214 lines
22 KiB
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214 lines
22 KiB
XML
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<mods:title id="4FA3DDD61A95718A1ACA4251B132BE38">A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae</mods:title>
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<mods:namePart id="8B0CA54D5DC571A3FDC1E1D9344DAE19">Zheng, Jinshui</mods:namePart>
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<mods:namePart id="4DD7D7EAE7B50175BE7D889634F758A2">Mattarelli, Paola</mods:namePart>
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<mods:namePart id="EB7003B3BEEE98A4C1C091DE899B89BE">Pot, Bruno</mods:namePart>
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<mods:namePart id="7D0DBAA77B4FE09B59A0DFADD586F5DB">Watanabe, Koichi</mods:namePart>
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<mods:namePart id="788B77FA962495702093844217CA62C9">Wuyts, Sander</mods:namePart>
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<mods:namePart id="A565E1BA976BEB243D874A9679B38468">Felis, Giovanna E.</mods:namePart>
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<mods:namePart id="5DE43E71BB3C9E312EE567D62CDC9F73">Gänzle, Michael G.</mods:namePart>
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<mods:namePart id="DEC9509660050FBF7F2FF322F9AC8ABE">Lebeer, Sarah</mods:namePart>
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<mods:title id="651A81912269FD77B5717EABFED4D22A">International Journal of Systematic and Evolutionary Microbiology</mods:title>
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<mods:part id="82BC2139251184A1758912E50F848E49">
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<mods:date id="2BFACB9BBE788E655E1CDD99E558F691">2020</mods:date>
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<mods:number id="F8E9B5BDEE158A55C2A7E9D9B5C63A9A">2020-04-15</mods:number>
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<mods:number id="036BB4DBE2249FD7235337DB49AB06F9">70</mods:number>
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<mods:identifier id="DC50B6D6F35B74013309DA8DE2765DAF" type="DOI">10.1099/ijsem.0.004107</mods:identifier>
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<treatment id="03A8D903D2280266FC95FF4C52803080" ID-DOI="http://doi.org/10.5281/zenodo.4728622" ID-GBIF-Taxon="181761659" ID-Zenodo-Dep="4728622" LSID="urn:lsid:plazi:treatment:03A8D903D2280266FC95FF4C52803080" httpUri="http://treatment.plazi.org/id/03A8D903D2280266FC95FF4C52803080" lastPageNumber="2821" pageId="39" pageNumber="2821">
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<subSubSection id="C31B3B9ED2280266FC95FF4C527F33E4" pageId="39" pageNumber="2821" type="nomenclature">
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<paragraph id="8BBE6815D2280266FC95FF4C527F33E4" blockId="39.[826,1467,184,381]" pageId="39" pageNumber="2821">
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<heading id="D0F6DF79D2280266FC95FF4C527F33E4" allCaps="true" bold="true" fontSize="12" level="3" pageId="39" pageNumber="2821" reason="0">
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<emphasis id="B975B407D2280266FC95FF4C527F33E4" bold="true" pageId="39" pageNumber="2821">
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DESCRIPTIONOF
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<taxonomicName id="4C011396D2280266FB9CFF4C544C33CB" authority="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer, 2020" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[1077,1358,184,213]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus" status="gen. nov.">
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<emphasis id="B975B407D2280266FB9CFF4C544C33CB" bold="true" box="[1077,1358,184,213]" italics="true" pageId="39" pageNumber="2821">LIGILACTOBACILLUS</emphasis>
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</taxonomicName>
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<taxonomicNameLabel id="A246097CD2280266FAFFFF4C527F33E4" pageId="39" pageNumber="2821" rank="genus">GEN. NOV.</taxonomicNameLabel>
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</emphasis>
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</heading>
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</paragraph>
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<subSubSection id="C31B3B9ED2280266FC95FEF3551931FD" pageId="39" pageNumber="2821" type="discussion">
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<paragraph id="8BBE6815D2280266FC95FEF3527E3263" blockId="39.[826,1467,184,381]" pageId="39" pageNumber="2821">
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<taxonomicName id="4C011396D2280266FC95FEF352E63201" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[828,996,263,287]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B975B407D2280266FC95FEF352E63201" box="[828,996,263,287]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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(Li.gi.lac.to.ba.cil'lus. L.
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<taxonomicName id="4C011396D2280266FB41FEFC54353201" box="[1256,1335,263,287]" pageId="39" pageNumber="2821" rank="variety" variety="ligare">
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v.
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<emphasis id="B975B407D2280266FB57FEF354353201" box="[1278,1335,263,287]" italics="true" pageId="39" pageNumber="2821">ligare</emphasis>
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</taxonomicName>
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to tie, unite; N.L. masc. n.
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<taxonomicName id="4C011396D2280266FC61FED3554D3221" authorityName="Beijerinck" authorityYear="1901" box="[968,1103,295,319]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B975B407D2280266FC61FED3554D3221" box="[968,1103,295,319]" italics="true" pageId="39" pageNumber="2821">Lactobacillus</emphasis>
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</taxonomicName>
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abacterial genus name; N.L. masc. n.
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<taxonomicName id="4C011396D2280266FCF1FEB255023240" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[856,1024,326,350]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B975B407D2280266FCF1FEB255023240" box="[856,1024,326,350]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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a lactobacillus with a host-associated life style).
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</paragraph>
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<paragraph id="8BBE6815D2280266FC95FE67551931FD" blockId="39.[826,1467,403,739]" pageId="39" pageNumber="2821">
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Speciesof
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<taxonomicName id="4C011396D2280266FC0EFE67554C32B5" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[935,1102,403,427]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B975B407D2280266FC0EFE67554C32B5" box="[935,1102,403,427]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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are homofermentative, their mol% G+C contentisbetween 32.5 and 43.3. Several
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<taxonomicName id="4C011396D2280266FABCFE46528532F4" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="species" species="undetermined">
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<emphasis id="B975B407D2280266FABCFE4654B832D4" box="[1301,1466,434,458]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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species
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</taxonomicName>
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include strains that are motile. Most
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<taxonomicName id="4C011396D2280266FABBFE2652853117" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="species" species="undetermined">
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<emphasis id="B975B407D2280266FABBFE2654B832F4" box="[1298,1466,466,490]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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species
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</taxonomicName>
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have been isolated from animals and humans and are adaptedto vertebratehosts. Severalstrains of
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<taxonomicName id="4C011396D2280266FABAFDE454B83136" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[1299,1466,528,552]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B975B407D2280266FABAFDE454B83136" box="[1299,1466,528,552]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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express urease, this enzymeis the mostpowerful bacterial tool to withstand gastric acidity; in lactobacilli, urease activity is associated with a vertebrate host-adapted lifestyle [
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<bibRefCitation id="EF9015E4D2280266FAF9FD9A54793198" author="Kakimoto S & Okazaki K & Sakane T & Imai K & Sumino Y" box="[1360,1403,622,646]" pageId="39" pageNumber="2821" pagination="1111 - 1117" refId="ref68793" refString="210. Kakimoto S, Okazaki K, Sakane T, Imai K, Sumino Y et al. Isolation and taxonomie characterization of acid urease-producing bacteria. Agric Biol Chem 1989; 53: 1111 - 1117." type="journal article" year="1989">210</bibRefCitation>
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,
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<bibRefCitation id="EF9015E4D2280266FA2CFD9A54B23198" author="Krumbeck JA & Marsteller NL & Frese SA & Peterson DA & Tait AE" box="[1413,1456,622,646]" pageId="39" pageNumber="2821" pagination="2172 - 2184" refId="ref68832" refString="211. Krumbeck JA, Marsteller NL, Frese SA, Peterson DA, Ramer- Tait AE et al. Characterization of the ecologica l role of genes mediating acid resistance in L actobacillus reuteri during colonization of the gastrointestina l tract. Environ Microbiol 2016; 18: 2172 - 2184." type="journal article" year="2016">211</bibRefCitation>
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]. Several
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<taxonomicName id="4C011396D2280266FC3CFD79559A31BB" box="[917,1176,653,677]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="species" species="undetermined">
|
||
<emphasis id="B975B407D2280266FC3CFD79554231BB" box="[917,1088,653,677]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
species
|
||
</taxonomicName>
|
||
also commonly occur in fermentedfoods and are usedcommercially as startercultures or probiotic cultures.
|
||
</paragraph>
|
||
</subSubSection>
|
||
<subSubSection id="C31B3B9ED2280266FC95FD0E52803080" pageId="39" pageNumber="2821" type="description">
|
||
<paragraph id="8BBE6815D2280266FC95FD0E54B9302F" blockId="39.[828,1467,761,817]" pageId="39" pageNumber="2821">
|
||
Aphylogenetic tree on the basis of 16S rRNA genes of all species inthe genus
|
||
<taxonomicName id="4C011396D2280266FBA6FCED55B7302F" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[1039,1205,793,817]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
|
||
<emphasis id="B975B407D2280266FBA6FCED55B7302F" box="[1039,1205,793,817]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
</taxonomicName>
|
||
isprovided in
|
||
<figureCitation id="133A7490D2280266FAE2FCED54B5302F" box="[1355,1463,793,817]" captionStart="Fig" captionStartId="7.[185,216,1617,1636]" captionTargetBox="[264,1323,181,1565]" captionTargetId="figure-17@7.[264,1323,181,1565]" captionTargetPageId="7" captionText="Fig. 6. Gene family presence/absence patterns in Lactobacillaceae and Leuconostocaceae. Each column represents a gene family presence/absence pattern in species of Lactobacillaceae and Leuconostoaceae, where presence is indicated with a dot. The absolute number of gene families that conform to each pattern is visualized in the marginal bar plot at the top. Separations between phylogroups are indicated with horizontal black lines. We defined genes that were present in all genomes of a clade and in none of the genomes outside of that clade as ‘signature genes’ (dark blue); other genes are shown in light blue. Only presence/absence patterns followed by four or more gene families are shown. Patterns of presence in a single species or all species are not shown. Unassigned species are clusters of closely related genomes which could not be assigned to a known species due to low whole-genome similarity to a type strain and/or low 16S rRNA similarity to a type strain." figureDoi="http://doi.org/10.5281/zenodo.4730552" httpUri="https://zenodo.org/record/4730552/files/figure.png" pageId="39" pageNumber="2821">Figure S6J</figureCitation>
|
||
.
|
||
</paragraph>
|
||
<paragraph id="8BBE6815D2280266FC95FCB352803080" blockId="39.[828,1466,839,926]" pageId="39" pageNumber="2821">
|
||
The type species is
|
||
<taxonomicName id="4C011396D2280266FBBCFCB354313041" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" baseAuthorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" baseAuthorityYear="2020" box="[1045,1331,839,863]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="species" species="salivarius" status="comb. nov.">
|
||
<emphasis id="B975B407D2280266FBBCFCB354313041" box="[1045,1331,839,863]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus salivarius</emphasis>
|
||
</taxonomicName>
|
||
<taxonomicNameLabel id="A246097CD2280266FA92FCB354B53041" box="[1339,1463,839,863]" pageId="39" pageNumber="2821" rank="species">comb. nov.</taxonomicNameLabel>
|
||
;
|
||
<taxonomicName id="4C011396D2280266FC95FC9252EB3060" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[828,1001,870,894]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
|
||
<emphasis id="B975B407D2280266FC95FC9252EB3060" box="[828,1001,870,894]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
</taxonomicName>
|
||
was previously referred to as
|
||
<taxonomicName id="4C011396D2280266FA9EFC9354B83060" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" baseAuthorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" baseAuthorityYear="2020" box="[1335,1466,870,894]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="species" species="salivarius">
|
||
<emphasis id="B975B407D2280266FA9EFC9354B83060" box="[1335,1466,870,894]" italics="true" pageId="39" pageNumber="2821">L. salivarius</emphasis>
|
||
</taxonomicName>
|
||
group.
|
||
</paragraph>
|
||
</subSubSection>
|
||
</treatment>
|
||
</document> |