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<article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" article-type="methods-article">
<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">Front. Cell. Infect. Microbiol.</journal-id>
<journal-title>Frontiers in Cellular and Infection Microbiology</journal-title>
<abbrev-journal-title abbrev-type="pubmed">Front. Cell. Infect. Microbiol.</abbrev-journal-title>
<issn pub-type="epub">2235-2988</issn>
<publisher>
<publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.3389/fcimb.2017.00225</article-id>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Microbiology</subject>
<subj-group>
<subject>Methods</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group>
<article-title>A Dual Luciferase Reporter System for <italic>B. burgdorferi</italic> Measures Transcriptional Activity during Tick-Pathogen Interactions</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name><surname>Adams</surname> <given-names>Philip P.</given-names></name>
<uri xlink:href="http://loop.frontiersin.org/people/381283/overview"/>
</contrib>
<contrib contrib-type="author">
<name><surname>Flores Avile</surname> <given-names>Carlos</given-names></name>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name><surname>Jewett</surname> <given-names>Mollie W.</given-names></name>
<xref ref-type="author-notes" rid="fn001"><sup>&#x0002A;</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/17232/overview"/>
</contrib>
</contrib-group>
<aff><institution>Division of Immunity and Pathogenesis, Burnett School of Biomedical Sciences, University of Central Florida College of Medicine</institution> <country>Orlando, FL, United States</country></aff>
<author-notes>
<fn fn-type="edited-by"><p>Edited by: Jose De La Fuente, Instituto de Investigacion en Recursos Cinegeticos, Spain</p></fn>
<fn fn-type="edited-by"><p>Reviewed by: Janakiram Seshu, University of Texas at San Antonio, United States; Robert D. Gilmore, Centers for Disease Control and Prevention, United States</p></fn>
<fn fn-type="corresp" id="fn001"><p>&#x0002A;Correspondence: Mollie W. Jewett <email>mollie.jewett&#x00040;ucf.edu</email></p></fn>
</author-notes>
<pub-date pub-type="epub">
<day>31</day>
<month>05</month>
<year>2017</year>
</pub-date>
<pub-date pub-type="collection">
<year>2017</year>
</pub-date>
<volume>7</volume>
<elocation-id>225</elocation-id>
<history>
<date date-type="received">
<day>30</day>
<month>03</month>
<year>2017</year>
</date>
<date date-type="accepted">
<day>16</day>
<month>05</month>
<year>2017</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright &#x000A9; 2017 Adams, Flores Avile and Jewett.</copyright-statement>
<copyright-year>2017</copyright-year>
<copyright-holder>Adams, Flores Avile and Jewett</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor 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.</p></license>
</permissions>
<abstract>
<p>Knowledge of the transcriptional responses of vector-borne pathogens at the vector-pathogen interface is critical for understanding disease transmission. <italic>Borrelia</italic> (<italic>Borreliella</italic>) <italic>burgdorferi</italic>, the causative agent of Lyme disease in the United States, is transmitted by the bite of infected <italic>Ixodes sp</italic>. ticks. It is known that <italic>B. burgdorferi</italic> has altered patterns of gene expression during tick acquisition, persistence and transmission. Recently, we and others have discovered <italic>in vitro</italic> expression of RNAs found internal, overlapping, and antisense to annotated open reading frames in the <italic>B. burgdorferi</italic> genome. However, there is a lack of molecular genetic tools for <italic>B. burgdorferi</italic> for quantitative, strand-specific, comparative analysis of these transcripts in distinct environments such as the arthropod vector. To address this need, we have developed a dual luciferase reporter system to quantify <italic>B. burgdorferi</italic> promoter activities in a strand-specific manner. We demonstrate that constitutive expression of a <italic>B. burgdorferi</italic> codon-optimized <italic>Renilla reniformis</italic> luciferase gene (<italic>rluc</italic><sub><italic>Bb</italic></sub>) allows normalization of the activity of a promoter of interest when fused to the <italic>B. burgdorferi</italic> codon-optimized <italic>Photinus pyralis</italic> luciferase gene (<italic>fluc</italic><sub><italic>Bb</italic></sub><italic>)</italic> on the same plasmid. Using the well characterized, differentially regulated, promoters for flagellin (<italic>flaBp</italic>), outer surface protein A (<italic>ospAp</italic>) and outer surface protein C (<italic>ospCp</italic>), we document the efficacy of the dual luciferase system for quantitation of promoter activities during <italic>in vitro</italic> growth and in infected ticks. Cumulatively, the dual luciferase method outlined herein is the first dual reporter system for <italic>B. burgdorferi</italic>, providing a novel and highly versatile approach for strand-specific molecular genetic analyses.</p>
</abstract>
<kwd-group>
<kwd><italic>Borrelia</italic> (<italic>Borreliella</italic>) <italic>burgdorferi</italic></kwd>
<kwd>Lyme disease</kwd>
<kwd>tick-pathogen interactions</kwd>
<kwd>bioluminescence reporter</kwd>
<kwd><italic>Photinus reniformis</italic> luciferase</kwd>
<kwd><italic>Photinus pyralis</italic> luciferase</kwd>
</kwd-group>
<contract-num rid="cn001">R01AI099094</contract-num>
<contract-sponsor id="cn001">National Institute of Allergy and Infectious Diseases<named-content content-type="fundref-id">10.13039/100000060</named-content></contract-sponsor>
<counts>
<fig-count count="5"/>
<table-count count="2"/>
<equation-count count="0"/>
<ref-count count="61"/>
<page-count count="13"/>
<word-count count="11040"/>
</counts>
</article-meta>
</front>
<body>
<sec sec-type="intro" id="s1">
<title>Introduction</title>
<p>Vector-borne illnesses account for 17% of worldwide infectious diseases, amounting to over one billion cases yearly (World Health Organization, <xref ref-type="bibr" rid="B60">2016</xref>). Ticks are notorious for delivering a diversity of infectious agents to their hosts during the blood meal. Of these pathogens the <italic>Borrelia burgdorferi</italic> sensu lato complex or <italic>Borreliella</italic> genus (Adeolu and Gupta, <xref ref-type="bibr" rid="B2">2014</xref>), the spirochete group that causes Lyme disease, contributes the highest incidence of arthropod-transmitted bacterial infection worldwide (Schotthoefer and Frost, <xref ref-type="bibr" rid="B44">2015</xref>). Particular to the United States, <italic>Borrelia</italic> (<italic>Borreliella</italic>) <italic>burgdorferi</italic> interaction with and colonization of <italic>Ixodes</italic> species is highly specific (de Silva et al., <xref ref-type="bibr" rid="B17">2009</xref>), with no other natural arthropod vector identified to date.</p>
<p>Newly hatched larval ticks are not colonized with <italic>B. burgdorferi</italic>, as there is currently no evidence to support transovarial transmission of the pathogen (Rollend et al., <xref ref-type="bibr" rid="B40">2013</xref>). Rather, larvae can become infected by feeding on one of the numerous small vertebrates that serve as reservoirs for <italic>B. burgdorferi</italic> in nature, such as the white-footed mouse <italic>Peromyscus leucopus</italic>. Larval ticks then undergo an approximate month-long morphogenesis process and molt into nymphs. All the while, <italic>B. burgdorferi</italic> reside in the tick midgut. Like the larvae, the infected nymphs take a single blood meal from a vertebrate followed by morphogenesis to adults. During nymph feeding, <italic>B. burgdorferi</italic> migrate from the midgut to the tick salivary glands and are transmitted to the vertebrate host, maintaining the spirochete in its enzootic cycle (Radolf et al., <xref ref-type="bibr" rid="B38">2012</xref>). Therefore, it has been proposed that <italic>B. burgdorferi</italic> undergoes three major tick-related events that require complex genetic regulation: acquisition, persistence, and transmission (Iyer et al., <xref ref-type="bibr" rid="B28">2015</xref>; Caimano et al., <xref ref-type="bibr" rid="B11">2016</xref>).</p>
<p>Survival of <italic>B. burgdorferi</italic> in the tick requires that the spirochete overcome a number of environmental stress conditions, such as starvation and assault from tick immune factors (Radolf et al., <xref ref-type="bibr" rid="B38">2012</xref>; Caimano et al., <xref ref-type="bibr" rid="B11">2016</xref>). Recently, open reading frame-based microarray analysis has provided insight into the gene expression changes that occur in the <italic>B. burgdorferi</italic> transcriptome in fed larvae, fed nymphs, and under mammalian host-like conditions in dialysis membrane chambers (Iyer et al., <xref ref-type="bibr" rid="B28">2015</xref>). The unusual structure of <italic>B. burgdorferi</italic>&#x00027;s genome and its scarcity of characterized transcription factors, further contribute to interest in understanding the mechanisms of stress adaptation and gene regulation that the spirochete employs during its interaction with the tick vector. The <italic>B. burgdorferi</italic> segmented genome, in characterized type strain B31, is composed of an approximate 900 kb linear chromosome and 21 plasmids of size ranges 5&#x02013;56 kb that include many annotated open reading frames (ORFs) of unknown function (Fraser et al., <xref ref-type="bibr" rid="B22">1997</xref>; Casjens et al., <xref ref-type="bibr" rid="B14">2012</xref>). A recent global examination and 5&#x02032; end mapping of the <italic>B. burgdorferi</italic> transcriptome by our laboratory has revealed that the spirochete is rich with &#x0201C;overlapping transcripts&#x0201D; where 63% of total RNA species are transcribed internal and 13% antisense to annotated open reading frames (Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). Other recent RNA-seq based applications have also described the presence of these transcripts in <italic>B. burgdorferi</italic> (Arnold et al., <xref ref-type="bibr" rid="B6">2016</xref>; Popitsch et al., <xref ref-type="bibr" rid="B37">2017</xref>). These findings are supported by similar analyses in other bacteria, which have revealed complex transcriptomes that include a variety of antisense, intragenic, intergenic, and orphan transcripts, which in some cases represent the majority of transcript types as opposed to mRNAs for annotated open reading frames (Sharma et al., <xref ref-type="bibr" rid="B50">2010</xref>; Kroger et al., <xref ref-type="bibr" rid="B31">2012</xref>; Thomason et al., <xref ref-type="bibr" rid="B56">2015</xref>). These discoveries drive the need for the development of new molecular genetic tools for investigating the expression patterns and functional roles of novel RNA transcripts in a strand-specific manner.</p>
<p>For over three decades, researchers have been isolating, expressing, and adapting bioluminescence genes for biomedical applications (de Wet et al., <xref ref-type="bibr" rid="B18">1987</xref>; Lorenz et al., <xref ref-type="bibr" rid="B32">1991</xref>). These techniques are based on the enzymatic (i.e., luciferase) oxidation of a substrate (i.e., luciferin) to generate light. Transcriptional reporters using bioluminescence read-outs have proven to be robust and sensitive molecular tools for investigating transcript expression (Andreu et al., <xref ref-type="bibr" rid="B4">2011</xref>). Infectious disease-based research has resulted in the development of multiple luciferase systems for a variety of pathogens, and demonstrated that relative luciferase units of constitutively expressed bioluminescence reporters correlate to bacterial numbers (Andreu et al., <xref ref-type="bibr" rid="B4">2011</xref>). Advanced and high-throughput adaptations for transcriptional reporters utilize multiple luciferase enzymes with unique substrates, which are compatible within the same experimental setup. In this manner, one luciferase serves as an experimental readout of promoter activity and the other as the normalization control for cell number (McNabb et al., <xref ref-type="bibr" rid="B35">2005</xref>; Wright et al., <xref ref-type="bibr" rid="B61">2005</xref>). A previously engineered <italic>B. burgdorferi</italic> codon-optimized <italic>Photinus pyralis</italic> (firefly) luciferase gene (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>), when fused to a constitutive promoter, has been successful for <italic>in vivo</italic> live imaging of <italic>B. burgdorferi</italic> dissemination during mouse infection (Hyde et al., <xref ref-type="bibr" rid="B27">2011</xref>; Wager et al., <xref ref-type="bibr" rid="B57">2015</xref>). Furthermore, this luciferase reporter has been used to characterize the promoters for a variety of annotated ORFs and novel RNAs during <italic>in vitro</italic> cultivation, <italic>in vivo</italic> mouse infection, and in infected mouse tissues <italic>ex vivo</italic> (Skare et al., <xref ref-type="bibr" rid="B52">2016</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). However, this reporter plasmid is limited in that it does not contain a constitutive control reporter to allow normalization and quantitation of the data. In order to expand the utility of this approach, we engineered a dual luciferase plasmid that carries both a constitutively expressed <italic>B. burgdorferi</italic> codon-optimized <italic>Renilla reniformis</italic> (sea pansy) luciferase gene and the <italic>B. burgdorferi</italic> codon-optimized <italic>Photinus pyralis</italic> (firefly) luciferase gene driven by a promoter of interest. Luciferin, the substrate of <italic>Photinus pyralis</italic> luciferase, emits yellow-green photons (550&#x02013;570 nm) of light (Marques and Esteves da Silva, <xref ref-type="bibr" rid="B34">2009</xref>), whereas coelenterazine, the substrate of <italic>Renilla reniformis</italic> luciferase, produces light in the blue spectrum (470 nm) (Woo et al., <xref ref-type="bibr" rid="B59">2008</xref>). Functioning on the premise that each luciferase enzyme requires unique substrates for bioluminescence readout, this approach provides a method for quantitative measurement of strand-specific transcription, in an environment of interest. It has been previously demonstrated that coelenterazine-based luciferase reporters are ineffective for <italic>in vivo</italic> live imaging detection of bacterial pathogens during murine infection (Andreu et al., <xref ref-type="bibr" rid="B3">2010</xref>), despite successful <italic>in vivo</italic> applications for mammalian tumor systems (Bhaumik and Gambhir, <xref ref-type="bibr" rid="B8">2002</xref>). Herein, our studies demonstrate the efficacy of the <italic>B. burgdorferi</italic> dual luciferase system for genetic studies during <italic>in vitro</italic> cultivation of spirochetes and analysis of transcriptional activity that occurs at the tick-pathogen interface, which is critical for understanding the interactions of <italic>B. burgdorferi</italic> with the tick vector for the development of novel therapeutic strategies for Lyme disease.</p>
</sec>
<sec sec-type="materials and methods" id="s2">
<title>Materials and methods</title>
<sec>
<title>Bacterial strains and growth conditions</title>
<p><italic>B. burgdorferi</italic> clones used in this study were derived from strain B31. For genetic manipulations infectious low-passage clone A3-68&#x00394;<italic>bbe02</italic> was utilized, which lacks cp9, lp56, and gene <italic>bbe02</italic> on lp25 (Rego et al., <xref ref-type="bibr" rid="B39">2011</xref>), and herein referred to as wild type. Spirochetes were cultivated in liquid Barbour-Stoenner-Kelly (BSK) II medium supplemented with gelatin and 6% rabbit serum (Barbour, <xref ref-type="bibr" rid="B7">1984</xref>) and grown at 35&#x000B0;C with 2.5% CO<sub>2</sub>. Luciferase plasmids were engineered in DH5&#x003B1; <italic>E. coli</italic>, grown in LB broth or on LB agar plates containing 300 &#x003BC;g/ml spectinomycin when appropriate, and transformed into <italic>B. burgdorferi</italic> as previously described (Samuels, <xref ref-type="bibr" rid="B42">1995</xref>). Transformants were selected by plating in solid BSKII medium as previously described (Rosa and Hogan, <xref ref-type="bibr" rid="B41">1992</xref>), in the presence of 50 &#x003BC;g/ml streptomycin and/or 200 &#x003BC;g/ml kanamycin, when applicable. All transformants were verified by PCR to contain the plasmid content of the parent clone (Elias et al., <xref ref-type="bibr" rid="B21">2002</xref>; Jewett et al., <xref ref-type="bibr" rid="B30">2007</xref>).</p>
</sec>
<sec>
<title>Construction of the dual luciferase plasmids</title>
<p>The <italic>Renilla reniformis</italic> luciferase gene (Lorenz et al., <xref ref-type="bibr" rid="B32">1991</xref>) was codon-optimized for <italic>B. burgdorferi</italic> (<italic>rluc</italic><sub><italic>Bb</italic></sub>) with the OptimumGene&#x02122; algorithm, synthesized, and cloned into the <italic>E. coli</italic> vector pUC18 (Genscript) (Genebank accession number <ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="MF043582">MF043582</ext-link>). All primer sequences are listed in Table <xref ref-type="table" rid="T1">1</xref>. The <italic>rluc</italic><sub><italic>Bb</italic></sub> gene was PCR amplified from pUC18-<italic>rluc</italic><sub><italic>Bb</italic></sub> plasmid DNA using Phusion High-fidelity DNA polymerase (NEB) and primer pair 1732 and 1733. This also resulted in the addition of 27 bp of DNA from the 3&#x02032; of the <italic>flaB</italic> promoter to the 5&#x02032; of <italic>rluc</italic><sub><italic>Bb</italic></sub>. Concurrently, a DNA fragment containing the <italic>flaB</italic> promoter sequence with a 24 bp overhang from the 5&#x02032; of the <italic>rluc</italic><sub><italic>Bb</italic></sub> gene was Phusion-PCR amplified using B31 A3 genomic DNA and primer pair 1730 and 1731. The PCR fragments were ligated together by combining Gibson Assembly&#x000AE; Master Mix (NEB) and 0.16 pmol of each PCR fragment and incubating the reaction at 50&#x000B0;C for 1 h. One microliter of assembled product (<italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub>) was Phusion-PCR amplified using primers 1730 and 1733 and the DNA fragment gel extracted using the QIAquick Gel Extraction kit (Qiagen), and cloned into pCR-Blunt using the Zero Blunt PCR cloning kit (Invitrogen) according to the manufacturer&#x00027;s instructions. The sequence of the <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> cassette was verified by Sanger sequencing.</p>
<table-wrap position="float" id="T1">
<label>Table 1</label>
<caption><p>Oligonucleotide primers used in this study.</p></caption>
<table frame="hsides" rules="groups">
<thead><tr>
<th valign="top" align="left"><bold>Number</bold></th>
<th valign="top" align="left"><bold>Name</bold></th>
<th valign="top" align="left"><bold>Sequence (5&#x02032;-3&#x02032;)</bold></th>
</tr>
</thead>
<tbody>
<tr>
<td valign="top" align="left">1730</td>
<td valign="top" align="left"><italic>flaBp</italic> 5&#x02032;</td>
<td valign="top" align="left">TGTCTGTCGCCTCTTGTG</td>
</tr>
<tr>
<td valign="top" align="left">1731</td>
<td valign="top" align="left"><italic>flaBp</italic> 3&#x02032;, 24 bp overlay <italic>rlucBb</italic> 5&#x02032;</td>
<td valign="top" align="left">AGGATCATAAACTTTACTTGTCATGATTGATAATCATATATCATTCCTCCA</td>
</tr>
<tr>
<td valign="top" align="left">1732</td>
<td valign="top" align="left"><italic>rlucBb</italic> 5&#x02032;, 27 bp overlay <italic>flaBp</italic> 3&#x02032;</td>
<td valign="top" align="left">TGGAGGAATGATATATGATTATCAATCATGACAAGTAAAGTTTATGATCCT</td>
</tr>
<tr>
<td valign="top" align="left">1733</td>
<td valign="top" align="left"><italic>rlucBb</italic> 3&#x02032;</td>
<td valign="top" align="left">TTATTGTTCATTTTTCAATACTCGT</td>
</tr>
<tr>
<td valign="top" align="left">1850</td>
<td valign="top" align="left"><italic>rlucBb</italic> 3&#x02032; KpnI</td>
<td valign="top" align="left">CTAAGGTACCTTATTGTTCATTTTTCAATACTCGTTC</td>
</tr>
<tr>
<td valign="top" align="left">1910</td>
<td valign="top" align="left"><italic>flaBp</italic> 5&#x02032; BamHI</td>
<td valign="top" align="left">TGGCCGGATCCTGTCTGTCGCCTCTTGTGGC</td>
</tr>
</tbody>
</table>
</table-wrap>
<p>The <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> cassette was Phusion-PCR amplified from the pCR-Blunt <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> plasmid using primer pair: 1850 and 1910, introducing BamHI and KpnI restriction sites. <italic>B. burgdorferi</italic> shuttle vectors containing the promoterless <italic>B. burgdorferi</italic> optimized <italic>Photinus pyralis</italic> luciferase gene (<italic>fluc</italic><sub><italic>Bb</italic></sub>), <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub>, <italic>ospAp-fluc</italic><sub><italic>Bb</italic></sub>, or <italic>ospCp-fluc</italic><sub><italic>Bb</italic></sub> (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>) were digested with BamHI and KpnI high fidelity enzymes (NEB), gel extracted using the QIAquick Gel Extraction kit (Qiagen), and ligated to the BamHI/KpnI-digested <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> cassette using T4 DNA ligase (NEB), generating plasmids pCFA701, pCFA801, pCFA802, and pCFA803. All plasmid constructs were confirmed by PCR, restriction digest, and Sanger sequencing.</p>
</sec>
<sec>
<title><italic>In vitro</italic> dual luciferase assay</title>
<p><italic>B. burgdorferi</italic> clones were grown to logarithmic phase (3&#x02013;7 &#x000D7; 10<sup>7</sup> spirochetes/ml) or stationary phase (1&#x02013;1.2 &#x000D7; 10<sup>8</sup> spirochetes/ml) in 15 ml of BSKII medium and pelleted at 3,210 &#x000D7; g for 10 min. Cells were washed with phosphate buffered saline (PBS) (137 mM NaCl, 2.7 mM KCl, 10 mM Na<sub>2</sub>HPO<sub>4</sub>, 1.8 mM KH<sub>2</sub>PO<sub>4</sub>, pH 7.4) and resuspended in 300 &#x003BC;l of PBS. Eighty microliters of each sample was used to measure the optical density at 600 nm (OD<sub>600</sub>) using a BioTek Synergy 4. This resulted in an average OD<sub>600</sub> value of &#x0007E;0.25 for logarithmic phase spirochetes and &#x0007E;0.36 for stationary phase spirochetes. One hundred microliters of each sample was loaded into a black, solid bottom 96-well plate (Corning) and combined with 700 &#x003BC;M D-luciferin (Regis) in PBS or 3.5 mM water soluble native coelenterazine (NanoLight Technology) in PBS. For samples containing coelenterazine, one well was left empty, in all directions around each sample, to decrease signal overlap between samples. For determining <italic>B burgdorferi Photinus</italic> luciferase (Fluc<sub>Bb</sub>) and <italic>Renilla</italic> luciferase (Rluc<sub>Bb</sub>) sensitivity, spirochetes containing pCFA801 were grown to logarithmic phase in 15 ml of BSKII medium, cell density determined using a Petroff Hauser counting chamber, washed with PBS, and resuspended in PBS to a density of 2 &#x000D7; 10<sup>6</sup> cells/&#x003BC;l. Samples were serial diluted 10-fold and 100 &#x003BC;l of each dilution was loaded into a black, solid bottom 96-well plate (Corning) and combined with 700 &#x003BC;M D-luciferin or 3.5 mM coelenterazine. The relative luciferase units (RLUs) for Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> were determined by measuring photon emission in each well for 1 s, 10 times using the EnVision 2104 Multilabel Reader (PerkinElmer), following the addition of luciferin or coelenterazine substrate, respectively. Background relative Fluc<sub>Bb</sub> or Rluc<sub>Bb</sub> units, the average RLUs of the PBS control for either substrate, was subtracted from all experimental measurements, as appropriate. Background-subtracted relative Fluc<sub>Bb</sub> units were then normalized to the OD<sub>600</sub> value or 10<sup>8</sup> background-subtracted relative Rluc<sub>Bb</sub> units of the same sample, when applicable (e.g., 4 &#x000D7; 10<sup>4</sup> Fluc<sub>Bb</sub> units/0.1 OD<sub>600</sub> value &#x0003D; 4 &#x000D7; 10<sup>5</sup> relative Fluc<sub>Bb</sub> units/OD<sub>600</sub>; 4 &#x000D7; 10<sup>4</sup> Fluc<sub>Bb</sub> units/0.06 10<sup>8</sup> Rluc<sub>Bb</sub> units &#x0003D; 6.4 &#x000D7; 10<sup>5</sup> relative Fluc<sub>Bb</sub> units/10<sup>8</sup> Rluc<sub>Bb</sub> units). The limit of detection (LoD) and quantification (LoQ) for Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> were established as the average RLUs for PBS alone plus 3 or 10 standard deviations, respectively. All experiments were conducted in biological triplicate.</p>
</sec>
<sec>
<title>Ethics statement</title>
<p>The University of Central Florida is accredited by the International Association for Assessment and Accreditation of Laboratory Animal Care. Protocols for all animal experiments were prepared according to the guidelines of the National Institutes of Health and were reviewed and approved by the University of Central Florida Institutional Animal Care and Use Committee.</p>
</sec>
<sec>
<title><italic>B. burgdorferi</italic> infection of ticks</title>
<p>One week prior to inoculation, and throughout the duration of the study, mice were treated with 5 mg/ml streptomycin and 1 mg/ml Equal&#x000AE; sweetener in their water to maintain selection for the luciferase plasmid in the <italic>B. burgdorferi</italic> clones. Using <italic>B. burgdorferi</italic> carrying pJSB175, pCFA701, pCFA801, pCFA802, or pCFA803, groups of two 6&#x02013;8 week old female C3H/HeN mice (Envigo) per clone were inoculated with 1 &#x000D7; 10<sup>5</sup> spirochetes per mouse 80% intraperitoneally and 20% subcutaneously. The inoculum doses were verified by colony forming unit (CFU) counts in solid BSKII medium. All inoculum were PCR verified to contain the endogenous <italic>B. burgdorferi</italic> plasmids of the parent clone as previously described (Elias et al., <xref ref-type="bibr" rid="B21">2002</xref>; Jewett et al., <xref ref-type="bibr" rid="B30">2007</xref>). Three weeks post inoculation mouse infection was confirmed by positive seroreactivity against <italic>B. burgdorferi</italic> protein lysate as previously described (Schwan et al., <xref ref-type="bibr" rid="B47">1989</xref>; Jewett et al., <xref ref-type="bibr" rid="B30">2007</xref>). Groups of approximately 200 na&#x000EF;ve <italic>Ixodes scapularis</italic> larvae each (Centers for Disease Control, BEI resources) were fed to repletion on the <italic>B. burgdorferi</italic> infected mice (Jewett et al., <xref ref-type="bibr" rid="B29">2009</xref>). Mice were further confirmed for infection by reisolation of spirochetes from bladder and joint tissues, as described (Showman et al., <xref ref-type="bibr" rid="B51">2016</xref>). Larvae were analyzed for infection (Grimm et al., <xref ref-type="bibr" rid="B24">2005</xref>; Jewett et al., <xref ref-type="bibr" rid="B29">2009</xref>). Briefly, ticks were individually surface sterilized by sequential washes in 100 &#x003BC;l of 3% H<sub>2</sub>O<sub>2</sub>, 70% ethanol, and sterile H<sub>2</sub>O. Subsets of larvae were analyzed for infection by reisolation of spirochetes in BSKII medium containing RPA cocktail (60 &#x003BC;M rifampicin, 110 &#x003BC;M phosphomycin, and 2.7 &#x003BC;M amphotericin B), immediately post feeding to repletion. Approximately 2 weeks following feeding, additional subsets of larvae were crushed and plated in solid BSKII containing RPA cocktail and 50 &#x003BC;g/ml streptomycin to determine CFU counts/larva. The remaining larvae were maintained and allowed to molt into nymphs. Two groups of 10&#x02013;18 infected nymphs per <italic>B. burgdorferi</italic> clone were fed to repletion on na&#x000EF;ve 6&#x02013;8 week old female C3H/HeN mice (Envigo). These mice were treated with 5 mg/ml streptomycin and 1 mg/ml Equal&#x000AE; sweetener in their water 1 week prior to the feeding, to help sustain the luciferase plasmids in <italic>B. burgdorferi</italic> within the feeding nymphs. Throughout the duration of the study, ticks were stored in glass desiccation jars containing saturated potassium sulfate for to maintain appropriate humidity.</p>
</sec>
<sec>
<title><italic>In vivo</italic> tick dual luciferase assay</title>
<p>Approximately 2 weeks post feeding to repletion triplicate groups of 24 fed larvae or 8 fed nymphs per <italic>B. burgdorferi</italic> clone were crushed with a sterile pestle in 250 &#x003BC;l of PBS to generate tick extracts. For tick extracts, which were also plated for CFU counts, the ticks were first surface sterilized as described above, with a final wash in sterile PBS instead of H<sub>2</sub>O. Tick debris was allowed to settle and 100 &#x003BC;l of sample was removed and incubated with 700 &#x003BC;M D-luciferin (Regis) in PBS or 3.5 mM water soluble native coelenterazine (NanoLight Technology) in PBS. RLUs were measured as described for <italic>in vitro</italic> grown spirochetes. The limit of quantification (LoQ) for Fluc<sub>Bb</sub> was established as the average relative Fluc<sub>Bb</sub> units for PBS alone plus 10 standard deviations. The LoQ for Rluc<sub>Bb</sub> was established as the average relative Rluc<sub>Bb</sub> units for infected tick extracts with spirochetes containing pJSB175, which lacks the <italic>rluc</italic><sub><italic>Bb</italic></sub> gene, plus 10 standard deviations. Samples with relative Fluc<sub>Bb</sub> units below the LoQ were given a value of zero; whereas, samples with relative Rluc<sub>Bb</sub> units below the LoQ were removed from the analysis. Relative Fluc<sub>Bb</sub> units were normalized to 10<sup>8</sup> relative Rluc<sub>Bb</sub> units for each sample. One microliter of each fed nymph extract was also plated for CFUs in solid BSKII containing RPA cocktail and 50 &#x003BC;g/ml streptomycin.</p>
</sec>
<sec>
<title>Statistical analysis</title>
<p>GraphPad Prism version 7.02 was used for all statistical analyses. One-way ANOVA was used for analysis of all luciferase assays. For statistical comparison of the relative Fluc<sub>Bb</sub> units normalized to OD<sub>600</sub> or 10<sup>8</sup> relative Rluc<sub>Bb</sub> units, which had an extremely wide distribution (&#x0007E;10<sup>1</sup>&#x02013;10<sup>7</sup>), all values were first square root transformed prior to statistical analysis. Following ANOVA, all samples were compared to the <italic>B. burgdorferi</italic> clones carrying the promoterless <italic>fluc</italic><sub><italic>Bb</italic></sub> control plasmid pJSB161 or pCFA701 using Dunnett&#x00027;s multiple comparison test. To compare two groups (i.e., the same clone in logarithmic versus stationary phase) following ANOVA, Bonferroni&#x00027;s multiple comparison test was applied to determine significance. For association analysis, Pearson correlation coefficient (r) was determined. <italic>p</italic> &#x02264; 0.05 was considered statistically significant for all statistical tests.</p>
</sec>
</sec>
<sec sec-type="results" id="s3">
<title>Results</title>
<sec>
<title>Generation of the <italic>B. burgdorferi</italic> dual luciferase plasmid</title>
<p>The <italic>B. burgdorferi</italic> shuttle vector pJSB161 (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>) contains a promoterless <italic>B. burgdorferi</italic> codon-optimized <italic>Photinus pyralis</italic> luciferase gene (<italic>fluc</italic><sub><italic>Bb</italic></sub><italic>)</italic> with a BlgII restriction site upstream of a ribosome binding site (RBS) for <italic>fluc</italic><sub><italic>Bb</italic></sub> (Figure <xref ref-type="fig" rid="F1">1A</xref>). This reporter plasmid allows a cloned promoter of interest to be analyzed for activity in a strand-specific manner via a bioluminescence detection method (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>; Skare et al., <xref ref-type="bibr" rid="B52">2016</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). However, this approach does not allow for quantitative comparative analysis of promoter activity in different environments or between multiple promoters in the same environment due to the lack of an endogenous means to control for spirochete number across samples and conditions. Therefore to improve upon this technique for quantitative applications, we engineered a dual luciferase reporter system to constitutively express <italic>Renilla reniformis</italic> luciferase (<italic>rluc</italic>) (Lorenz et al., <xref ref-type="bibr" rid="B32">1991</xref>), while maintaining <italic>fluc</italic><sub><italic>Bb</italic></sub> for quantifying the activity of a promoter of interest. Codon usage in <italic>B. burgdorferi</italic> is biased (Fraser et al., <xref ref-type="bibr" rid="B22">1997</xref>; Nakamura et al., <xref ref-type="bibr" rid="B36">2000</xref>), as the A/T nucleotide frequency is at 71.8% across the genome (Fraser et al., <xref ref-type="bibr" rid="B22">1997</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). Codon optimization has been shown to improve production and activity of non-<italic>B. burgdorferi</italic> proteins expressed in <italic>B. burgdorferi</italic> (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>; Hayes et al., <xref ref-type="bibr" rid="B26">2010</xref>). Therefore to prevent rare codons interfering with the <italic>Renilla</italic> luciferase reporter, the OptimumGene&#x02122; algorithm (GenScript) was used to refine the codon adaption index (CAI) of <italic>rluc</italic> (Lorenz et al., <xref ref-type="bibr" rid="B32">1991</xref>) for <italic>B. burgdorferi</italic> from 0.64 to 0.85 (where a CAI value of 1.0 indicates the highest proportion of the most abundant codons) and synthesized (GenScript). This codon-optimized <italic>rluc</italic> gene (<italic>rluc</italic><sub><italic>Bb</italic></sub>) (Genebank accession number <ext-link ext-link-type="DDBJ/EMBL/GenBank" xlink:href="MF043582">MF043582</ext-link>) was cloned into pJSB161 (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>), for use in the dual luciferase reporter system under control of the constitutive promoter <italic>flaBp</italic> and corresponding ribosome binding site, generating pCFA701 (Figure <xref ref-type="fig" rid="F1">1B</xref>).</p>
<fig id="F1" position="float">
<label>Figure 1</label>
<caption><p><italic>B. burgdorferi</italic> luciferase plasmids. All of the <italic>B. burgdorferi</italic> luciferase shuttle vectors were derived from pJSB161, which contains a Rho-independent transcription terminator sequence (terminator); ORFs 1, 2, and 3 of the <italic>B. burgdorferi</italic> cp9 replication machinery (cp9 ori); <italic>E. coli</italic> origin of replication (ColE1 ori); and the spectinomycin/streptomycin resistance cassette (<italic>flg-aadA</italic>) (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>). <bold>(A)</bold> The <italic>B. burgdorferi</italic> shuttle vector pJSB161 features a promoterless, <italic>B. burgdorferi</italic> codon optimized <italic>Photinus pyralis</italic> luciferase (<italic>fluc</italic><sub><italic>Bb</italic></sub>), an upstream ribosome binding site (RBS) and a unique BlgII restriction site (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>). The plasmid pJSB175 was generated by addition of the <italic>flaBp</italic> promoter upstream of <italic>fluc</italic><sub><italic>Bb</italic></sub> in pJSB161 (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>). <bold>(B)</bold> The <italic>B. burgdorferi</italic> codon optimized <italic>Renilla reniformis</italic> luciferase (<italic>rluc</italic><sub><italic>Bb</italic></sub>) gene under the control of the <italic>flaB</italic> promoter (<italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub>) was added to pJSB161, generating the <italic>B. burgdorferi</italic> dual luciferase shuttle vector, pCFA701. Plasmids, pCFA801, pCFA802, and pCFA803, harbor the <italic>flaB, ospA</italic>, and <italic>ospC</italic> promoters, respectively, upstream of <italic>fluc</italic><sub><italic>Bb</italic></sub>. <bold>(C)</bold> The density of <italic>B. burgdorferi</italic> clone A3-68&#x00394;<italic>bbe02</italic> (wild type) alone or harboring various <italic>B. burgdorferi</italic> luciferase plasmids was assessed over a period of 144 h using a Petroff Hauser counting chamber and dark-field microscopy. The data are presented as the mean spirochete density (spirochetes/ml) &#x000B1; standard deviation over time (hours).</p></caption>
<graphic xlink:href="fcimb-07-00225-g0001.tif"/>
</fig>
<p><italic>B. burgdorferi</italic> survival in the tick vector is essential for maintenance of the pathogen in its enzootic cycle. The spirochete is known to change its transcriptional profile at different stages of tick colonization including: acquisition, persistence during the molt, and transmission to the mammalian host (Iyer et al., <xref ref-type="bibr" rid="B28">2015</xref>; Caimano et al., <xref ref-type="bibr" rid="B11">2016</xref>). Because of our interest in applying the dual luciferase reporter system to quantitative analysis of <italic>B. burgdorferi</italic> promoter activities in the tick, we selected three well characterized promoters with distinct patterns of expression in the tick environment for proof of principle analysis. The flagellar protein promoter, <italic>flaBp</italic>, is constitutively active (Ge et al., <xref ref-type="bibr" rid="B23">1997</xref>). The promoter for outer surface protein A (<italic>ospAp</italic>) is active during <italic>in vitro</italic> culture and in the tick during acquisition and persistence. In contrast, the promoter for outer surface protein C (<italic>ospCp</italic>) is active in the feeding tick during transmission and the mammalian host during the early stages of infection (Schwan et al., <xref ref-type="bibr" rid="B49">1995</xref>; Schwan and Piesman, <xref ref-type="bibr" rid="B48">2000</xref>; Schwan, <xref ref-type="bibr" rid="B46">2003</xref>; Srivastava and de Silva, <xref ref-type="bibr" rid="B54">2008</xref>). The <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> cassette was cloned into three previously constructed plasmids, each containing one of these promoters driving the expression of <italic>fluc</italic><sub><italic>Bb</italic></sub> (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>), generating plasmids pCFA801, pCFA802, and pCFA803, respectively (Figure <xref ref-type="fig" rid="F1">1B</xref>). Spirochetes carrying pCFA701, pCFA801, pCFA802, or pCFA803 had no observed <italic>in vitro</italic> growth defect in BSKII medium compared to the wild type or <italic>B. burgdorferi</italic> carrying <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> alone (pJSB175) (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>, Figure <xref ref-type="fig" rid="F1">1C</xref>).</p>
</sec>
<sec>
<title>Rluc<sub>Bb</sub> selectivity and limit of quantification</title>
<p><italic>Photinus pyralis</italic> luciferase (Fluc) and <italic>Renilla reniformis</italic> luciferase (Rluc) are compatible for a dual reporter due to the specificity of each enzyme for distinct substrates (Bhaumik and Gambhir, <xref ref-type="bibr" rid="B8">2002</xref>; McNabb et al., <xref ref-type="bibr" rid="B35">2005</xref>). Therefore, we verified the selectivity of the Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> enzymes to recognize luciferin and coelenterazine, respectively. Based on our previous work using the <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> reporter (Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>), we performed these analyses with approximately 3 &#x000D7; 10<sup>8</sup> spirochetes harvested during log phase growth. As expected, the negative control, spirochetes not expressing <italic>fluc</italic><sub><italic>Bb</italic></sub> or <italic>rluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pJSB161), demonstrated no significant relative luciferase units for either substrate compared to wild type. Spirochetes expressing <italic>fluc</italic><sub><italic>Bb</italic></sub> alone (&#x0002B;pJSB175) demonstrated robust activity when incubated with luciferin, but no significant activity above the background of <italic>B. burgdorferi</italic> carrying pJSB161 when exposed to coelenterazine (Figure <xref ref-type="fig" rid="F2">2A</xref>). Conversely, spirochetes expressing <italic>rluc</italic><sub><italic>Bb</italic></sub> alone (&#x0002B;pCFA701) demonstrated strong activity when incubated with coelenterazine, but no significant activity above the negative control background when exposed to luciferin (Figure <xref ref-type="fig" rid="F2">2A</xref>). Spirochetes which express both <italic>fluc</italic><sub><italic>Bb</italic></sub> and <italic>rluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA801) demonstrated significant relative luciferase units compared to spirochetes containing pJSB161 for both luciferin and coelenterazine. The background relative luciferase units for wild type and negative control spirochetes exposed to coelenterazine were found to be approximately 10-fold higher than those of the same spirochetes incubated with luciferin. Collectively, these data validated the ability of the codon-optimized Rluc<sub>Bb</sub> enzyme to effectively oxidize coelenterazine and confirmed the specificity of the Fluc<sub><italic>Bb</italic></sub> and Rluc<sub>Bb</sub> enzymes for their respective substrates.</p>
<fig id="F2" position="float">
<label>Figure 2</label>
<caption><p>Selectivity and sensitivity of the dual luciferase assay in <italic>B. burgdorferi</italic>. <bold>(A)</bold> <italic>B. burgdorferi</italic> clones were grown to mid-logarithmic phase, and the <italic>in vitro</italic> luciferase assay performed with 700 &#x003BC;M D-luciferin or 3.5 mM coelenterazine. Relative luciferase units were normalized to optical density at 600 nm (OD<sub>600</sub>) and presented as the mean relative luciferase units/OD<sub>600</sub> &#x000B1; standard deviation for biological triplicate samples. The data were square root transformed and analyzed with a one-way ANOVA followed by Dunnett&#x00027;s multiple comparison test compared to <italic>B. burgdorferi</italic> containing the promoterless <italic>fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pJSB161) for each substrate. Unless indicated, means were not significantly different from the control. Significant differences are indicated with asterisks (<sup>&#x0002A;&#x0002A;&#x0002A;&#x0002A;</sup><italic>p</italic> &#x02264; 0.0001). <bold>(B)</bold> Mid-logarithmic phase grown <italic>B. burgdorferi</italic> expressing both <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> and <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA801) were serial diluted from 2 &#x000D7; 10<sup>8</sup> to 2 &#x000D7; 10<sup>0</sup> spirochetes, and incubated with 3.5 mM coelenterazine. The limit of detection (LoD) was established as the mean relative luciferase units for PBS alone plus 3 standard deviations (gray dotted line). The limit of quantitation (LoQ) was established as the mean relative luciferase units for PBS alone plus 10 standard deviations (red dotted line). Data are presented as the mean relative luciferase units &#x000B1; standard deviation for biological triplicate samples.</p></caption>
<graphic xlink:href="fcimb-07-00225-g0002.tif"/>
</fig>
<p>The utility of the dual luciferase reporter system not only depends on the substrate specificity of Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub>, but also the sensitivity of detecting and quantifying spirochetes expressing <italic>rluc</italic><sub><italic>Bb</italic></sub>. The limit of detection (LoD) and limit of quantification (LoQ) were established as the number of spirochetes required to achieve relative Rluc<sub>Bb</sub> units greater than that of phosphate-buffered saline (PBS) alone plus three standard deviations and 10 standard deviations, respectively. Analysis of triplicate samples of 10-fold serially diluted spirochetes, 2 &#x000D7; 10<sup>8</sup> to 2 &#x000D7; 10<sup>0</sup>, harvested during log phase growth and incubated with coelenterazine, demonstrated 2 &#x000D7; 10<sup>3</sup> spirochetes to be the lowest detectable number of <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> expressing spirochetes in the assay (Figure <xref ref-type="fig" rid="F2">2B</xref>). However, the LoQ fell between 2 &#x000D7; 10<sup>3</sup> and 2 &#x000D7; 10<sup>4</sup> spirochetes. Saturation of the bioluminescence signal was never reached under the conditions examined, with a linear increase in relative Rluc<sub>Bb</sub> units from 2 &#x000D7; 10<sup>3</sup> to 2 &#x000D7; 10<sup>8</sup> spirochetes (<italic>y</italic> &#x0003D; 0.0404x; <italic>R</italic><sup>2</sup> &#x0003D; 0.9997). Extrapolating from this linear equation, the LoQ was calculated to be 4.8 &#x000D7; 10<sup>3</sup> spirochetes. These data indicate that a minimum of &#x0007E;1 &#x000D7; 10<sup>4</sup> <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> expressing spirochetes are needed to achieve quantifiable relative Rluc<sub>Bb</sub> units in the assay. Similar to what has been reported previously (Hyde et al., <xref ref-type="bibr" rid="B27">2011</xref>), 2 &#x000D7; 10<sup>3</sup> spirochetes was also found to be the lowest detectable number of <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> expressing spirochetes (data not shown).</p>
</sec>
<sec>
<title>The <italic>flaBp-rluc<sub><italic>Bb</italic></sub></italic> reporter is a robust constitutive control for measuring <italic>B. burgdorferi</italic> promoter activities during <italic>In vitro</italic> growth</title>
<p>Previously, we reported quantification of <italic>in vitro</italic> active <italic>B. burgdorferi</italic> promoters by normalizing relative luciferase units (RLUs) from <italic>fluc</italic><sub><italic>Bb</italic></sub> expressing cells to the optical density of the bacterial sample measured at 600 nm (OD<sub>600</sub>) (Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). In this manner, the OD<sub>600</sub> measurement reflects the number of spirochetes in the sample allowing normalization of RLUs across samples and assay conditions. To establish the <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> reporter as an effective alternative for OD<sub>600</sub> readings in our assay, first, relative Rluc<sub>Bb</sub> units were measured for all <italic>rluc</italic><sub><italic>Bb</italic></sub>-expressing <italic>B. burgdorferi</italic> clones and normalized to the number of spirochetes in the assay by OD<sub>600</sub> (Figure <xref ref-type="fig" rid="F3">3A</xref>). All clones demonstrated consistent, robust relative Rluc<sub>Bb</sub> units, ranging from 5 &#x000D7; 10<sup>7</sup> to 1.68 &#x000D7; 10<sup>8</sup>. There was no significant difference among clones except for <italic>B. burgdorferi</italic> carrying pCFA802, which demonstrated higher relative Rluc<sub>Bb</sub>units/OD<sub>600</sub> compared to all other clones as well as a difference between logarithmic and stationary phase growth. The same <italic>rluc</italic><sub><italic>Bb</italic></sub>-expressing clones, were also incubated with luciferin and relative Fluc<sub>Bb</sub> units were determined by normalizing to OD<sub>600</sub> (Figure <xref ref-type="fig" rid="F3">3B</xref>). All <italic>fluc</italic><sub><italic>Bb</italic></sub> promoter fusions displayed the expected relative Fluc<sub>Bb</sub> units/OD<sub>600</sub>, given the known expression patterns of their corresponding mRNA during logarithmic and stationary phase growth (Arnold et al., <xref ref-type="bibr" rid="B6">2016</xref>). Both the <italic>flaB</italic> (&#x0002B;pCFA801) and <italic>ospA</italic> (&#x0002B;pCFA802) promoters demonstrated significant activity above the promoterless <italic>fluc</italic><sub><italic>Bb</italic></sub> control (&#x0002B;pCFA701) for both logarithmic and stationary phase growth. The activity of the <italic>ospC</italic> promoter (&#x0002B;pCFA803) during logarithmic phase growth was no different than the promoterless <italic>fluc</italic><sub><italic>Bb</italic></sub> control (&#x0002B;pCFA701). Whereas, the <italic>ospC</italic> promoter activity underwent significant induction from logarithmic to stationary phase growth (Figure <xref ref-type="fig" rid="F3">3B</xref>). Normalization of the relative Fluc<sub>Bb</sub> units to 10<sup>8</sup> relative Rluc<sub>Bb</sub> units for each clone demonstrated no difference in the trend of the data resulting from this method of analysis compared to the data resulting from Fluc<sub>Bb</sub> units normalized to OD<sub>600</sub> (Figure <xref ref-type="fig" rid="F3">3B</xref>). Together these findings establish <italic>flaBp</italic>-<italic>rluc</italic><sub><italic>Bb</italic></sub> as an effective constitutive control reporter, whose quantitation is reflective of spirochete number and is a robust means to normalize data obtained from <italic>fluc</italic><sub><italic>Bb</italic></sub> promoter fusions using the dual luciferase reporter system.</p>
<fig id="F3" position="float">
<label>Figure 3</label>
<caption><p>Dual luciferase assay with <italic>in vitro</italic> grown <italic>B. burgdorferi</italic>. Spirochetes were grown to either mid-logarithmic or stationary phase and the <italic>in vitro</italic> luciferase assay performed with 700 &#x003BC;M D-luciferin or 3.5 mM coelenterazine. All data are presented as mean normalized relative luciferase units &#x000B1; standard deviation for biological triplicate samples. <bold>(A)</bold> Relative Rluc<sub>Bb</sub> units normalized to OD<sub>600</sub>. The data set for each growth condition was analyzed with a one-way ANOVA followed by Dunnett&#x00027;s multiple comparison test compared to <italic>B. burgdorferi</italic> expressing <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA701) and Bonferroni&#x00027;s multiple comparison test to compare the same clone in the two growth phases. <bold>(B)</bold> Relative Fluc<sub>Bb</sub> units normalized to OD<sub>600</sub> or 10<sup>8</sup> relative Rluc<sub>Bb</sub> units of the same sample. Each data set was square root transformed and analyzed with a one-way ANOVA followed by Dunnett&#x00027;s multiple comparison test compared to <italic>B. burgdorferi</italic> expressing <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA701). Unless indicated, means were not significantly different from the control. Significant differences are indicated with asterisks (<sup>&#x0002A;</sup><italic>p</italic> &#x02264; 0.05; <sup>&#x0002A;&#x0002A;</sup><italic>p</italic> &#x02264; 0.01; <sup>&#x0002A;&#x0002A;&#x0002A;</sup><italic>p</italic> &#x02264; 0.001; <sup>&#x0002A;&#x0002A;&#x0002A;&#x0002A;</sup><italic>p</italic> &#x02264; 0.0001).</p></caption>
<graphic xlink:href="fcimb-07-00225-g0003.tif"/>
</fig>
</sec>
<sec>
<title>The dual luciferase reporter system quantifies promoter activities during tick-spirochete interactions</title>
<p>Having established the dual luciferase reporter system for use with <italic>in vitro</italic> grown spirochetes, we examined the efficacy of the reporter system for measuring <italic>B. burgdorferi</italic> promoter activities in the tick vector. Na&#x000EF;ve <italic>Ixodes scapularis</italic> larval ticks were infected with <italic>B. burgdorferi</italic> carrying the dual luciferase reporter plasmids or <italic>flaBp</italic>-<italic>fluc</italic><sub><italic>Bb</italic></sub>, lacking <italic>rluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pJSB175) by feeding on groups of mice infected with the reporter clones via needle inoculation. Immediately following feeding to repletion, the percent of infected larvae per experimental group was determined by spirochete reisolation in BSKII medium. This analysis revealed that 60&#x02013;90% of each experimental group of larvae successfully acquired <italic>B. burgdorferi</italic> upon feeding on infected mice. As an additional means to determine the percentage of infected larvae and to quantitate the number of spirochetes per tick, individual fed larvae were crushed and plated in solid medium for colony forming units (CFUs). Similar to the spirochete reisolation analysis, the groups of fed larvae were found by CFU analysis to be 66&#x02013;100% infected. Moreover, although a broad range of spirochetes per tick was detected, there was no statistical difference between the average spirochete load per tick for each of the <italic>B. burgdorferi</italic> clones (Figure <xref ref-type="fig" rid="F4">4</xref>). These data suggest that all of the clones were able to colonize the ticks with the same efficiency.</p>
<fig id="F4" position="float">
<label>Figure 4</label>
<caption><p>The dual luciferase plasmids do not affect <italic>B. burgdorferi</italic> acquisition efficiency. Groups of &#x0007E;200 na&#x000EF;ve <italic>Ixodes scapularis</italic> larvae were fed to repletion on mice infected with <italic>B. burgdorferi</italic> containing distinct luciferase plasmids. Subsets of individual fed larvae per <italic>B. burgdorferi</italic> clone were surface sterilized, crushed, and plated in solid BSKII containing RPA cocktail and 50 &#x003BC;g/ml streptomycin. Data points represent the number of colony forming units (CFUs) per individual fed larva. Uninfected larvae (CFU &#x0003D; 0) are represented as data points on the X-axis. No significant differences were detected across the data as determined with a one-way ANOVA.</p></caption>
<graphic xlink:href="fcimb-07-00225-g0004.tif"/>
</fig>
<p>Based on our quantitation of the average number of spirochetes per tick (Figure <xref ref-type="fig" rid="F4">4</xref>), we estimated that pools of 24 fed larvae would equate to approximately 10<sup>4</sup> spirochetes per sample, suggesting that the Rluc<sub>Bb</sub> activity would be quantifiable by our assay (Figure <xref ref-type="fig" rid="F2">2B</xref>). Therefore, 2 weeks following the blood meal, 24 fed larvae per experimental group, in triplicate, were crushed in PBS and relative Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> units measured using the luciferin and coelenterazine substrates, respectively (Table <xref ref-type="table" rid="T2">2</xref>). The remaining fed larvae were reserved and allowed to molt into nymphs. The unfed, infected nymphs were then fed to repletion on na&#x000EF;ve mice. Approximately 2 weeks post feeding, groups of eight fed nymphs were crushed in PBS, in triplicate, and assessed for relative Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> units (Table <xref ref-type="table" rid="T2">2</xref>). Under the assumption that the spirochete load per fed nymph is increased approximately 10-fold compared to that of fed larvae (Jewett et al., <xref ref-type="bibr" rid="B30">2007</xref>, <xref ref-type="bibr" rid="B29">2009</xref>), we estimated the average spirochete load per fed nymph to be approximately 10<sup>4</sup>. Therefore, a pool of eight fed nymphs was estimated to equate to approximately 8 &#x000D7; 10<sup>4</sup> spirochetes, which is above both the LoD and LoQ of the <italic>in vitro</italic> assay (Figure <xref ref-type="fig" rid="F2">2B</xref>). The actual LoQ for the <italic>in vivo</italic> tick assay was established using the average Rluc<sub>Bb</sub> units plus 10 standard deviations for tick extracts from fed ticks infected with <italic>B. burgdorferi</italic> lacking <italic>rluc</italic><sub>Bb</sub> but expressing <italic>flaBp</italic>-<italic>fluc</italic><sub>Bb</sub>, (&#x0002B;pJSB175), rather than PBS alone. This is due to the observation that this tick extract negative control resulted in lower background relative Rluc<sub>Bb</sub> units compared to PBS alone (Table <xref ref-type="table" rid="T2">2</xref>). In contrast, there was no observed difference in the background relative Fluc<sub>Bb</sub> units between PBS and the tick samples containing <italic>B. burgdorferi</italic> with a promoterless <italic>fluc</italic><sub>Bb</sub> and expressing <italic>flaBp</italic>-<italic>rluc</italic><sub>Bb</sub> (&#x0002B;pCFA701) in the luciferin assay. Therefore, the LoQ for Fluc<sub>Bb</sub> in the <italic>in vivo</italic> tick assay was determined using the average relative Fluc<sub>Bb</sub> units for PBS plus 10 standard deviations. Samples that fell below the LoQ threshold for either luciferase enzyme were considered no different than background (Table <xref ref-type="table" rid="T2">2</xref>). As expected, we detected quantifiable relative Rluc<sub>Bb</sub> units for all fed larvae samples, and all but two fed nymph samples (Table <xref ref-type="table" rid="T2">2</xref>), indicating that sufficient spirochetes were present in the samples for the assay. In the pools of fed larvae only samples containing <italic>B. burgdorferi</italic> carrying <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA801) demonstrated quantifiable relative Fluc<sub>Bb</sub> units. The activities of <italic>ospAp</italic> and <italic>ospCp</italic> were below the LoQ for Fluc<sub>Bb</sub> (Table <xref ref-type="table" rid="T2">2</xref>). In contrast, all three promoters produced quantifiable relative Fluc<sub>Bb</sub> units in the fed nymphs. Although one of the extracts from the fed nymphs infected with <italic>B. burgdorferi</italic> carrying <italic>ospCp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA803) did not result in quantifiable relative Fluc<sub>Bb</sub> units, this sample also failed to achieve quantifiable relative Rluc<sub>Bb</sub> units (Table <xref ref-type="table" rid="T2">2</xref>), indicating that the number of spirochetes in the sample was insufficient for the assay. The promoter activities of the spirochetes in the fed nymph samples were analyzed by subtracting the average relative Fluc<sub>Bb</sub> units of PBS from the relative Fluc<sub>Bb</sub> units of each sample and the average relative Rluc<sub>Bb</sub>units of the infected tick extracts containing the negative control plasmid (&#x0002B;pJSB175) from the relative Rluc<sub>Bb</sub> units of each sample. Background-subtracted Fluc<sub>Bb</sub> units were then normalized to the respective background-subtracted relative Rluc<sub>Bb</sub> units, for all quantifiable values. The Rluc<sub>Bb</sub>-normalized promoter activities reflected the expected corresponding <italic>B. burgdorferi</italic> transcript expression pattern during the fed nymph life stage (Figure <xref ref-type="fig" rid="F5">5A</xref>, Iyer et al., <xref ref-type="bibr" rid="B28">2015</xref>).</p>
<table-wrap position="float" id="T2">
<label>Table 2</label>
<caption><p><italic>In vivo</italic> tick dual luciferase assay.</p></caption>
<table frame="hsides" rules="groups">
<thead><tr>
<th valign="top" align="left"><bold>Tick life stage</bold></th>
<th valign="top" align="left"><bold>Plasmid</bold></th>
<th valign="top" align="left"><bold>Luciferase cassette(s)</bold></th>
<th valign="top" align="center" colspan="3" style="border-bottom: thin solid #000000;"><bold>Relative Rluc</bold><sub><bold>Bb</bold></sub> <bold>units/biological replicate</bold><xref ref-type="table-fn" rid="TN1"><sup><bold>a</bold></sup></xref></th>
<th valign="top" align="center" colspan="3" style="border-bottom: thin solid #000000;"><bold>Relative Fluc</bold><sub><bold>Bb</bold></sub> <bold>units/biological replicate</bold><xref ref-type="table-fn" rid="TN2"><sup><bold>b</bold></sup></xref></th>
</tr>
<tr>
<th/>
<th/>
<th/>
<th valign="top" align="center"><bold>1</bold></th>
<th valign="top" align="center"><bold>2</bold></th>
<th valign="top" align="center"><bold>3</bold></th>
<th valign="top" align="center"><bold>1</bold></th>
<th valign="top" align="center"><bold>2</bold></th>
<th valign="top" align="center"><bold>3</bold></th>
</tr>
</thead>
<tbody>
<tr>
<td valign="top" align="left">Fed Larvae<xref ref-type="table-fn" rid="TN5"><sup>e</sup></xref></td>
<td valign="top" align="left">PBS</td>
<td valign="top" align="left">n/a<xref ref-type="table-fn" rid="TN3"><sup>c</sup></xref></td>
<td valign="top" align="char" char=".">85.2</td>
<td valign="top" align="char" char=".">89.6</td>
<td valign="top" align="char" char=".">92.8</td>
<td valign="top" align="char" char=".">20.0</td>
<td valign="top" align="char" char=".">24.8</td>
<td valign="top" align="char" char=".">24.4</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pJSB175</td>
<td valign="top" align="left"><italic>flaBp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">37.6</td>
<td valign="top" align="char" char=".">36.4</td>
<td valign="top" align="char" char=".">34.4</td>
<td valign="top" align="char" char=".">137.6</td>
<td valign="top" align="char" char=".">245.6</td>
<td valign="top" align="left">138</td>
</tr>
<tr>
<td/>
<td/>
<td/>
<td valign="top" align="center" colspan="3">LoQ<xref ref-type="table-fn" rid="TN4"><sup>d</sup></xref> &#x0003D; 52.3</td>
<td valign="top" align="center" colspan="3">LoQ &#x0003D; 49.7</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA701</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">185.6</td>
<td valign="top" align="char" char=".">108.8</td>
<td valign="top" align="char" char=".">208.0</td>
<td valign="top" align="char" char=".">22.4<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">24.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">24.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA801</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; flaBp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">603.6</td>
<td valign="top" align="char" char=".">1,502.4</td>
<td valign="top" align="char" char=".">1,187.6</td>
<td valign="top" align="char" char=".">56.0</td>
<td valign="top" align="char" char=".">136.0</td>
<td valign="top" align="char" char=".">100.8</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA802</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; ospAp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">144.4</td>
<td valign="top" align="char" char=".">153.2</td>
<td valign="top" align="char" char=".">176.0</td>
<td valign="top" align="char" char=".">26.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">25.2<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">24.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA803</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; ospCp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">346.8</td>
<td valign="top" align="char" char=".">341.2</td>
<td valign="top" align="char" char=".">234.8</td>
<td valign="top" align="char" char=".">22.4<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">23.6<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">19.6<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
</tr>
<tr style="border-top: thin solid #000000;">
<td valign="top" align="left">Fed Nymph<xref ref-type="table-fn" rid="TN6"><sup>f</sup></xref></td>
<td valign="top" align="left">PBS</td>
<td valign="top" align="left">n/a</td>
<td valign="top" align="char" char=".">82.4</td>
<td valign="top" align="char" char=".">93.2</td>
<td valign="top" align="char" char=".">83.2</td>
<td valign="top" align="char" char=".">19.6</td>
<td valign="top" align="char" char=".">20.4</td>
<td valign="top" align="char" char=".">18.8</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pJSB175</td>
<td valign="top" align="left"><italic>flaBp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">31.6</td>
<td valign="top" align="char" char=".">31.6</td>
<td valign="top" align="char" char=".">30.0</td>
<td valign="top" align="char" char=".">504.8</td>
<td valign="top" align="char" char=".">1,700.8</td>
<td valign="top" align="char" char=".">881.6</td>
</tr>
<tr>
<td/>
<td/>
<td/>
<td valign="top" align="center" colspan="3">LoQ &#x0003D; 40.3</td>
<td valign="top" align="center" colspan="3">LoQ &#x0003D; 27.6</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA701</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">41.6</td>
<td valign="top" align="char" char=".">29.6<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">296.0</td>
<td valign="top" align="char" char=".">18.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">19.6<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">18.0<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA801</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; flaBp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">2,416.8</td>
<td valign="top" align="char" char=".">2,560.0</td>
<td valign="top" align="char" char=".">780.4</td>
<td valign="top" align="left">956</td>
<td valign="top" align="char" char=".">552.8</td>
<td valign="top" align="left">388</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA802</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; ospAp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">1,001.2</td>
<td valign="top" align="char" char=".">2,257.6</td>
<td valign="top" align="char" char=".">338.4</td>
<td valign="top" align="char" char=".">107.6</td>
<td valign="top" align="left">262</td>
<td valign="top" align="left">36</td>
</tr>
<tr>
<td/>
<td valign="top" align="left">pCFA803</td>
<td valign="top" align="left"><italic>flaBp-rluc<sub>Bb</sub>; ospCp-fluc<sub>Bb</sub></italic></td>
<td valign="top" align="char" char=".">1,500.8</td>
<td valign="top" align="char" char=".">1,239.6</td>
<td valign="top" align="char" char=".">34.8<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">21.2<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
<td valign="top" align="char" char=".">32.8</td>
<td valign="top" align="char" char=".">16.4<xref ref-type="table-fn" rid="TN7"><sup>&#x0002A;</sup></xref></td>
</tr>
</tbody>
</table>
<table-wrap-foot>
<fn id="TN1">
<label>a</label>
<p><italic>Relative Rluc<sub>Bb</sub> units from three independent tick extracts incubated with 3.5 mM coelenterazine</italic>.</p></fn>
<fn id="TN2">
<label>b</label>
<p><italic>Relative Fluc<sub>Bb</sub> units from three independent tick extracts incubated with 700 &#x003BC;M luciferin</italic>.</p></fn>
<fn id="TN3">
<label>c</label>
<p><italic>Not applicable</italic>.</p></fn>
<fn id="TN4">
<label>d</label>
<p><italic>Limit of Quantification (LoQ) defined as the average background signal for each assay plus 10 standard deviations</italic>.</p></fn>
<fn id="TN5">
<label>e</label>
<p><italic>Extract from groups of 24 fed larvae crushed in PBS</italic>.</p></fn>
<fn id="TN6">
<label>f</label>
<p><italic>Extract from groups of 8 fed nymphs crushed in PBS</italic>.</p></fn>
<fn id="TN7">
<label>&#x0002A;</label>
<p><italic>Samples that fell below their respective LoQ</italic>.</p></fn>
</table-wrap-foot>
</table-wrap>
<fig id="F5" position="float">
<label>Figure 5</label>
<caption><p>The dual luciferase assay quantitates known patterns of <italic>B. burgdorferi</italic> transcript expression in nymphs. <bold>(A)</bold> Groups of eight fed nymphs per <italic>B. burgdorferi</italic> clone were surface sterilized and crushed in 250 &#x003BC;l of PBS and the <italic>in vivo</italic> tick luciferase assay performed with 100 &#x003BC;l of tick extract and 700 &#x003BC;M D-luciferin or 3.5 mM coelenterazine. The data are presented as the mean relative Fluc<sub>Bb</sub> units per 10<sup>8</sup> relative Rluc<sub>Bb</sub> units &#x000B1; standard deviation (<italic>n</italic> &#x0003D; 3; <italic>B. burgdorferi</italic> carrying pCFA803 <italic>n</italic> &#x0003D; 2). <bold>(B)</bold> Relative Rluc<sub>Bb</sub> luciferase activity is reflective of spirochete numbers in extracts from fed infected nymphs. 1 &#x003BC;l of fed nymph extract was plated for CFUs in solid BSKII containing RPA cocktail and 50 &#x003BC;g/ml streptomycin. The number of CFUs/100 &#x003BC;l of tick extract (CFUs) was plotted against the relative Rluc<sub>Bb</sub> units for the same extract. The red dotted line indicates the established LoQ for relative Rluc<sub>Bb</sub> units. Black symbols represent extracts with quantifiable relative Rluc<sub>Bb</sub> units and red symbols represent extracts with non-quantifiable Rluc<sub>Bb</sub> units. A nymph extract with no detectable CFU (CFU &#x0003D; 0) is represented as the data point on the Y-axis. A significant positive correlation was detected between CFU and relative Rluc<sub>Bb</sub> units (Pearson coefficient, <italic>r</italic> &#x0003D; 0.8022, <italic>p</italic> &#x0003D; 0.0017).</p></caption>
<graphic xlink:href="fcimb-07-00225-g0005.tif"/>
</fig>
<p>As an additional means to validate the method as well as to demonstrate that relative Rluc<sub>Bb</sub> units are directly reflective of spirochete numbers in the infected tick samples, a portion of each sample from the fed infected nymphs used for Rluc<sub>Bb</sub> and Fluc<sub>Bb</sub> quantitation (Table <xref ref-type="table" rid="T2">2</xref>, Figure <xref ref-type="fig" rid="F5">5A</xref>), was plated in solid BSKII medium for determination of <italic>B. burgdorferi</italic> CFUs. The average CFUs per 100 &#x003BC;l of tick extract, the same volume used for the dual luciferase assay, across all clones, was found to be 3.72 &#x000D7; 10<sup>5</sup> spirochetes. These data support our rationalization for the use of 8 fed nymphs in the assay. Raw relative Rluc<sub>Bb</sub> units (Table <xref ref-type="table" rid="T2">2</xref>) for these samples plotted against their corresponding CFU counts demonstrated a significant positive correlation (Figure <xref ref-type="fig" rid="F5">5B</xref>). Furthermore, this analysis indicated that 1.2 &#x000D7; 10<sup>3</sup> spirochetes are sufficient to generate relative Rluc<sub>Bb</sub> units above the LoQ for the <italic>in vivo</italic> tick assay, which is similar to the sensitivity we observed for the <italic>in vitro</italic> assay. Collectively, we have described a valuable new method to determine the activity of <italic>B. burgdorferi</italic> promoters of interest under <italic>in vitro</italic> growth conditions and in infected ticks. This is the first application of a dual reporter system for <italic>B. burgdorferi</italic> and, to the best of our knowledge, the first quantification of spirochete promoter activities in the tick vector.</p>
</sec>
</sec>
<sec sec-type="discussion" id="s4">
<title>Discussion</title>
<p>Promoter fusion reporter systems are elegant, simple, and powerful tools to quantitate bacterial promoter activities in environments of interest. Herein we have established a new dual luciferase reporter method using the <italic>Renilla</italic> (sea pansy) and <italic>Photinus</italic> (firefly) luciferase enzymes for measurement of <italic>B. burgdorferi</italic> promoter activities <italic>in vitro</italic> and in the feeding tick during spirochete acquisition from an infected vertebrate host and transmission to a na&#x000EF;ve vertebrate host. We demonstrate that constitutive expression of the <italic>B. burgdorferi</italic> codon-optimized <italic>Renilla</italic> luciferase gene (<italic>rluc</italic><sub><italic>Bb</italic></sub>) is a specific and sensitive measurement of spirochete numbers for normalization of <italic>Photinus</italic> luciferase gene (<italic>fluc</italic><sub><italic>Bb</italic></sub>) expression under the control of a promoter of interest.</p>
<p>Several reporter genes have been applied to <italic>B. burgdorferi</italic> including chloramphenicol acetyl transferase (<italic>cat</italic>) (Sohaskey et al., <xref ref-type="bibr" rid="B53">1997</xref>), genes encoding a variety of fluorescent proteins (Eggers et al., <xref ref-type="bibr" rid="B20">2002</xref>; Carroll et al., <xref ref-type="bibr" rid="B13">2003</xref>; Schulze and Zuckert, <xref ref-type="bibr" rid="B45">2006</xref>), the <italic>Photinus pyralis</italic> luciferase gene (<italic>fluc</italic><sub><italic>Bb</italic></sub>) (Blevins et al., <xref ref-type="bibr" rid="B9">2007</xref>), and <italic>lacZ</italic> encoding &#x003B2;-galactosidase (<italic>lacZ</italic><sub><italic>Bb</italic></sub>) (Hayes et al., <xref ref-type="bibr" rid="B26">2010</xref>). Here we describe the first use of a dual reporter system for <italic>B. burgdorferi</italic>. The combined application of the <italic>Renilla</italic> and <italic>Photinus</italic> luciferase genes has several advantages compared to other <italic>B. burgdorferi</italic> reporter systems as well as other methods of gene expression quantitation such as RT-qPCR. No sample extraction or purification is required to achieve detectable bioluminescence signals, allowing for rapid assay read out with little sample manipulation. Our data indicate that the <italic>rluc</italic><sub><italic>Bb</italic></sub> gene under the control of the strong, constitutive <italic>flaB</italic> promoter results in relative Rluc<sub>Bb</sub> units reflective of the number of live spirochetes. This allows relative Rluc<sub>Bb</sub> units to serve as the endogenous control against which the relative luciferase units of promoter fusions to <italic>fluc</italic><sub><italic>Bb</italic></sub> on the same plasmid, in the same sample, can be normalized. It is even possible to measure Fluc<sub>Bb</sub> and Rluc<sub>Bb</sub> signals back-to-back in the same assay well using firefly luciferase quenching reagents, such as Stop &#x00026; Glo by Promega (McNabb et al., <xref ref-type="bibr" rid="B35">2005</xref>) and therefore little sample material is required. Use of optical density at 600 nm (OD<sub>600</sub>) to quantitate sample turbidity as a measure of cell number does not distinguish between live and dead cells in the sample and therefore may not accurately reflect the number of live cells that contribute to the bioluminescence signal. Furthermore, OD<sub>600</sub> cannot be used for complex biological samples such as extracts from fed ticks. We demonstrate a significant positive correlation between relative Rluc<sub>Bb</sub> units and numbers of live spirochetes both <italic>in vitro</italic> and in ticks. The <italic>B. burgdorferi</italic> clone containing pCFA802 exhibited statistically different relative Rluc<sub>Bb</sub> units <italic>in vitro</italic> when normalized to OD<sub>600</sub> compared to the other clones. However, the relative Fluc<sub>Bb</sub> units/10<sup>8</sup> relative Rluc<sub>Bb</sub> units for this clone followed the expected pattern of <italic>ospA</italic> expression <italic>in vitro</italic> and in nymphs. Furthermore, the relative Rluc<sub>Bb</sub> units for spirochetes carrying pCFA802 correlated to the number of live spirochetes in fed nymph extracts from this clone, suggesting that the observed difference may not result in a biologically significant effect. Utilizing <italic>flaBp-rluc</italic><sub>Bb</sub> as an endogenous constitutive control provides new opportunities for the development of novel high-throughput genetic screening approaches. DNA libraries engineered to drive expression of <italic>fluc</italic><sub>Bb</sub> could be effectively screened for active promoters in various growth conditions of interest and relative Fluc<sub>Bb</sub> units normalized to relative Rluc<sub>Bb</sub> units. Further, the dual luciferase reporter plasmid can be manipulated to engineer Fluc<sub>Bb</sub> translational fusions to quantitate protein production and stability in growth conditions of interest. An additional important benefit of the dual luciferase reporter assay is the ability to quantitate the promoter activity of a transcript in a strand-specific manner. We and others have recently reported recognition of novel RNA transcripts in the <italic>B. burgdorferi</italic> genome (Arnold et al., <xref ref-type="bibr" rid="B6">2016</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>; Popitsch et al., <xref ref-type="bibr" rid="B37">2017</xref>). Through global 5&#x02032; end mapping of the <italic>B. burgdorferi</italic> transcriptome, we have predicted promoter sequences for previously unannotated RNAs, including antisense and intragenic transcripts, and validated their activities in a variety of environments (Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). Application of the dual luciferase reporter system now provides a robust means for quantitative comparative analysis of strand-specific <italic>B. burgdorferi</italic> transcription in complex regions of the genome at the tick-pathogen interface.</p>
<p>For the correct interpretation of molecular techniques it is important to define the lowest level of a measurement, in this case relative luciferase units, which can be reliably analyzed. The limit of detection (LoD) is the lowest amount of measurable signal above background and the limit of quantification (LoQ) signifies the lowest interpretable signal above background. Effective use of LoD and LoQ are based off the standard deviation (SD) of background readings and assume at least 95% of analyzed values are true measurements in the biological assay (Armbruster and Pry, <xref ref-type="bibr" rid="B5">2008</xref>). We have stringently defined LoD as the mean<sub>background RLUs</sub>&#x0002B; 3SD and LoQ as the mean<sub>background RLUs</sub> &#x0002B; 10SD. Thereby LoQ should be calculated for each luciferase substrate and each independent application of the <italic>B. burgdorferi</italic> dual luciferase assay to best distinguish low but quantifiable bioluminescence signals from background. It is also important to define the appropriate background controls in the context of the assay. Indeed, our studies have demonstrated that background relative Rluc<sub>Bb</sub> units were &#x0007E;60% decreased in fed tick extracts compared to PBS alone. Therefore, extracts from fed ticks infected with <italic>B. burgdorferi</italic> lacking <italic>rluc</italic><sub>Bb</sub> expression (&#x0002B;pJSB175) served as the background control to calculate the LoQ for Rluc<sub>Bb</sub> in ticks. Conversely, this was not observed for the background relative Fluc<sub>Bb</sub> units for fed tick extracts and PBS alone served as the negative control for these measurements. We hypothesize that the biological matrix of the fed tick extracts contributes, in part, to alteration of the Rluc<sub>Bb</sub> signal by inhibiting non-specific activation of the coelenterazine substrate.</p>
<p>We found that not all samples with quantifiable relative Rluc<sub>Bb</sub> units, also had quantifiable relative Fluc<sub>Bb</sub> units. In some cases, the finding that a promoter fusion has non-quantifiable relative Fluc<sub>Bb</sub> units may accurately reflect the weak to no biological activity of that promoter in a particular environment and/or non-quantifiable relative Fluc<sub>Bb</sub> units may result from low numbers of spirochetes, albeit quantifiable relative Rluc<sub>Bb</sub> units. These challenges may be overcome by increasing the number of spirochetes used in the assay. This is evident in the data we present for the <italic>in vivo</italic> tick assay, in which the fed larvae samples for all <italic>B. burgdorferi</italic> clones achieved quantifiable relative Rluc<sub>Bb</sub> units; however, the clone containing <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA801), but not the clones containing <italic>ospAp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA802) or the <italic>ospCp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA803), produced quantifiable relative Fluc<sub>Bb</sub> units. This finding was not surprising for the <italic>ospC</italic> promoter, given that the <italic>ospC</italic> transcript is known to have weak to no activity in fed larvae following <italic>B. burgdorferi</italic> acquisition from infected mice. This finding was, however, unexpected for the <italic>ospA</italic> promoter, whose transcript is known to have strong activity in this environment (Caimano et al., <xref ref-type="bibr" rid="B12">2015</xref>). Yet, the average number of spirochetes in the <italic>ospAp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA802) and <italic>ospCp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA803) containing clone extracts, as reflected by the average relative Rluc<sub>Bb</sub> units (1.6 &#x000D7; 10<sup>2</sup> and 3.1 &#x000D7; 10<sup>2</sup>, respectively), were approximately 10-fold and 4-fold less than that of the <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> (&#x0002B;pCFA801) containing clone (1.1 &#x000D7; 10<sup>3</sup>), suggesting that spirochete number may contribute, in part, to the non-quantifiable relative Fluc<sub>Bb</sub> units for these spirochetes. In contrast, the fed nymph extracts contained comparable average numbers of spirochetes regardless of the clone, as reflected by both the average relative Rluc<sub>Bb</sub> units (1.5 &#x000D7; 10<sup>3</sup> &#x000B1; 380) and CFU counts (4.4 &#x000D7; 10<sup>5</sup> &#x000B1; 2.2 &#x000D7; 10<sup>5</sup>) and all <italic>fluc</italic><sub><italic>Bb</italic></sub> promoter fusions achieved quantifiable relative Fluc<sub>Bb</sub> units. Furthermore, while it was one of our goals to measure promoter activities for spirochetes in unfed-flat nymphs post-molt, we found the luciferase signals for these samples to be below the limit of quantification of our assay. We again hypothesize that the spirochete loads in the ticks at this point in the infectious cycle may be below the number of spirochetes necessary for the assay. To examine this possibility we crushed and plated for CFU a subset of individual unfed nymphs infected with spirochetes carrying both <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> and <italic>flaBp-fluc</italic><sub><italic>Bb</italic></sub> (pCFA801). The average spirochete load was determined to be &#x0007E;27 spirochetes/unfed nymph. This was approximately 10-fold lower than the average spirochete load in the fed larval ticks for the same clone (&#x0007E;4.4 &#x000D7; 10<sup>2</sup> spirochetes/fed larvae) and approximately 10,000-fold lower than that of fed nymphs (&#x0007E;1.6 &#x000D7; 10<sup>5</sup> spirochetes/fed nymph). Considering that pools of 24 fed larvae and 8 fed nymphs, and therefore &#x0007E;10<sup>4</sup> and &#x0007E;10<sup>6</sup> spirochetes carrying pCFA801, respectively, were used for the luciferase assays, nearly 400 up to 40,000 unfed nymphs would be required to achieve equivalent relative luciferase units. The difficulties of studying <italic>B. burgdorferi</italic> transcription in unfed nymphs was also shown by a recent microarray study, where even with an amplification step, transcript analysis in this tick life-stage was precluded (Iyer et al., <xref ref-type="bibr" rid="B28">2015</xref>). RT-qPCR does remain an alternative approach for gene expression analysis in unfed nymphs, having several documented successes in determining <italic>B. burgdorferi</italic> transcript levels (Wang et al., <xref ref-type="bibr" rid="B58">2002</xref>; Bykowski et al., <xref ref-type="bibr" rid="B10">2007</xref>; Showman et al., <xref ref-type="bibr" rid="B51">2016</xref>), albeit lacking strand specificity. It should be noted that the endogenous copies of the <italic>flaB, ospA</italic>, and <italic>ospC</italic> genes and their promoters are present in the genetic background of all of the <italic>B. burgdorferi</italic> clones that were analyzed. This raises the possibility that a reduction in Fluc<sub>Bb</sub> or Rluc<sub>Bb</sub> signals could have occurred due to titration of transcription factors away from the promoter fusions by the endogenous promoters. However, expression of <italic>flaB, ospA</italic>, and <italic>ospC</italic> are essential for survival of <italic>B. burgdorferi</italic> throughout its infectious cycle (Samuels, <xref ref-type="bibr" rid="B43">2011</xref>; Sultan et al., <xref ref-type="bibr" rid="B55">2013</xref>) and thus these experiments could not be conducted in the absence of these genes.</p>
<p>While dual <italic>fluc</italic> and <italic>rluc</italic> reporter systems have been used successfully for live imaging and quantitation of eukaryotic tumor cells in mice (Bhaumik and Gambhir, <xref ref-type="bibr" rid="B8">2002</xref>), the use of <italic>Renilla</italic> luciferase and the coelenterazine substrate for live imaging of microbial infections in mice has proven challenging (Andreu et al., <xref ref-type="bibr" rid="B4">2011</xref>) and few publications report exploration of the use of dual <italic>Renilla</italic> and <italic>Photinus</italic> luciferase reporters in the context of infectious disease applications. There is great interest in applying a luciferase dual reporter system to quantification of <italic>B. burgdorferi</italic> promoter activities during an active mammalian infection. We and others have demonstrated the power of the <italic>fluc</italic><sub><italic>Bb</italic></sub> reporter for tracking <italic>B. burgdorferi</italic> dissemination and qualitative detection of promoter activities over time in live mice (Hyde et al., <xref ref-type="bibr" rid="B27">2011</xref>; Chan et al., <xref ref-type="bibr" rid="B15">2015</xref>; Adams et al., <xref ref-type="bibr" rid="B1">2017</xref>). By extension we investigated the efficacy of the dual luciferase reporter system for live imaging applications with <italic>B. burgdorferi</italic> in infected mice. Exhaustive examination of available coelenterazine substrates including: h-Coelenterazine-SOL <italic>in vivo</italic> (NanoLight), Inject-A-Lume h-Coelenterazine (NanoLight), ViviRen&#x02122; <italic>in vivo</italic> Renilla Luciferase Substrate (Promega), and XenoLight RediJect Coelenterazine h (PerkinElmer) as well as various substrate concentrations, substrate injection methods and imaging times, resulted in no significant Rluc<sub>Bb</sub> signals above background (data not shown). Unlike for applications for solid cancers, use of luciferase substrates for <italic>in vivo</italic> detection of microbial pathogens relies on the substrates to be available in excess, systemically throughout the animal. Luciferin has been documented to rapidly distribute throughout the mouse (Contag et al., <xref ref-type="bibr" rid="B16">1997</xref>), but the bioavailability of coelenterazine may be more limited (Luker et al., <xref ref-type="bibr" rid="B33">2002</xref>). In addition, we found coelenterazine to have an extraordinary high background signal. Indeed, Rluc<sub>Bb</sub> signals following coelenterazine delivery were observed for mice infected with spirochetes lacking <italic>rluc</italic><sub><italic>Bb</italic></sub> entirely, which were not able to be overcome in mice infected with spirochetes expressing <italic>flaBp-rluc</italic><sub><italic>Bb</italic></sub> (data not shown). These findings are consistent with what has been reported for attempted <italic>in vivo</italic> imaging applications using coelenterazine and <italic>Mycobacterium smegmatis</italic> expressing <italic>Gaussia</italic> luciferase (Andreu et al., <xref ref-type="bibr" rid="B3">2010</xref>). Rather, alternative methods of normalization may be used, such as determining spirochete loads of infected tissues immediately following Fluc<sub>Bb</sub> imaging (Skare et al., <xref ref-type="bibr" rid="B52">2016</xref>), in instances where quantification of promoter activity during murine infection is warranted.</p>
<p><italic>B. burgdorferi</italic> has been shown to colonize <italic>Ixodes scapularis</italic> via a biphasic mode of dissemination which is believed to involve complex interactions between the pathogen and the arthropod vector (Dunham-Ems et al., <xref ref-type="bibr" rid="B19">2009</xref>). We are still discovering many of the mechanisms <italic>B. burgdorferi</italic> employs to survive throughout its enzootic cycle. Additionally, the recently sequenced <italic>Ixodes scapularis</italic> genome opens new areas of study for host-pathogen interactions (Gulia-Nuss et al., <xref ref-type="bibr" rid="B25">2016</xref>). Successful and reliable techniques for analysis of spirochete biology in the tick are critical to drive understanding of these interactions. The dual luciferase system presented here is a simple and powerful approach for measuring transcript expression, which can be easily modified to meet the needs of the researcher and adds to the ever growing molecular genetic toolbox for investigation of <italic>B. burgdorferi</italic> transcription and gene regulation.</p>
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<title>Author contributions</title>
<p>PA and MJ conceived the study and designed experiments; PA and CF performed experiments; PA, CF, and MJ interpreted results; PA and MJ wrote the manuscript; all authors critiqued and edited the final manuscript.</p>
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<title>Conflict of interest statement</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>
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<ack><p>The authors would like to thank Dr. Travis Jewett, Dr. George Aranjuez, and members of the M. Jewett lab for helpful insight, discussion, and critical analysis of the work. Thanks to Chrysta Olsen, James Grant, and the UCF NAF animal care staff. Thank you Dr. Kyle Rhode for use of his plate reader, Valacia Titus and Adriana Romero for technical assistance. The authors wish to acknowledge Dr. Jon Blevins and Dr. Michael Norgard for generously providing the pJSB161 and pJSB175 vectors. The following reagent was provided by Centers for Disease Control and Prevention for distribution by BEI Resources, NIAID, NIH: <italic>Ixodes scapularis</italic> Larvae (Live), NR-44115.</p>
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<fn-group>
<fn fn-type="financial-disclosure">
<p><bold>Funding.</bold> This work was supported by the National Institute of Allergy and Infectious Diseases of the National Institute of Health (R01AI099094 to MJ) and the National Research Fund for Tick-Borne Diseases (MJ).</p>
</fn>
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