3300013946: Human gut microbial communities from patients with symptomatic atherosclerosis - Chalmers University of Technology - 314

Overview

Basic Information

• IMG/M Taxon OID: 3300013946
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118643 | Gp0137857 | Ga0117818
• Sample Name: Human gut microbial communities from patients with symptomatic atherosclerosis - Chalmers University of Technology - 314
• Sequencing Status: Permanent Draft
• Sequencing Center: Chalmers University of Technology
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 132216812
• Sequencing Scaffolds: 14
• Novel Protein Genes: 20
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	4
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	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	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	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	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: Human Gut Microbial Communities From Patients With Symptomatic Atherosclerosis - Chalmers University Of Technology
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Unclassified → Unclassified → Human Gut → Human Gut Microbial Communities From Patients With Symptomatic Atherosclerosis - Chalmers University Of Technology

Alternative Ecosystem Assignments

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

Location Information

• Coordinates
  • Lat. (^o): N/A
  • Long. (^o): N/A
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F026489	Metagenome	197	N
F029444	Metagenome	188	Y
F032286	Metagenome / Metatranscriptome	180	Y
F032312	Metagenome / Metatranscriptome	180	N
F042936	Metagenome	157	N
F044554	Metagenome	154	N
F044555	Metagenome / Metatranscriptome	154	N
F047126	Metagenome	150	N
F078822	Metagenome	116	N
F080163	Metagenome	115	N
F081453	Metagenome	114	N
F087334	Metagenome	110	N
F088921	Metagenome	109	N
F090513	Metagenome	108	N
F092227	Metagenome	107	N
F094005	Metagenome / Metatranscriptome	106	N
F101355	Metagenome	102	N
F101356	Metagenome	102	N
F101357	Metagenome / Metatranscriptome	102	N
F105375	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0117818_1000035	All Organisms → cellular organisms → Bacteria	67819
Ga0117818_1000426	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	12564
Ga0117818_1000710	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	9038
Ga0117818_1000778	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Bacteroidaceae → Bacteroides	8493
Ga0117818_1002709	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	4116
Ga0117818_1002999	All Organisms → cellular organisms → Bacteria	3871
Ga0117818_1003459	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	3530
Ga0117818_1009164	All Organisms → cellular organisms → Bacteria → Terrabacteria group	1839
Ga0117818_1009183	All Organisms → cellular organisms → Bacteria	1837
Ga0117818_1011205	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1602
Ga0117818_1015237	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → unclassified Oscillospiraceae → Oscillospiraceae bacterium	1288
Ga0117818_1018803	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium	1120
Ga0117818_1022882	All Organisms → cellular organisms → Bacteria	983
Ga0117818_1064028	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → unclassified Roseburia → Roseburia sp.	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0117818_1000035	Ga0117818_100003524	F094005	MKKEVIKLKEGNSVIYQDKNLMEKANVVSIDKKNGTAILSNKVIITRTTNLEGQFTRLDGKGNAIILPCTTENEQKYNAFVAYHQSKKSLEAIKKWLDDNGKHKDDEILEKVITLDKKLKKLIEKLNE*
Ga0117818_1000035	Ga0117818_100003525	F032312	MSRIKDYDEDLSAPKLLRERARDSKGRFIKKDLPPYLGSEQVLKPKNYYHFDSHGNYKGSSMNFDALVCLGFTWFKLLGVALMMLLWPIVFIYALNDGVEGYPFKKYAIPYIFILVVWFIIFLYGLVS*
Ga0117818_1000035	Ga0117818_100003527	F080163	MKTIKFLQERFQQEISIKYSYNLDIVESIDFRINQRNIRYFYEAMQNFENSLVDEFKEKKTHFCSANQFLENINDFDKILFVIINYMKTYFDFCKDYSKISLHVHLVQFDFTTSVLIQGFYNHRDLSFSTKLENKVLNSEIELLQEKLDLIREEICELIGVDPNLEKQNHEDNYMFNLNIESDNQIGFFLQATKL*
Ga0117818_1000035	Ga0117818_100003530	F044555	MKTTNPSSRITISQNGNQILTCKVYKEPNYILSMSNEEILELISGLDYMGNLPTVPDLEKPIEIQVSTTRQIPLEQNKEVQTKIKEIIYNNLYDTLVDELKDTISRFQAQYNIQEINPYLQDILQNPEDLVSLSQHHKR*
Ga0117818_1000035	Ga0117818_100003532	F101357	MNLNNITTALKTGITIYQYEQWQNTGSVNLMQKESHMLSKVWLKTNIHNPDSLLDKPFIQLSATFTSESDIQEYNEWLNANQYKLYPLLLDILKISLRDDFHNYSNTSNIHYEGGKFPSMLTIQLFNLEF*
Ga0117818_1000035	Ga0117818_100003535	F105375	MKNNETFQTTQHLDKLVTNLGLQIQELYSLDLEEILDYSNNLMNLLVNAYVENQCLALSAMISKQDGFAIYSFLFQTPDTSNGAADALVNFAMNFTDGEANIKSINRISSNIMQITFTV*
Ga0117818_1000426	Ga0117818_10004263	F042936	VWKSKEGIMKTSGIVDRGEDTIRNFEKVEQEGALTPPYLGKVYFRSRLRGKS*
Ga0117818_1000710	Ga0117818_10007108	F047126	VYLKTKKMTNISQIQAGFKSKSLGILCGFQGFLTQNPAALVETDDIFDVSDTPYGFSGLNTLRAAGVPNPPPPFVQRFIACFCSQTAAASQSKSAYILSSLESPCILCSLLRYFHILSKKLQKTC*
Ga0117818_1000778	Ga0117818_10007787	F087334	MASRYPFVGAAAHLFPKNAIKMLSFSTSGKGSILLYPFRSSPLLAITFLYHPKDFFLYRAASLFEYRENHQ*
Ga0117818_1002709	Ga0117818_10027092	F090513	MAKYVRKMEWKLLHIKHILYMRPFGALKIVPQSVGNKNGTKAVLQGWAAAFVPYMLSFTYGNTA*
Ga0117818_1002999	Ga0117818_10029991	F078822	AFLKAFHPHAVRFPAAFLLVHRFYLAFEELLSCATAYL*
Ga0117818_1003459	Ga0117818_10034593	F101355	MAFWFIQWYLPSAQPPQPKGAGAVFPYVLPRCSYFFKSFVTEMSIFICMHKCLAQTGRLRGSSCHIVVAAKRACACTLLWISDHFHKKLLPYVLFSFFKIYLKKIDFFQNIA*
Ga0117818_1006850	Ga0117818_10068502	F101356	VGELIPVVTPEKDGLSNSKFATTKIKSEGKRSVLLYRSSSSQWAPFAIRVSCISTGEPSSDFCVYIAGNTMELQDTTKVYVKYLYGQPNSDTYLKMKYETDHRISIYLTSDNSLGDRTIVRELIVRDSMYDMATQDDEITGLTDCTIVQ*
Ga0117818_1009164	Ga0117818_10091642	F029444	MEVSEQLTGFELEDLKFWTVSNLQRPFREDFSLKKSGIIAEKESQIFGRRFVGFDGPKKAAPFFNF*
Ga0117818_1009183	Ga0117818_10091832	F044554	VLAGRFIPVLCASIARLFPCRTEIARCLTLDFAISRYLFLSFSFSFRTNFAQALFSSLLFVSDTLAKSILFLLFENEIAHLQGQYRFDSHRYCFSAFLVL*
Ga0117818_1011205	Ga0117818_10112053	F032286	IVAKTPADDTLVTGATFRFCRLMCLCVKRRNVKPDSKHRSLPDSALFHADNRTERKTISPFSLALIFTFDFAALSEHRSCPEDRSRRFVLLGALDAALRQRTYPVRTVMQFSRFRCDCKTILAKNIALSRISKRSENALKNADFHAHGQDRERAEI*
Ga0117818_1015237	Ga0117818_10152372	F088921	LGATIRRYKIGAGKNHFLCSEKSKSTVFDLDRETKKRKYAKGTCRIYIEKDQNMQEEKKEKYINGEIYGEKNQIMVANKSAMIRDKMQSKS*
Ga0117818_1018803	Ga0117818_10188032	F092227	MNEQKHKRWLRIGCLVLAGVFALSLLSSVIMMLL*
Ga0117818_1022882	Ga0117818_10228823	F026489	GQQIHSYFDALEPRKRGCSPLLTPKRRAPPEKTEDSRLFGVKIF*
Ga0117818_1064028	Ga0117818_10640281	F081453	PKERSPFFLLAGDNIIEKHISANPVCGTNIRAPELAVKGAPGRKCIQ*