222 lines
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222 lines
23 KiB
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<mods:title id="A4519C5355352A01A0E67EB0F29C0AA7">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="37456CE03F7C3AC6B797B7F514A0F834">Zheng, Jinshui</mods:namePart>
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<mods:namePart id="B708938822811A211A79844A4EBC6650">Wittouck, Stijn</mods:namePart>
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<mods:namePart id="68FD9CB96D45BB14263109A557890C17">Salvetti, Elisa</mods:namePart>
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<mods:namePart id="7A4DA51132A5613F3B8473A71541505C">Walter, Jens</mods:namePart>
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<mods:namePart id="68623090FB9BA5F5933C87F54809D3BB">Watanabe, Koichi</mods:namePart>
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<mods:namePart id="7DA194407A26496483CB7DD89EB9F8AA">Wuyts, Sander</mods:namePart>
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<mods:namePart id="F6F93BFC272236CE044ACDD7AB4D157E">Felis, Giovanna E.</mods:namePart>
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<mods:namePart id="A3E3717B4F405CAEA6510965DFB740B4">Gänzle, Michael G.</mods:namePart>
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<mods:namePart id="B31BD6E7A291F9E32CDC2512449506C0">Lebeer, Sarah</mods:namePart>
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<mods:title id="086B3677F51FC7DB3C2867CE70DBCCD0">International Journal of Systematic and Evolutionary Microbiology</mods:title>
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<mods:date id="649EA3C6A9383AA0CA809FE8AC8FF8A3">2020</mods:date>
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<treatment id="0389878AFFAA2156DA0BFF2EFC2D61F9" ID-DOI="http://doi.org/10.5281/zenodo.6309834" ID-Zenodo-Dep="6309834" LSID="urn:lsid:plazi:treatment:0389878AFFAA2156DA0BFF2EFC2D61F9" httpUri="http://treatment.plazi.org/id/0389878AFFAA2156DA0BFF2EFC2D61F9" lastPageNumber="2821" pageId="39" pageNumber="2821">
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<heading id="D0D781F0FFAA2156DA0BFF2EFCD2629D" allCaps="true" bold="true" fontSize="12" level="2" pageId="39" pageNumber="2821" reason="3">
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<emphasis id="B954EA8EFFAA2156DA0BFF2EFCD2629D" bold="true" pageId="39" pageNumber="2821">
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DESCRIPTION OF
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<taxonomicName id="4C204D1FFFAA2156DD02FF2EFAE162B2" 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="B954EA8EFFAA2156DD02FF2EFAE162B2" bold="true" box="[1077,1358,184,213]" italics="true" pageId="39" pageNumber="2821">LIGILACTOBACILLUS</emphasis>
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</emphasis>
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<subSubSection id="C33A6517FFAA2156DA0BFE91FCD3631A" pageId="39" pageNumber="2821" type="etymology">
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<paragraph id="8B9F369CFFAA2156DA0BFE91FCD3631A" blockId="39.[826,1467,184,926]" pageId="39" pageNumber="2821">
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<taxonomicName id="4C204D1FFFAA2156DA0BFE91FC4B6378" 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="B954EA8EFFAA2156DA0BFE91FC4B6378" 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="4C204D1FFFAA2156DDDFFE9EFA986378" box="[1256,1335,263,287]" pageId="39" pageNumber="2821" rank="variety" variety="ligare">
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v.
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<emphasis id="B954EA8EFFAA2156DDC9FE91FA986378" 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="4C204D1FFFAA2156DAFFFEB1FBE06358" 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="B954EA8EFFAA2156DAFFFEB1FBE06358" box="[968,1103,295,319]" italics="true" pageId="39" pageNumber="2821">Lactobacillus</emphasis>
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</taxonomicName>
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a bacterial genus name; N.L. masc. n.
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<taxonomicName id="4C204D1FFFAA2156DA6FFED0FBAF6339" 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="B954EA8EFFAA2156DA6FFED0FBAF6339" 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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<subSubSection id="C33A6517FFAA2156DA0BFE05FBB46084" pageId="39" pageNumber="2821" type="description">
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<paragraph id="8B9F369CFFAA2156DA0BFE05FBB46084" blockId="39.[826,1467,184,926]" pageId="39" pageNumber="2821">
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Species of
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<taxonomicName id="4C204D1FFFAA2156DA90FE05FBE163CC" 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="B954EA8EFFAA2156DA90FE05FBE163CC" 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 content is between 32.5 and 43.3. Several
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<taxonomicName id="4C204D1FFFAA2156DC22FE24FA1563AD" box="[1301,1466,434,458]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B954EA8EFFAA2156DC22FE24FA1563AD" box="[1301,1466,434,458]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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species include strains that are motile. Most
|
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<taxonomicName id="4C204D1FFFAA2156DC25FE44FA15638D" box="[1298,1466,466,490]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
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<emphasis id="B954EA8EFFAA2156DC25FE44FA15638D" box="[1298,1466,466,490]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
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</taxonomicName>
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species have been isolated from animals and humans and are adapted to vertebrate hosts. Several strains of
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<taxonomicName id="4C204D1FFFAA2156DC24FD86FA15604F" 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="B954EA8EFFAA2156DC24FD86FA15604F" 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 enzyme is the most powerful bacterial tool to withstand gastric acidity; in lactobacilli, urease activity is associated with a vertebrate host-adapted lifestyle [
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||
<bibRefCitation id="EFB14B6DFFAA2156DC67FDF8FAD460E1" author="Kakimoto S & Okazaki K & Sakane T & Imai K & Sumino Y" box="[1360,1403,622,646]" pageId="39" pageNumber="2821" pagination="1111 - 1117" refId="ref68994" 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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,
|
||
<bibRefCitation id="EFB14B6DFFAA2156DCB2FDF8FA1F60E1" author="Krumbeck JA & Marsteller NL & Frese SA & Peterson DA & Tait AE" box="[1413,1456,622,646]" pageId="39" pageNumber="2821" pagination="2172 - 2184" refId="ref69033" 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>
|
||
]. Several
|
||
<taxonomicName id="4C204D1FFFAA2156DAA2FD1BFBEF60C2" box="[917,1088,653,677]" class="Bacilli" family="Lactobacillaceae" genus="Ligilactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="39" pageNumber="2821" phylum="Firmicutes" rank="genus">
|
||
<emphasis id="B954EA8EFFAA2156DAA2FD1BFBEF60C2" box="[917,1088,653,677]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
</taxonomicName>
|
||
species also commonly occur in fermented foods and are used commercially as starter cultures or probiotic cultures.
|
||
</paragraph>
|
||
</subSubSection>
|
||
<subSubSection id="C33A6517FFAA2156DA0BFD6CFA146156" pageId="39" pageNumber="2821" type="discussion">
|
||
<paragraph id="8B9F369CFFAA2156DA0BFD6CFA146156" blockId="39.[826,1467,184,926]" pageId="39" pageNumber="2821">
|
||
A phylogenetic tree on the basis of 16S rRNA genes of all species in the genus
|
||
<taxonomicName id="4C204D1FFFAA2156DD38FC8FFB1A6156" 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="B954EA8EFFAA2156DD38FC8FFB1A6156" box="[1039,1205,793,817]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
</taxonomicName>
|
||
is provided in
|
||
<figureCitation id="131B2A19FFAA2156DC7CFC8FFA186156" 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.10133304" httpUri="https://zenodo.org/record/10133304/files/figure.png" pageId="39" pageNumber="2821">Figure S6J</figureCitation>
|
||
.
|
||
</paragraph>
|
||
</subSubSection>
|
||
<subSubSection id="C33A6517FFAA2156DA0BFCD1FC2D61F9" pageId="39" pageNumber="2821" type="type_taxon">
|
||
<paragraph id="8B9F369CFFAA2156DA0BFCD1FC2D61F9" blockId="39.[826,1467,184,926]" pageId="39" pageNumber="2821">
|
||
The
|
||
<typeStatus id="549B883EFFAA2156DA5AFCDEFC336107" box="[877,924,840,864]" pageId="39" pageNumber="2821">type</typeStatus>
|
||
species is
|
||
<taxonomicName id="4C204D1FFFAA2156DD22FCD1FA9C6138" 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="B954EA8EFFAA2156DD22FCD1FA9C6138" box="[1045,1331,839,863]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus salivarius</emphasis>
|
||
</taxonomicName>
|
||
<taxonomicNameLabel id="A26757F5FFAA2156DC0CFCD1FA186138" box="[1339,1463,839,863]" pageId="39" pageNumber="2821" rank="species">comb. nov.</taxonomicNameLabel>
|
||
;
|
||
<taxonomicName id="4C204D1FFFAA2156DA0BFCF0FC466119" 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="B954EA8EFFAA2156DA0BFCF0FC466119" box="[828,1001,870,894]" italics="true" pageId="39" pageNumber="2821">Ligilactobacillus</emphasis>
|
||
</taxonomicName>
|
||
was previously referred to as
|
||
<taxonomicName id="4C204D1FFFAA2156DC00FCF1FA156119" 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="B954EA8EFFAA2156DC00FCF1FA156119" box="[1335,1466,870,894]" italics="true" pageId="39" pageNumber="2821">L. salivarius</emphasis>
|
||
</taxonomicName>
|
||
group.
|
||
</paragraph>
|
||
</subSubSection>
|
||
</treatment>
|
||
</document> |