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<mods:title id="A4D523A15C200903EB9A7154B4AB1A31">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="8429AA0635ADA4E47B766D60D4960272">Zheng, Jinshui</mods:namePart>
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<mods:namePart id="F717DB5EEC91599E2245F20C6E0BB825">Wittouck, Stijn</mods:namePart>
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<mods:namePart id="2FE669A0CE002C6B3F6D2FF0B2B90B5B">Salvetti, Elisa</mods:namePart>
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<mods:namePart id="BFC3698AA8671161ECDD840641963DB6">Franz, Charles M. A. P.</mods:namePart>
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<mods:namePart id="C6C98F81903E64E3ED31682126CD687B">Harris, Hugh M. B.</mods:namePart>
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<mods:namePart id="4CFCE16775DB620352D22866BCB3AF98">Mattarelli, Paola</mods:namePart>
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<mods:namePart id="B3A6161F80F8506520802D8A575F251D">Pot, Bruno</mods:namePart>
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<mods:namePart id="8AD842DA84D511053A9D4DA3CE20D20E">Vandamme, Peter</mods:namePart>
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<mods:namePart id="9FAFC60825D7F1D57B6CCE4FC26A997A">Walter, Jens</mods:namePart>
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<mods:namePart id="53ECA7CBF9F20E9A9A60A87D0690D936">Watanabe, Koichi</mods:namePart>
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<mods:namePart id="644A05DE1AE4E94CB685114E75B9FCFF">Wuyts, Sander</mods:namePart>
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<mods:namePart id="607BF8747304CB770CA4928BFBD34C80">Felis, Giovanna E.</mods:namePart>
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<mods:namePart id="4C30EC0ADB1824AD6665E8207E85865F">Gänzle, Michael G.</mods:namePart>
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<mods:namePart id="E917F049892565ECC27122992722C844">Lebeer, Sarah</mods:namePart>
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<mods:title id="29E07BDB5040DA09B5918E988D9A43E9">International Journal of Systematic and Evolutionary Microbiology</mods:title>
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<mods:date id="7D1325CBA886AE42D9496D03F9A67644">2020</mods:date>
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<mods:number id="4E3C25473161FB1704D6E152446D411B">2020-04-01</mods:number>
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<mods:url id="23A23ADBCDA21212ED4ED3F204CA1BC4">http://dx.doi.org/10.1099/ijsem.0.004107</mods:url>
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<treatment id="0389878AFF86217AD94EFB9CFB076033" ID-DOI="http://doi.org/10.5281/zenodo.6310665" ID-Zenodo-Dep="6310665" LSID="urn:lsid:plazi:treatment:0389878AFF86217AD94EFB9CFB076033" httpUri="http://treatment.plazi.org/id/0389878AFF86217AD94EFB9CFB076033" lastPageNumber="2793" pageId="11" pageNumber="2793">
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<heading id="D0D781F0FF86217AD94EFB9CFDEC6643" bold="true" box="[121,579,1034,1060]" fontSize="9" level="2" pageId="11" pageNumber="2793" reason="2">
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Emended description of
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<taxonomicName id="4C204D1FFF86217AD893FB9CFDEC6643" ID-CoL="59X8" authorityName="Beijerinck" authorityYear="1901" box="[420,579,1034,1060]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
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<emphasis id="B954EA8EFF86217AD893FB9CFDEC6643" bold="true" box="[420,579,1034,1060]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
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</emphasis>
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<subSubSection id="C33A6517FF86217AD94EFBA7FC756289" pageId="11" pageNumber="2793" type="description">
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<paragraph id="8B9F369CFF86217AD94EFBA7FC756289" blockId="11.[120,762,993,1956]" lastBlockId="11.[828,1467,183,596]" pageId="11" pageNumber="2793">
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<taxonomicName id="4C204D1FFF86217AD94EFBA7FEAD662E" box="[121,258,1073,1097]" pageId="11" pageNumber="2793">
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<emphasis id="B954EA8EFF86217AD94EFBA7FEAD662E" box="[121,258,1073,1097]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
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</taxonomicName>
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species are Gram-positive, homofermentative, thermophilic and non-spore-forming rods. Most
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<taxonomicName id="4C204D1FFF86217ADB83FBC7FF6566E0" pageId="11" pageNumber="2793">
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<emphasis id="B954EA8EFF86217ADB83FBC7FF6566E0" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
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</taxonomicName>
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species do not ferment pentoses and none of the organisms encode genes for the pentose–phosphate pathway or pyruvate formate lyase. The emended description of the genus includes all organisms that were previously assigned to the
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<taxonomicName id="4C204D1FFF86217AD9FFFB7CFEF46766" authorityName="Beijerinck" authorityYear="1901" baseAuthorityName="Leichmann" baseAuthorityYear="1896" box="[200,347,1257,1281]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="delbrueckii">
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<emphasis id="B954EA8EFF86217AD9FFFB7CFEF46766" box="[200,347,1257,1281]" italics="true" pageId="11" pageNumber="2793">L. delbrueckii</emphasis>
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</taxonomicName>
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group [
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<bibRefCitation id="EFB14B6DFF86217AD882FB7FFE7B6766" author="Duar RM & Lin XB & Zheng J & Martino ME & Grenier T" box="[437,468,1257,1281]" pageId="11" pageNumber="2793" pagination="48" refId="ref60424" refString="17. Duar RM, Lin XB, Zheng J, Martino ME, Grenier T et al. Lifestyles in transition: evolution and natural history of the genus Lactobacillus. FEMS Microbiol Rev 2017; 41: S 27 - S 48." type="journal article" year="2017">17</bibRefCitation>
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].
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<taxonomicName id="4C204D1FFF86217AD8DCFB7FFDD96766" box="[491,630,1257,1281]" pageId="11" pageNumber="2793">
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<emphasis id="B954EA8EFF86217AD8DCFB7FFDD96766" box="[491,630,1257,1281]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
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</taxonomicName>
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species are host-adapted; the
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<taxonomicName id="4C204D1FFF86217AD800FA9EFD916747" box="[311,574,1288,1312]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="melliventris">
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<emphasis id="B954EA8EFF86217AD800FA9EFD916747" box="[311,574,1288,1312]" italics="true" pageId="11" pageNumber="2793">Lactobacillus melliventris</emphasis>
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</taxonomicName>
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clade (previously termed the Firm-5 clade) is adapted to social bees [
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<bibRefCitation id="EFB14B6DFF86217ADBA4FAB0FD1E6759" author="Martinson VG & Danforth BN & Minckley RL & Rueppell O & Tingek S" box="[659,689,1318,1342]" pageId="11" pageNumber="2793" pagination="619 - 628" refId="ref61721" refString="52. Martinson VG, Danforth BN, Minckley RL, Rueppell O, Tingek S et al. A simple and distinctive microbiota associated with honey bees and bumble bees. Mol Ecol 2011; 20: 619 - 628." type="journal article" year="2011">52</bibRefCitation>
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] while all other
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<taxonomicName id="4C204D1FFF86217AD9E2FAD3FE01673A" box="[213,430,1349,1373]" pageId="11" pageNumber="2793">
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<emphasis id="B954EA8EFF86217AD9E2FAD3FEF1673A" box="[213,350,1349,1373]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
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species
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</taxonomicName>
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|
|
are adapted to vertebrate hosts.
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD94FFAF2FEFB671B" box="[120,340,1380,1404]" pageId="11" pageNumber="2793">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD94FFAF2FEAE671B" box="[120,257,1380,1404]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
species
|
|||
|
|
</taxonomicName>
|
|||
|
|
ferment a relatively broad spectrum of carbohydrates and have the strain-specific ability to ferment extracellular fructans, starch, or glycogen [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217ADB64FA37FDDE67DE" author="van der Veer C & Hertzberger RY & Bruisten SM & Tytgat HLP & Swanenburg J" box="[595,625,1441,1465]" pageId="11" pageNumber="2793" pagination="49" refId="ref61763" refString="53. van der Veer C, Hertzberger RY, Bruisten SM, Tytgat HLP, Swanenburg J et al. Comparative genomics of human Lactobacillus crispatus isolates reveals genes for glycosylation and glycogen degradation: implications for in vivo dominance of the vaginal microbiota. Microbiome 2019; 7: 49." type="journal article" year="2019">53</bibRefCitation>
|
|||
|
|
,
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217ADB48FA37FD3167DE" author="Wang W & Hu H & Zijlstra RT & Zheng J & Ganzle MG" box="[639,670,1441,1465]" pageId="11" pageNumber="2793" pagination="48" refId="ref61816" refString="54. Wang W, Hu H, Zijlstra RT, Zheng J, Ganzle MG. Metagenomic reconstructions of gut microbial metabolism in weanling pigs. Microbiome 2019; 7: 48." type="journal article" year="2019">54</bibRefCitation>
|
|||
|
|
]. The
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADBD4FA34FF5E67BF" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="melliventris">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADBD4FA34FF5E67BF" italics="true" pageId="11" pageNumber="2793">L. melliventris</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
clade species also ferment a wider range of carbohydrates when compared to insect-adapted species in the genera
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD9F0FA6BFEC26472" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[199,365,1533,1557]" class="Bacilli" family="Lactobacillaceae" genus="Apilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD9F0FA6BFEC26472" box="[199,365,1533,1557]" italics="true" pageId="11" pageNumber="2793">Apilactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
and
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD893FA6BFDC66472" authorityName="Zheng & Wittouck & Salvetti & Franz & Harris & Mattarelli & O’Toole & Pot & Vandamme & Walter & Watanabe & Wuyts & Felis & Gänzle & Lebeer" authorityYear="2020" box="[420,617,1533,1557]" class="Bacilli" family="Lactobacillaceae" genus="Bombilactobacillus" higherTaxonomySource="GBIF" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD893FA6BFDC66472" box="[420,617,1533,1557]" italics="true" pageId="11" pageNumber="2793">Bombilactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
. In intestinal habitats,
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD9ECF98AFE176453" box="[219,440,1564,1588]" pageId="11" pageNumber="2793">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD9ECF98AFECA6453" box="[219,357,1564,1588]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
species
|
|||
|
|
</taxonomicName>
|
|||
|
|
are generally associated with heterofermentative lactobacilli. For specific examples, it was shown that co-habitation of
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD8AAF9CFFDDD6416" box="[413,626,1625,1649]" pageId="11" pageNumber="2793">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD8AAF9CFFD8B6416" box="[413,548,1625,1649]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
species
|
|||
|
|
</taxonomicName>
|
|||
|
|
with heterofermentative lactobacilli is based on long-term evolutionary relationships in biofilms [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217AD8B9F900FE0364C9" author="Lin XB & Wang T & Stothard P & Corander J & Wang J" box="[398,428,1686,1710]" pageId="11" pageNumber="2793" pagination="2770 - 2784" refId="ref61850" refString="55. Lin XB, Wang T, Stothard P, Corander J, Wang J et al. The evolution of ecological facilitation within mixed-species biofilms in the mouse gastrointestinal tract. ISME J 2018; 12: 2770 - 2784." type="journal article" year="2018">55</bibRefCitation>
|
|||
|
|
] and a complementary preference for carbon sources [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217AD8B4F923FE0F64AA" author="Ganzle MG" box="[387,416,1717,1741]" pageId="11" pageNumber="2793" pagination="106 - 117" refId="ref60469" refString="18. Ganzle MG. Lactic metabolism revisited: metabolism of lactic acid bacteria in food fermentations and food spoilage. Curr Opin Food Sci 2015; 2: 106 - 117." type="journal article" year="2015">18</bibRefCitation>
|
|||
|
|
,
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217AD89CF923FE6664AA" author="Tannock GW & Wilson CM & Loach D & Cook GM & Eason J" box="[427,457,1717,1741]" pageId="11" pageNumber="2793" pagination="927 - 938" refId="ref61893" refString="56. Tannock GW, Wilson CM, Loach D, Cook GM, Eason J et al. Resource partitioning in relation to cohabitation of Lactobacillus species in the mouse forestomach. ISME J 2012; 6: 927 - 938." type="journal article" year="2012">56</bibRefCitation>
|
|||
|
|
]. Many
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADB29F923FD5764AA" box="[542,760,1717,1741]" pageId="11" pageNumber="2793">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADB29F923FD0864AA" box="[542,679,1717,1741]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
species
|
|||
|
|
</taxonomicName>
|
|||
|
|
are able to ferment mannitol, which also reflects co-habitation with heterofermenters. The metabolic focus of
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADB5DF965FD59656C" authorityName="Beijerinck" authorityYear="1901" baseAuthorityName="Leichmann" baseAuthorityYear="1896" box="[618,758,1779,1803]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="delbrueckii">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADB5DF965FD59656C" box="[618,758,1779,1803]" italics="true" pageId="11" pageNumber="2793">L. delbrueckii</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
on lactose [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217AD9D8F887FEA2654E" author="van de Guchte M & Penaud S & Grimaldi C & Barbe V" box="[239,269,1809,1833]" pageId="11" pageNumber="2793" pagination="9274 - 9279" refId="ref61936" refString="57. van de Guchte M, Penaud S, Grimaldi C, Barbe V, Bryson K et al. The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution. Proc Natl Acad Sci U S A 2006; 103: 9274 - 9279." type="journal article" year="2006">57</bibRefCitation>
|
|||
|
|
] explains its dominance in yoghurt and cheese fermentations but also relates to its presence in the intestine of suckling piglets [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217AD867F8D8FEDF6501" author="Wang W & Hu H & Zijlstra RT & Zheng J & Ganzle MG" box="[336,368,1870,1894]" pageId="11" pageNumber="2793" pagination="48" refId="ref61816" refString="54. Wang W, Hu H, Zijlstra RT, Zheng J, Ganzle MG. Metagenomic reconstructions of gut microbial metabolism in weanling pigs. Microbiome 2019; 7: 48." type="journal article" year="2019">54</bibRefCitation>
|
|||
|
|
]. The genus
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD8CCF8D9FD296500" authorityName="Beijerinck" authorityYear="1901" box="[507,646,1871,1895]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD8CCF8D9FD296500" box="[507,646,1871,1895]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
remains a relatively heterogenous genus with
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD8DFF8F8FD9C65E2" box="[488,563,1902,1925]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="iners">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD8DFF8F8FD9C65E2" box="[488,563,1902,1925]" italics="true" pageId="11" pageNumber="2793">L. iners</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
as the most distant member.
|
|||
|
|
<taxonomicName id="4C204D1FFF86217AD9D5F81BFE9B65C3" box="[226,308,1933,1956]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="iners">
|
|||
|
|
<emphasis id="B954EA8EFF86217AD9D5F81BFE9B65C3" box="[226,308,1933,1956]" italics="true" pageId="11" pageNumber="2793">L. iners</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
has the smallest genome size among all
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADA0BFF21FC4562A8" authority="Winslow et al. 1917" box="[828,1002,183,207]" class="Bacilli" family="Lactobacillaceae" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="family">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADA0BFF21FC4562A8" box="[828,1002,183,207]" italics="true" pageId="11" pageNumber="2793">Lactobacillaceae</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
, which reflects its strict adaptation to the human vagina.
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<subSubSection id="C33A6517FF86217ADA0BFE93FAC7631D" pageId="11" pageNumber="2793" type="biology_ecology">
|
|||
|
|
<paragraph id="8B9F369CFF86217ADA0BFE93FAC7631D" blockId="11.[828,1467,183,596]" pageId="11" pageNumber="2793">
|
|||
|
|
In addition to their relevance in intestinal and vaginal ecosystems,
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADAB7FEB5FBCD635C" box="[896,1122,291,315]" pageId="11" pageNumber="2793">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADAB7FEB5FBA4635C" box="[896,1035,291,315]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
species
|
|||
|
|
</taxonomicName>
|
|||
|
|
frequently occur in dairy and cereal fermentations and are widely used as starter cultures for production of fermented dairy products [
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217ADC21FEF4FA9B631D" author="Ganzle MG" box="[1302,1332,354,378]" pageId="11" pageNumber="2793" pagination="855 - 900" refId="ref61986" refString="58. Ganzle MG. Fermented Foods. In: Doyle MP, Diez Gonzalez F, Hill C (editors). Food Microbiol. Fundam. Front, 5 th ed. ASM Press; 2019. pp. 855 - 900." type="book chapter" year="2019">58</bibRefCitation>
|
|||
|
|
,
|
|||
|
|
<bibRefCitation id="EFB14B6DFF86217ADC09FEF4FAF3631D" author="Hutkins RW" box="[1342,1372,354,378]" pageId="11" pageNumber="2793" refId="ref62031" refString="59. Hutkins RW. Microbiology and technology of fermented foods, 2 nd. Chigaco, IL: IFT Press; 2019." type="book" year="2019">59</bibRefCitation>
|
|||
|
|
].
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<subSubSection id="C33A6517FF86217ADA0BFE07FBB163AF" pageId="11" pageNumber="2793" type="discussion">
|
|||
|
|
<paragraph id="8B9F369CFF86217ADA0BFE07FBB163AF" blockId="11.[828,1467,183,596]" pageId="11" pageNumber="2793">
|
|||
|
|
A phylogenetic tree of all species in the genus
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADC2BFE06FA0A63CF" authorityName="Beijerinck" authorityYear="1901" box="[1308,1445,400,424]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADC2BFE06FA0A63CF" box="[1308,1445,400,424]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
is provided in
|
|||
|
|
<figureCitation id="131B2A19FF86217ADA8AFE26FBB663AF" box="[957,1049,432,456]" 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="11" pageNumber="2793">Fig. S6A</figureCitation>
|
|||
|
|
.
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
<subSubSection id="C33A6517FF86217ADA0BFE48FB076033" pageId="11" pageNumber="2793" type="materials_examined">
|
|||
|
|
<paragraph id="8B9F369CFF86217ADA0BFE48FB076033" blockId="11.[828,1467,183,596]" pageId="11" pageNumber="2793">
|
|||
|
|
The
|
|||
|
|
<typeStatus id="549B883EFF86217ADA5CFE49FC366390" box="[875,921,479,503]" pageId="11" pageNumber="2793">type</typeStatus>
|
|||
|
|
species of the genus
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADD49FE48FAA86391" authorityName="Beijerinck" authorityYear="1901" box="[1150,1287,478,502]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADD49FE48FAA86391" box="[1150,1287,478,502]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
is
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADC10FE49FA1B6391" authorityName="Beijerinck" authorityYear="1901" baseAuthorityName="Leichmann" baseAuthorityYear="1896" box="[1319,1460,478,502]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="species" species="delbrueckii">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADC10FE49FA1B6391" box="[1319,1460,478,502]" italics="true" pageId="11" pageNumber="2793">L. delbrueckii</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
. Although the nomenclature of species in the emended genus
|
|||
|
|
<taxonomicName id="4C204D1FFF86217ADA0BFD8AFC6A6053" authorityName="Beijerinck" authorityYear="1901" box="[828,965,540,564]" class="Bacilli" family="Lactobacillaceae" genus="Lactobacillus" kingdom="Bacteria" order="Lactobacillales" pageId="11" pageNumber="2793" phylum="Firmicutes" rank="genus">
|
|||
|
|
<emphasis id="B954EA8EFF86217ADA0BFD8AFC6A6053" box="[828,965,540,564]" italics="true" pageId="11" pageNumber="2793">Lactobacillus</emphasis>
|
|||
|
|
</taxonomicName>
|
|||
|
|
remains unchanged, a list of species and a list of their properties is provided below.
|
|||
|
|
</paragraph>
|
|||
|
|
</subSubSection>
|
|||
|
|
</treatment>
|
|||
|
|
</document>
|