diff --git a/subsets/taxslim.obo b/subsets/taxslim.obo index ba13d44..a2c243a 100644 --- a/subsets/taxslim.obo +++ b/subsets/taxslim.obo @@ -7828,7 +7828,7 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:1052585 -name: Bacillus spizizenii TU-B-10 +name: Bacillus subtilis subsp. spizizenii TU-B-10 namespace: ncbi_taxonomy synonym: "Bacillus subtilis subsp. spizizenii str. TU-B-10" EXACT equivalent_name [] synonym: "Bacillus subtilis subsp. spizizenii strain TU-B-10" EXACT equivalent_name [] @@ -29867,7 +29867,7 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:1232713 -name: Xanthomonas euvesicatoria pv. viticola LMG 965 +name: Xanthomonas campestris pv. viticola LMG 965 namespace: ncbi_taxonomy synonym: "Xanthomonas axonopodis pv. viticola LMG 965" RELATED synonym [] synonym: "Xanthomonas campestris pv. viticola ICMP 3867" RELATED synonym [] @@ -31107,7 +31107,7 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:1246626 -name: Shouchella lehensis G1 +name: Alkalihalobacillus lehensis G1 namespace: ncbi_taxonomy synonym: "Bacillus lehensis G1" RELATED synonym [] xref: GC_ID:11 @@ -34019,7 +34019,7 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:1263041 -name: Phocaeicola coprophilus CAG:333 +name: Bacteroides coprophilus CAG:333 namespace: ncbi_taxonomy xref: GC_ID:11 is_a: NCBITaxon:387090 ! Phocaeicola coprophilus @@ -34051,7 +34051,7 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:1263052 -name: Phocaeicola plebeius CAG:211 +name: Bacteroides plebeius CAG:211 namespace: ncbi_taxonomy xref: GC_ID:11 is_a: NCBITaxon:310297 ! Phocaeicola plebeius @@ -34183,7 +34183,7 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:1263078 -name: Anaerobutyricum hallii CAG:12 +name: Eubacterium hallii CAG:12 namespace: ncbi_taxonomy xref: GC_ID:11 is_a: NCBITaxon:39488 ! Anaerobutyricum hallii @@ -40827,8 +40827,6 @@ property_value: has_rank NCBITaxon:strain id: NCBITaxon:13379 name: Callistephus chinensis namespace: ncbi_taxonomy -synonym: "Aster chinensis" RELATED synonym [] -synonym: "China aster" EXACT common_name [] synonym: "Chinese aster" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:13378 ! Callistephus @@ -45775,7 +45773,7 @@ property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:1401074 -name: Hoylesella buccalis DNF00853 +name: Prevotella buccalis DNF00853 namespace: ncbi_taxonomy xref: GC_ID:11 is_a: NCBITaxon:28127 ! Hoylesella buccalis @@ -48175,10 +48173,10 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:1447716 -name: Bifidobacterium catenulatum PV20-2 +name: Bifidobacterium kashiwanohense PV20-2 namespace: ncbi_taxonomy xref: GC_ID:11 -is_a: NCBITaxon:1686 ! Bifidobacterium catenulatum +is_a: NCBITaxon:630129 ! Bifidobacterium catenulatum subsp. kashiwanohense property_value: has_rank NCBITaxon:strain [Term] @@ -52397,7 +52395,6 @@ property_value: has_rank NCBITaxon:species id: NCBITaxon:1505 name: Paeniclostridium sordellii namespace: ncbi_taxonomy -alt_id: NCBITaxon:1796621 alt_id: NCBITaxon:2998057 alt_id: NCBITaxon:2998058 alt_id: NCBITaxon:2998059 @@ -61283,7 +61280,6 @@ property_value: has_rank NCBITaxon:subspecies id: NCBITaxon:1680 name: Bifidobacterium adolescentis namespace: ncbi_taxonomy -alt_id: NCBITaxon:2881277 alt_id: NCBITaxon:592977 synonym: "Bifidobacterium stercoris" RELATED synonym [] xref: GC_ID:11 @@ -79946,11 +79942,8 @@ property_value: has_rank NCBITaxon:genus id: NCBITaxon:203135 name: Halomicrobium namespace: ncbi_taxonomy -alt_id: NCBITaxon:1763447 -synonym: "Halosiccatus" RELATED synonym [] xref: GC_ID:11 xref: PMID:18836684 -xref: PMID:26596884 is_a: NCBITaxon:1963268 ! Haloarculaceae property_value: has_rank NCBITaxon:genus @@ -117648,7 +117641,7 @@ property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:290434 -name: Borreliella bavariensis PBi +name: Borrelia garinii subsp. bavariensis PBi namespace: ncbi_taxonomy alt_id: NCBITaxon:649587 synonym: "Borrelia bavariensis PBi" EXACT equivalent_name [] @@ -126534,7 +126527,7 @@ name: Sulidae namespace: ncbi_taxonomy synonym: "gannets and boobies" EXACT genbank_common_name [] xref: GC_ID:1 -is_a: NCBITaxon:3073854 ! Suliformes +is_a: NCBITaxon:9205 ! Pelecaniformes property_value: has_rank NCBITaxon:family [Term] @@ -131105,14 +131098,6 @@ xref: GC_ID:1 is_a: NCBITaxon:3087 ! Scenedesmus property_value: has_rank NCBITaxon:species -[Term] -id: NCBITaxon:3073854 -name: Suliformes -namespace: ncbi_taxonomy -xref: GC_ID:1 -is_a: NCBITaxon:8825 ! Neognathae -property_value: has_rank NCBITaxon:order - [Term] id: NCBITaxon:3074 name: Parachlorella kessleri @@ -132523,14 +132508,16 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:311403 -name: Rhizobium rhizogenes K84 +name: Agrobacterium radiobacter K84 namespace: ncbi_taxonomy -synonym: "Agrobacterium radiobacter K84" EXACT equivalent_name [] -synonym: "Agrobacterium tumefaciens K84" EXACT equivalent_name [] -synonym: "Rhizobium radiobacter K84" EXACT equivalent_name [] +synonym: "Agrobacterium radiobacter str. K84" EXACT equivalent_name [] +synonym: "Agrobacterium radiobacter strain K84" EXACT equivalent_name [] +synonym: "Agrobacterium rhizogenes K84" RELATED synonym [] +synonym: "Agrobacterium tumefaciens K84" RELATED synonym [] +synonym: "Rhizobium radiobacter K84" RELATED synonym [] xref: GC_ID:11 xref: PMID:19251847 -is_a: NCBITaxon:359 ! Rhizobium rhizogenes +is_a: NCBITaxon:358 ! Agrobacterium tumefaciens property_value: has_rank NCBITaxon:strain [Term] @@ -133315,7 +133302,6 @@ id: NCBITaxon:313354 name: Liocarcinus depurator namespace: ncbi_taxonomy synonym: "harbour crab" EXACT common_name [] -synonym: "Polybius depurator" RELATED synonym [] synonym: "Portunus depurator" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:313353 ! Liocarcinus @@ -134805,7 +134791,7 @@ is_a: NCBITaxon:11120 ! Infectious bronchitis virus [Term] id: NCBITaxon:316273 -name: Xanthomonas euvesicatoria pv. vesicatoria str. 85-10 +name: Xanthomonas campestris pv. vesicatoria str. 85-10 namespace: ncbi_taxonomy synonym: "Xanthomonas campestris pv. vesicatoria 85-10" EXACT equivalent_name [] synonym: "Xanthomonas campestris pv. vesicatoria strain 85-10" EXACT equivalent_name [] @@ -140617,7 +140603,6 @@ name: [Ruminococcus] torques namespace: ncbi_taxonomy alt_id: NCBITaxon:46230 synonym: "Mediterraneibacter torques" RELATED synonym [] -synonym: "Ruminococcus torques" RELATED synonym [] xref: GC_ID:11 xref: PMID:29855844 is_a: NCBITaxon:2316020 ! Mediterraneibacter @@ -148457,6 +148442,7 @@ namespace: ncbi_taxonomy synonym: "Bacillus coagulans 36D1" RELATED synonym [] synonym: "Bacillus coagulans str. 36D1" EXACT equivalent_name [] synonym: "Bacillus coagulans strain 36D1" EXACT equivalent_name [] +synonym: "Weizmannia coagulans 36D1" RELATED synonym [] xref: GC_ID:11 is_a: NCBITaxon:1398 ! Heyndrickxia coagulans property_value: has_rank NCBITaxon:strain @@ -154506,7 +154492,7 @@ property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:359 -name: Rhizobium rhizogenes +name: Agrobacterium rhizogenes namespace: ncbi_taxonomy alt_id: NCBITaxon:270638 alt_id: NCBITaxon:360 @@ -154514,14 +154500,13 @@ synonym: "Agrobacterium biovar 2" RELATED synonym [] synonym: "Agrobacterium genomic group 10" RELATED synonym [] synonym: "Agrobacterium genomic species 10" RELATED synonym [] synonym: "Agrobacterium genomosp. 10" RELATED synonym [] -synonym: "Agrobacterium rhizogenes" RELATED synonym [] -synonym: "Phytomonas rhizogenes" RELATED synonym [] +synonym: "Rhizobium rhizogenes" RELATED synonym [] xref: GC_ID:11 xref: PMID:11211278 xref: PMID:11931171 xref: PMID:16560572 xref: PMID:8240952 -is_a: NCBITaxon:379 ! Rhizobium +is_a: NCBITaxon:357 ! Agrobacterium property_value: has_rank NCBITaxon:species [Term] @@ -155132,8 +155117,6 @@ property_value: has_rank NCBITaxon:species id: NCBITaxon:3605 name: Vitis aestivalis namespace: ncbi_taxonomy -alt_id: NCBITaxon:2448765 -synonym: "Vitis rufotomentosa" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:3603 ! Vitis property_value: has_rank NCBITaxon:species @@ -185781,7 +185764,6 @@ name: Glutamicibacter uratoxydans namespace: ncbi_taxonomy synonym: "Arthrobacter uratoxydans" RELATED synonym [] xref: GC_ID:11 -xref: PMID:23194805 xref: PMID:26486726 is_a: NCBITaxon:1742989 ! Glutamicibacter property_value: has_rank NCBITaxon:species @@ -221421,7 +221403,7 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:582744 -name: Methylovorus glucosotrophus SIP3-4 +name: Methylovorus glucosetrophus SIP3-4 namespace: ncbi_taxonomy synonym: "Methylovorus glucosetrophus str. SIP3-4" EXACT equivalent_name [] synonym: "Methylovorus glucosetrophus strain SIP3-4" EXACT equivalent_name [] @@ -236112,7 +236094,7 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:655816 -name: Bacillus spizizenii str. W23 +name: Bacillus subtilis subsp. spizizenii str. W23 namespace: ncbi_taxonomy synonym: "Bacillus subtilis subsp. spizizenii strain W23" EXACT equivalent_name [] xref: GC_ID:11 @@ -238599,7 +238581,7 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:66692 -name: Shouchella clausii KSM-K16 +name: Alkalihalobacillus clausii KSM-K16 namespace: ncbi_taxonomy alt_id: NCBITaxon:296724 synonym: "Bacillus clausii KSM-K16" RELATED synonym [] @@ -264371,13 +264353,12 @@ property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:81770 -name: Muscari comosum +name: Leopoldia comosa namespace: ncbi_taxonomy alt_id: NCBITaxon:796800 -synonym: "Hyacinthus comosus" RELATED synonym [] -synonym: "Leopoldia comosa" RELATED synonym [] +synonym: "Muscari comosum" RELATED synonym [] xref: GC_ID:1 -is_a: NCBITaxon:16161 ! Muscari +is_a: NCBITaxon:796799 ! Leopoldia property_value: has_rank NCBITaxon:species [Term] @@ -273901,7 +273882,7 @@ property_value: has_rank NCBITaxon:strain [Term] id: NCBITaxon:873533 -name: Hoylesella oralis ATCC 33269 +name: Prevotella oralis ATCC 33269 namespace: ncbi_taxonomy synonym: "Prevotella oralis JCM 12251" RELATED synonym [] synonym: "Prevotella oralis str. ATCC 33269" EXACT equivalent_name [] @@ -281103,7 +281084,7 @@ namespace: ncbi_taxonomy synonym: "cormorants and shags" EXACT genbank_common_name [] xref: GC_ID:1 xref: PMID:24994028 -is_a: NCBITaxon:3073854 ! Suliformes +is_a: NCBITaxon:9205 ! Pelecaniformes property_value: has_rank NCBITaxon:family [Term] @@ -281217,7 +281198,7 @@ namespace: ncbi_taxonomy synonym: "anhingas" EXACT genbank_common_name [] synonym: "darters" EXACT common_name [] xref: GC_ID:1 -is_a: NCBITaxon:3073854 ! Suliformes +is_a: NCBITaxon:9205 ! Pelecaniformes property_value: has_rank NCBITaxon:family [Term] @@ -287524,8 +287505,6 @@ property_value: has_rank NCBITaxon:species id: NCBITaxon:96241 name: Bacillus spizizenii namespace: ncbi_taxonomy -alt_id: NCBITaxon:1963032 -synonym: "Bacillus intestinalis" RELATED synonym [] synonym: "Bacillus subtilis subsp. spizizenii" RELATED synonym [] xref: GC_ID:11 xref: PMID:10425781