3300029232: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI012054-13

Overview

Basic Information

• IMG/M Taxon OID: 3300029232
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0127425 | Gp0192975 | Ga0168710
• Sample Name: Human fecal microbial communities from Rheumatoid Arthritis patients in China - SZAXPI012054-13
• Sequencing Status: Permanent Draft
• Sequencing Center: Beijing Genomics Institute (BGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 154514167
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 9

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	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes	1
All Organisms → Viruses	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides → Bacteroides fragilis	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?
F062845	Metagenome	130	N
F067720	Metagenome	125	Y
F078693	Metagenome	116	N
F084124	Metagenome	112	Y
F087335	Metagenome	110	N
F092227	Metagenome	107	N
F097493	Metagenome	104	Y
F099451	Metagenome	103	N
F105374	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0168710_100061	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	129470
Ga0168710_102135	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	10799
Ga0168710_107729	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	3000
Ga0168710_108610	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	2698
Ga0168710_115520	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	1533
Ga0168710_119580	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1234
Ga0168710_120154	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes	1199
Ga0168710_123686	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	1030
Ga0168710_133241	All Organisms → Viruses	735
Ga0168710_146789	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides → Bacteroides fragilis	527

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0168710_100061	Ga0168710_10006195	F084124	LLFGGLNKQAKAFARATKGNKHHFHSQRNALTMFLAFLFIMAVACFNKLSFSTQTAWLFAPDELLYRKILWALPKPAIFEKIE
Ga0168710_102135	Ga0168710_10213513	F084124	LNTTALAFKSAIATKENKHHFHSQRNALTMFLAFLFIMAFACFNKLSLSTQTAWLFAPDKLLYLKILWALPKPAIFEKIE
Ga0168710_107729	Ga0168710_1077291	F062845	MEKTSFILHEKFYSAINQQRKERFQQEFERYIVDRLSAADSSKTCD
Ga0168710_108610	Ga0168710_1086101	F078693	MKFFARWWRGVKRFFIKANCSLLMSKENQKTTSDFDALDPRERGCSPLSDPEGVVEAQKC
Ga0168710_115520	Ga0168710_1155203	F087335	MIELYFNDANLLPENREEEQYAEAALNNLLAGKMADTGMCIMPYFYDAPLHKGLLYHLDDGTILRIRPILNEAGEPELLIRCVTEETVEGMYQRVANYEFDEPCAGNVPS
Ga0168710_119580	Ga0168710_1195801	F097493	MYKFYSKNGQAQFYEHGVEIDGTVYGIHADRDILRIKRRIVNDKFAETDGDFDMDTEIAKIKHTDITFEQPTAEQLSQIQSKTFDSMSDMKQYVQSVMNGDETMSQDEINAMLLLKIAEM
Ga0168710_120154	Ga0168710_1201542	F105374	MKKRVALLVALCIWKVVAAQTPYGEMSERFRPDALPCRLGGGVCFGMDGLDAAIPRGEGASSCRDPRVVFVAGDTLITFISVAGVANTALGDPVCRFYGRNVARVVSRTRRMTGGRMGAADNDFPDDPDFAELQGVVIENQRYPWESYAAGDSAYRLPVARSLVGGKEDPLLGS
Ga0168710_123686	Ga0168710_1236862	F092227	MNEQKRKRVLRIGCLVLAGVFVLSLLGSILMMLPL
Ga0168710_133241	Ga0168710_1332413	F067720	MASTTYRHLGDVTEMYAAQEQFRDITKMVTKRHHFAVLGNMVRNAGQLPQPFWLGAACGGGSCGAARCAAKA
Ga0168710_146789	Ga0168710_1467891	F099451	PPFNRSSMEIKNVGKLRKIIENLPDDFEIEIRIRRKLTDEELKNCRYPYPYDTEYLILEFDDLGVSSKVLCLGVTYNE