3300029245: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI019817-21

Overview

Basic Information

• IMG/M Taxon OID: 3300029245
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127425 | Gp0193027 | Ga0168762
• Sample Name: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI019817-21
• Sequencing Status: Permanent Draft
• Sequencing Center: Beijing Genomics Institute (BGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 209666752
• Sequencing Scaffolds: 31
• Novel Protein Genes: 34
• Associated Families: 27

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	12
Not Available	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	2
All Organisms → cellular organisms → Bacteria	3
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Clostridium → environmental samples → Clostridium sp. CAG:793	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Host-Associated Microbial Communities From Gut And Oral Samples Of Rheumatoid Arthritis Patients In China
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Large Intestine → Fecal → Host-Associated → Host-Associated Microbial Communities From Gut And Oral Samples Of Rheumatoid Arthritis Patients In China

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Animal → Animal secretion

Location Information

• Location: China: Beijing, Peking Union Medical College
• Coordinates
  • Lat. (^o): 39.911947
  • Long. (^o): 116.4156125
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F013656	Metagenome	269	Y
F029444	Metagenome	188	Y
F039198	Metagenome	164	Y
F043945	Metagenome	155	N
F044554	Metagenome	154	N
F045105	Metagenome	153	N
F047125	Metagenome / Metatranscriptome	150	N
F047126	Metagenome	150	N
F047755	Metagenome	149	Y
F050793	Metagenome	145	N
F051935	Metagenome	143	N
F058154	Metagenome	135	N
F067720	Metagenome	125	Y
F074964	Metagenome	119	N
F076189	Metagenome	118	N
F077319	Metagenome	117	N
F078003	Metagenome	117	N
F078822	Metagenome	116	N
F081453	Metagenome	114	N
F082715	Metagenome / Metatranscriptome	113	N
F082887	Metagenome / Metatranscriptome	113	Y
F089053	Metagenome	109	Y
F090515	Metagenome	108	N
F095494	Metagenome	105	N
F096287	Metagenome	105	N
F099406	Metagenome	103	N
F101191	Metagenome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0168762_100053	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	189667
Ga0168762_100088	Not Available	154894
Ga0168762_100092	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	150806
Ga0168762_100122	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	129654
Ga0168762_100171	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	108055
Ga0168762_100268	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → unclassified Eubacteriales → Clostridiales bacterium	85611
Ga0168762_100330	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	74515
Ga0168762_100360	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	71130
Ga0168762_100392	All Organisms → cellular organisms → Bacteria	66329
Ga0168762_100454	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	59417
Ga0168762_100461	All Organisms → cellular organisms → Bacteria	58348
Ga0168762_100498	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	55165
Ga0168762_100500	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	55092
Ga0168762_100519	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	53785
Ga0168762_100528	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	53225
Ga0168762_100743	All Organisms → cellular organisms → Bacteria	41098
Ga0168762_101015	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	32163
Ga0168762_101524	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	22982
Ga0168762_101646	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	21483
Ga0168762_103312	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	11027
Ga0168762_104097	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	8908
Ga0168762_104398	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	8241
Ga0168762_106494	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	5335
Ga0168762_110574	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Clostridium → environmental samples → Clostridium sp. CAG:793	2974
Ga0168762_111741	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	2616
Ga0168762_112377	Not Available	2461
Ga0168762_114896	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	1950
Ga0168762_118497	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1501
Ga0168762_120604	Not Available	1316
Ga0168762_123041	Not Available	1156
Ga0168762_127985	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	925

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0168762_100053	Ga0168762_10005310	F096287	MRRIQKRRAGQRQTQNALIGLLSAVSMTRIGLTQLLPLCGSAAWWLSAACMLPGLCVYGTLRLLLRHTHTRTLTDCARKLLGNFGGILIMLALTLPLLLDGAASLTALITFFTEGIGARGSQFTLTLLTASVMLIALNRDGLPRGVYLLRHVLLVAAGIIAINALLDAHPDGIVPLLGEGVPSLLSGIRSAWGMSWVLLLLLEFPAEEGTRRTPAMLAGLLPCPVILLLLSLAIPPELTVPGRSLASRLALPTLFLQPAVRTLAQCLLMMTLFLSIAGSAQLAARFLTSSCQKPKKWVPYALIGLLTLTQLFDISRLWRVLTALTAWSLAPGVLLLLVLTIARLCRRGRA
Ga0168762_100088	Ga0168762_100088198	F074964	MITKKNVNKLQNAVIKENASNLVGAVKLYNALFANGADLKAICKTLEIPAEYAVKVAALAKDKKRLVAVCSQMLPKVGDTFVKFSLYSKVYKDNKVDKEKGIEAKTADWCAENVIYGGEYKSFGFSTAETLETKKSAKWLVKETDEYKATYVAVKIKSYSIRTIAKCVSEYLTHESNQQ
Ga0168762_100088	Ga0168762_10008849	F099406	MAEVGYNSKFEGQEVDSRLENVVQAAPGTGSESGKGGLIPAPPAGSQDGSKTLLSNMTWGDYVNKKYIDDAVSAAGWKKQIVSKLPTVEEAKDNVMYLVKDDVASTETKNVYNEYILVTEEGGGKVLESLGMISTGVNSTYLDLSMFSGNSGTLDEASFGKVLDAYNNKITLGKLAGNYYSLDYFLSGKDLGGVFELKIVFVSFSDTNTGEGTSESDIEIQVGTYTVTQDKAYKALSNMVTLSNTMMSYLRFMSKAPRVVTTLVNLPKDTHNIIANVASATSLSMTVSAEDVGREWQVRVNNTTGNDITQPLPTSGLFQSMSGDSVIVPKNSFIELSIWYINDKLVIRVGEQA
Ga0168762_100092	Ga0168762_10009240	F077319	MLIRNATLQMSATERTCMDVRVMNGCVWEMGAALVKGLYESEIDLHGDVLMPGRMLETPVPAADEKTLRLLCRRLYREGVRYFVADCPADALLRVQNRPERRGALPVTALPNPEPLRSGTGMPLTRWTAAGEFLSMMDEHSGD
Ga0168762_100092	Ga0168762_10009252	F082715	MMKFMKRALSLLISAMLLLGCFALAEETPLLPIAIVSYDLTDEATTAALSALIEPKENALTRWERVVLSDGREAWVICQFDQTTMSNAWSRVIDAETQEVLQEDTTDTGFFATAQARWESAKGIYALWSIQDKMLFDRLYAMAPCYGEPVEGDLTQEEALAAALNVTGLTAADYDAVGYGYIMGSSEQNGTWQVFFVKGSEVISTVNLDARDATILLVEPDEEGNG
Ga0168762_100122	Ga0168762_10012291	F043945	MKHNLRMAFLSLLLVLTLGVMPVFAESTDHAMDWTHGIGSRYRTDVTSALPFEDELFFISGSQLLRVDDPEYEPEVVCNLEDIIWSEALKQSGYYGQVMLLDGGAELVLFSANEGRLYSFVPPTDDPMVRMQMVAELDYSTVPQMGWKKFPIAKDLYDVTVEQAVYDAENGLYVIAKDKTDEYQIVRFDVDTGKGEMMEFALEDEEDSHLMPDMPGFFRWSAESSKYERVLYDGKVLTMVNLPNGEATSVVHNLVNTLTLQPIQDYDVTLGDYVTHDAYYAYAPNKDNTAMYFVHDNTVWVMEYDEENSQFSEPRGIDKLPFFAEDTMCGFYWRGFYLIQTHDGLYLCHTGDATARAYLYGGVE
Ga0168762_100171	Ga0168762_10017114	F058154	MKNRTFQRLFPLLRMGSILLAAVLFCAALIGVNAQLTVGTNEERNLATYLGLALTAVVTYLLQDVPKMLVGRHFGWKLVRYEAFGRVYQADGTGVFVRVPVPAQSRLRYQPYLLPPEDASRHDVTLYTLCPLLYGGALAVVFGVLTLLTLGQPVSLVLCELAMGGVALVMTCILPMDERFIASPMAIARMLRDPEQLAEWLYFARMKANGGVEVTDASIENIPQPATVKTCQDAICVFQRAQIALMVQCDAQKAYGLMKQVLESEARLSYTAWKLLLSDGVVAELLAGEPGEFTALYRGKAGAAIRQVMFRMVDYALPAYAVAMLVTHEAREAEVVRNTLAPVREKMPELDALMKAIEEKAARIES
Ga0168762_100268	Ga0168762_10026863	F051935	MKRLLGLLMAVMVMMGGISCAVAENANPIVSDWLTELKSKRLIQIVEDEIGEGWTLYQPNGREEEENFSSAENLKEMRFLPVVAQKDNQLRLLILRRQGDLWKVSEQNDRALMRDGWTLQNFSAIGYGNSDSADVYFYFSDENQQSWELVMELGDANVSYFSLIYNAEGYGITEIIMSYDCGMKFQVDAPGYLQLSYEVDPVEEYSCRVEDFDLATCPLSMQEFLVPAVVTCGEEGAGLYIMVQQDVQPIVMLADGDAIEAIPQKWELDWTIVYYQGNYLFMKTENCKIEE
Ga0168762_100282	Ga0168762_10028225	F045105	MSDKLKRVLDTNLAGLHVTDAQVNAVLRRVSQDEKRPRVIRWQAIAAVLLVLVLGAGVLLQTGILSDDSPQLTADVTRQGDFLTAAQVKKLLASAADLQFSVDEEAISALMTQVEKDGGCSLSTLLEILCPEGSSLGQWDIRAQVALSQTLERIGYQGILPGMTREPLSTEITAQDALARAVAYIHTNDDPQADFTNLDFYRVGIRFLSGVYDGTCEGAYYCVNFDALDAFGTTYEVAVNAEDGSICRMRRERGAGSNHTADEVTRGFRRIFGYDMRTWTPMQLRVYILALSRADRSSMQTVHELFLSVGRDGFPDVPVEALTREEAIDAALAIQGGSSSDVLAAEYLAGASGDFWKIAIRQPNAPSGQSIVYLELNGLTGTLLTTTYSGNLYGLPQEFFPSQLLSTLDRTDFSHGVPAVDAETAQSAASAAIERQYQRNMAEEGYTCFIESDFEDTAGGFSYYTGGGVVIFTKDAQNTSQGDIYWAALNWYGEVLDVGWNRNPLDAARFTLLMQGYLPPIYQRETVQQLQALLTGGLTDEAGLRQMEADGTLPLFNALLALEVVPDASMKSTADDVTAAALKSLNAHLCYENSSFLVYREDGELIWHFWLSTDMGYFLMDVRDSDLSVVGSVQIPSFSALRASILLPVRVWNTLAEDLRVTVFYRDADTQPGTVYGMYTSRIVQRYVDLYGANILRWDQATLRSFQSAISISGSYVGDWSVACLRQTIYPDVPDYAISQEVAAEYAARALGDDDYSLRGGVLIDPGEGDPIWKVTLDYPDGRSFNAEVDCRTGAIRTLRQQDTRAMPFYTDYLDFPDDGEYWFRNFVLDEVIEQVRTQMTGRYGNNI
Ga0168762_100330	Ga0168762_10033059	F044554	VLAGRFIPVLCASIARLFPCRTEIARCLTLDFAISRYLFFSFSFSFRANFAQALFSSLLFVSDTRAKSILFLLFESEIAHLQGQYRFNSHRYCFSAFLVL
Ga0168762_100360	Ga0168762_10036019	F076189	VLSAGHCFFLSPFIKPLLYVEKLQIGTVLPVVSDSYREFAELSAYFDLYAIQSAQKQLKMLCNFHENTFRLLIFYTNYAIL
Ga0168762_100392	Ga0168762_10039228	F082887	MEKLKTIAKYLTNILAIVSALVAGINAVDGITIPYAIQIVQVIAVVQGVIGTYLLGQKAINNKEE
Ga0168762_100454	Ga0168762_10045411	F078003	VNEHLAFAQCLQRVLNETELTATEVARRLEMRSRNSIFRILKGKTSPQLNRRFLESFHKHMGEQLTEAQWAALNRALEMDAVGEVEYKSRQALMQLVGAFSEPISPAKVCYLDALGAEKEDSFLHYLQVLFCGALKVNALLFGCCDLGLFRQLQEAIHPVAQRVIVRIDHFIYAGEDEIVSNLVGIQPMVDQPCYHAYLVDAENCPQERLAHYRTGQMTFHVMHQDGSESTVALFLLGKNEFTATVMSTQDLWMSRKVLCDRERFSPIRLLWQLNDENSDFIVYTQQYCKMEHGAAIYYIRPDVPFQYIPLEVLYPVVREGFARMGMTREEYEPNVTALAEIHQARMTNMMRRRRPTYIVLNKAAMEEFVRTGRQSDHLHFLRNFTPKERKQILDVLVQQARENPFFHLYFAQEKLPYTMGEVALYDGRALITMSSGSGYDLRTDHRESCITHPFVLRAYKQFYMNTVVARLADTQTESLNQLEELVRRCEKMIREGQKGNAGNEQEKLSGQ
Ga0168762_100461	Ga0168762_10046128	F013656	MEKIYKEPNKSETETTINVLYSENMLSIYTNKVNLQRQLNKLLGAPTKEDKIKRSIAGSRWNISLDDKTKIQKIILKANIYEL
Ga0168762_100498	Ga0168762_10049831	F067720	MESTTYEHFVDTNKMYAAQEQFRGITKMVCARFRGLTKTYHIGNVNKLVTFCHRFASIGNMVRNAGQLPQPFWLGAACGGGSRSAACCAART
Ga0168762_100500	Ga0168762_1005001	F078822	YQRSYFLSSTFFDIFLSFPNAFLKAFHPHAVRFPAAFLLVHRFYLAFEELLSCATAYL
Ga0168762_100519	Ga0168762_1005199	F095494	VSDPKEKEVQAILQAIDYGHLPPRETQRRLLNIIQAEAARTDAPTDETKIHTCMDLLERLQGEQKPIAPARVDALRQHIAAAHQKNERKRQKRKKIIAAAACSAAAIAVAFAVSHPLLWYENWTTSDEQQHFVTSHEIAIEMLETAVADPMLPTDDTVEVQSIAALDALIGRKTGIPEMVNGQWELQHRYVNFTRSGISISLMYVNAADAQQTIVGVINLISNPQYMMLSFEQSYEGTIQQFDGLNFYITENINKPVALWQGDDKLLLFSGRTSQDEVTSLLRTIIREMGE
Ga0168762_100528	Ga0168762_10052812	F101191	LLISHHPASAECLQLGEGMLLCGFDLDKALSSRDPLDCMAEAVADDTKRIGTTCGGGIFRAVPREFDPESGSHRLPFAGSIRLIDWRVTLSGTMLDVTPENLARLLPSDTEMTERVTTLTPKQARKPLSRLCWIGTTSRGLLVIELRNPLCISGASLTSVPDGAGRLPFTFLAQSDRPGDVNLPARLYWWKEETHDAA
Ga0168762_100743	Ga0168762_10074335	F050793	MRETGTIAPNDAEGEKTMRKYEVLVPENVEMADIHAIQTRVKKHNLLTAALLIPLFAGCALRESSETLGGIVFLLSIALMVLGFISGRGDEKRLPAYWAKYQQIHRMDNLLRANLVGVWLCAEARVAVYREGSGYRVQLDVLNEKTGAWENDEQDEVFPTLADVREYATQEGYEPMDVDFEQMTDEEFQQFLDRSRI
Ga0168762_101015	Ga0168762_1010155	F039198	MQITSCEFTNTKYIQIYLTEEELQKQETKEIIKKYKKEKYRVAIFVAGKENYPEILEKIITKQKELKRNVC
Ga0168762_101524	Ga0168762_1015243	F047755	MENKKVQYLINIINDMDLKDKLRLAICMSQSKWAGLIYNTKENYEKFDKILKEVDEEYRTTLINFSKYKLVMFAMAKIMEMTKEEQNQVALFLFNAVILEFNMKKTF
Ga0168762_101646	Ga0168762_10164619	F047126	VYLKTKKMTNISQTQAGFKSKSLGSLCGFQGFLTQNPAALVETDDNFDVSDTPYGFSGLNTLRAAGVPNPPPPFAQRFIACFCSQTAAASQNKSAHILSSLESPCILCSLLRYFHILSKKLQKTC
Ga0168762_103312	Ga0168762_1033129	F047755	MIQDFKRMYFDIEKVKEQSKLEYLIYIIKGMDIKDKLRLAICMNDSECLTLDYDKKEMYNKFDSKLKEIDEEYRTTLINFGQSKYFIINFAMAKLMEMEQVDRNKVALYLFNNIKIQ
Ga0168762_104097	Ga0168762_1040974	F013656	MKKIYKEPNKSETETTINVLYSENILSICTNKVDLQKKLNKLLGEPEKEYKIKRSIAGSTWNISLDDKTKIQKIILKANIYDI
Ga0168762_104398	Ga0168762_1043987	F013656	MNKKIYKEPLKSETETTINVLYGENLLSLYTNKVGLQKQLNKILGEPTKEYKIKRSIAGSLWEISLNDKAKIQKLILKANIYEL
Ga0168762_106494	Ga0168762_1064945	F082887	MGKIKKIAKYATNILAIVSALVAGINAVEGITIPYAIQIVQIIAVVQGVIGTYLLGQKAIAEKEEK
Ga0168762_110574	Ga0168762_1105741	F082887	MEKLKKIAKYTTNILAIVSALVAGINAVDGITIPYAIQIVQIIAVIQGVIGTYLLGQKVVTNKEDK
Ga0168762_111741	Ga0168762_1117415	F029444	QLTGFELEDLMSWTVSNLQRPFREDFSLEKSGIIAEKGSQILGCRFVGFDGPKKVAPFFN
Ga0168762_112377	Ga0168762_1123775	F029444	MEVSEQLTGFELEDLMSWTVSNLQRPFREDFSLKKSGIIAEKESQIFGCRFVGFDRPKKAAPFFNF
Ga0168762_114896	Ga0168762_1148962	F047125	MDVVLLLMVLGVMLSGFWAADALDHIRREIIRQEGKRRGWWS
Ga0168762_118497	Ga0168762_1184972	F089053	MEGPRPDKFAFGVRNGRVVDGCRPVENCIRKWIYESANGQLELSTTEEVNVKNMEVFL
Ga0168762_120604	Ga0168762_1206041	F039198	MKLTIAEIQGTKYIQIYLTEEELQKKETKDLVKKYKQEKYSVAIFVSGKENYPEILEKIITKQVGLNRNVC
Ga0168762_123041	Ga0168762_1230412	F090515	VTTCCKAGPKAALQGTAPKRVACLEFAGGEKRKTNIAADYAVKVPAFTALLCRHIGSIRTFLKS
Ga0168762_127985	Ga0168762_1279851	F081453	MSPFFLWIGENIIEKYISANPVYVTNIKAPEFAVKGAPGRKCIQ