3300029360: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 045_3_9_stool_1

Overview

Basic Information

• IMG/M Taxon OID: 3300029360
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133117 | Gp0282975 | Ga0243814
• Sample Name: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 045_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: 253523974
• Sequencing Scaffolds: 13
• Novel Protein Genes: 13
• 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 → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	3
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 longicatena	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

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
F032286	Metagenome / Metatranscriptome	180	Y
F042936	Metagenome	157	N
F044554	Metagenome	154	N
F055715	Metagenome	138	N
F056309	Metagenome	137	N
F067845	Metagenome	125	N
F087335	Metagenome	110	N
F090514	Metagenome	108	N
F092228	Metagenome	107	N
F097493	Metagenome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0243814_1000133	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	139522
Ga0243814_1000527	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	69200
Ga0243814_1000809	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	51286
Ga0243814_1001366	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	33191
Ga0243814_1001677	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	27667
Ga0243814_1002245	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	20642
Ga0243814_1002810	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	16164
Ga0243814_1003048	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	14578
Ga0243814_1003235	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	13681
Ga0243814_1007162	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	5028
Ga0243814_1008425	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	4086
Ga0243814_1012327	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	2550
Ga0243814_1017455	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	1668

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0243814_1000133	Ga0243814_1000133133	F092228	MKKKCTLVLISVLTVACIVSAYLLFFYNSSFNMVYDSDTDSYFNNSYLSYNDGTLAAADYRKTKVTAYDSKNNSTVNLPSNGSLINDNLFYINGDKLCCLDTTTNTRKIIDTDCRSFVCNNEVIAYTKNDSVILKDSDTLENIGDIKFDNQIYYINISDGNLYTAERIFEDKTDEYGYSLKVGKQYIFKKYDLKSCKLLKSKNANYVNGIRYVTVCQDTFYFFCDETQTVNNVCLDKDVNYPTIQHPDVKFITSNNDCVYYISEKTESAIILKTVESPYNGIWKLEVGSNKPVKIADKCDCDELLATRNFLYCYTINYILPRGVANSWVKSYLIVQLVIS
Ga0243814_1000527	Ga0243814_100052760	F090514	MNLRIHALKKASRQRPGVKIAAARFFSILYYPFCAKRSSFFQQNVQPRGNFFANRPIFVYFADVLPRLTGAKWFVILLTIVPAGSRARAGSSLPLIPASNIFLKQTPRRGLPLA
Ga0243814_1000809	Ga0243814_100080970	F097493	MYKFYSKNGTAYFYERGVEIDGTVYGIRTDSDILRIKRSVVNSKFAESEEDFDMNVEIAKIQHTDITLEQPTSEQLSQIQSKTFDSMSDMKQHVQSVMDGDETMSQDEINAMLMLQIAELKAGVDSE
Ga0243814_1001366	Ga0243814_10013669	F097493	MYKFYSKNGTARFYERGVEIDGTVYGIHTDRDILRIKRRIVNDKFAETDGDFDMDTEIAKIKHTDITFEQPTAEQLSQIQSKTFDSMSDMKQYVQSIMNGELTQDEINAMLMLQIAELKAGVDGE
Ga0243814_1001677	Ga0243814_100167735	F097493	MYKFYSKNGQAQFYEHGVEIDGTVYGIHADRDILRIKRRIVNDKFAETDGDFDMDTEIAKIQHTDVTLEQPTSEQLSQIQSKTFDSMSELKQHVQSVMNGDETMSQDEINAMLMLQIAELKAGVDSE
Ga0243814_1002245	Ga0243814_100224518	F067845	MKHWKNLLVCLLAGVLALGVLTACSGLGSVNTGTDAEKAAELAQQLGVAHTQELDNTAKAVAEWFVQEPDSLRVSGLDLVYTVALDADGNMGYTDNLNVFLYWSGCYGVPEDVTVALLLDDSAAMTARLYAPQADSAAAELLDDAAGHSELGAAFIDYNGTAYVVAVFR
Ga0243814_1002810	Ga0243814_10028103	F087335	MLELYFNDGNFLPESREEEQSAETVLNIMLAGKTTDTEMCIWPCFYHAPMCKGVLINLDDGTTLRIEPFLNKEGEPELLIRCVTDETVEEVYQRASNYDFDEPCAGNMPS
Ga0243814_1003048	Ga0243814_10030487	F042936	VWKSKEGIMKTSGIVDRGEDTIRNFEKVEQEGALAPPYLGKVYFRSRLRGKS
Ga0243814_1003235	Ga0243814_10032354	F032286	MVKWVCQTVTSVRHRALVFNTWLFAGNAADDTLVTGGTFRFCRLMCLCVKRRNIMLNDKRRSLLNSALFRADNRTEQKTISLFSLALIFIFDFAALSERRSCPEDRSRRFVPVGTLTLSRSWRLLRWGTYPVRTVMQFSRFRCDCKTILAKNIALSRISKRSENAPKNADFHAYGQDRKRAEI
Ga0243814_1007162	Ga0243814_10071626	F056309	MCLRRTPSLSVVPLLLGDSGSLSVSYGMEPEQEALSIVSFKD
Ga0243814_1008425	Ga0243814_10084252	F044554	VLAGRFIPVLCASIARLFPCRTEIARCLTLDFAISRYLFLSFPFSFRANFAQALFSSLLFVSDTRAKSILFLLFEKEIAHLQGQYRFNSHRYCFSAFLVL
Ga0243814_1012327	Ga0243814_10123272	F055715	VNEFDKINELLIERTAKKFERASKNKLKKFLTNEKFCDKINELIRVGTAKILDN
Ga0243814_1017455	Ga0243814_10174551	F026592	GSQNRLRTASPQGIDAQASQGSVAPLTERSDETFSVMQPFSADRE