3300029117: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI021213-32

Overview

Basic Information

• IMG/M Taxon OID: 3300029117
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127425 | Gp0193083 | Ga0168818
• Sample Name: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI021213-32
• Sequencing Status: Permanent Draft
• Sequencing Center: Beijing Genomics Institute (BGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 157510976
• Sequencing Scaffolds: 13
• Novel Protein Genes: 14
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	4
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Coriobacteriia → Coriobacteriales → Coriobacteriaceae → Collinsella → Collinsella aerofaciens	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → unclassified Clostridia → Clostridia bacterium	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?
F042936	Metagenome	157	N
F047126	Metagenome	150	N
F068811	Metagenome	124	N
F081354	Metagenome	114	Y
F081453	Metagenome	114	N
F087336	Metagenome	110	N
F089005	Metagenome	109	N
F090515	Metagenome	108	N
F092228	Metagenome	107	N
F097172	Metagenome / Metatranscriptome	104	Y
F099269	Metagenome	103	N
F101356	Metagenome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0168818_100002	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	662142
Ga0168818_100031	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	219849
Ga0168818_100138	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	86834
Ga0168818_100147	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	84240
Ga0168818_100178	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	74162
Ga0168818_100431	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	35840
Ga0168818_100670	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	25046
Ga0168818_100845	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	20582
Ga0168818_100901	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	19233
Ga0168818_100937	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	18507
Ga0168818_100953	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	18143
Ga0168818_102168	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Coriobacteriia → Coriobacteriales → Coriobacteriaceae → Collinsella → Collinsella aerofaciens	8627
Ga0168818_148561	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → unclassified Clostridia → Clostridia bacterium	559

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0168818_100002	Ga0168818_100002339	F092228	MKKKCTLVLISVLTVVCIVSAYLLFFYNPSFNMVYDSDTDSYFNNSYLSYNDGTLAAADYRKTKVTAYDSKNNSTVNLPSNGCLINDNLFYINGNKLCCLDTTTNTRKIIDTDCRSFVCNNEVIAYTKNDSVILKNSDTIENIGNIKFDNQIYYINISDGNLYIAERIFEDETDEYGYSLKVGKQYIFKKYDLQSCKLLKSKNANYVNGLRYVTVCQDTFWFFCDETQTVNNVCLDKDVNYPTIQHPDVKFITSNNDCVYYISEKTESAIIRKTVESPYNGIWKLEVGSNKPAKIADKCDCDELLATKNFLYCYTINYILPRGMANSWVKGYLIDQLAIS
Ga0168818_100031	Ga0168818_100031158	F081453	MFPFFLLAGENIIEKHISANPVCGTNIRAPELAVKGAPGRKCVQ
Ga0168818_100138	Ga0168818_10013889	F097172	MKKNVFKKLMCAVLAAACVATAVVPAMADDVVTAEAATKKVTSAYKYHLEGCDKNGYPVDGFSKTSFYKDLNSLPSVKTGKTTINVPAVTSSVKSVSKEKGNPEYESYVKFKAPKTGKYVFTIDNLQGTDDKSLKCMLSGDLCQIFKTGKKYYLDGVEDSDTVGKYDTLYENNYLARLRTILDNYKAEHPEYADVIEETYIDYTDYVNKYPVDKIKFTTRLKKGQTYVFVID
Ga0168818_100147	Ga0168818_1001476	F068811	MDKMDQDGSEHNICSNREGLCPGKEQHGASGWKKIFQHGKEPLRNKDSISQYCNKKAAVSLILNENVSETLCIFSIDKTNCCRI
Ga0168818_100178	Ga0168818_1001783	F097172	MKKNVFKKLMCAVLATACVATAVVPAMADDVVTAEAATRKVTSAYKYHLIGCDKKGYVMDGFSKAAFYKDLNSLPTVKTGKTTVNVPAVTSSVKSVSKEKGKPRYESFVKFKAPKTGKYVFTLNNLQGTDDKSLKCFSGGIYKPVKNEKKYTLEDLYPDEVGDYTTLYENNYLARLRTILDNYKAEHPEYTDVIEETYEYKTDSVNKYPVDKIKFTTRLKKGQTYVFVIDNRGMQKAVPPYFTTHGSDEQSCLWGGNYLKAYSFDMNIEYRK
Ga0168818_100431	Ga0168818_10043116	F087336	MHCLLRGMVAELEQVPKAFRAAVNQRRAAAKERIKDDAIGHGRVSNRILAEIEDNHMRERDTKIGLAEQRQVAFLGIAFQILPFKNKQKKSTPRGKLSKYSFRKQSAN
Ga0168818_100670	Ga0168818_10067010	F090515	LQGTAPGRVACLEFAGGEKRKTNIAADYAVKVSAFTALLCRHIGSIRTFLKS
Ga0168818_100845	Ga0168818_1008451	F047126	MTNISQTQAGFKSKSLGILCGFQGFLTQNPAALVETDDIFDVSDTPSGFSGLNTLRAAGVPNPPPPFAQRFIACFCSQTAAASQSKSAYILSSLESPCILCSLLRYFHILSKKLQKTC
Ga0168818_100901	Ga0168818_1009016	F042936	VWKTKEGIMKTSEIVDRGEDTIRHFEKVEQEGALTPPYLGKVYFRSRLRGKG
Ga0168818_100937	Ga0168818_10093724	F089005	LTKSKRRSIIVLALLRLATSNEESKQALKVRRTLKIEQRENSKETRNDFEESSKNYSEMYTKK
Ga0168818_100953	Ga0168818_1009536	F090515	LQGTAPGRVACLEFAEGEKRKTNIAADYAVKVPAFTALLCRYIGSIRTFLKS
Ga0168818_102168	Ga0168818_1021686	F099269	VHGVLVSVQVGELLLLDDLGDRAGGASVLASATGDAGVLVSDGSDVLELQNASGAGVDANATSDALVGINYGMSHGSFLSVDRRYRRCAPV
Ga0168818_121364	Ga0168818_1213642	F101356	VGELIPVVTPEKDGLSNSKFATTKIKSEGKRSVLLYRSSSSQWAPFAIRVSCISTGEPLSDFCVYIAGNTMELQDSTKVYVKYLYGQPNSDTYLKMKYETDHRISIYLTSDNSLGDRTIVRELIVRDSMYDMATQDDEITGLADCTIVQ
Ga0168818_148561	Ga0168818_1485612	F081354	LSAKKALDLVRENQQSSAHNFVKDFSSIFPKSRRRSPLKKGAATENPLEYGKTEVQILFEPLQAAISSMELPKNFENKKLPNTLRRLAFSPFHL