Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3
Several probiotic-marketed formulations available for the consumers contain live lactic acid bacteria and/or bifidobacteria. The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains prese...
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| Veröffentlicht in: | PloS one 2018-02, Vol.13 (2), p.e0192452-e0192452 |
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| creator | Douillard, François P Mora, Diego Eijlander, Robyn T Wels, Michiel de Vos, Willem M |
| description | Several probiotic-marketed formulations available for the consumers contain live lactic acid bacteria and/or bifidobacteria. The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains present in VSL#3 have only been characterized to a limited extent and their efficacy as well as their predicted mode of action remain unclear, preventing further applications or comparative studies. In this work, the genomes of all eight bacterial strains present in VSL#3 were sequenced and characterized, to advance insights into the possible mode of action of this product and also to serve as a basis for future work and trials. Phylogenetic and genomic data analysis allowed us to identify the 7 species present in the VSL#3 product as specified by the manufacturer. The 8 strains present belong to the species Streptococcus thermophilus, Lactobacillus acidophilus, Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillus helveticus, Bifidobacterium breve and B. animalis subsp. lactis (two distinct strains). Comparative genomics revealed that the draft genomes of the S. thermophilus and L. helveticus strains were predicted to encode most of the defence systems such as restriction modification and CRISPR-Cas systems. Genes associated with a variety of potential probiotic functions were also identified. Thus, in the three Bifidobacterium spp., gene clusters were predicted to encode tight adherence pili, known to promote bacteria-host interaction and intestinal barrier integrity, and to impact host cell development. Various repertoires of putative signalling proteins were predicted to be encoded by the genomes of the Lactobacillus spp., i.e. surface layer proteins, LPXTG-containing proteins, or sortase-dependent pili that may interact with the intestinal mucosa and dendritic cells. Taken altogether, the individual genomic characterization of the strains present in the VSL#3 product confirmed the product specifications, determined its coding capacity as well as identified potential probiotic functions. |
| doi_str_mv | 10.1371/journal.pone.0192452 |
| format | Article |
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The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains present in VSL#3 have only been characterized to a limited extent and their efficacy as well as their predicted mode of action remain unclear, preventing further applications or comparative studies. In this work, the genomes of all eight bacterial strains present in VSL#3 were sequenced and characterized, to advance insights into the possible mode of action of this product and also to serve as a basis for future work and trials. Phylogenetic and genomic data analysis allowed us to identify the 7 species present in the VSL#3 product as specified by the manufacturer. The 8 strains present belong to the species Streptococcus thermophilus, Lactobacillus acidophilus, Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillus helveticus, Bifidobacterium breve and B. animalis subsp. lactis (two distinct strains). Comparative genomics revealed that the draft genomes of the S. thermophilus and L. helveticus strains were predicted to encode most of the defence systems such as restriction modification and CRISPR-Cas systems. Genes associated with a variety of potential probiotic functions were also identified. Thus, in the three Bifidobacterium spp., gene clusters were predicted to encode tight adherence pili, known to promote bacteria-host interaction and intestinal barrier integrity, and to impact host cell development. Various repertoires of putative signalling proteins were predicted to be encoded by the genomes of the Lactobacillus spp., i.e. surface layer proteins, LPXTG-containing proteins, or sortase-dependent pili that may interact with the intestinal mucosa and dendritic cells. Taken altogether, the individual genomic characterization of the strains present in the VSL#3 product confirmed the product specifications, determined its coding capacity as well as identified potential probiotic functions.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0192452</identifier><identifier>PMID: 29451876</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Bacteria ; Bacterial Adhesion ; Bifidobacterium - classification ; Bifidobacterium - genetics ; Biology and Life Sciences ; Care and treatment ; Commercialization ; Comparative analysis ; Comparative studies ; CRISPR ; CRISPR-Cas Systems ; Data analysis ; Data processing ; Dendritic cells ; Disease ; Ecology and Environmental Sciences ; Formulations ; Gastrointestinal diseases ; Gene clusters ; Genetic aspects ; Genome, Bacterial ; Genomes ; Genomic analysis ; Genomics ; Gram-positive bacteria ; Humans ; Inflammatory bowel disease ; Intestinal Mucosa - microbiology ; Intestine ; Laboratories ; Laboratorium voor Microbiologie ; Lactic acid ; Lactic acid bacteria ; Lactobacilli ; Lactobacillus ; Lactobacillus - classification ; Lactobacillus - genetics ; Lactobacillus acidophilus ; Lactobacillus acidophilus - classification ; Lactobacillus acidophilus - genetics ; Lactobacillus helveticus ; Lactobacillus paracasei ; Lactobacillus paracasei - classification ; Lactobacillus paracasei - genetics ; Lactobacillus plantarum ; Lactobacillus plantarum - classification ; Lactobacillus plantarum - genetics ; Lactobacillus rhamnosus ; Medicine and Health Sciences ; Microbial Sensitivity Tests ; Microbiological Laboratory ; Microbiologie ; Microbiology ; Mode of action ; Mucosa ; Phylogeny ; Physiological aspects ; Pili ; Probiotics ; Probiotics - classification ; Product specifications ; Proteins ; Research and Analysis Methods ; Signaling ; Sortase ; Strains (organisms) ; Streptococcus salivarius ; Surface boundary layer ; Trends ; VLAG ; WIMEK ; Yogurt</subject><ispartof>PloS one, 2018-02, Vol.13 (2), p.e0192452-e0192452</ispartof><rights>COPYRIGHT 2018 Public Library of Science</rights><rights>2018 Douillard et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2018 Douillard et al 2018 Douillard et al</rights><rights>Wageningen University & Research</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c743t-ec82999f13761d118b631331ea692a4dc8d54f6700ea541ffeb0eccc504a8ab83</citedby><cites>FETCH-LOGICAL-c743t-ec82999f13761d118b631331ea692a4dc8d54f6700ea541ffeb0eccc504a8ab83</cites><orcidid>0000-0001-7201-6907</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5815585/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5815585/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,864,885,2102,2928,23866,27924,27925,53791,53793,79600,79601</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29451876$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Cocolin, Luca</contributor><creatorcontrib>Douillard, François P</creatorcontrib><creatorcontrib>Mora, Diego</creatorcontrib><creatorcontrib>Eijlander, Robyn T</creatorcontrib><creatorcontrib>Wels, Michiel</creatorcontrib><creatorcontrib>de Vos, Willem M</creatorcontrib><title>Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Several probiotic-marketed formulations available for the consumers contain live lactic acid bacteria and/or bifidobacteria. The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains present in VSL#3 have only been characterized to a limited extent and their efficacy as well as their predicted mode of action remain unclear, preventing further applications or comparative studies. In this work, the genomes of all eight bacterial strains present in VSL#3 were sequenced and characterized, to advance insights into the possible mode of action of this product and also to serve as a basis for future work and trials. Phylogenetic and genomic data analysis allowed us to identify the 7 species present in the VSL#3 product as specified by the manufacturer. The 8 strains present belong to the species Streptococcus thermophilus, Lactobacillus acidophilus, Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillus helveticus, Bifidobacterium breve and B. animalis subsp. lactis (two distinct strains). Comparative genomics revealed that the draft genomes of the S. thermophilus and L. helveticus strains were predicted to encode most of the defence systems such as restriction modification and CRISPR-Cas systems. Genes associated with a variety of potential probiotic functions were also identified. Thus, in the three Bifidobacterium spp., gene clusters were predicted to encode tight adherence pili, known to promote bacteria-host interaction and intestinal barrier integrity, and to impact host cell development. Various repertoires of putative signalling proteins were predicted to be encoded by the genomes of the Lactobacillus spp., i.e. surface layer proteins, LPXTG-containing proteins, or sortase-dependent pili that may interact with the intestinal mucosa and dendritic cells. Taken altogether, the individual genomic characterization of the strains present in the VSL#3 product confirmed the product specifications, determined its coding capacity as well as identified potential probiotic functions.</description><subject>Bacteria</subject><subject>Bacterial Adhesion</subject><subject>Bifidobacterium - classification</subject><subject>Bifidobacterium - genetics</subject><subject>Biology and Life Sciences</subject><subject>Care and treatment</subject><subject>Commercialization</subject><subject>Comparative analysis</subject><subject>Comparative studies</subject><subject>CRISPR</subject><subject>CRISPR-Cas Systems</subject><subject>Data analysis</subject><subject>Data processing</subject><subject>Dendritic cells</subject><subject>Disease</subject><subject>Ecology and Environmental Sciences</subject><subject>Formulations</subject><subject>Gastrointestinal diseases</subject><subject>Gene clusters</subject><subject>Genetic aspects</subject><subject>Genome, Bacterial</subject><subject>Genomes</subject><subject>Genomic analysis</subject><subject>Genomics</subject><subject>Gram-positive bacteria</subject><subject>Humans</subject><subject>Inflammatory bowel disease</subject><subject>Intestinal Mucosa - microbiology</subject><subject>Intestine</subject><subject>Laboratories</subject><subject>Laboratorium voor Microbiologie</subject><subject>Lactic acid</subject><subject>Lactic acid bacteria</subject><subject>Lactobacilli</subject><subject>Lactobacillus</subject><subject>Lactobacillus - classification</subject><subject>Lactobacillus - genetics</subject><subject>Lactobacillus acidophilus</subject><subject>Lactobacillus acidophilus - classification</subject><subject>Lactobacillus acidophilus - genetics</subject><subject>Lactobacillus helveticus</subject><subject>Lactobacillus paracasei</subject><subject>Lactobacillus paracasei - classification</subject><subject>Lactobacillus paracasei - genetics</subject><subject>Lactobacillus plantarum</subject><subject>Lactobacillus plantarum - classification</subject><subject>Lactobacillus plantarum - genetics</subject><subject>Lactobacillus rhamnosus</subject><subject>Medicine and Health Sciences</subject><subject>Microbial Sensitivity Tests</subject><subject>Microbiological Laboratory</subject><subject>Microbiologie</subject><subject>Microbiology</subject><subject>Mode of action</subject><subject>Mucosa</subject><subject>Phylogeny</subject><subject>Physiological aspects</subject><subject>Pili</subject><subject>Probiotics</subject><subject>Probiotics - classification</subject><subject>Product specifications</subject><subject>Proteins</subject><subject>Research and Analysis Methods</subject><subject>Signaling</subject><subject>Sortase</subject><subject>Strains (organisms)</subject><subject>Streptococcus salivarius</subject><subject>Surface boundary layer</subject><subject>Trends</subject><subject>VLAG</subject><subject>WIMEK</subject><subject>Yogurt</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>DOA</sourceid><recordid>eNqNk11v0zAUhiMEYmPwDxBEmoTgosWO7cThAmmq-KhUaYLBbi3HOWk93DjYzsb-PU6bTQ3aBYpkR8fPeXPOG58keYnRHJMCv7-yvWulmXe2hTnCZUZZ9ig5xiXJZnmGyOOD96PkmfdXCDHC8_xpcpSVlGFe5MfJt4XddtLJoK8hXUNrt1qlMureeu1T26RhA-m2N0H7DpQGn3bOVtoGrWZb6X5BgHoI1b0K6eXF6pQ8T5400nh4Me4nyc_Pn34svs5W51-Wi7PVTBWUhBkonpVl2cReclxjzKucYEIwyLzMJK0Vrxlt8gIhkIzipoEKgVKKISq5rDg5SV7vdTtjvRjd8CJDKMtpyTmNxHJP1FZeic7pWPCtsFKLXcC6tZAuNmJAlBmLpTQKCKpojvOyqKGukKxZxRtZV1Hrw17rRkaXdBsX0UqntN8JGl25Qfymd6I1w9b1lReMUFKgmPxxLLWvtlAraIOTZlLR9KTVG7G214JxzBhnUeDtKODs7x58EFvtFRgjW7D9rmmCaImLIqKn_6APWzNSaxm7121j43fVICrOWFZwGg0ZLJ4_QMWnhnhN4r1rdIxPEt5NEiIT4E9Yy957sbz4_v_s-eWUfXPAbkCasPHW9EHb1k9BugeVs947aO5NxkgMY3PnhhjGRoxjE9NeHf6g-6S7OSF_AXOQFKo</recordid><startdate>20180216</startdate><enddate>20180216</enddate><creator>Douillard, François P</creator><creator>Mora, Diego</creator><creator>Eijlander, Robyn T</creator><creator>Wels, Michiel</creator><creator>de Vos, Willem M</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>QVL</scope><scope>DOA</scope><orcidid>https://orcid.org/0000-0001-7201-6907</orcidid></search><sort><creationdate>20180216</creationdate><title>Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3</title><author>Douillard, François P ; Mora, Diego ; Eijlander, Robyn T ; Wels, Michiel ; de Vos, Willem M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c743t-ec82999f13761d118b631331ea692a4dc8d54f6700ea541ffeb0eccc504a8ab83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Bacteria</topic><topic>Bacterial Adhesion</topic><topic>Bifidobacterium - 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Academic</collection><collection>ProQuest Engineering Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Engineering Database</collection><collection>Nursing & Allied Health Premium</collection><collection>Advanced Technologies & Aerospace Database</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental Science Database</collection><collection>Materials Science Collection</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Engineering Collection</collection><collection>Environmental Science Collection</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>NARCIS:Publications</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Douillard, François P</au><au>Mora, Diego</au><au>Eijlander, Robyn T</au><au>Wels, Michiel</au><au>de Vos, Willem M</au><au>Cocolin, Luca</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2018-02-16</date><risdate>2018</risdate><volume>13</volume><issue>2</issue><spage>e0192452</spage><epage>e0192452</epage><pages>e0192452-e0192452</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Several probiotic-marketed formulations available for the consumers contain live lactic acid bacteria and/or bifidobacteria. The multispecies product commercialized as VSL#3 has been used for treating various gastro-intestinal disorders. However, like many other products, the bacterial strains present in VSL#3 have only been characterized to a limited extent and their efficacy as well as their predicted mode of action remain unclear, preventing further applications or comparative studies. In this work, the genomes of all eight bacterial strains present in VSL#3 were sequenced and characterized, to advance insights into the possible mode of action of this product and also to serve as a basis for future work and trials. Phylogenetic and genomic data analysis allowed us to identify the 7 species present in the VSL#3 product as specified by the manufacturer. The 8 strains present belong to the species Streptococcus thermophilus, Lactobacillus acidophilus, Lactobacillus paracasei, Lactobacillus plantarum, Lactobacillus helveticus, Bifidobacterium breve and B. animalis subsp. lactis (two distinct strains). Comparative genomics revealed that the draft genomes of the S. thermophilus and L. helveticus strains were predicted to encode most of the defence systems such as restriction modification and CRISPR-Cas systems. Genes associated with a variety of potential probiotic functions were also identified. Thus, in the three Bifidobacterium spp., gene clusters were predicted to encode tight adherence pili, known to promote bacteria-host interaction and intestinal barrier integrity, and to impact host cell development. Various repertoires of putative signalling proteins were predicted to be encoded by the genomes of the Lactobacillus spp., i.e. surface layer proteins, LPXTG-containing proteins, or sortase-dependent pili that may interact with the intestinal mucosa and dendritic cells. Taken altogether, the individual genomic characterization of the strains present in the VSL#3 product confirmed the product specifications, determined its coding capacity as well as identified potential probiotic functions.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>29451876</pmid><doi>10.1371/journal.pone.0192452</doi><tpages>e0192452</tpages><orcidid>https://orcid.org/0000-0001-7201-6907</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2018-02, Vol.13 (2), p.e0192452-e0192452 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_2002649884 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Public Library of Science (PLoS); PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Bacteria Bacterial Adhesion Bifidobacterium - classification Bifidobacterium - genetics Biology and Life Sciences Care and treatment Commercialization Comparative analysis Comparative studies CRISPR CRISPR-Cas Systems Data analysis Data processing Dendritic cells Disease Ecology and Environmental Sciences Formulations Gastrointestinal diseases Gene clusters Genetic aspects Genome, Bacterial Genomes Genomic analysis Genomics Gram-positive bacteria Humans Inflammatory bowel disease Intestinal Mucosa - microbiology Intestine Laboratories Laboratorium voor Microbiologie Lactic acid Lactic acid bacteria Lactobacilli Lactobacillus Lactobacillus - classification Lactobacillus - genetics Lactobacillus acidophilus Lactobacillus acidophilus - classification Lactobacillus acidophilus - genetics Lactobacillus helveticus Lactobacillus paracasei Lactobacillus paracasei - classification Lactobacillus paracasei - genetics Lactobacillus plantarum Lactobacillus plantarum - classification Lactobacillus plantarum - genetics Lactobacillus rhamnosus Medicine and Health Sciences Microbial Sensitivity Tests Microbiological Laboratory Microbiologie Microbiology Mode of action Mucosa Phylogeny Physiological aspects Pili Probiotics Probiotics - classification Product specifications Proteins Research and Analysis Methods Signaling Sortase Strains (organisms) Streptococcus salivarius Surface boundary layer Trends VLAG WIMEK Yogurt |
| title | Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3 |
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