3300029334: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 023_10_31_stool_1

Overview

Basic Information

• IMG/M Taxon OID: 3300029334
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0133117 | Gp0282878 | Ga0243717
• Sample Name: Human feces microbial communities from a cholera patient in hospital, Baltimore, Maryland, USA - 023_10_31_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: 194153351
• Sequencing Scaffolds: 12
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	4
Not Available	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Coriobacteriia → Coriobacteriales → Coriobacteriaceae → Collinsella → Collinsella aerofaciens	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 → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	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
F047125	Metagenome / Metatranscriptome	150	N
F056309	Metagenome	137	N
F059106	Metagenome	134	N
F068811	Metagenome	124	N
F074964	Metagenome	119	N
F078822	Metagenome	116	N
F087335	Metagenome	110	N
F087336	Metagenome	110	N
F088920	Metagenome	109	Y
F090484	Metagenome	108	N
F090515	Metagenome	108	N
F099269	Metagenome	103	N
F099406	Metagenome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0243717_1000029	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	187255
Ga0243717_1000049	Not Available	155505
Ga0243717_1000143	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	98396
Ga0243717_1000902	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	28968
Ga0243717_1001201	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae	21659
Ga0243717_1001202	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Coriobacteriia → Coriobacteriales → Coriobacteriaceae → Collinsella → Collinsella aerofaciens	21656
Ga0243717_1005056	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae	4584
Ga0243717_1011396	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Eubacteriales incertae sedis → Gemmiger → Gemmiger formicilis	2128
Ga0243717_1013678	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → Dorea → Dorea longicatena	1826
Ga0243717_1020942	All Organisms → cellular organisms → Bacteria	1297
Ga0243717_1021475	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Subdoligranulum → Subdoligranulum variabile	1273
Ga0243717_1059563	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Faecalibacterium → Faecalibacterium prausnitzii	549

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0243717_1000029	Ga0243717_1000029151	F087335	MIELYFNDANLLPENREEEQYAEAALNNILAGKTADTEMCILPCFYDAPLHKGLLYNLDDGTTLRIRPILNEAGEPELLIRCVTEETVEEMYQRVSNYDKEKEL
Ga0243717_1000049	Ga0243717_1000049131	F074964	MITKKNVNKLQNAVIKENAANLVGAVKLYNALFANGADLKAICKALEIPAEYAVKVASLAKDKKRLVAVCSQMLPKVGDTFVKFTLYSKIYKDSKVNKEKGIENKEVKNIAYGEEYKPFGFASPEPLEGKNSAKWLTRETDEYRATYVATRIASYSIRTIAKCVSEYLAHESNQQ
Ga0243717_1000049	Ga0243717_1000049156	F090484	MDIPKNPSDFFLLQIMKLQLGRNINISLRLLEQWSDDSLFMELYALYCMIKISRRDSRIRFKNQKDLLHKLGIGYSKFKNMTGHPMFDELFRMTDSTFVARRYRVNGVQLTLGCGKVNIPKNRILIKIKKNEITNHEKVLDRIREAMFVNLVRNNESVLNSGETNSQADVVDGSHSYYGLIDSTISNKTIALYLNVGLTKAKEIVGMAIQDKLVKRFENIQFITYVDNPRAYIEANEHNYPIGKLIPVYRHGAVFWQIANTWTLYKKGATNRWYFGEKDIEKGEKEKVSKKDDFNFFLKDNTHILRFLNAEEVVSEDGEILGIDRKKTKEEEARSLASVMAKEAHKDFWDGYERSTQNQIIRKYYRAIIAEDKKRRMDMFLNRLKQSYDKVSGWSKEKVATVKAGMADAEACCAEVGTSVAGVCGRVSRRMKTYNNTAPDKKAGFNEVRDMYAEFAGEMAKAVGSVSEDIYTYVKAEQFKEKIGNMDISIQSLPNINTTVDNDKELDGESVFKDIPFEELSFYNDTYLYPISQYSSL
Ga0243717_1000049	Ga0243717_1000049175	F099406	MAEIGYNSKFEGQEVDSRLENVVQAAPGTGSESGKGGLIPAPPAGSQDGSKTLLSNMTWGDHVTKQYIDDAVSAAGWKKQIVSKLPTVEEAKDNVMYLVKDDVASTETKNVYNEYILVTEESGGKVLESLGMVSTGVDSTYLDLSIFPSTSGTLDEDSYAKVIDAYNNRITLGKLSFYYFSLDYFLDNDNSELKIIAVLFNNTNSKEDVSGSYIDIEMVTYVVSQDKTYRAIGNTATLSNDMLSYLKFMAKTPNVVTTLASLPIDAHNIIANVASATNLSMAVSAEDVGREWQVRVNNTTGNDITQPLPTSGLFQSMSGDSVIVPKNSFIELSIWYINDKLVIRVGEQA
Ga0243717_1000143	Ga0243717_100014352	F026489	LTPKENQKSASDFDALEPRKRGCSPLLTPKEWAAPEKTEDSRLFGVKIF
Ga0243717_1000902	Ga0243717_100090212	F047125	MDVALLLMVLGVMLSGFWAADALDHMRREILRQEGKRRGWWS
Ga0243717_1001201	Ga0243717_10012011	F059106	KIRVILLQTFVWIVDLKVREHLTEYLKKDIKYHRVIIGVFV
Ga0243717_1001202	Ga0243717_100120217	F099269	VHGVLVSVQVGELLLLDDLGDRAGGASVLASATGDAGILVSDGSDVLELQNASGAGVDANATSDALVGINYGMSHGSFLSVDRRYRRCAPV
Ga0243717_1005056	Ga0243717_10050564	F088920	LFVKWNPKNHHFIFSFLAFFSFVSANLHHYPAFWAGVILHLILHFSQKVAIFAPKRVIFLLFVPTLFFAGLSVFSPQTSPKISGQTSLYQPWLSPHCLFKD
Ga0243717_1011396	Ga0243717_10113961	F090515	LQGTAPGRVACLEFAGEEKRKTNIAADYAVKVPAFTALLCRHIGSIRTFLKS
Ga0243717_1013678	Ga0243717_10136783	F056309	RTPSLNVVPLLLGDSDSLSVSYGMEPEQEALSIVFFKD
Ga0243717_1020942	Ga0243717_10209421	F078822	FLSFPNTFLKAFHPHAVRFPAAFLLVHRFYLAFEDLLSCATAYL
Ga0243717_1021475	Ga0243717_10214751	F087336	GNQRRAAAKERIKDDAIGHGRVSDRILAEIEDNHMRERDTKIGLAEQIQVAFLEIAF
Ga0243717_1059563	Ga0243717_10595632	F068811	MDQDGSEHNICSNREGLCPGKEQHGASGWKRIFQHGKEPLRNKDSVSQYCNKKAAVSLILNENVSETLCIFSIDKTNCCRI