3300029380: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 075_4_28_stool_2

Overview

Basic Information

• IMG/M Taxon OID: 3300029380
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133117 | Gp0283061 | Ga0243900
• Sample Name: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 075_4_28_stool_2
• 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: 296213691
• Sequencing Scaffolds: 12
• Novel Protein Genes: 12
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	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 → 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 → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	2
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?
F026489	Metagenome	197	N
F052660	Metagenome	142	N
F056682	Metagenome	137	Y
F059106	Metagenome	134	N
F064817	Metagenome	128	N
F087336	Metagenome	110	N
F088920	Metagenome	109	Y
F089005	Metagenome	109	N
F090513	Metagenome	108	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0243900_1000289	All Organisms → cellular organisms → Bacteria	69022
Ga0243900_1000881	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	37160
Ga0243900_1001914	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	22021
Ga0243900_1003638	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	13004
Ga0243900_1004799	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	9819
Ga0243900_1004868	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	9683
Ga0243900_1006260	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	7489
Ga0243900_1008062	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	5743
Ga0243900_1009553	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	4789
Ga0243900_1009910	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	4606
Ga0243900_1009965	All Organisms → cellular organisms → Bacteria	4576
Ga0243900_1085155	Not Available	520

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0243900_1000289	Ga0243900_100028940	F064817	MNIKNLFNRFRKREPELSYSLNLIYLEDTKVVFNQNIQCAKDLENYLSAYMRLFGMYSDKPYVLIYQEYKNRYWVYDKEPYLLYYKVPLIVNTSRKLSGKSDMVITKEKYQAAKDLVPAHEVSDRFKIPEYITGVFTDIWYKCQGYMDTDHVGLEEILELMQHNWLKEFELLVFKRNYDTDMLFLTHSLTYILDQTEEEGRRICIQNIIERNINQENQDENETI
Ga0243900_1000881	Ga0243900_100088125	F026489	VAKENQKTTSDFDALEPRKRGCSPLLTPKRWAAPEKTEDSRLFGVKIF
Ga0243900_1001914	Ga0243900_100191422	F026489	DLKCPPLGQEDAAEGCSLLTPKENQKSASDFDALEPRKRGCSPLLTPKRRAAPEKTEDSRLFGVKIF
Ga0243900_1003638	Ga0243900_10036381	F089005	LTKSKQSSTIALALLRLATSNEESKQALKVRRTLKIEQRDNSKETRNDFEE
Ga0243900_1004799	Ga0243900_10047997	F087336	MVAELEQVPKAFRAADNQRRAAAKERIKDDAIGHGRVSDRILAEIEDNHMRERDTKIGLAEQRQVAFLGIAFQILPLKSKQKRAP
Ga0243900_1004868	Ga0243900_10048685	F090513	MEWKLLHIKHILYMRPFGALKIAPQSVGNKNGTKAVLQGWAAAFVPYFTY
Ga0243900_1006260	Ga0243900_10062609	F052660	MCILHILPENTPEKIGQERAGTEWTVVKSKIRLCIRNRSYRQFLHGGILMGIALPIPSHRAKSHDFACWWPATAGHSRSADAL
Ga0243900_1008062	Ga0243900_10080621	F059106	WKIRVILLQTFVWIVDLKVREHLTEYLKKDIKYHQVIIEVLV
Ga0243900_1009553	Ga0243900_10095538	F052660	ILRVLPENTPEKIGQERAGTEWTVVKSKISLCIRNRSYGQFLHGGILMGIALPIPSHRAKSHDFAHWWPAAAGHSRSADALPGKSNS
Ga0243900_1009910	Ga0243900_10099101	F088920	LNPKNHYFIFLFLAFFSFVSANLHHYPAFGAGVILHLILHFSQKVAIFAPKRAILLLFVPTLFFAGLSVLSPQTSPKISGQTSLYQPWLSPYCLFKD
Ga0243900_1009965	Ga0243900_10099654	F059106	KIRVILLQTFVWIVDLKVREHLTEYLKKDIKYHRVTTGVHV
Ga0243900_1085155	Ga0243900_10851551	F056682	MKMQSRAGKVATQPIERGKMYSASFGTFPSKNRSTFPIQELRKNREDQEVL