <given-names>P.</given-names></name></person-group> (<year>2021</year>). <article-title><italic>Vibrio mediterranei</italic>, a potential emerging pathogen of marine fauna: Investigation of pathogenicity using a bacterial challenge in <italic>Pinna nobilis</italic> and development of a species-specific PCR.</article-title> <source><italic>J. Appl. Microbiol.</italic></source> <volume>130</volume> <fpage>617</fpage>&#x2013;<lpage>631</lpage>. <pub-id pub-id-type="doi">10.1111/jam.14756</pub-id> <pub-id pub-id-type="pmid">32592599</pub-id></mixed-citation></ref>
<ref id="B3"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Aponte</surname> <given-names>M.</given-names></name> <name><surname>Esposito</surname> <given-names>F.</given-names></name> <name><surname>Sequino</surname> <given-names>G.</given-names></name> <name><surname>Blaiotta</surname> <given-names>G.</given-names></name> <name><surname>De Filippis</surname> <given-names>F.</given-names></name></person-group> (<year>2022</year>). <article-title>Stuck or sluggish fermentations in home-made beers: Beyond the surface.</article-title> <source><italic>Int. J. Food Microbiol.</italic></source> <volume>383</volume>:<fpage>109956</fpage>. <pub-id pub-id-type="doi">10.1016/j.ijfoodmicro.2022.109956</pub-id> <pub-id pub-id-type="pmid">36209540</pub-id></mixed-citation></ref>
<ref id="B4"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Baker</surname> <given-names>G. L.</given-names></name></person-group> (<year>2016</year>). <article-title>Food safety impacts from post-harvest processing procedures of molluscan shellfish.</article-title> <source><italic>Foods</italic></source> <volume>5</volume>:<fpage>29</fpage>. <pub-id pub-id-type="doi">10.3390/foods5020029</pub-id> <pub-id pub-id-type="pmid">28231124</pub-id></mixed-citation></ref>
<ref id="B5"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Barel</surname> <given-names>M.</given-names></name> <name><surname>Yildirim</surname> <given-names>Y.</given-names></name></person-group> (<year>2023</year>). <article-title><italic>Arcobacter</italic> species isolated from various seafood and water sources; virulence genes, antibiotic resistance genes and molecular characterization.</article-title> <source><italic>World J. Microbiol. Biotechnol.</italic></source> <volume>39</volume>:<fpage>183</fpage>. <pub-id pub-id-type="doi">10.1007/s11274-023-03547-x</pub-id> <pub-id pub-id-type="pmid">37147408</pub-id></mixed-citation></ref>
<ref id="B6"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Callahan</surname> <given-names>B. J.</given-names></name> <name><surname>McMurdie</surname> <given-names>P. J.</given-names></name> <name><surname>Rosen</surname> <given-names>M. J.</given-names></name> <name><surname>Han</surname> <given-names>A. W.</given-names></name> <name><surname>Johnson</surname> <given-names>A. J. A.</given-names></name> <name><surname>Dada</surname> <given-names>S. H.</given-names></name></person-group> (<year>2016</year>). <article-title>High-resolution sample inference from Illumina amplicon data.</article-title> <source><italic>Nat. Meth.</italic></source> <volume>13</volume> <fpage>581</fpage>&#x2013;<lpage>583</lpage>. <pub-id pub-id-type="doi">10.1038/nmeth.3869</pub-id> <pub-id pub-id-type="pmid">27214047</pub-id></mixed-citation></ref>
<ref id="B7"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Cheikh</surname> <given-names>Y. B.</given-names></name> <name><surname>Massol</surname> <given-names>F.</given-names></name> <name><surname>Giusti-Petrucciani</surname> <given-names>N.</given-names></name> <name><surname>Travers</surname> <given-names>M. A.</given-names></name></person-group> (<year>2024</year>). <article-title>Impact of epizootics on mussel farms: Insights into microbiota composition of <italic>Mytilus</italic> species.</article-title> <source><italic>Microbiol. Res.</italic></source> <volume>280</volume>:<fpage>127593</fpage>. <pub-id pub-id-type="doi">10.1016/j.micres.2023.127593</pub-id> <pub-id pub-id-type="pmid">38184970</pub-id></mixed-citation></ref>
<ref id="B8"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Chinnadurai</surname> <given-names>S.</given-names></name> <name><surname>Elavarasan</surname> <given-names>K.</given-names></name> <name><surname>Geethalakshmi</surname> <given-names>V.</given-names></name> <name><surname>Kripa</surname> <given-names>V.</given-names></name> <name><surname>Mohamed</surname> <given-names>K. S.</given-names></name></person-group> (<year>2023</year>). <article-title>Development of a depuration protocol for commercially important edible bivalve molluscs of India: Ensuring microbiological safety.</article-title> <source><italic>Food Microbiol.</italic></source> <volume>110</volume>:<fpage>104172</fpage>. <pub-id pub-id-type="doi">10.1016/j.fm.2022.104172</pub-id> <pub-id pub-id-type="pmid">36462828</pub-id></mixed-citation></ref>
<ref id="B9"><mixed-citation publication-type="book"><person-group person-group-type="author"><name><surname>Collins</surname> <given-names>C. H.</given-names></name> <name><surname>Lyne</surname> <given-names>P. M.</given-names></name> <name><surname>Grange</surname> <given-names>J.</given-names></name></person-group> (<year>1989</year>). &#x201C;<article-title>Counting microorganism</article-title>,&#x201D; in <source><italic>Microbiological Meth</italic></source>, <role>eds</role> <person-group person-group-type="editor"><name><surname>Collins</surname> <given-names>C. H.</given-names></name> <name><surname>Lyne</surname> <given-names>P. M.</given-names></name> <name><surname>Grange</surname> <given-names>J. M.</given-names></name></person-group> (<publisher-loc>Waltham, MA</publisher-loc>: <publisher-name>Butter-worth-Heinemann</publisher-name>), <fpage>127</fpage>&#x2013;<lpage>140</lpage>.</mixed-citation></ref>
<ref id="B10"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Davidov</surname> <given-names>Y.</given-names></name> <name><surname>Friedjung</surname> <given-names>A.</given-names></name> <name><surname>Jurkevitch</surname> <given-names>E.</given-names></name></person-group> (<year>2006</year>). <article-title>Structure analysis of a soil community of predatory bacteria using culture-dependent and culture-independent methods reveals a hitherto undetected diversity of <italic>Bdellovibrio</italic>-and-like organisms.</article-title> <source><italic>Environ. Microbiol.</italic></source> <volume>8</volume> <fpage>1667</fpage>&#x2013;<lpage>1673</lpage>. <pub-id pub-id-type="doi">10.1111/j.1462-2920.2006.01052.x</pub-id> <pub-id pub-id-type="pmid">16913926</pub-id></mixed-citation></ref>
<ref id="B11"><mixed-citation publication-type="book"><person-group person-group-type="author"><name><surname>Ettensohn</surname> <given-names>C. A.</given-names></name> <name><surname>Wray</surname> <given-names>G.</given-names></name> <name><surname>Wessel</surname> <given-names>G. M.</given-names></name></person-group> (<year>2004</year>). <source><italic>Development of sea urchins, ascidians, and other invertebrate deuterostomes: Experimental approaches</italic></source>, <volume>Vol. 74</volume>. <publisher-loc>Houston, TX</publisher-loc>: <publisher-name>Gulf Professional Publishing</publisher-name>.</mixed-citation></ref>
<ref id="B12"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Fan</surname> <given-names>C.</given-names></name> <name><surname>Liu</surname> <given-names>S.</given-names></name> <name><surname>Dai</surname> <given-names>W.</given-names></name> <name><surname>He</surname> <given-names>L.</given-names></name> <name><surname>Xu</surname> <given-names>H.</given-names></name> <name><surname>Zhang</surname> <given-names>H.</given-names></name><etal/></person-group> (<year>2023</year>). <article-title>Characterization of Vibrio mediterranei isolates as causative agents of vibriosis in marine bivalves.</article-title> <source><italic>Microbiol. Spectr.</italic></source> <volume>11</volume>:<fpage>e04923-22</fpage>. <pub-id pub-id-type="doi">10.1128/spectrum.04923-22</pub-id> <pub-id pub-id-type="pmid">36728415</pub-id></mixed-citation></ref>
<ref id="B13"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Fera</surname> <given-names>M. T.</given-names></name> <name><surname>Maugeri</surname> <given-names>T. L.</given-names></name> <name><surname>Gugliandolo</surname> <given-names>C.</given-names></name> <name><surname>Beninati</surname> <given-names>C.</given-names></name> <name><surname>Giannone</surname> <given-names>M.</given-names></name> <name><surname>La Camera</surname> <given-names>E.</given-names></name><etal/></person-group> (<year>2004</year>). <article-title>Detection of <italic>Arcobacter</italic> spp. in the coastal environment of the Mediterranean Sea.</article-title> <source><italic>Appl. Environ. Microbiol.</italic></source> <volume>70</volume> <fpage>1271</fpage>&#x2013;<lpage>1276</lpage>. <pub-id pub-id-type="doi">10.1128/AEM.70.3.1271-1276.2004</pub-id> <pub-id pub-id-type="pmid">15006743</pub-id></mixed-citation></ref>
<ref id="B14"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Huq</surname> <given-names>A.</given-names></name> <name><surname>Haley</surname> <given-names>B. J.</given-names></name> <name><surname>Taviani</surname> <given-names>E.</given-names></name> <name><surname>Chen</surname> <given-names>A.</given-names></name> <name><surname>Hasan</surname> <given-names>N. A.</given-names></name> <name><surname>Colwell</surname> <given-names>R. R.</given-names></name></person-group> (<year>2012</year>). <article-title>Detection, isolation, and identification of <italic>Vibrio cholerae</italic> from the environment.</article-title> <source><italic>Curr. Prot. Microbiol.</italic></source> <volume>26</volume> <fpage>6A</fpage>&#x2013;<lpage>5A</lpage>. <pub-id pub-id-type="doi">10.1002/9780471729259.mc06a05s26</pub-id> <pub-id pub-id-type="pmid">22875567</pub-id></mixed-citation></ref>
<ref id="B15"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Jurkevitch</surname> <given-names>E.</given-names></name></person-group> (<year>2006</year>). <article-title>Isolation and classification of <italic>Bdellovibrio</italic> and like organisms.</article-title> <source><italic>Curr. Prot. Microbiol.</italic></source> <volume>7</volume>:<fpage>7B</fpage>. <pub-id pub-id-type="doi">10.1002/9780471729259.mc07b01s00</pub-id> <pub-id pub-id-type="pmid">18770593</pub-id></mixed-citation></ref>
<ref id="B16"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Kongrueng</surname> <given-names>J.</given-names></name> <name><surname>Pimonsri Mitraparp-arthorn</surname> <given-names>P.</given-names></name> <name><surname>Bangpanwimon</surname> <given-names>K.</given-names></name> <name><surname>Robins</surname> <given-names>W.</given-names></name> <name><surname>Vuddhakul</surname> <given-names>V.</given-names></name> <name><surname>Mekalanos</surname> <given-names>J.</given-names></name></person-group> (<year>2017</year>). <article-title>Isolation of <italic>Bdellovibrio</italic> and like organisms and potential to reduce acute hepatopancreatic necrosis disease caused by <italic>Vibrio parahaemolyticus</italic>.</article-title> <source><italic>Dis. Aquat. Organ.</italic></source> <volume>124</volume> <fpage>223</fpage>&#x2013;<lpage>232</lpage>. <pub-id pub-id-type="doi">10.3354/dao03120</pub-id> <pub-id pub-id-type="pmid">28492178</pub-id></mixed-citation></ref>
<ref id="B17"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Laishram</surname> <given-names>M.</given-names></name> <name><surname>Rathlavath</surname> <given-names>S.</given-names></name> <name><surname>Lekshmi</surname> <given-names>M.</given-names></name> <name><surname>Kumar</surname> <given-names>S.</given-names></name> <name><surname>Nayak</surname> <given-names>B. B.</given-names></name></person-group> (<year>2016</year>). <article-title>Isolation and characterization of <italic>Arcobacter</italic> spp. from fresh seafood and the aquatic environment.</article-title> <source><italic>Int. J. Food Microbiol.</italic></source> <volume>232</volume> <fpage>87</fpage>&#x2013;<lpage>89</lpage>. <pub-id pub-id-type="doi">10.1016/j.ijfoodmicro.2016.05.018</pub-id> <pub-id pub-id-type="pmid">27261768</pub-id></mixed-citation></ref>
<ref id="B18"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Li</surname> <given-names>H.</given-names></name> <name><surname>Liu</surname> <given-names>C.</given-names></name> <name><surname>Chen</surname> <given-names>L.</given-names></name> <name><surname>Zhang</surname> <given-names>X.</given-names></name> <name><surname>Cai</surname> <given-names>J.</given-names></name></person-group> (<year>2011</year>). <article-title>Biological characterization of two marine <italic>Bdellovibrio</italic>-and-like organisms isolated from Daya Bay of Shenzhen, China and their application in the elimination of <italic>Vibrio parahaemolyticus</italic> in oyster.</article-title> <source><italic>Int. J. Food Microbiol.</italic></source> <volume>151</volume> <fpage>36</fpage>&#x2013;<lpage>43</lpage>. <pub-id pub-id-type="doi">10.1016/j.ijfoodmicro.2011.07.036</pub-id> <pub-id pub-id-type="pmid">21899909</pub-id></mixed-citation></ref>
<ref id="B19"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Liu</surname> <given-names>M.</given-names></name> <name><surname>Wei</surname> <given-names>G.</given-names></name> <name><surname>Lai</surname> <given-names>Q.</given-names></name> <name><surname>Huang</surname> <given-names>Z.</given-names></name> <name><surname>Li</surname> <given-names>M.</given-names></name> <name><surname>Shao</surname> <given-names>Z.</given-names></name></person-group> (<year>2023</year>). <article-title>Genomic and metabolic insights into the first host-associated isolate of <italic>Psychrilyobacter</italic>.</article-title> <source><italic>Microbiol. Spectr.</italic></source> <volume>11</volume>:<fpage>e03990-22</fpage>. <pub-id pub-id-type="doi">10.1128/spectrum.03990-22</pub-id> <pub-id pub-id-type="pmid">37754757</pub-id></mixed-citation></ref>
<ref id="B20"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Lu</surname> <given-names>J.</given-names></name> <name><surname>Li</surname> <given-names>X.</given-names></name> <name><surname>Qiu</surname> <given-names>Q.</given-names></name> <name><surname>Chen</surname> <given-names>J.</given-names></name> <name><surname>Xiong</surname> <given-names>J.</given-names></name></person-group> (<year>2022</year>). <article-title>Gut interkingdom predator-prey interactions are key determinants of shrimp health.</article-title> <source><italic>Aquac.</italic></source> <volume>546</volume>:<fpage>737304</fpage>. <pub-id pub-id-type="doi">10.1016/j.aquaculture.2021.737304</pub-id></mixed-citation></ref>
<ref id="B21"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Mago&#x010D;</surname> <given-names>T.</given-names></name> <name><surname>Salzberg</surname> <given-names>S. L.</given-names></name></person-group> (<year>2011</year>). <article-title>FLASH: Fast length adjustment of short reads to improve genome assemblies.</article-title> <source><italic>Bioinformatics</italic></source> <volume>27</volume> <fpage>2957</fpage>&#x2013;<lpage>2963</lpage>. <pub-id pub-id-type="doi">10.1093/bioinformatics/btr507</pub-id> <pub-id pub-id-type="pmid">21903629</pub-id></mixed-citation></ref>
<ref id="B22"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Martinez-Albores</surname> <given-names>A.</given-names></name> <name><surname>Lopez-Santamarina</surname> <given-names>A.</given-names></name> <name><surname>Rodriguez</surname> <given-names>J. A.</given-names></name> <name><surname>Ibarra</surname> <given-names>I. S.</given-names></name> <name><surname>Mondragon</surname> <given-names>A. D. C.</given-names></name> <name><surname>Miranda</surname> <given-names>J. M.</given-names></name><etal/></person-group> (<year>2020</year>). <article-title>Complementary methods to improve the depuration of bivalves: A review.</article-title> <source><italic>Foods</italic></source> <volume>9</volume>:<fpage>129</fpage>. <pub-id pub-id-type="doi">10.3390/foods9020129</pub-id> <pub-id pub-id-type="pmid">31991702</pub-id></mixed-citation></ref>
<ref id="B23"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Mookherjee</surname> <given-names>A.</given-names></name> <name><surname>Jurkevitch</surname> <given-names>E.</given-names></name></person-group> (<year>2022</year>). <article-title>Interactions between <italic>Bdellovibrio</italic> and like organisms and bacteria in biofilms: Beyond predator&#x2013;prey dynamics.</article-title> <source><italic>Environ. Microbiol.</italic></source> <volume>24</volume> <fpage>998</fpage>&#x2013;<lpage>1011</lpage>. <pub-id pub-id-type="doi">10.1111/1462-2920.15844</pub-id> <pub-id pub-id-type="pmid">34816563</pub-id></mixed-citation></ref>
<ref id="B24"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Morej&#x00F3;n</surname> <given-names>I. F. B.</given-names></name> <name><surname>Gonz&#x00E1;lez</surname> <given-names>A.</given-names></name> <name><surname>Ferr&#x00FA;s</surname> <given-names>M. A.</given-names></name></person-group> (<year>2017</year>). <article-title>Detection, identification, and antimicrobial susceptibility of <italic>Arcobacter</italic> spp. isolated from shellfish in Spain.</article-title> <source><italic>Foodborne Path. Dis.</italic></source> <volume>14</volume> <fpage>238</fpage>&#x2013;<lpage>243</lpage>. <pub-id pub-id-type="doi">10.1089/fpd.2016.2202</pub-id> <pub-id pub-id-type="pmid">28121468</pub-id></mixed-citation></ref>
<ref id="B25"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Mottola</surname> <given-names>A.</given-names></name> <name><surname>Bonerba</surname> <given-names>E.</given-names></name> <name><surname>Figueras</surname> <given-names>M. J.</given-names></name> <name><surname>P&#x00E9;rez-Catalu&#x00F1;a</surname> <given-names>A.</given-names></name> <name><surname>Marchetti</surname> <given-names>P.</given-names></name> <name><surname>Serraino</surname> <given-names>A.</given-names></name><etal/></person-group> (<year>2016</year>). <article-title>Occurrence of potentially pathogenic <italic>arcobacter</italic>s in shellfish.</article-title> <source><italic>Food Microbiol.</italic></source> <volume>57</volume> <fpage>23</fpage>&#x2013;<lpage>27</lpage>. <pub-id pub-id-type="doi">10.1016/j.fm.2015.12.010</pub-id> <pub-id pub-id-type="pmid">27052698</pub-id></mixed-citation></ref>
<ref id="B26"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Musella</surname> <given-names>M.</given-names></name> <name><surname>Wathsala</surname> <given-names>R.</given-names></name> <name><surname>Tavella</surname> <given-names>T.</given-names></name> <name><surname>Rampelli</surname> <given-names>S.</given-names></name> <name><surname>Barone</surname> <given-names>M.</given-names></name> <name><surname>Palladino</surname> <given-names>G.</given-names></name><etal/></person-group> (<year>2020</year>). <article-title>Tissue-scale microbiota of the Mediterranean mussel (<italic>Mytilus galloprovincialis</italic>) and its relationship with the environment.</article-title> <source><italic>Sci. Total Environ.</italic></source> <volume>717</volume>:<fpage>137209</fpage>. <pub-id pub-id-type="doi">10.1016/j.scitotenv.2020.137209</pub-id> <pub-id pub-id-type="pmid">32084687</pub-id></mixed-citation></ref>
<ref id="B27"><mixed-citation publication-type="book"><person-group person-group-type="author"><name><surname>Najnine</surname> <given-names>F.</given-names></name> <name><surname>Cao</surname> <given-names>Q.</given-names></name> <name><surname>Zhao</surname> <given-names>Y.</given-names></name> <name><surname>Cai</surname> <given-names>J.</given-names></name></person-group> (<year>2020</year>). &#x201C;<article-title>Antibacterial activities of <italic>Bdellovibrio</italic> and like organisms in aquaculture</article-title>,&#x201D; in <source><italic>The ecology of predation at the microscale</italic></source>, <role>eds</role> <person-group person-group-type="editor"><name><surname>Jurkevitch</surname> <given-names>E.</given-names></name> <name><surname>Mitchell</surname> <given-names>R. J.</given-names></name></person-group> (<publisher-loc>Berlin</publisher-loc>: <publisher-name>Springer</publisher-name>), <fpage>89</fpage>&#x2013;<lpage>96</lpage>.</mixed-citation></ref>
<ref id="B28"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Odeyemi</surname> <given-names>O. A.</given-names></name> <name><surname>Burke</surname> <given-names>C. M.</given-names></name> <name><surname>Bolch</surname> <given-names>C. C.</given-names></name> <name><surname>Stanley</surname> <given-names>R.</given-names></name></person-group> (<year>2019</year>). <article-title>Spoilage microbial community profiling by 16S rRNA amplicon sequencing of modified atmosphere packaged live mussels stored at 4&#x00B0;C.</article-title> <source><italic>Food Res. Int.</italic></source> <volume>121</volume> <fpage>568</fpage>&#x2013;<lpage>576</lpage>. <pub-id pub-id-type="doi">10.1016/j.foodres.2018.12.017</pub-id> <pub-id pub-id-type="pmid">31108782</pub-id></mixed-citation></ref>
<ref id="B29"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Ottaviani</surname> <given-names>D.</given-names></name> <name><surname>Pieralisi</surname> <given-names>S.</given-names></name> <name><surname>Chierichetti</surname> <given-names>S.</given-names></name> <name><surname>Rocchegiani</surname> <given-names>E.</given-names></name> <name><surname>Hattab</surname> <given-names>J.</given-names></name> <name><surname>Mosca</surname> <given-names>F.</given-names></name><etal/></person-group> (<year>2020</year>). <article-title><italic>Vibrio parahaemolyticus</italic> control in mussels by a <italic>Halobacteriovorax</italic> isolated from the Adriatic Sea.</article-title> <source><italic>Italy. Food Microbiol.</italic></source> <volume>92</volume>:<fpage>10360</fpage>. <pub-id pub-id-type="doi">10.1016/j.fm.2020.103600</pub-id> <pub-id pub-id-type="pmid">32950141</pub-id></mixed-citation></ref>
<ref id="B30"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Parisi</surname> <given-names>A.</given-names></name> <name><surname>Addante</surname> <given-names>N.</given-names></name> <name><surname>Montagna</surname> <given-names>C.</given-names></name> <name><surname>Normanno</surname> <given-names>G.</given-names></name> <name><surname>Dambrosio</surname> <given-names>A.</given-names></name> <name><surname>Quaglia</surname> <given-names>N. C.</given-names></name><etal/></person-group> (<year>2004</year>). <article-title>Qualit&#x00E0; igienica e presenza di vibrioni in ostriche, vongole e modiole [Hygienic quality and presence of vibrios in oysters, clams, and modiola].</article-title> <source><italic>Ind. Alim.</italic></source> <volume>43</volume> <fpage>1</fpage>&#x2013;<lpage>5</lpage>. Italian Available online at: <ext-link ext-link-type="uri" xlink:href="https://hdl.handle.net/11369/89279">https://hdl.handle.net/11369/89279</ext-link></mixed-citation></ref>
<ref id="B31"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Pelikan</surname> <given-names>C.</given-names></name> <name><surname>Wasmund</surname> <given-names>K.</given-names></name> <name><surname>Glombitza</surname> <given-names>C.</given-names></name> <name><surname>Hausmann</surname> <given-names>B.</given-names></name> <name><surname>Herbold</surname> <given-names>C. W.</given-names></name> <name><surname>Flieder</surname> <given-names>M.</given-names></name><etal/></person-group> (<year>2021</year>). <article-title>Anaerobic bacterial degradation of protein and lipid macromolecules in subarctic marine sediment.</article-title> <source><italic>ISME J.</italic></source> <volume>15</volume> <fpage>833</fpage>&#x2013;<lpage>847</lpage>. <pub-id pub-id-type="doi">10.1038/s41396-020-00817-6</pub-id> <pub-id pub-id-type="pmid">33208892</pub-id></mixed-citation></ref>
<ref id="B32"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>P&#x00E9;rez-Catalu&#x00F1;a</surname> <given-names>A.</given-names></name> <name><surname>Salas-Mass&#x00F3;</surname> <given-names>N.</given-names></name> <name><surname>Di&#x00E9;guez</surname> <given-names>A. L.</given-names></name> <name><surname>Balboa</surname> <given-names>S.</given-names></name> <name><surname>Lema</surname> <given-names>A.</given-names></name> <name><surname>Romalde</surname> <given-names>J. L.</given-names></name><etal/></person-group> (<year>2018</year>). <article-title>Revisiting the taxonomy of the genus <italic>Arcobacter</italic>: Getting order from the chaos.</article-title> <source><italic>Front. Microbiol.</italic></source> <volume>9</volume>:<fpage>364252</fpage>. <pub-id pub-id-type="doi">10.3389/fmicb.2018.02077</pub-id> <pub-id pub-id-type="pmid">30233547</pub-id></mixed-citation></ref>
<ref id="B33"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Rathlavath</surname> <given-names>S.</given-names></name> <name><surname>Kumar</surname> <given-names>S.</given-names></name> <name><surname>Nayak</surname> <given-names>B. B.</given-names></name></person-group> (<year>2017</year>). <article-title>Comparative isolation and genetic diversity of <italic>Arcobacter</italic> sp. from fish and the coastal environment.</article-title> <source><italic>Lett. Appl. Microbiol.</italic></source> <volume>65</volume> <fpage>42</fpage>&#x2013;<lpage>49</lpage>. <pub-id pub-id-type="doi">10.1111/lam.12743</pub-id> <pub-id pub-id-type="pmid">28394467</pub-id></mixed-citation></ref>
<ref id="B34"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Richard</surname> <given-names>G. P.</given-names></name> <name><surname>Fay</surname> <given-names>J. P.</given-names></name> <name><surname>Dickens</surname> <given-names>K. A.</given-names></name> <name><surname>Parent</surname> <given-names>M. A.</given-names></name> <name><surname>Soroka</surname> <given-names>D. S.</given-names></name> <name><surname>Boyd</surname> <given-names>E. F.</given-names></name></person-group> (<year>2012</year>). <article-title>Predatory bacteria as natural modulators of <italic>Vibrio parahaemolyticus</italic> and <italic>Vibrio vulnificus</italic> in seawater and oysters.</article-title> <source><italic>Appl. Environ. Microbiol.</italic></source> <volume>78</volume> <fpage>7455</fpage>&#x2013;<lpage>7466</lpage>. <pub-id pub-id-type="doi">10.1128/AEM.01594-12</pub-id> <pub-id pub-id-type="pmid">22904049</pub-id></mixed-citation></ref>
<ref id="B35"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Richard</surname> <given-names>M.</given-names></name> <name><surname>Rolland</surname> <given-names>J. L.</given-names></name> <name><surname>Gueguen</surname> <given-names>Y.</given-names></name> <name><surname>de Lorgeril</surname> <given-names>J.</given-names></name> <name><surname>Pouzadoux</surname> <given-names>J.</given-names></name> <name><surname>Mostajir</surname> <given-names>B.</given-names></name><etal/></person-group> (<year>2021</year>). <article-title>In situ characterisation of pathogen dynamics during a Pacific oyster mortality syndrome episode.</article-title> <source><italic>Mar. Environ. Res.</italic></source> <volume>165</volume>:<fpage>105251</fpage>. <pub-id pub-id-type="doi">10.1016/j.marenvres.2020.105251</pub-id> <pub-id pub-id-type="pmid">33548594</pub-id></mixed-citation></ref>
<ref id="B36"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Romalde</surname> <given-names>J. L.</given-names></name> <name><surname>Di&#x00E9;guez</surname> <given-names>A. L.</given-names></name> <name><surname>Lasa</surname> <given-names>A.</given-names></name> <name><surname>Balboa</surname> <given-names>S.</given-names></name></person-group> (<year>2014</year>). <article-title>New <italic>Vibrio</italic> species associated to molluscan microbiota: A review.</article-title> <source><italic>Front. Microbiol.</italic></source> <volume>4</volume>:<fpage>71650</fpage>. <pub-id pub-id-type="doi">10.3389/fmicb.2013.00413</pub-id> <pub-id pub-id-type="pmid">24427157</pub-id></mixed-citation></ref>
<ref id="B37"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Rubiolo</surname> <given-names>J. A.</given-names></name> <name><surname>Lozano-Leon</surname> <given-names>A.</given-names></name> <name><surname>Rodriguez-Souto</surname> <given-names>R.</given-names></name> <name><surname>Fol Rodriguez</surname> <given-names>N.</given-names></name> <name><surname>Vieytes</surname> <given-names>M. R.</given-names></name> <name><surname>Botana</surname> <given-names>L. M.</given-names></name></person-group> (<year>2018</year>). <article-title>The impact of depuration on mussel hepatopancreas bacteriome composition and predicted metagenome.</article-title> <source><italic>Antonie van Leeuwenhoek</italic></source> <volume>111</volume> <fpage>1117</fpage>&#x2013;<lpage>1129</lpage>. <pub-id pub-id-type="doi">10.1007/s10482-018-1015-y</pub-id> <pub-id pub-id-type="pmid">29340947</pub-id></mixed-citation></ref>
<ref id="B38"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Salas-Mass&#x00F3;</surname> <given-names>N.</given-names></name> <name><surname>Andree</surname> <given-names>K. B.</given-names></name> <name><surname>Furones</surname> <given-names>M. D.</given-names></name> <name><surname>Figueras</surname> <given-names>M. J.</given-names></name></person-group> (<year>2016</year>). <article-title>Enhanced recovery of <italic>Arcobacter</italic> spp. using NaCl in culture media and re-assessment of the traits of <italic>Arcobacter marinus</italic> and <italic>Arcobacter halophilus</italic> isolated from marine water and shellfish.</article-title> <source><italic>Sci. Total Environ.</italic></source> <volume>566</volume> <fpage>1355</fpage>&#x2013;<lpage>1361</lpage>. <pub-id pub-id-type="doi">10.1016/j.scitotenv.2016.05.197</pub-id> <pub-id pub-id-type="pmid">27282494</pub-id></mixed-citation></ref>
<ref id="B39"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Sanger</surname> <given-names>F.</given-names></name> <name><surname>Nicklen</surname> <given-names>S.</given-names></name> <name><surname>Coulson</surname> <given-names>A. R.</given-names></name></person-group> (<year>1977</year>). <article-title>DNA sequencing with chain-terminating inhibitors.</article-title> <source><italic>Proc. Natl. Acad. Sci. U S A.</italic></source> <volume>74</volume> <fpage>5463</fpage>&#x2013;<lpage>5467</lpage>. <pub-id pub-id-type="doi">10.1073/pnas.74.12.5463</pub-id> <pub-id pub-id-type="pmid">271968</pub-id></mixed-citation></ref>
<ref id="B40"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Santib&#x00E1;&#x00F1;ez</surname> <given-names>P.</given-names></name> <name><surname>Romalde</surname> <given-names>J.</given-names></name> <name><surname>Maldonado</surname> <given-names>J.</given-names></name> <name><surname>Fuentes</surname> <given-names>D.</given-names></name> <name><surname>Figueroa</surname> <given-names>J.</given-names></name></person-group> (<year>2022</year>). <article-title>First characterization of the gut microbiome associated with <italic>Mytilus chilensis</italic> collected at a mussel farm and from a natural environment in Chile.</article-title> <source><italic>Aquaculture</italic></source> <volume>548</volume>:<fpage>737644</fpage>. <pub-id pub-id-type="doi">10.1016/j.aquaculture.2021.737644</pub-id></mixed-citation></ref>
<ref id="B41"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Santoro</surname> <given-names>M.</given-names></name> <name><surname>Viscardi</surname> <given-names>M.</given-names></name> <name><surname>Boccia</surname> <given-names>F.</given-names></name> <name><surname>Borriello</surname> <given-names>G.</given-names></name> <name><surname>Lucibelli</surname> <given-names>M. G.</given-names></name> <name><surname>Auriemma</surname> <given-names>C.</given-names></name><etal/></person-group> (<year>2020</year>). <article-title>Parasite load and STRs genotyping of <italic>Toxoplasma gondii</italic> isolates from Mediterranean mussels (<italic>Mytilus galloprovincialis</italic>) in southern Italy.</article-title> <source><italic>Front. Microbiol.</italic></source> <volume>11</volume>:<fpage>355</fpage>. <pub-id pub-id-type="doi">10.3389/fmicb.2020.00355</pub-id> <pub-id pub-id-type="pmid">32210944</pub-id></mixed-citation></ref>
<ref id="B42"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Schoinas</surname> <given-names>K.</given-names></name> <name><surname>Konstantou</surname> <given-names>V.</given-names></name> <name><surname>Bompou</surname> <given-names>E.</given-names></name> <name><surname>Floros</surname> <given-names>G.</given-names></name> <name><surname>Chatziplis</surname> <given-names>D.</given-names></name> <name><surname>Imsiridou</surname> <given-names>A.</given-names></name><etal/></person-group> (<year>2023</year>). <article-title>Microbiome profile of the Mediterranean mussel (<italic>Mytilus galloprovincialis</italic>) from Northern Aegean Sea (Greece) culture areas, based on a 16S rRNA next generation sequencing approach.</article-title> <source><italic>Diversity</italic></source> <volume>15</volume>:<fpage>463</fpage>. <pub-id pub-id-type="doi">10.3390/d15030463</pub-id></mixed-citation></ref>
<ref id="B43"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Serracca</surname> <given-names>L.</given-names></name> <name><surname>Gallo</surname> <given-names>F.</given-names></name> <name><surname>Magone</surname> <given-names>L.</given-names></name> <name><surname>Preparo</surname> <given-names>M.</given-names></name> <name><surname>Ercolini</surname> <given-names>C.</given-names></name> <name><surname>Orlandi</surname> <given-names>M.</given-names></name></person-group> (<year>2007</year>). <article-title>Caratterizzazione biochimica e tossicologica di Vibrio patogeni in prodotti ittici [Biochemical and toxicological characterization of pathogenic Vibrio in seafood].</article-title> <source><italic>Ind. Alim.</italic></source> <volume>46</volume> <fpage>881</fpage>&#x2013;<lpage>886</lpage>. Italian</mixed-citation></ref>
<ref id="B44"><mixed-citation publication-type="book"><person-group person-group-type="author"><name><surname>Serratore</surname> <given-names>P.</given-names></name> <name><surname>Ciulli</surname> <given-names>S.</given-names></name> <name><surname>Piano</surname> <given-names>A.</given-names></name> <name><surname>Cariani</surname> <given-names>A.</given-names></name></person-group> (<year>2014</year>). &#x201C;<article-title>Criticism of the purification process of bivalve shellfish. Literature review and our industrial research experiences</article-title>,&#x201D; in <source><italic>Shellfish, human consumption health implication and conservation concerns</italic></source>, <role>ed.</role> <person-group person-group-type="editor"><name><surname>Hay</surname> <given-names>R. M.</given-names></name></person-group> (<publisher-loc>Hauppauge, NY</publisher-loc>: <publisher-name>Nova Science Publishers Inc</publisher-name>), <fpage>1</fpage>&#x2013;<lpage>50</lpage>. Available online at: <ext-link ext-link-type="uri" xlink:href="http://www.scopus.com/inward/record.url?eid=2-s2.0-35448995240&#x0026;partnerID=MN8TOARS">http://www.scopus.com/inward/record.url?eid=2-s2.0-35448995240&#x0026;partnerID=MN8TOARS</ext-link></mixed-citation></ref>
<ref id="B45"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Sferlazzo</surname> <given-names>G.</given-names></name> <name><surname>Meloni</surname> <given-names>D.</given-names></name> <name><surname>Lamon</surname> <given-names>S.</given-names></name> <name><surname>Marceddu</surname> <given-names>M.</given-names></name> <name><surname>Mureddu</surname> <given-names>A.</given-names></name> <name><surname>Consolati</surname> <given-names>S. G.</given-names></name><etal/></person-group> (<year>2018</year>). <article-title>Evaluation of short purification cycles in naturally contaminated Mediterranean mussels (<italic>Mytilus galloprovincialis</italic>) harvested in Sardinia (Italy).</article-title> <source><italic>Food Microbiol.</italic></source> <volume>74</volume> <fpage>86</fpage>&#x2013;<lpage>91</lpage>. <pub-id pub-id-type="doi">10.1016/j.fm.2018.03.007</pub-id> <pub-id pub-id-type="pmid">29706341</pub-id></mixed-citation></ref>
<ref id="B46"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Sharp</surname> <given-names>J. H.</given-names></name> <name><surname>Clements</surname> <given-names>K.</given-names></name> <name><surname>Diggens</surname> <given-names>M.</given-names></name> <name><surname>McDonald</surname> <given-names>J. E.</given-names></name> <name><surname>Malham</surname> <given-names>S. K.</given-names></name> <name><surname>Jones</surname> <given-names>D. L.</given-names></name></person-group> (<year>2021</year>). <article-title><italic>E. coli</italic> is a poor end-product criterion for assessing the general microbial risk posed from consuming norovirus contaminated shellfish.</article-title> <source><italic>Front. Microbiol.</italic></source> <volume>12</volume>:<fpage>608888</fpage>. <pub-id pub-id-type="doi">10.3389/fmicb.2021.608888</pub-id> <pub-id pub-id-type="pmid">33679634</pub-id></mixed-citation></ref>
<ref id="B47"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Suffredini</surname> <given-names>E.</given-names></name> <name><surname>Mioni</surname> <given-names>R.</given-names></name> <name><surname>Mazzette</surname> <given-names>R.</given-names></name> <name><surname>Bordin</surname> <given-names>P.</given-names></name> <name><surname>Serratore</surname> <given-names>P.</given-names></name> <name><surname>Fois</surname> <given-names>F.</given-names></name><etal/></person-group> (<year>2014</year>). <article-title>Detection and quantification of <italic>Vibrio parahaemolyticus</italic> in shellfish from Italian production areas.</article-title> <source><italic>Int. J. Food Microbiol.</italic></source> <volume>184</volume> <fpage>14</fpage>&#x2013;<lpage>20</lpage>. <pub-id pub-id-type="doi">10.1016/j.ijfoodmicro.2014.04.016</pub-id> <pub-id pub-id-type="pmid">24810197</pub-id></mixed-citation></ref>
<ref id="B48"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Ter</surname> <given-names>&#x00DC;</given-names></name> <name><surname>G&#x00FC;rkan</surname> <given-names>S. E.</given-names></name> <name><surname>G&#x00FC;rkan</surname> <given-names>M.</given-names></name> <name><surname>Kunili</surname> <given-names>I. E.</given-names></name> <name><surname>Aksoy</surname> <given-names>E.</given-names></name></person-group> (<year>2024</year>). <article-title>Pathological and oxidative stress responses of <italic>Mytilus galloprovincialis</italic> to <italic>Vibrio mediterranei</italic> infection: An in vivo challenge.</article-title> <source><italic>Fish Shellfish Immunol.</italic></source> <volume>154</volume>:<fpage>109889</fpage>. <pub-id pub-id-type="doi">10.1016/j.fsi.2024.109889</pub-id> <pub-id pub-id-type="pmid">39250984</pub-id></mixed-citation></ref>
<ref id="B49"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Vezzulli</surname> <given-names>L.</given-names></name> <name><surname>Stagnaro</surname> <given-names>L.</given-names></name> <name><surname>Grande</surname> <given-names>C.</given-names></name> <name><surname>Tassistro</surname> <given-names>G.</given-names></name> <name><surname>Canesi</surname> <given-names>L.</given-names></name> <name><surname>Pruzzo</surname> <given-names>C.</given-names></name></person-group> (<year>2018</year>). <article-title>Comparative 16SrDNA gene-based microbiota profiles of the Pacific oyster (<italic>Crassostrea gigas</italic>) and the Mediterranean mussel (<italic>Mytilus galloprovincialis</italic>) from a shellfish farm (Ligurian Sea.</article-title> <source><italic>Italy). Microb. Ecol.</italic></source> <volume>75</volume> <fpage>495</fpage>&#x2013;<lpage>504</lpage>. <pub-id pub-id-type="doi">10.1007/s00248-017-1051-6</pub-id> <pub-id pub-id-type="pmid">28803409</pub-id></mixed-citation></ref>
<ref id="B50"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Wang</surname> <given-names>H.</given-names></name> <name><surname>Qi</surname> <given-names>M.</given-names></name> <name><surname>Cutler</surname> <given-names>A. J.</given-names></name></person-group> (<year>1993</year>). <article-title>A simple method of preparing plant samples for PCR.</article-title> <source><italic>Nucl Acids Res.</italic></source> <volume>21</volume> <fpage>4153</fpage>&#x2013;<lpage>4154</lpage>. <pub-id pub-id-type="doi">10.1093/nar/21.17.4153</pub-id> <pub-id pub-id-type="pmid">8371994</pub-id></mixed-citation></ref>
<ref id="B51"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Wang</surname> <given-names>J.-S.</given-names></name> <name><surname>Peng</surname> <given-names>L.-H.</given-names></name> <name><surname>Guo</surname> <given-names>X.-P.</given-names></name> <name><surname>Yoshida</surname> <given-names>A.</given-names></name> <name><surname>Osatomi</surname> <given-names>K.</given-names></name> <name><surname>Li</surname> <given-names>Y.-F.</given-names></name><etal/></person-group> (<year>2019</year>). <article-title>Complete genome of <italic>Pseudoalteromonas atlantica</italic> ECSMB14104, a Gammaproteobacterium inducing mussel settlement.</article-title> <source><italic>Mar. Genom.</italic></source> <volume>46</volume> <fpage>54</fpage>&#x2013;<lpage>57</lpage>. <pub-id pub-id-type="doi">10.1016/j.margen.2018.11.005</pub-id></mixed-citation></ref>
<ref id="B52"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Weisburg</surname> <given-names>W. G.</given-names></name> <name><surname>Barns</surname> <given-names>S. M.</given-names></name> <name><surname>Pelletier</surname> <given-names>D. A.</given-names></name> <name><surname>Lane</surname> <given-names>D. J.</given-names></name></person-group> (<year>1991</year>). <article-title>16S ribosomal DNA amplification for phylogenetic study.</article-title> <source><italic>J. Bacteriol.</italic></source> <volume>173</volume> <fpage>697</fpage>&#x2013;<lpage>703</lpage>. <pub-id pub-id-type="doi">10.1128/jb.173.2.697-703.1991</pub-id> <pub-id pub-id-type="pmid">1987160</pub-id></mixed-citation></ref>
<ref id="B53"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Williams</surname> <given-names>H.</given-names></name> <name><surname>Lymperopoulou</surname> <given-names>D.</given-names></name> <name><surname>Athar</surname> <given-names>R.</given-names></name></person-group> (<year>2016</year>). <article-title><italic>Halobacteriovorax</italic>, an underestimated predator on bacteria: Potential impact relative to viruses on bacterial mortality.</article-title> <source><italic>ISME J.</italic></source> <volume>10</volume> <fpage>491</fpage>&#x2013;<lpage>499</lpage>. <pub-id pub-id-type="doi">10.1038/ismej.2015.129</pub-id> <pub-id pub-id-type="pmid">26251870</pub-id></mixed-citation></ref>
<ref id="B54"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Zhang</surname> <given-names>H.</given-names></name> <name><surname>Zou</surname> <given-names>X.</given-names></name> <name><surname>Hu</surname> <given-names>J.</given-names></name> <name><surname>Liu</surname> <given-names>S.</given-names></name> <name><surname>Fan</surname> <given-names>C.</given-names></name> <name><surname>Dai</surname> <given-names>W.</given-names></name><etal/></person-group> (<year>2025</year>). <article-title>Genomic insights into mechanism underlying virulence variations between <italic>Vibrio mediterranei</italic> strains different in pathogenicity toward bivalves.</article-title> <source><italic>Aquaculture</italic></source> <volume>605</volume>:<fpage>742524</fpage>. <pub-id pub-id-type="doi">10.1016/j.aquaculture.2025.742524</pub-id></mixed-citation></ref>
<ref id="B55"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Zhang</surname> <given-names>L.</given-names></name> <name><surname>Guo</surname> <given-names>L.</given-names></name> <name><surname>Cui</surname> <given-names>Z.</given-names></name> <name><surname>Ju</surname> <given-names>F.</given-names></name></person-group> (<year>2024</year>). <article-title>Exploiting predatory bacteria as biocontrol agents across ecosystems.</article-title> <source><italic>Trends Microbiol.</italic></source> <volume>32</volume> <fpage>398</fpage>&#x2013;<lpage>409</lpage>. <pub-id pub-id-type="doi">10.1016/j.tim.2023.10.005</pub-id> <pub-id pub-id-type="pmid">37951768</pub-id></mixed-citation></ref>
<ref id="B56"><mixed-citation publication-type="journal"><person-group person-group-type="author"><name><surname>Zhang</surname> <given-names>X.</given-names></name> <name><surname>Alter</surname> <given-names>T.</given-names></name> <name><surname>G&#x00F6;lz</surname> <given-names>G.</given-names></name></person-group> (<year>2019</year>). <article-title>Characterization of <italic>Arcobacter</italic> spp. isolated from retail seafood in Germany.</article-title> <source><italic>Food Microbiol.</italic></source> <volume>82</volume> <fpage>254</fpage>&#x2013;<lpage>258</lpage>.</mixed-citation></ref>
</ref-list>
<fn-group>
<fn id="n1" fn-type="custom" custom-type="edited-by"><p>Edited by: <ext-link ext-link-type="uri" xlink:href="https://loop.frontiersin.org/people/1172297/overview">Hilal Ay</ext-link>, Y&#x0131;ld&#x0131;z Technical University, T&#x00FC;rkiye</p></fn>
<fn id="n2" fn-type="custom" custom-type="reviewed-by"><p>Reviewed by: <ext-link ext-link-type="uri" xlink:href="https://loop.frontiersin.org/people/352506/overview">Muhammed Duman</ext-link>, Bursa Uluda&#x011F; &#x00DC;niversitesi, T&#x00FC;rkiye</p>
<p><ext-link ext-link-type="uri" xlink:href="https://loop.frontiersin.org/people/3122592/overview">Jiahao Zhang</ext-link>, Chongqing Jiaotong University, China</p></fn>
</fn-group>
<fn-group>
<fn id="footnote1"><label>1</label><p><ext-link ext-link-type="uri" xlink:href="http://www.r-project.org">http://www.r-project.org</ext-link></p></fn>
</fn-group>
</back>
</article>