Front. Bioeng. Biotechnol. Frontiers in Bioengineering and Biotechnology Front. Bioeng. Biotechnol. 2296-4185 Frontiers Media S.A. 895283 10.3389/fbioe.2022.895283 Bioengineering and Biotechnology Review Application of Biotechnology in Specific Spoilage Organisms of Aquatic Products Dong et al. Application of Biotechnology in SSOs Dong Huina 1 Gai Yuanming 1 Fu Shaoping 1 Zhang Dawei 1 2 * 1 Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China 2 University of Chinese Academy of Sciences, Beijing, China

Edited by: Yuan Lu, Tsinghua University, China

Reviewed by: Sarangam Majumdar, University of L’Aquila, Italy

Bhagwan Rekadwad, Yenepoya University, India

 *Correspondence: Dawei Zhang, zhang_dw@tib.cas.cn

This article was submitted to Synthetic Biology, a section of the journal Frontiers in Bioengineering and Biotechnology

 28 04 2022 2022 10 895283 13 03 2022 28 03 2022 Copyright © 2022 Dong, Gai, Fu and Zhang. 2022 Dong, Gai, Fu and Zhang

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Aquatic products are delicious and have high nutritive value, however, they are highly perishable during storage due to the growth and metabolism of microorganisms. The spoilage process of aquatic products was demonstrated to be highly related to the composition of microorganisms, in which the specific spoilage organisms (SSOs) are the main factors. In this article, the spoilage indicators of SSOs were systematically described, which could make a comprehensive evaluation of the quality of aquatic products. Quorum sensing (QS) regulates the growth, metabolism and characteristics of SSOs, the common signaling molecules and the QS system in the major SSOs of aquatic products were discussed. Moreover, we compared various technologies for the analysis of SSOs in aquatic products. Besides, quality control techniques based on microbiota regulating of aquatic products, including physical, chemical and biological preservation strategies, were also compared. In conclusion, novel preservation technologies and hurdle techniques are expected to achieve comprehensive inhibition of SSOs.

 specific spoilage organisms aquatic products spoilage indicator quorum sensing preservation strategies 1 Introduction

Aquatic products are rich in protein, fat, vitamins, and minerals, and are very popular because of their delicacy and high nutritive value. However, the high contents of various nutrients and moisture of aquatic products limited their shelf-life (Gudipati 2017). The changes in sensory and nutritional properties resulted from the rapid microbial growth and metabolism and biochemical reactions occur in aquatic products after death (Olatunde and Benjakul 2018). The composition of microorganisms especially bacteria is also associated with spoilage process and spoilage profiles of aquatic products (Duan et al., 2018; Parlapani et al., 2020). Microbiota in aquatic products alters dramatically along with the storage time and according to many other factors such as aquaculture species and environment, processing operation, preservation conditions and some quality control techniques (Hauptmann et al., 2020).

At early period of storage of aquatic products, microbiota composition undergoes dramatic changes usually reflected in a decrease in microbial community richness and diversity (Zhang et al., 2019; Zhuang et al., 2019). As the storage time increases, only a few kinds of bacteria will become dominant and ultimately lead to the spoilage of aquatic products (Zhuang et al., 2019). These bacteria were called specific spoilage organisms (SSOs) because of their major roles in the spoilage process of aquatic products. Microbial community remains relatively stable after the sensory rejection point, although the relative abundance of different SSOs might still vary slightly.

The study on the characteristics of SSOs is important for the quality control techniques used for aquatic products preservation. Therefore, this paper systematically described the spoilage indicators of SSOs, including volatile compounds (biogenic amines, trimethylamine and total volatile base nitrogen), thiobarbituric acid and K-value, which could make a comprehensive evaluation of the quality of aquatic products. The common signaling molecules and the QS system in the major SSOs of aquatic products were also been discussed. Moreover, we compared various analysis technologies present used in microbiota characterization in aquatic products. Besides, preservation technologies based on regulating microbial communities of aquatic products were also concluded.

 2 The Spoilage Indicators of SSOs

There are significant differences in the spoilage potentials of different SSOs. Sensory score and total viable counts are traditional and helpful indicators to assess the freshness of aquatic products. The spoilage potentials of SSOs were positively correlated with sensory score and total viable counts. However, only rely on the sensory score and total viable counts are insufficient to directly say SSOs influence on the product. Many metabolites (such as volatile compounds etc.) are produced by the SSOs of aquatic products, which can reflect the spoilage potentials of SSOs and the freshness of aquatic products. These metabolites of SSOs can be used as indicators to make a comprehensive evaluation of the quality of aquatic products. The variation trend of each index has a high linear correlation, which is of great significance to understand the characteristics of different SSOs or the spoilage characteristics of different aquatic products. These indicators mainly include volatile compounds (biogenic amines, trimethylamine and total volatile base nitrogen), thiobarbituric acid and K value.

2.1 Volatile Compounds 2.1.1 Biogenic Amines

Biogenic amines (BAs) are basic nitrogenous compounds with low molecular weight, which are formed by decarboxylation of free amino acids under the action of microbial decarboxylase, or amination and transamination of aldehydes or ketones (Brink et al., 1990). The major BAs in aquatic products are histamine, tyramine, tryptamine, putrescine, and cadaverine, which are formed by removing the α-carboxyl group in their respective free amino acids (see Figure 1) (Biji et al., 2016). According to the chemical structure, these BAs can classify into heterocyclic amines (histamine and tryptamine), aromatic amines (tyramine) or aliphatic amines (putrescine and cadaverine).

The production of major BAs in aquatic products.

Histamine is the most important and thoroughly studied amine among all the BAs (Biji et al., 2016). Many bacterial species could produce histamine, including Pseudomonas putida, Pseudomonas fluorescens, Aeromonas spp. (Hwang et al., 2010). Histamine and tyramine are considered as anti-nutrients, and consuming too much of them can result in histamine poisoning and tyramine toxicity (Chong et al., 2011). Putrescine and cadaverine sometimes react with nitrite to form carcinogenic nitrosoamines, although they do not have any adverse health effect (Onal et al., 2013).

The levels of BAs can be considered as a spoilage indices as the BAs usually were produced at the end of shelf-life (Özogul and Özogul 2006). The biogenic amine index (BAI) is the sum of the content of histamine, tyramine, putrescine and cadaverine (Biji et al., 2016). When BAI of tuna is < 50 mg/kg, it indicates the tuna has acceptable quality, whereas BAI >45 and >90 mg/kg indicate initial and advanced tuna decomposition, respectively (Du et al., 2002). The acceptable limit of BAI of anchovy and barramundi is only 15–16 mg/kg (Pons-Sánchez-Cascado et al., 2006; Bakar et al., 2010).

 2.1.2 Trimethylamine

Trimethylamine (Hauptmann, Paulova et al.), as a precursor of carcinogen nitrosamine, is an important smelly odor and is usually used as an indicator of aquatic freshness and quantitative indicator of SSOs metabolites. TMA could be formed from the trimethylamine oxide by bacterial enzyme activity (Sotelo et al., 1995).

TMA content was affected by different temperature and storage methods. TMA content at 10°C was much higher than that at 4°C, which resulted in the end point of spoilage reached much earlier (Parlapani et al., 2019). However, the changes in TMA content cannot comprehensively evaluate the spoilage degree of aquatic products and was gradually replaced by total volatile base nitrogen level.

 2.1.3 Total Volatile Base Nitrogen

Total volatile base nitrogen (TVB-N) refers to the decomposition of proteins in aquatic products under the interaction of microorganisms and enzymes to generate low basic volatile nitrogen-containing substances such as ammonia and amines. TVB-N content has a certain correlation with the spoilage degree of aquatic products, which is one of the most widely used indicators to measure the freshness of aquatic products. TVB-N was positively correlated with the total number of bacteria, which could effectively reflect the number of SSOs bacteria and the quality of aquatic products (Gui et al., 2018). TVB-N values of whole ungutted sea bass during storage had slightly increased and reached 26.77 mg N per 100 g muscle at day 13, which regarded as the limit of acceptability, whereas TVB-N values of filleted fish reached the limit value only at day 9 (Taliadourou et al., 2003). The acceptable limit of TVB-N level of European eel is about 10 mg TVB-N per 100 g flesh (Özogul et al., 2005).

The quantitative index of bacterial spoilage ability, the yield factor of spoilage metabolites (YTVB-N/CFU), is the quantity of spoilage metabolites produced by unit spoilage bacteria at the end point of spoilage. Taking the value of YTVB-N/CFU as the quantitative standard of SSOs spoilage ability can well reflect the degree of spoilage of aquatic products. The higher the value of YTVB-N/CFU is, the stronger the SSOs decaying ability is. YTVB-N/CFU values of Pseudomonas spp. Acinetobacter spp. and Brochothrix thermosphacta isolated from chilled raw tuna (Thunnus obesus) were tested, and the results shown that Pseudomonas spp. played the most important role in spoilage process (Liu et al., 2018). Higher YTVB-N/CFU value of P. fluorescens on salmon was observed in samples stored at lower temperatures than at high temperature (Xie et al., 2018).

 2.2 Thiobarbituric Acid

Aquatic products is rich in unsaturated fatty acids (Rodriguez-Casado et al., 2007), which can be easily oxidized and gradually break down into the low molecular weight substances such as aldehydes, ketones and carboxylic acid groups. These substances will change the smell, texture, color and nutritional values of aquatic products (Trocino et al., 2012). Lipid oxidation is in relation to lipase activity of SSOs. Thiobarbituric acid (TBA) value is a helpful indicator to predict the level of lipid oxidation and assess aquatic products freshness. TBA content is usually expressed as mg malonaldehyde (MDA)/kg muscle. P. fluorescens TBA content increased with the extension of storage time in all samples, and TBA values of filleted sea bass were significantly higher than that of whole ungutted sea bass samples, indicating that the degree of oxidative rancidity in filleted fish was higher (Taliadourou et al., 2003).

 2.3 <italic>K</italic>-Value

The decomposition of adenosine triphosphate (ATP) is predominant in the elaborate postmortem changes of aquatic products. The ATP breakdown process including from ATP to adenosine diphosphate (ADP), adenosine monophosphate (AMP), inosine monophosphate (IMP), and inosine (HxR), can reflect the first changes in aquatic products before bacterial growth (Figure 2A). However, the production of hypoxanthine (Hx) from HxR can be favored by SSOs activity, such as Shewanella putrefacien (Jia et al., 2019). K-value was defined as the ratio (%) of the total amount of HxR and Hx to that of ATP-related compounds (Figure 2B) (Cheng et al., 2015).

(A) The ATP degradation process. (B) The formulas used for calculating K-value.

A higher K-value indicates a higher ATP decomposition rate. K-value is also an useful indicator to evaluate the freshness of aquatic products (Wills et al., 2004). The K-value of filleted ray fish showed an exponential increase during storage, indicating the signs of freshness and deterioration (Ocaño-Higuera et al., 2011). The K-value of tray-packed tilapia fillets was highly correlated with storage time and sensory acceptability (Shouchun et al., 2010).

 3 Quorum Sensing Systems in SSOs

Bacterial quorum-sensing (QS) is a regulatory system in which bacteria sense environmental changes by using extracellular signaling molecules and activate related gene expression to adapt to environmental changes (Fuqua et al., 1994). In QS, the communication route is considered to be a cell density-dependent signal transduction phenomenon and is involved in many important biological processes, such as sporulation, virulence and pathogenesis, food spoilage, biofilm formation (Machado et al., 2020), synthesis of antibiotics (McCormack 2006), combined transfer of plasmids (Zhang et al., 1993) and symbiosis between rhizobia and plants (Reading and Sperandio 2006).

The major spoilage bacteria in aquatic products including Pseudomonas spp. Aeromonas spp. and Shewanella spp. The signaling molecules of these bacteria and the corresponding QS system will be introduced in the fallowing, and their interrelationship is shown in Figure 3.

Schematic representation of the QS mechanisms of the major SSOs in aquatic products.

 3.1 Signaling Molecules

Several types of signaling molecules, also known as autoinducers, have been discovered in the microbiota of aquatic products, including N-acyl-homoserine lactones (AHLs), autoinducer-2 (AI-2) and diketopiperazines (DKPs).

AHLs is the autoinducer of the LuxI/LuxR-type QS mediated QS system, which is the major QS system in Gram-negative bacteria (Machado et al., 2020). The AHLs are synthesized by an AHL synthase (LuxI), and an AHL receptor (LuxR type family transcription regulator). Although there are many types of AHLs (Figure 4A), all AHLs contain a conserved acylated homoserine lactone (HSL). The mechanisms by which AHLs regulate gene expression are similar, so are the regulatory mechanisms of different species of Gram-negative bacteria.

Chemical structures of AHLs (A) and DKPs (B).

AI-2 is the autoinducer of a common QS system that can be found in almost one-half of bacterial genomes and is considered the most ubiquitous signaling system employed by both Gram-negative and Gram-positive bacteria (Abisado et al., 2018). AI-2 is synthesized by the LuxS enzyme from 5-dihydroxy-2,3- pentanedione (DPD), and is transconducted to the transcriptional regulator (e.g., LuxR and LsrR) over membrane by the LuxPQ proteins (Waters and Bassler 2005).

DKPs, shown in Figure 4B, have been considered as another type of autoinducer involved in the QS system of some Gram-negative bacteria, such as P. putida and Shewanella baltica (Gu et al., 2013). However, the specific mechanism of DKPs-mediated QS system has not been fully elucidated.

 3.2 QS System of <italic>Pseudomonas</italic> spp.

The QS system of Pseudomonas is mainly related to AHLs. Three types of AHLs, with C4-HSL was a major one, were detected in the extract of P. fluorescens isolated from spoiled large yellow croaker (Tang et al., 2019). A LuxI/LuxR homolog was identified in this strain and the C4-HSL was almost undetectable in the in-frame deletion mutant of luxI and decreased greatly in the mutant of luxR. P. fluorescens mutants showed significant decreases in biofilm biomass and exopolysaccharide production, and apparent attenuates in spoilage factors, siderophore and protease. The C4-HSL produced by Pseudomonas psychrophila PSPF19 isolated from freshwater fish induced exoenzyme production and increased attachment and biofilm formation (Bai and Rai Vittal 2014).

Except for C4-HSL, six other AHLs (3-oxo-C12-HSL, 3-oxo-C14-HSL, 3-oxo-C6-HSL, 3-oxo-C8-HSL, C12-HSL, C6-HSL) were detected in the culture of P. psychrophila KM0 and P. fluorescens isolated from salmon and 3-oxo-C12-HSL and C4-HSL were the major AHLs (Sobieszczanska et al., 2020).

 3.3 QS System of <italic>Aeromonas</italic> spp.

The QS system of Aeromonas spp. is also mainly related to AHLs. Aeromonas sobria AS7 from turbot samples could produce five types of AHLs, including C4–HSL, C6–HSL, C8–HSL, C10–HSL and C12–HSL, among which C4–HSL and C8–HSL are the most important AHLs in particular (Li et al., 2016). Exogenous C8–HSL regulated siderophore production, while exogenous C4–HSL and C8–HSL both could accelerate the growth rate and population density of A. sobria AS7. Aeromonas veronii LP-11 from sturgeon produced C6-SHL, C8-HSL, 3-oxo-C8-HSL and 3-OH-C8-HSL, and the QS system may have been involved in the regulation of sturgeon spoilage (Gui et al., 2018).

The same five types of AHLs as A. sobria AS7 were detected in the extract of Aeromonas salmonicida isolated from large yellow croaker, and C4-HSL was a major signal molecule (Li Liu et al., 2018). AsaI/C4-HSL played an important role in spoilage, motility and biofilm formation of A. salmonicida. A. salmonicida strain Keldur 265–87 isolated from diseased fish only synthesized C4-HSL (Schwenteit et al., 2011).

 3.4 QS System of <italic>Shewanella</italic> spp.

Although Pseudomonas spp. and Aeromonas spp. are mainly to produce AHLs, Shewanella spp. may not produce AHLs as no related genes were found in genomes of Shewanella spp. and no AHLs were detected in the culture of Shewanella spp. (Zhu et al., 2015). However, Shewanella spp. can sense some AHLs which could regulate the production of biofilm matrixes and extracellular proteases, and thus change their spoilage capabilities (Zhu et al., 2015).

S. baltica from large yellow croaker could produce four kinds of DKPs, including cyclo-(l-Pro-l-Gly), cyclo-(l-Pro-l-Leu), cyclo-(l-Leu-l-Leu), and cyclo-(l-Pro-l-Phe) (Gu et al., 2013). These four DKPs could correspondingly enhance the spoilage capability of S. baltica and cyclo-(L-Pro-L-Phe) had the greatest promoting effect. These four DKPs also could regulate biofilm formation and three potential critical spoilage gene expression of S. baltica (i.e., torT, cysM and trxB) (Fu et al., 2018). The other two studies found S. baltica isolated from large yellow croaker could only produce cyclo-(l-Pro-l-Leu) and cyclo-(l-Pro-l-Phe) and without cyclo-(l-Pro-l-Gly) and cyclo-(l-Leu-l-Leu) (Zhu et al., 2016; Zhu et al., 2019).

S. baltica and S. putrefaciens also could produce AI-2 (Zhu et al., 2015), however, they could not sense AI-2. The luxS deficient mutant of S. baltica demonstrated AI-2 might not play a signaling role in spoilage (Zhu et al., 2016).

 4 The Analysis Technologies of SSOs

Traditional SSOs analysis methods include microscopic examination, plate culture, biochemical reaction, gas production experiment, etc., but these methods have a long cycle, low sensitivity and accuracy, and not all microorganisms in aquatic products can be cultured. With the development of molecular biotechnology, molecular diagnostic technology is widely used in SSO analysis, and polymerase chain reaction (PCR) is widely used in the field of food microbiology. The analysis technologies of SSOs in aquatic products mainly include repetitive-element PCR (Rep-PCR), PCR denaturing gradient gel electrophoresis analysis (PCR-DGGE), PCR restriction fragment length polymorphism technology (PCR-RFLP) and high-throughput sequencing.

4.1 The Analysis Technology of Rep-PCR

Rep-PCR is a DNA sequence-based typing technique. It is based on PCR amplification using targeted primers of widely distributed conserved, interspersed repetitive DNA elements in bacterial chromosomes. These repetitive DNA elements have differences in their distribution and copy number at the level of strain, species and genus in the bacterial genome, and the sequence itself is highly conserved in the evolutionary process (Bloch and Rode 1996). By comparing the electrophoresis results of PCR products, we can analyze the differences between the genomes of bacterial strains.

More than 10 short repeats of bacterial genome repeats have been identified in the genome of bacteria, and the most widely reported are Repetitive Extragenic Palindrome (REP) (Bloch and Rode 1996). The REP-PCR was used to genetically characterize the Vibrio parahaemolyticus isolates from 150 aquatic products samples (Paydar et al., 2013). The results showed that 41 REP profiles could be observed and all isolates were classified into 11 different clusters with 80% similarity. The DNA finger map of V. parahaemolyticus showed a high degree of genetic diversity among isolates, and REP-PCR can distinguish isolates with different virus types (Ma et al., 2013). REP-PCR was used to screen 158 Edwardsiella piscicida isolates recovered from diseased channel and hybrid catfish in Mississippi to assess intraspecific genetic variability (López-Porras et al., 2021). The operation of this method is relatively simple and can provide some valuable reference for isolating SSOs of aquatic products.

 4.2 The Analysis Technology of PCR-DGGE

16S rDNA is the most widely used molecular clock for bacterial systematic classification. Its evolution has a good clock nature and a high degree of conservation in structure and function. The sequence of 16S rDNA contains nine variable regions and 10 constant regions (Cao et al., 2017). The conserved sequence region reflects the genetic relationship between species, while the highly variable sequence region reflects the differences between species. The sequence characteristics of 16S rDNA molecules laid a molecular basis for the systematic classification of related species at different classification levels. 16S rDNA amplicon sequencing technology uses the conserved region sequence to design primers, amplifies the highly variable region sequence and performs sequencing identification, which plays an important role in the study of microbial community composition.

DGGE uses gel electrophoresis to determine the amplification products of bacterial 16S rDNA fragments based on the specificity and stability of DNA structure. The separation of 16S rDNA fragments is based on the reduced electrophoretic mobility of partially melted double stranded DNA molecules in polyacrylamide gels with a linear gradient of denaturing agents, such as urea or formamide (Flórez and Mayo 2006). The adding of denaturing agents can separate the DNA fragments of the same size but with different bases, as the DNA fragments of different bacteria have their specific DNA unwinding regions and unwinding rules (Fischer and Lerman 1983). A GC clamp of approximately 50 bp is attached to the 5’ end of one of the primers to prevent complete disassociation of the two DNA strands (Sheffield et al., 1989).

PCR-DGGE technology can analyze the changes of microbial community composition and number in different samples under different conditions, and determine the dominant bacteria in the samples (Muyzer et al., 1993). Compared with other analytical techniques, PCR-DGGE technology has significant advantages in the detection of microbial community diversity and population difference. In recent years, PCR-DGGE technology has been increasingly applied to the study of SSOs in aquatic products. For example, PCR-DGGE was used to characterize the dominant bacterial population in fish, including Atlantic mackerel (Svanevik and Lunestad 2011), Atlantic salmon (Hovda et al., 2012), cod (Hovda et al., 2007a), farmed halibut (Hovda et al., 2007b) and tuna (Ge et al., 2012), and in Norway lobster (Bekaert et al., 2015) by amplification of the hypervariable V3 region on 16S rDNA.

 4.3 The Analysis Technology of PCR-RFLP

RFLP technology is to detect the size of specific DNA fragments formed after restriction endonuclease digestion. The specificity of restriction endonuclease inhibits effective cleavage of microbial genomic DNA fragments. However, PCR and RFLP can be combined to obtain simple and effective molecular map, which is called PCR-RFLP. Ribosomal RNA genes are specific targets, among which 16S rDNA PCR-RFLP is the most simple and mature techniques and has been widely used.

A protocol based on the RFLP patterns of the complete PCR-amplified 16S rDNA can simultaneously identified most (10 species) of Aeromonas spp. using endonucleases AluI and MboI (Borrell et al., 1997). However, the identification of A. salmonicida, A. encheleia and Aeromonas HG11 needed two additional enzymes, NarI and HaeIII. The protocol had been extended with endonucleases AlwNI and PstI to separate the species of A. salmonicida, A. bestiarum and A. popoffii (Figueras et al., 2000). Another 16S rDNA PCR-RFLP analysis using the restriction enzymes (AluI, MboI, PvuII, PstI and NarI) was used to rapidly identify the Aeromonas genospecies isolated from diseased fish and aquatic animals (Rahman et al., 2005). SSO of grass carp during chilled storage were analyzed by 16S rDNA PCR-RFLP using endonuclease MspI, the results shown that Aeromonas spp. was the predominant SSO (Pan et al., 2013).

 4.4 High-Throughput Sequencing Technology

High-throughput sequencing (HTS) technology is a milestone in the development of DNA sequencing, mainly including the second generation of high-throughput sequencing technology represented by 454 (GS-FLX), Solexa Genome Analyzer and SOLiD, single-molecule sequencing technology represented by HeliScope TIRM and Pacific Biosciences SMRT, and Ion Personal Genome Machine (PGM) sequencing technology introduced by Life Science (Di Bella et al., 2013). HTS technology has many advantages, such as precise sequencing, high output and low cost, and has been widely applied in the research of SSOs of aquatic products. HTS has been successfully used to characterize the SSOs of various aquatic products, such as cod and salmon fillets (Chaillou et al., 2015), cold-smoked salmon (Leroi et al., 2015), oysters (Rong et al., 2018), and Spanish mackerel (Zheng et al., 2020).

 5 Application of SSOs in Aquatic Products Preservation

At present, the aquatic products preservation technologies used to control SSOs are mainly divided into physical, chemical and biological preservation strategies (Figure 5).

Classification of the aquatic products preservation technologies.

 5.1 Physical Preservation Technology 5.1.1 Modified Atmosphere Packaging

Modified atmosphere packaging (MAP) is a fresh-keeping method which can prolong the shelf life by adjusting the proportion and composition of air in aquatic product package. MAP mainly inhibits the growth and reproduction of spoilage microorganisms through CO2 (DeWitt and Oliveira 2016). And higher CO2 contents in packaging atmosphere more effectively inhibit bacterial growth and retard biochemical changes (Yew et al., 2014; Olatunde et al., 2020). MAP is often used in combination with other preservation strategies to extend shelf life of aquatic products such as low temperature or plant extracts (Navarro-Segura et al., 2020).

 5.1.2 Low Temperature Preservation Technology

Low temperature preservation technology is the most studied and widely used preservation technology of aquatic products. At present, the low temperature cold chain storage and transportation used in the world generally include refrigerated ice storage between 0 and 4°C, superchilled storage at -1 to −4°C, and frozen storage in the range of −18 to (−40)°C (Gallart-Jornet et al., 2007). Low temperature preservation technology can keep the freshness and nutritional quality of aquatic products by inhibiting the activities of microorganisms and enzymes.

Refrigerated ice storage is a method of keeping fresh aquatic products fresh by putting them into ice or cold sea water. Refrigerated ice storage is the most historical and traditional method of preservation widely used in the world. As refrigerated ice storage products are closest to the biological characteristics of fresh aquatic products, this method is still used today. Refrigerated ice storage extends shelf-life by reducing microbial reproduction rate at low temperature not completely inhibited, mainly used for short-term and small fish preservation, as the heat transfer inside the product is very slow. For large fish, the cooling time of this preservation method is too long, which is not conducive to the preservation. For example, the weight of 4–5 kg of salmon, with −1°C cold sea water cooling, the central temperature from 15 to 2°C need 2 h (Magnussen et al., 2008).

Superchilled storage is a method to store aquatic products in the temperature zone between 1 and 2°C below the initial freezing point. The aquatic products in the ice temperature zone can maintain the living nature (the state of death and dormancy), and reduce the speed of metabolism, so as to preserve the original color, aroma, taste and taste for a long time. It can also effectively inhibit the growth and reproduction of microorganisms, and inhibit the chemical changes such as lipid oxidation and non-enzymatic Browning in the food. Compared with refrigerated preservation, superchilled storage can keep freshness and nutrition of aquatic products better and prolong shelf life by 1.4–2.0 times (Que et al., 2013). And protein denaturation and other texture deterioration caused by freezing can be avoided when compared with frozen storage. Fernandez et al. (Fernández et al., 2009) applied three fresh-keeping methods of natural additives, superchilling, and MAP to extend the shelf-life of Atlantic Salmon fillets, and found that the shelf-life of salmon could be increased from 11 to 22 days by the combination of -1.5°C ice temperature and air conditioning. The superchilled modified atmosphere (MA) (CO2:N2 60:40) packaged salmon fillets maintained a good quality, with negligible microbial growth for more than 24 days, whereas MA-stored fillets at chilled conditions was spoiled after only 10 days (Sivertsvik et al., 2006).

Frozen storage is a method of keeping aquatic products fresh by lowering the central temperature to −15°C and then storing and circulating them below −18°C. Because most of the water in the fresh water product tissue is frozen, the activity of microorganism and enzyme is inhibited, so that the shelf-life can be extended for several months and it is widely used in the market. However, protein denaturation can be easily caused by long-term frozen storage, and the sensory and nutritional quality of aquatic products will be decreased. The rapid freezing technology combined with frozen liquid can significantly reduce the impact on the quality of aquatic products and become the main development direction of this technology. The effects of −2.5°C storage and −20°C storage on physicochemical and sensory indexes of Snakehead fillets were studied (Que et al., 2015). The results showed that although the shelf-life could be significantly prolonged by frozen storage, the fish quality and the integrity of tissue structure could be better maintained by superchilled storage during a short storage period.

 5.2 Chemical Preservation Technology

Chemical preservation technology is a method of keeping fresh by adding various drugs into aquatic products by virtue of their bactericidal or bacteriostatic effects. The most used chemical preservatives including sodium benzoates, sodium nitrite, and sulfur dioxide. However, these synthetic preservatives have potential harm to human health and are often not accepted by consumers (Olatunde and Benjakul 2018). Salt is the oldest and most commonly used natural preservative for extending the shelf-life of aquatic products as its low cost and simplicity (Martínez-Alvarez and Gómez-Guillén 2013). Salt storage is using the osmotic dehydration of salt solution to reduce the water content of fish body, and extending the shelf-life by destroying the microorganism and enzyme activity of aquatic products muscle. Nevertheless, uncontrolled growth of halotolerant and halophilic bacteria in salt-preserved aquatic products can also lead to products spoilage (Pikuta et al., 2007). Moreover, salting of aquatic products will affect the taste and result in high sodium content in aquatic products (Ormanci and Colakoglu 2015).

Other representative natural preservatives that can effectively replace synthetic preservatives or chemicals because of their excellent antimicrobial and antioxidant properties including plant extracts, essential oils (EOs), chitosan, bacteriocins, and bioactive peptides.

5.2.1 Plant Extracts and Essential Oils

Plant extracts and EOs are natural preservatives derived from plant and widely used in the food industry (Chouliara et al., 2007). Plant extracts and EOs have abundant of phenolic compounds, which was considered to be responsible for their excellent antioxidant and antimicrobial activities (Olatunde and Benjakul 2018). The phenolic compounds can be divided into two categories, flavonoids and non-flavonoid polyphenols, among which the former one is the target class (Maqsood et al., 2014).

Phenolic compounds will increase the permeability of cell membrane, which ultimately result in cell death (Simoes et al., 2009). Plant extracts or EOs have a better inhibitory effect on Gram-negative bacteria possessing a thinner cell wall than Gram-positive bacteria (Abdollahzadeh et al., 2014). Zhuang et al (2021) reviewed the effects of various kinds of plant extracts or EOs on inhibiting spoilage bacteria, changing microbial composition, and prolonging shelf-life of fishery products, when used alone or in combination with biopolymer matrix.

However, a higher amount or concentration of plant extracts or EOs will be needed when they were applied in aquatic products than synthetic preservatives, which will result in the appearance and color not acceptable (García-Díez et al., 2016). Especially the EOs which are mostly extracted from herbs and spices have a strong aroma even at low concentration, resulting in negative effects on the aroma and taste of the treated aquatic products (Silva-Angulo et al., 2015). And the compounds variation in plants limited the applications of their extracts as natural preservatives in aquatic products (Weerakkody et al., 2010).

 5.2.2 Chitosan and Chitooligosaccharide

Chitosan is the product of deacetylation of chitin, which is the second most abundant natural polymer, while chitooligosaccharide is the product of depolymerization of chitosan (Lodhi et al., 2014). Chitosan and chitooligosaccharide both have amine, acetylated amine groups, and hydroxyl group, which can interact with cell receptors and trigger a series of reactions in living organisms. These structure characteristics are the major factor responsible for their antioxidant and antimicrobial properties (Lodhi et al., 2014). As their nontoxic, degradable, and natural attributes, they had been widely used in food industry (Alishahi and Aïder 2011). However, chitooligosaccharide was rarely reported to be used for extending the shelf-life of aquatic products.

Chitosan solution is widely used as an outer coating to extend shelf-life of aquatic products due to its film-forming ability. The shelf-life of brown trout were extended to 9 and 12 days for samples coated with chitosan dissolved in 1.5% lactic acid and 1.5% acetic acid, respectively, while the shelf-life of the control only has 6 days (Alak 2012). The eating quality of 1 and 2% chitosan-treated Indian oil sardine fillets in iced condition were maintained for up to 8 and 10 days respectively, compared to only 5 days for untreated samples (Mohan et al., 2012).

Chitosan was used in combination with other preservatives or treatments to enhance its preservative effect. Deep-water pink shrimp coated with chitosan film in the presence of 0.5–2.0% orange peel EO had an extended shelf-life (15 days) when compared to shrimp coated with chitosan only (10 days) (Alparslan and Baygar 2017). Oyster treated with ozone and coated with 2% chitosan had an extended shelf-life (20–21 days), compared with 8–9 days for the untreated sample (Rong et al., 2010). Chitosan is always dissolved in acidic solution, which may cause protein precipitation, loss in water-holding capacity, or a sour taste. The compounds such as fat, protein in aquatic products may interact with chitosan or chitooligosaccharide, which will lead to the loss of their antioxidant and antimicrobial properties (No, Meyers et al., 2007).

 5.2.3 Bacteriocins

Bacteriocins are proteins or polypeptides produced by some Gram-negative and Gram-positive bacteria (Zacharof and Lovitt 2012). Bacteriocins exhibit promising antimicrobial properties against a variety of pathogens and spoilage bacteria by mechanisms specific to each type and bacteriocin (Perez et al., 2015). In general, the interaction between bacteriocins and cell membrane of the target strain play an important role in antimicrobial action of bacteriocins. However, bacteriocins do not reduce or prevent lipid oxidation (Olatunde and Benjakul 2018).

Bacteriocins were used to inhibit the growth of pathogenic and spoilage bacteria in fish. Lactic acid bacteria (LAB) could produce a number of bacteriocins, which are reported to possess profound bactericidal potency against food spoilage microorganisms, such as Bacillus cereus, Staphylococcus aureus, and Pseudomonas aeruginosa (Bali, Panesar et al., 2016). Bacteriocins produced by Bacillus sp. exhibited strong antimicrobial activity against Salmonella spp. and Vibrio spp. isolated from marine fish and squid (Ashwitha et al., 2017).

Bacteriocins combined with other preservatives or methods will result in increased efficacy in extending the shelf-life of fish products. Ekhtiarzadeh et al. (Ekhtiarzadeh et al., 2012) verified that V. parahaemolyticus inoculated in fish was completely inhibited by 0.75 mg/ml nisin plus 0.405% Zataria multiflora Boiss EO, 0.045% Z. multiflora Boiss EO, and 0.75 μg/ml nisin, at days 2, 6, and 9, respectively. However, Listeria monocytogenes was completely inhibited by EO (0.405%) plus Ni (0.25 or 0.75 mg/ml) at 1 day.

The main factors restricting the application of bacteriocins as preservatives in food are the low yield and the high cost of production (Makkar et al., 2011). One of the main ways to improve bacteriocins production is to engineer bacteriocins producing strains by increasing the copy number of the regulation and resistance genes involved in bacteriocins biosynthesis (Cheigh et al., 2005; Simsek et al., 2009). Introduction of acid tolerant genes or over-expression genes in lactic acid synthesis pathway also could improve bacteriocins production as these methods could improve the tolerance of cells to acidic conditions (Zhang et al., 2016). Increasing the carbon conversion rates in central pathway under oxidizing conditions by expressing relavant genes also could increase biomass and bacteriocins levels (Papagianni and Avramidis 2012).

 5.2.4 Bioactive Peptides

Bioactive peptides are specific fragments of proteins containing 2–20 amino acid residues, which can be produced by hydrolyzing proteins with a variety of proteases. Bioactive peptides have many beneficial functions, including antithrombotic, antibacterial, and antioxidant activities (Harnedy and FitzGerald 2012). And some bioactive peptides have multifunctional properties. The size, conformation, amino acid composition, and sequence of a peptide mostly affected its bioactivities (Ngo et al., 2014). According to antimicrobial properties, bioactive peptides can be divided into two main groups: those that act on the plasma membrane of the cell, and those that do not cause substantial membrane disturbance once they enter the cell (Perez Espitia et al., 2012). The key role of bioactive peptides in aquatic products as antioxidants is to prevent the formation of free radicals or to scavenge reactive oxygen species and free radicals (Irshad et al., 2015).

Hydrolysates containing peptides can be added directly to aquatic products as antioxidants or antibacterial agents. Adding 1.0 and 1.5% fish protein hydrolysate produced from yellowfin tuna waste using Protamex™ protease in minced silver carp meat extended the shelf-life of the product to 12 days compared to 6 days for the control, and resulted in retarding of lipid oxidation and microbial growth (Pezeshk et al., 2017). The addition of 2.0% grass carp protein hydrolysate in fish mince also lowered the lipid oxidation of the product (Li et al., 2015).

The bitterness of peptides caused by hydrophobic amino acids is one of the main obstacles to the application of active peptides in aquatic products (Newman et al., 2015). The bitterness can have a negative effect on the sensory properties of the product. This limitation can be addressed by various methods, such as the use of exopeptidase, plastein reaction, solvent extraction, macroporous adsorption resin, or a combination of these methods (Leksrisompong et al., 2012).

 5.3 Biological Preservation Technology

Biological preservation is a novel and natural technology which uses microorganisms to inhibit the growth of spoilage bacteria to prolong the shelf -life of food. LAB and bacteriophages as biopreservatives have been explored to prevent fishery product spoilage.

5.3.1 Lactic Acid Bacteria as Biopreservatives

Since most LABs are generally considered as safe, they have great application potential in biological preservation and naturally dominate the microflora of many foods (Ghanbari et al., 2013). Aquatic products LABs are compatible with aquatic products environments including MAP, low temperatures and pH, high salt concentration, presence of additives. Their growth can also suppress many bacteria by competing for nutrients or producing one or more metabolites with antimicrobial activity (Ghanbari et al., 2013).

Many spoilage bacteria including Pseudomonas, Enterobacteriaceae, and H2S producing bacteria (Angiolillo et al., 2018), and athogenic bacteria like V. parahaemolyticus and L. monocytogenes (Tahiri et al., 2009) have been efficiently inhibited by LAB. The most commonly used LAB in fishery products preservation is Lactobacillus spp. (Angiolillo et al., 2018), followed by Lactococcus spp. (Fall et al., 2010).

However, some LAB metabolites like lactic acid may influence the sensory characteristics of fishery products. These negative effects may be mitigated by combining LAB and their antibacterial metabolites with active packaging materials. Sea bass fillets coated with sodium alginate containing L. rhamnosus and its metabolite reuterin had a better sensory quality when compared to the control (Angiolillo et al., 2018).

 5.3.2 Bacteriophages as Biopreservatives

Bacteriophages are considered as promising new kinds of biopreservation agents as they can lyse target bacteria efficiently and specifically. A cocktail composed of three phages could efficiently inhibit the growth of Shewanella inoculated in catfish fillets, and the quality indices of phages treated samples also showed considerable improvement compared with control samples (Yang et al., 2019).

Although biopreservation strategies using LAB or bacteriophages have many advantages, such as reducing the use of chemical preservatives (Ghanbari et al., 2013), the safety and regulatory issues of LAB and phages must be seriously considered (Ben Said, Gaudreau et al., 2019).

 6 Conclusion

The spoilage of aquatic products is mainly influenced by the composition of the microbiome, and microbial interactions need to be further explored to uncover the spoilage mechanisms. Chemical measurements are valuable and sensitive methods to evaluate the freshness of aquatic products. But their destructive testing still needs to overcome some more difficult tasks which will improve the level of chemical measurements, thus improve the speed and accuracy of aquatic products freshness evaluation. Multiple analysis techniques should be combined to determine SSOs for exploring the spoilage mechanism of SSOs. Meanwhile, biotechnologies, such as metabolomics, metagenomics and metatranscriptomics, are expected to provide a holistic view of the functional profiles of the total microflora in aquatic products, and to help analyze potential interactions between different microorganisms (Zhuang et al., 2021).

Many quality control techniques have been proved to be effective in inhibiting the growth of spoilage bacteria and extending the shelf-life of aquatic products. However, combination of different preservatives or methods will result in increased efficacy in prolonging the shelf-life of aquatic products, and developing more effective SSOs control technologies. With the development of synthetic biology, the production of existing natural preservatives such as bacteriocins will be rapidly improved, and more and more new, cheap and high-yield natural preservatives will be developed. Synthetic biology will not only promote the study of microbial spoilage mechanism of aquatic products, but also promote the development of preservation technology of aquatic products.

 Author Contributions

All authors listed have made a substantial, direct, and intellectual contribution to the work and approved it for publication.

 Funding

This work was supported by the National Key R&D Program of China (2018YFD0901001), Science and Technology Partnership Program, Ministry of Science and Technology of China (KY202001017) and Tianjin Synthetic Biotechnology Innovation Capacity Improvement Project (TSBICIP-CXRC-055).

 Conflict of Interest

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.

 Publisher’s Note

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.

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