3300029194: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI011681-56

Overview

Basic Information

• IMG/M Taxon OID: 3300029194
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127425 | Gp0192957 | Ga0168692
• Sample Name: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI011681-56
• Sequencing Status: Permanent Draft
• Sequencing Center: Beijing Genomics Institute (BGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 99119781
• Sequencing Scaffolds: 14
• Novel Protein Genes: 14
• Associated Families: 11

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 → Dorea → Dorea longicatena	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	1
Not Available	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → unclassified Roseburia → Roseburia sp.	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?
F026489	Metagenome	197	N
F047125	Metagenome / Metatranscriptome	150	N
F047126	Metagenome	150	N
F056309	Metagenome	137	N
F062845	Metagenome	130	N
F070093	Metagenome	123	N
F071325	Metagenome	122	N
F087336	Metagenome	110	N
F092228	Metagenome	107	N
F097172	Metagenome / Metatranscriptome	104	Y
F097493	Metagenome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0168692_100002	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	472495
Ga0168692_100320	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	30124
Ga0168692_100542	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	20067
Ga0168692_100570	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	19292
Ga0168692_100780	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	15558
Ga0168692_100912	All Organisms → cellular organisms → Bacteria	13943
Ga0168692_100955	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	13485
Ga0168692_100999	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	13051
Ga0168692_102614	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	6477
Ga0168692_104103	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	4500
Ga0168692_107637	Not Available	2473
Ga0168692_107730	All Organisms → Viruses → Predicted Viral	2447
Ga0168692_115904	All Organisms → cellular organisms → Bacteria	1098
Ga0168692_121946	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → unclassified Roseburia → Roseburia sp.	760

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0168692_100002	Ga0168692_100002259	F092228	MKKKCTLVLISVLTVACIVSAYLLFFYNPSFNMVYDPDTDSYFNNSYLSYNDGTLAAADYRKTKVTAYDSKNNSTVNLPSNGCLINDNLFYINGNKLCCLDTTTNTRKIIDTDCRSFVCNNEVIAYTKNDSVILKNSDTLENIGDIKFDNQIYYINISDGNLYIAERIFEDETDEYGYSLKVGKQYIFKKYDLKSCKLLKSKNANYVNGLRYVTVCKDNFYFFCDETQTVNNVCLDKDVNYPTIQHPDVKFITSNNDCVYYISEKTESAIICKTVESPYNGIWKLEVGSNKPVKIADKCDCDELLATKNFLYCYTINYILPRGVANSWVKCYLIDQLAIS
Ga0168692_100320	Ga0168692_10032028	F056309	RVRITVKGTKRTCLRRMPSLSVVPLLLGGSDSLSVSYGMEPEQEALSIVYFKD
Ga0168692_100542	Ga0168692_10054220	F047126	VYLKTKKMTNISQTQAGFKSKSLGILCGFQGFLTQNPAALVETDDIFDVSDTPSGFSGLNTLRAAGVPNPPPPFAQRFIACFCSQTAAASQSKSAYILSSLESPCILCSLLRYFHILSKKLQKTC
Ga0168692_100570	Ga0168692_1005702	F062845	MEKTPFILHEKFRSDNNEQRKEHFQNKFERYIVDSLSDTAPSKSCA
Ga0168692_100780	Ga0168692_1007806	F097493	MYKFYMKNGTAQFYEHGVEIDGTVYGIHTDRDILRIKRRIVNDKFAETDDNFDMDTEIAKIKHTDITFEQPTAEQLSQIQSKTFDSMSDMKQYVQSVMNGDETMSQDEINAMLLLKIAEMEVAITNEQTTN
Ga0168692_100912	Ga0168692_10091216	F097493	MKNGQAQFYERGVEIDGTVYGIHTDRDILRIKRSVVNNKFAETDDNFDMDTEIAKIQHTDVTLEQPTAEQLEQIQSKTFDSMSDMKQHVQSVMSGDETMSQDEINAMLMLQIAELKAGVESE
Ga0168692_100955	Ga0168692_1009553	F087336	MHCLLRGMVAELEQVPKAFRAAGRQRRAAAKERIKDDAIGHGRVSDRILAEIEDNHMRERDTKIGLAEQRQVAFLGIAFQILPLKSKQKRAP
Ga0168692_100999	Ga0168692_10099912	F070093	CRVSNFESLLLAEFCPFRIDPPMEPEQERLSKLYSGSGIHSLPELNPNFMEANQ
Ga0168692_102614	Ga0168692_1026146	F047125	MDVVLLLMVLGVMLSGSWAADALDHMRKEILQQEGKRRGWWS
Ga0168692_104103	Ga0168692_1041031	F056309	TCLRRTPSLSVVPLLLGGSDSLSVSYGMEPEQEALSIVSFKD
Ga0168692_107637	Ga0168692_1076374	F071325	ALLSDSSIIISKVVLFVKHFFDIFLSFPNAFLKAFHLHAVRFPAAFLLVHRFYLAFEELLSCATAYL
Ga0168692_107730	Ga0168692_1077302	F097493	MYKFYMKNGQARFYERGVEIDGTVYGIRTDSDILRIKRSVVNSKFAESEEDFDMNVEIAKIQHTDITLEQPTSEQLSQIQSKTFDSMSDMKQYVQSVMNGELTQDEINAMLMLQIAELKAGVDGE
Ga0168692_115904	Ga0168692_1159041	F026489	VAGGSRGCSLLTPKENQKSASDFDALEPRKRGCSPLLTPKKWATPEKTEDSRLFGVKIF
Ga0168692_121946	Ga0168692_1219461	F097172	KTSPTYLILFTKPKEGFIMKKNVLKKLMCAVLAAACVATAVVPAMANDVVTAEAATKKVTSAYRYHLEGSDKKGYPINGFSKSSFFKDLNSLPSVKTGKTTINVPAVTSSVKSVSKEKDNPRYESFIKFKAPKTGKYVVTLDNLQGTDDKSLRCMIYYGFYQISRTGKKYFLNDIEDSDTIGKYDMLYENNFLARLRTILDNYKAEHPEYTDVIEYDYNDYTSYVNSRSLDKIKFTTKLKKGQTYVYVIDNAL