3300029358: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 046_3_12_stool_2

Overview

Basic Information

• IMG/M Taxon OID: 3300029358
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133117 | Gp0282979 | Ga0243818
• Sample Name: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 046_3_12_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: 217681282
• Sequencing Scaffolds: 14
• Novel Protein Genes: 15
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bicirculans	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Mediterraneibacter → [Ruminococcus] torques	1
Not Available	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 → Lachnospiraceae → Roseburia → Roseburia faecis	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	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	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Bacillaceae → Bacillus → Bacillus subtilis group → Bacillus atrophaeus	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes	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?
F042936	Metagenome	157	N
F047125	Metagenome / Metatranscriptome	150	N
F056309	Metagenome	137	N
F059106	Metagenome	134	N
F070093	Metagenome	123	N
F074964	Metagenome	119	N
F076064	Metagenome	118	N
F076189	Metagenome	118	N
F076190	Metagenome	118	Y
F081354	Metagenome	114	Y
F089005	Metagenome	109	N
F090484	Metagenome	108	N
F097172	Metagenome / Metatranscriptome	104	Y
F099406	Metagenome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0243818_1000349	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	71705
Ga0243818_1000392	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bicirculans	66503
Ga0243818_1000452	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Mediterraneibacter → [Ruminococcus] torques	59135
Ga0243818_1000663	Not Available	43537
Ga0243818_1001264	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminococcus → Ruminococcus bromii	23529
Ga0243818_1001455	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Roseburia → Roseburia faecis	20515
Ga0243818_1002290	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	13050
Ga0243818_1002407	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	12460
Ga0243818_1007361	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	4149
Ga0243818_1008244	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	3686
Ga0243818_1008422	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	3602
Ga0243818_1010735	All Organisms → cellular organisms → Bacteria → Terrabacteria group	2835
Ga0243818_1010802	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales → Bacillaceae → Bacillus → Bacillus subtilis group → Bacillus atrophaeus	2817
Ga0243818_1022817	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Rikenellaceae → Alistipes	1322

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0243818_1000349	Ga0243818_10003491	F070093	EFCPFRIDPPMEPEQEHLSKLYSGSGIHSLPELNPKSI
Ga0243818_1000392	Ga0243818_10003922	F076190	VRTAGGSITISVKNVFTAASRVSGRVWLLVRITVPNDLKFVRIRVEKPQNNSLYPYFQREPL
Ga0243818_1000452	Ga0243818_10004521	F059106	VWKIRVILLQIFVWIVDLKVREHLTEYLKKDIKYHRVTTGVHV
Ga0243818_1000663	Ga0243818_100066311	F099406	MAEIGYNSKFEGQEVDSRLENVVQAAPGTGSESGKGGLIPAPPAGSQDGSKTLLSNMTWGDYVNKKYIDDAVSAAGWKKQIVSKLPTVEEAKDNVMYLVKDDVASTETKNVYNEYILVTEDGGTKVLESLGMASTGVDSNYLDLSMFSGNSGTLDEASFGKVLDAYNNKITLGKLDGDYYYLNYFLEGNDFENNFKLKIVFASFANTDSAVGASEYDIEIKVGTFVVIQDKTYEAMNNLVTLSNTILSYLNFMAMPPKVVTTLANLPKGAHNIIANVASATNLSMAVSAEDVGREWQVRVNNTTGTDITQPLPTSGQFQSMSGDSVVIPKNSFIELSIWYINDKLVIRVGEQA
Ga0243818_1000663	Ga0243818_100066330	F090484	MDIPKNPSDFFCYKNMKLQLGRNINISLRLLEQWSDDSLFMELYALYCMIKISRRDSRIRFKNQKDLLHKLGIGYSKFKNMTGHPMFDELFRMTDSTFVARRYRVNGVQLTLGCGKVNLPKNRILIKIKKNEITNHEKVLDRIREAMFVNLVRNNESVLNSGETNSQAEVVDGSHSYYGLIDSTISNKTIALYLNVGLTKAKEIVGMAIQDKLVKRFENIQFITYVDNPRAYIEANEHNYPIGKLIPVYRHGAVFWQIANTWTLYKKGATNRWYFGEKDIEKGEKEKVSKKDDFNFFLKDNTHILRFLNAEEVVSEDGEILGIDRKKTKEEEARSLASSMAKEAHKDFWDGYERSTQNQIIRKYYRAIIAEDKKRRMDMFLNRLKQSYDKVSAWSKEKVATVKAGMADAEACCAEVGTSVAGVCGRVSRRMKTYNNTAPDKKAGFNEVRDMYAEFAGEMAKAVGSVSEDIYTYVKAEQFKEKIENMDIRIQSLPNIGTTVDNDKELDGESVFKDIPFEELSFCNDTYLYPSSQYSSL
Ga0243818_1001264	Ga0243818_10012641	F089005	LTKSKQRSIIALALLRLATSNEESKQALKVRRTLKIEQRENSKETR
Ga0243818_1001455	Ga0243818_10014553	F097172	MKKNVFKKLMCAVLATACVATAVVPAMADDVVTAEAATRKVTSAYKYHIDGYDKKGYPASYSKASFYKDLNSLPSVKMGKTTINVPAVTSSVKSVSKEKGEPRYESFVKFKAPKTGKYVFTLDNLQGTDDKSLKCLSEGIYKPVKEGKKYKLEYLYPDAVGNYGDLYENNYLARLRTILDNYKEEHPEYADVIEETYEYQKDFVNKYPVAKDKFTTKLKKGHTYVFIIDNTLGKTTCKPYFTTHGSDEQSCLYNTNYLKAYSFDMNIEYKK
Ga0243818_1002290	Ga0243818_10022902	F097172	MKKNVLKKLMCAVLAAACVATAVVPAMADDVVTAEAATKKVTSAYRYHLIGYDKKGYVMDGFSKASFYKDLNSLPTVKTGKTTINVPAVTSSVKSVSKEKGELRYKSFVKFKAPKTGKYVFSLDNLQGTDDKSLKCFSGSIRKPVKNEKKYTLEDLYPDEVGDYTTLYENNYLARLRAILDNYKAEHPEYADVIEETYEYQKDLVNKYPVNKIKFTTKLKKGRTYVFVIDNIGMAKAVPPYFTTHGSNEQSCLWGGNYLKAYSFDMNIEYKK
Ga0243818_1002407	Ga0243818_10024079	F081354	VPFLSAKKALDLVRENQQSSAHNFVKDFSSFLPESRRRSPLKKGAATENPLEYGKTEVQILFEPLPTTISSMELPKNFENKKLPNPLR
Ga0243818_1007361	Ga0243818_10073616	F076189	VLSAGHCFFLFPFIKPLLYVEKLQIGTVLPVVSDLYREFAEPSVHFDSHAIQSAQKQLRMLCNFHENTFGLLIFYANYAIL
Ga0243818_1008244	Ga0243818_10082441	F056309	PSLSVVPLLLGDSDSLSVSYGMEPEQEALSIVSFMD
Ga0243818_1008422	Ga0243818_10084224	F047125	MDVALLLMVLGVMLSGFWAADALEHMRKEILRQEGKRRGWWS
Ga0243818_1010735	Ga0243818_10107351	F042936	MGRGGGKGRVWKTKEGIMNTSGIVDRGEDTIRNFEKVEQEGALTPPYLGKVYFRSRLRGK
Ga0243818_1010802	Ga0243818_10108023	F074964	MMTKKGVNKLQNAVIRENASNLAGAVKLYNTLFANGADLRAICKALEIPVEYAVKVSALAKDKKKLVTVCSLLLPKVGGTFVKFTLYSKIYKDSKVNKEKGIESKEVKNIAYGEEYKPFGFASPEPLEGKNSAKWLTRETDEYRATYVAVKITSYSIRMIAKCVSEYLAHESNQQ
Ga0243818_1022817	Ga0243818_10228171	F076064	YLQYDLPPEASFHATTEEAKRPDELYMRKLLPELTRLKLQPRHVVANDEAYYAVMKGVMLFTPEAEKLMLTEDYFSARRQIRLCAPDLKRRNETRRHPMPVLKLY