HOMD.org Taxon Data::Site/Status Filter applied Date: 2022-09-15 HMT_ID Domain Phylum Class Order Family Genus Species Status Body_site Warning Type_strain 16S_rRNA Clone_count Clone_% Clone_rank Synonyms NCBI_taxon_id NCBI_pubmed_count NCBI_nucleotide_count NCBI_protein_count Genome_ID General_info Cultivability Phenotypic_characteristics Prevalence Disease References 022 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Burkholderiaceae Lautropia mirabilis Named Oral 0 AY005030 | X73223 47671 7 191 5330 SEQF1967 025 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Comamonadaceae Leptothrix sp._HMT_025 Phylotype Unassigned 0 AF385528 Oral Clone AV011a 712353 0 11 0 051 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus vaginalis Named Oral 0 AY005048 1633 36 581 3736 SEQF1783 052 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus sp._HMT_052 Lost Unassigned 0 To be submitted Strain TFI DoxG2 671212 0 1 0 082 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum orale Named Oral 0 CCUG 60305 | DSM 24533 | N1 AF385552 | HQ877677 Clone BE088 | Lachnospiraceae bacterium oral taxon 082 str. F0431 | Lachnospiraceae sp. strain F0431 | Lachnospiraceae [G-1] sp. oral taxon 082 979627 1 2 0 SEQF1881 Recently named Lachnoanaerobaculum oral in paper 'Lachnoanaerobaculum a new genus in Lachnospiraceae; characterization of Lachnoanaerobaculum umeaense gen. nov. sp. nov. isolated from human small intestine Lachnoanaerobaculum orale gen. nov. sp. nov. isolated from saliva and reclassification of Eubacterium saburreum (Prevot) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov'. PMID: 22228654. The genome for this strain is available as Lachnospiraceae bacterium oral taxon 082 str. F0431 AGRL00000000. The name change is not yet refledted for the genome at NCBI (11-02-2012). 083 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum sp._HMT_083 Unnamed Oral 0 AF385557 | AF385562 Clone BR088 | Clone BS091 1164882 0 0 0 SEQF2917 N/A It does not appear that the genome strain is available in any culture collection 086 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-7] bacterium_HMT_086 Phylotype Oral 0 AF385567 Oral Clone BU061 186803 0 0 0 088 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-2] bacterium_HMT_088 Phylotype Oral 0 AF287775 186803 0 0 0 089 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum sp._HMT_089 Phylotype Unassigned 0 AF287776 Oral Clone CK004 1164882 0 0 0 094 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-10] bacterium_HMT_094 Phylotype Unassigned 0 AF287768 Oral Clone DA074 186803 0 2 0 096 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-2] bacterium_HMT_096 Unnamed Oral 0 AF385508 DO008 186803 0 0 0 SEQF3057 | SEQF3712 100 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-3] bacterium_HMT_100 Phylotype Oral 0 AF385573 Oral Clone EI074 186803 0 0 0 107 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum umeaense Named Oral 0 AF287777 | FJ577253 | FJ796700 Lachnospiraceae bacterium oral taxon 107 | Lachnospiraceae [G-1] sp. oral taxon 107 | Oral Strain C27KA | Oral Strain F0167 617123 1 2 0 SEQF1478 Lachnospiraceae bacterium Oral taxon 107 strain F0167 has been isolated from a human subject by the Moore's Laboratory in March 1988. The subject was a 14 year old American white male. The bacteria was isolated from the subgingival oral biofilm. The bacteria was grown in anaerobic conditions. The partial 16S ribosomal RNA gene was deposited to GenBank under the reference FJ577253. The strain is available at www.bei.org under the reference HM-7. The genome of this strain is available as ADDS00000000. Recently named Lachnoanaerobaculum umeaense in 'Lachnospiraceae; characterization of Lachnoanaerobaculum umeaense gen. nov. sp. nov. isolated from human small intestine Lachnoanaerobaculum orale gen. nov. sp. nov. isolated from saliva and reclassification of Eubacterium saburreum (Prevot) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov'. PMID: 22228654. The name change is not yet refledted for the genome at NCBI (11-02-2012). 163 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-7] bacterium_HMT_163 Phylotype Oral 0 AF287769 Oral Clone AH153 186803 0 0 0 173 Bacteria Actinobacteria Actinomycetia Corynebacteriales Lawsonellaceae Lawsonella clevelandensis Named Skin 0 1528099 0 0 0 SEQF2877 199 Bacteria Actinobacteria Coriobacteriia Coriobacteriales Atopobiaceae Lancefieldella sp._HMT_199 Unnamed Oral 0 AF287760 Oral Clone C019 712156 0 12 2934 SEQF1949 212 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_212 Unnamed Oral 0 AY008309 Oral Clone Bu064 712357 0 15 0 SEQF2748 213 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia hongkongensis Named Oral 0 HKU24 AF287811 | EU919515 Oral Clone DA065 554406 1 10 8 SEQF3159 214 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia shahii Named Oral 0 AF366268 Oral Clone DE081 157691 1 81 1815 SEQF2501 215 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_215 Unnamed Oral 0 AF385518 Oral Clone DR011 712359 0 222 4518 SEQF2444 217 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_217 Phylotype Oral 0 AF366276 Oral Clone DT031 712360 0 2 0 218 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_218 Unnamed Oral 0 AF385571 Oral Clone EI013 712361 0 4 0 SEQF3703 222 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia wadei Named Oral 0 AF287816 Leptotrichia wadeii | Oral Strain TFI-A39FD 157687 1 521 6197 SEQF1618 | SEQF2502 223 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_223 Unnamed Oral 0 AF287814 Oral Clone F138 712363 0 2 0 SEQF3177 224 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia hofstadii Named Oral 0 AF287813 Oral Strain TFI-FAC5 157688 1 137 7569 SEQF1601 | SEQF2581 225 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_225 Unnamed Oral 0 To be submitted Oral Clone HE052 | Oral Strain TFI-FEA2 671213 0 575 4634 SEQF2452 266 Bacteria Proteobacteria Betaproteobacteria Burkholderiales Comamonadaceae Leptothrix sp._HMT_266 Phylotype Unassigned 0 1907117 0 0 0 392 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_392 Phylotype Oral 0 AY207053 Oral Clone P2PB_51 712364 0 5 0 417 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_417 Unnamed Oral 0 AY278621 Oral Clone C3MKM102 712365 0 8 0 SEQF3178 418 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus parafarraginis Named Unassigned 0 AY278619 Oral Strain KCL-C4M_55 | Oral Strain KCL-W6353 390842 6 559 6334 SEQF1862 424 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus kisonensis Named Unassigned 0 AY278620 Oral Strain KCL-C4M_47 | Oral Strain KCL-W6466 481722 1 469 6627 SEQF1861 461 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus ultunensis Named Unassigned 0 CCUG 48460 AY349383 Oral Clone HT070 227945 0 102 0 SEQF2852 463 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_463 Phylotype Oral 0 AY349385 Oral Clone GT020 712367 0 9 0 494 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum saburreum Named Oral 0 JCM11021 AB525414 | AY349376 Eubacterium saburreum | Oral Clone IR009 467210 2 627 11518 SEQF2760 | SEQF2761 Recently renamed in paper 'Lachnoanaerobaculum a new genus in Lachnospiraceae; characterization of Lachnoanaerobaculum umeaense gen. nov. sp. nov. isolated from human small intestine Lachnoanaerobaculum orale gen. nov. sp. nov. isolated from saliva and reclassification of Eubacterium saburreum (Prevot) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov'. PMID: 22228654. The genome for this strain is available as Eubacterium saburreum DSM 3986 (AEPW00000000). The name change is not yet refledted for the genome at NCBI (11-02-2012). 496 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnoanaerobaculum sp._HMT_496 Phylotype Unassigned 0 AY349379 Oral Clone JI012 1164882 0 0 0 498 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_498 Unnamed Oral 0 AY349387 IK040 712368 0 15 0 SEQF2920 500 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-8] bacterium_HMT_500 Unnamed Oral 0 AY349389 Oral Clone JM048 186803 0 0 0 SEQF3066 529 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus acidophilus Named Unassigned 0 AB008203 Bacillus acidophilus | Thermobacterium intestinale 1579 2645 3767 29726 SEQF1073 | SEQF1761 | SEQF2108 | SEQF2540 | SEQF2551 | SEQF2552 | SEQF2600 | SEQF2601 | SEQF2602 558 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Levilactobacillus brevis Named Unassigned 0 AF090328 Bacillus casei g | Bacillus g | Betabacterium breve | Lactobacterium breve 1580 567 1878 27491 SEQF1252 | SEQF1638 | SEQF2565 563 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia buccalis Named Oral 0 ATCC 14201 L37788 Leptothrix buccalis 40542 83 33 6625 SEQF1287 Leptotrichia buccalis is a common oral bacteria. Previously all human oral Leptotrichia isolates were lumped into the single species L. buccalis. From 16S rRNA studies we now recognize that there are approximately 20 Leptotrichia species five of which been named [2]. The early literature was confused as two organisms were called Leptotrichia buccalis [1]. Leptotrichia buccalis requires anaerobic culture for initial isolation. Some strains are reported to grow aerobically in the presence of CO2 on subsequent passage. Straight or slightly curved rods. Cells 0.8-1.5 um wide and 5-15 um long. Cells frequently arranged in chains or septate filaments. Gram-negative but may be Gram-positive in young cultures. Ferments glucose and several other sugars to lactic acid. Commonly found in dental plaque. Leptotrichia buccalis is not commonly pathogenic but has on rare occasions been associated with bacteraemia and endocarditis particularly in neutropenic patients [3]. It has been endodontic leasions by checkerboard hybridization [4]. 568 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus casei Named Unassigned 0 D16552 Bacillus a | Bacillus casei a | Bacterium casei a | Caseobacterium vulgare | Lactobacterium casei | Streptobacterium casei 1582 3323 6514 104213 SEQF1246 | SEQF1493 | SEQF2109 | SEQF2110 | SEQF2493 | SEQF2494 | SEQF2495 | SEQF2496 | SEQF2566 608 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus fermentum Named Oral 0 M58819 Bacillus casei d | Bacillus d | Lactobacillus cellobiosus | Lactobacterium fermentum 1613 668 4339 31041 SEQF1533 | SEQF1766 | SEQF1964 | SEQF2541 | SEQF2605 614 Bacteria Firmicutes Bacilli Bacillales Bacillaceae Lysinibacillus fusiformis Named Unassigned 0 M77486 Aerobacillus fusiformis | Bacillus sphaericus 28031 36 1096 23807 SEQF1920 | SEQF2422 Bacillus fusiformis was renamed to Lysinibacillus fusiformis in 2007. (http://ijs.microbiologyresearch.org/content/journal/ijsem/10.1099/ijs.0.63867-0) 615 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus gasseri Named Oral 0 M58820 1596 335 1424 29082 SEQF1255 | SEQF1767 | SEQF1768 | SEQF1769 | SEQF2497 | SEQF2557 | SEQF2558 709 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus oris Named Unassigned 0 X94229 1632 12 275 7297 SEQF1856 | SEQF1910 716 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus paracasei Named Oral 0 D79212 1597 542 23841 142644 SEQF1254 | SEQF1262 | SEQF1777 | SEQF2526 | SEQF2527 | SEQF2528 723 Bacteria Actinobacteria Coriobacteriia Coriobacteriales Atopobiaceae Lancefieldella parvula Named Oral 0 AF292372 Peptostreptococcus parvulus | Streptococcus parvulus 1382 7 127 4067 SEQF1084 | SEQF2726 749 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lacticaseibacillus rhamnosus Named Oral 0 AF243146 Lactobacillus casei 47715 1391 6902 83494 SEQF1257 | SEQF1717 | SEQF1718 | SEQF1781 | SEQF2114 | SEQF2117 | SEQF2118 | SEQF2119 | SEQF2499 | SEQF2500 | SEQF2568 | SEQF2569 750 Bacteria Actinobacteria Coriobacteriia Coriobacteriales Atopobiaceae Lancefieldella rimae Named Oral 0 AF292371 Lactobacillus rimae 1383 10 196 3084 SEQF1003 | SEQF2780 756 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Ligilactobacillus salivarius Named Oral 0 AF089108 1624 343 1203 29214 SEQF1259 | SEQF1782 | SEQF1966 | SEQF2120 | SEQF2121 | SEQF2122 | SEQF2328 | SEQF2628 804 Bacteria Firmicutes Bacilli Lactobacillales Streptococcaceae Lactococcus lactis Named Oral 0 M58837 Bacterium lacti | Bacterium lactis | Streptococcus lactis 1358 4733 14041 130303 SEQF1482 | SEQF1500 | SEQF1501 | SEQF1719 | SEQF2150 | SEQF2151 | SEQF2152 | SEQF2374 | SEQF2473 | SEQF2559 | SEQF2560 | SEQF2561 | SEQF2570 816 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus coleohominis Named Unassigned 0 AM113776 Lactobacillus coleohominis 181675 0 78 3304 SEQF1922 817 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus crispatus Named Oral 0 Y17362 Eubacterium crispatum 47770 202 3263 40308 SEQF1368 | SEQF1930 | SEQF2084 | SEQF2420 | SEQF2421 818 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus reuteri Named Unassigned 0 L23507 Lactobacillus fermentum 1598 770 4212 51006 SEQF1095 | SEQF1120 | SEQF1121 | SEQF1369 | SEQF1778 | SEQF1779 | SEQF1780 | SEQF2544 | SEQF2567 819 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus johnsonii Named Unassigned 0 AJ002515 33959 219 1052 27267 SEQF1026 | SEQF1716 | SEQF1776 | SEQF2103 | SEQF2111 | SEQF2611 825 Bacteria Firmicutes Bacilli Bacillales Listeriaceae Listeria monocytogenes Named Unassigned 0 EU090894 Bacterium monocytogenes | Corynebacterium infantisepticum | Corynebacterium parvulum | Erysipelothrix monocytogenes | Listerella hepatolytica 1639 14669 41951 965051 SEQF1050 | SEQF1051 | SEQF1052 | SEQF1053 | SEQF1456 | SEQF1459 | SEQF1479 | SEQF1543 | SEQF1544 | SEQF1545 | SEQF1546 | SEQF1547 | SEQF1548 | SEQF1549 | SEQF1551 | SEQF1552 | SEQF1574 | SEQF1720 | SEQF1721 | SEQF2123 | SEQF2153 | SEQF2154 | SEQF2155 838 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus iners Named Vaginal 0 Y16329 Lactobacillus sp. EF group 47 147802 48 1106 26827 SEQF1770 | SEQF2090 | SEQF2091 | SEQF2092 | SEQF2093 | SEQF2094 | SEQF2095 | SEQF2096 | SEQF2097 | SEQF2098 | SEQF2099 | SEQF2100 | SEQF2101 | SEQF2102 839 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactobacillus jensenii Named Vaginal 0 AF243159 109790 89 599 15357 SEQF1104 | SEQF1649 | SEQF1773 847 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_847 Unnamed Unassigned 0 FJ577250 1785996 0 0 0 SEQF2790 861 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactiplantibacillus plantarum Named Unassigned 0 ATCC 14917 | DSM 20174 EU559598 Previously provisional taxon D15 1590 2847 9547 106737 SEQF1965 | SEQF1984 | SEQF2104 | SEQF2112 | SEQF2113 | SEQF2441 | SEQF2498 | SEQF2525 | SEQF2542 | SEQF2543
Was previously provisional taxon D15 in RefSeq Extended V1.1
879 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_879 Unnamed Oral 0 1227267 0 340 4876 SEQF2353 881 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus buchneri Named Unassigned 0 ATCC 4005 AB205055 1581 155 535 18875 SEQF2418 | SEQF2427 | SEQF2428 882 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus panis Named Oral 0 CCUG 37482 X94230 47493 27 56 40 SEQF2809 883 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lactiplantibacillus pentosus Named Unassigned 0 ATCC 8041 D79211 1589 231 443 10605 SEQF2419 884 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Lentilactobacillus rapi Named Unassigned 0 DSM 19907 | YIT 11204 NR_041659 481723 5 15 4 SEQF2810 909 Bacteria Fusobacteria Fusobacteriia Fusobacteriales Leptotrichiaceae Leptotrichia sp._HMT_909 Phylotype Oral 0 KC203062 Leptotrichia sp. clone CP4_C6 32067 0 0 0 924 Bacteria Firmicutes Clostridia Eubacteriales Lachnospiraceae Lachnospiraceae_[G-9] bacterium_HMT_924 Phylotype Unassigned 0 AY959209 186803 0 0 0 938 Bacteria Firmicutes Bacilli Lactobacillales Lactobacillaceae Limosilactobacillus reuteri Named Unassigned 0 K16 KC700337 1598 0 0 0