3300029218: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI012062-30

Overview

Basic Information

• IMG/M Taxon OID: 3300029218
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127425 | Gp0192983 | Ga0168718
• Sample Name: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI012062-30
• Sequencing Status: Permanent Draft
• Sequencing Center: Beijing Genomics Institute (BGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 143730064
• Sequencing Scaffolds: 22
• Novel Protein Genes: 22
• Associated Families: 18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pasteurellales → Pasteurellaceae → Haemophilus → Haemophilus parainfluenzae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	4
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	3
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	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
F026489	Metagenome	197	N
F047125	Metagenome / Metatranscriptome	150	N
F047755	Metagenome	149	Y
F052660	Metagenome	142	N
F062845	Metagenome	130	N
F067720	Metagenome	125	Y
F067845	Metagenome	125	N
F077405	Metagenome	117	N
F078693	Metagenome	116	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0168718_100002	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	746336
Ga0168718_100078	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	152581
Ga0168718_100113	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	120687
Ga0168718_100244	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pasteurellales → Pasteurellaceae → Haemophilus → Haemophilus parainfluenzae	80555
Ga0168718_100348	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	59721
Ga0168718_100605	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	32306
Ga0168718_101291	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides	13608
Ga0168718_101302	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	13536
Ga0168718_101403	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	12412
Ga0168718_101602	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	10769

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0168718_100002	Ga0168718_100002250	F092228	MKKKCTLVLISVLTVACIVSAYLLFFYNPSFNMVYDSDTDSYFNNSYLSYNDGTLAAADYRKTKVTAYDSKNNSTVNLPSNGCLINDNLFYINGDKLCCLDTTTNTRKIIDTDCRSFVCNNEVIAYTKNDFVILKNSDTLENIGDIKFDNQIYYINISDGNLYIAERIFEDKTDEYGYSFKVGKQYIFKKYDLKSCKLLKSKNANYVNGIRYVTVCKDTFYFFCDETQTVNNVCLDKDVNYPTIQHPDVKFITSNNDCVYYISEKTESAIICKTVESPYNGIWKLEVGSNKPVKIADKCDCDELLATKNFLYCYTINYILPRGVANSWVKGYLIDQLAIS
Ga0168718_100078	Ga0168718_10007866	F081453	MYPFFLLAGENIVEKYISANPVCGTNIKAPELAVKGAPGRNCVQ
Ga0168718_100113	Ga0168718_10011376	F062845	MTTKWTEKGDSMKKTPFILHEKFRSDNNEQRKEDFQKEFERYIINGLLNAVPSRACT
Ga0168718_100244	Ga0168718_1002441	F077405	LLVAKQRGVFYGFILLCQIKFVKNFFDWLKIIQKQKVRLK
Ga0168718_100348	Ga0168718_10034842	F067845	MKHWKNLLVCLLAGVLALGVLTACSGLGSVNTGTDAEKAAELAQQLGVAHTQELDNTAKAVAEWFVQEPDSLRVSGLDLVYTVALDADSNMSHTDDLNDFLYWSGCYGVPKDVTVALLLDDSAAMTAWLYAPQADSAAAELLEDAVGHNEMGAAFIDYNGTAYVVAVFR
Ga0168718_100605	Ga0168718_10060512	F052660	MCILRVLPKNTPEKIGQERAGTEWTVVKSKIRLCIRNRSYGRFFYGGILMGIALPIPSHRAKSHDFAHWWPAAAGHSRSADALPGKSNS
Ga0168718_101291	Ga0168718_1012911	F099451	KVIENLSDDYEIEMRIRRKLTDEDIIELHKKYGKIYPYPYETSYSELEFDDVGVSDKVLCLGVELKDE
Ga0168718_101302	Ga0168718_10130212	F067720	MASTTYEHCGNVTAMYTAQEQFRDITKMVCARFRDLTKTYYFAVIGNMMRNAGQLPQPFWLGAACGGGSCSAAPCAART
Ga0168718_101403	Ga0168718_10140313	F087335	MIELYFNDANLLPENREEEQYAEAALNNILAGKTADTEMCIMPCFYDAPLRKGLLYHLDDGTMLRIRPILNEAGEPELLIRCFTEETVEEMMEGVKP
Ga0168718_101602	Ga0168718_10160211	F013656	MGKIYKEPNKSETETTINVLYSENMLSIYTNKVNLQKQLNKLLGAPTKEDKIKRSIAGSRWNISLDDKTKIQKIILKANIYEL
Ga0168718_101607	Ga0168718_1016074	F099451	MRIDKIKTVGQLRKVIENLSDDYEIEMRIRRKLTDEDIIKLHKKYGKIYPYPYETSYSELEFDDVGVSDKVLCLGVELKDK
Ga0168718_102062	Ga0168718_1020628	F026489	VVAEGCSLLTPKENQKSASDFDALEPRKRGCSPLLTPKKWATPEKTEDSRLFGVKIF
Ga0168718_102129	Ga0168718_1021291	F089053	CSSFGVRIGRVVDGCRPAKGCITKRLYVFANGQLKLSTAEEVNVKNMEVFL
Ga0168718_102270	Ga0168718_1022705	F013656	XXXKKIYKEPNKSETETTINVLYSENILSICTNKVDLQKKLNKLLGEPAKEHKIKRSIAGSTWNISLDDKIKIQKIILKANIYDI
Ga0168718_102784	Ga0168718_1027843	F097493	MYKFYSKNGQAQFYEHGVEIDGTVYGIHTDRDILRIKRSVVNSKFAESEEDFDMNVEIAKIQHTDVTFEQPTAEQLSQIQSKTFDSMSDMKQYVQSVMNGDETMSQDEINAMLLLKIAEMEVAITNEQTTN
Ga0168718_103325	Ga0168718_1033256	F013656	MEKIYKEPNKSETETTINVLYSENMLSIYTNKVNLQKKLNKLLGAPTKENKIKRSIAGSTWNIALDDKTKIQKIILKANIYEL
Ga0168718_104305	Ga0168718_1043053	F047125	MDVVLLLMVLGVMLSGFWAADALDYIRKEIIRQEGKRRGWWS
Ga0168718_105618	Ga0168718_1056182	F047755	MEEDKVKNVINIIKDMNIKDKLRLAICMTQSKLSGLIYNTKENYEKFDAMLKEVDEEYRTTLINFGQSKYFNINFAMAKLMEMETT
Ga0168718_105942	Ga0168718_1059423	F078693	MVLALVRGAERSFIQADCSLLMSKENQKTTSDFDALDPRERGCSPLSDPEGVVEAQKC
Ga0168718_112923	Ga0168718_1129232	F088920	VSARPHYYLAFGAGLILHLILHFSQKVAIFAPKRAFSLLFVPTLFFAGLSVLSPQTSPKISGQASLHQPWLSPYCLFKD
Ga0168718_120466	Ga0168718_1204662	F090515	LGKQRHDPGIRGACQEGVTTCCKAGPKAALQGTAPGRVACLEFAGGEKRKTNIAADYAVKVPAFTALLCRHIGSIRTFLKS
Ga0168718_121366	Ga0168718_1213662	F097493	MYKFYMKNGTAYFYERGIEIDGIVYGIRADRDILRIKRRIVNDKFAETDGDFDMDTEIAKIQHTDVTLEQPTSEQLSQIQSKTFDSMSELKQHVQSVMNGDETMSQDEINAMLMLQIAELKAGVDSE