3300029357: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 050_3_9_stool_1

Overview

Basic Information

• IMG/M Taxon OID: 3300029357
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133117 | Gp0283008 | Ga0243847
• Sample Name: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 050_3_9_stool_1
• Sequencing Status: Permanent Draft
• Sequencing Center: Institute for Genome Sciences, University of Maryland School of Medicine
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 215600375
• Sequencing Scaffolds: 9
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
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	2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes → Alistipes onderdonkii	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	1
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 → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea formicigenerans	1
Not Available	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Human Feces Microbial Communities From Cholera Patients In Hospital, Baltimore, Maryland, Usa
• Type: Host-Associated
• Taxonomy: Host-Associated → Human → Digestive System → Large Intestine → Fecal → Human Feces → Human Feces Microbial Communities From Cholera Patients In Hospital, Baltimore, Maryland, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Baltimore
• Coordinates
  • Lat. (^o): 39.28846264
  • Long. (^o): -76.62594594
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F026592	Metagenome / Metatranscriptome	197	Y
F029444	Metagenome	188	Y
F042936	Metagenome	157	N
F055715	Metagenome	138	N
F059106	Metagenome	134	N
F071325	Metagenome	122	N
F076064	Metagenome	118	N
F087336	Metagenome	110	N
F089005	Metagenome	109	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0243847_100160	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	138433
Ga0243847_100281	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	104305
Ga0243847_101197	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes → Alistipes onderdonkii	32400
Ga0243847_102327	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	15600
Ga0243847_102713	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	13068
Ga0243847_104044	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	8369
Ga0243847_104215	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea formicigenerans	7953
Ga0243847_105430	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	5836
Ga0243847_118453	Not Available	1184

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0243847_100160	Ga0243847_10016036	F087336	MVAELEQVPKAFRAAGNQRRAATKERIKDDAIGRGRVSDRILAEIEDNHMRERDTKIGLAEQRQVAFLEIAFQILPLKSKQKRAP
Ga0243847_100281	Ga0243847_1002811	F055715	LTKANEFDKINELLIERTAEKFERASKNKLKKFLTNEKFCDKINELIRVGTTKILDN
Ga0243847_101197	Ga0243847_10119727	F076064	LKKTTPGRALENLFYLQYDLPPEASFHATTEEAKRPDELYMRKLLPELTRLKLQPRHVVANDEAYYAVMKGVMLFTLEAEKLMLTEDYFSVRRQIRLCAPDLKRRNETRRDPMPVLKLY
Ga0243847_102327	Ga0243847_10232714	F071325	LLSDSSIIISKVVLFVKHFFDIFLSFPNAFLKAFLPHAVRFPATFLLVHRFYLAFEELLSCATAYL
Ga0243847_102713	Ga0243847_1027131	F089005	LTKSKQRSIIVLALLRLATSNEESKQALKVRRTLKIEQRENSKETR
Ga0243847_104044	Ga0243847_1040448	F042936	MGRGGGKGLVWKTKEGIMKTSGIVNRGEDTIRNFEKVEQEGALTPPYLGKVYFRSRLRGK
Ga0243847_104215	Ga0243847_1042151	F059106	MHAIVWKIRVILLQTFVWIVDLKVRGHLTEYLKKDIKYHRVIIGVLV
Ga0243847_105430	Ga0243847_1054302	F029444	MGVSEQLTGFEPENLMSWTVSNLQRPFREDFSLEKSGIIAEKESQIFGRRFVGFDGPKKAAPFFNF
Ga0243847_118453	Ga0243847_1184532	F026592	FIFSNLLAANSILCCLRTASPQGIAALAAQGGVATLTERSDETFSVMQFLSADRE