3300026892: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026892
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115671 | Ga0209891
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_12-Aug-14 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 52550651
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Predicted Viral	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CBM2	1
Not Available	7
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Groundwater Microbial Communities From The Columbia River, Washington, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater river biome → microcosm → sand
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: USA: Columbia River, Washington
• Coordinates
  • Lat. (^o): 46.372
  • Long. (^o): -119.272
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002909	Metagenome	521	Y
F006069	Metagenome / Metatranscriptome	382	Y
F011485	Metagenome / Metatranscriptome	290	N
F014117	Metagenome / Metatranscriptome	265	Y
F018169	Metagenome / Metatranscriptome	236	Y
F033034	Metagenome / Metatranscriptome	178	Y
F067478	Metagenome / Metatranscriptome	125	Y
F089902	Metagenome / Metatranscriptome	108	Y
F100847	Metagenome	102	Y
F104717	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209891_1003111	All Organisms → Viruses → Predicted Viral	1103
Ga0209891_1007180	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae → unclassified Myoviridae → Synechococcus phage S-CBM2	737
Ga0209891_1009918	Not Available	621
Ga0209891_1010957	Not Available	590
Ga0209891_1011059	All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon	588
Ga0209891_1011537	Not Available	575
Ga0209891_1011606	Not Available	573
Ga0209891_1012286	Not Available	556
Ga0209891_1013092	Not Available	538
Ga0209891_1014674	Not Available	507

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209891_1003111	Ga0209891_10031112	F006069	MVVIETKLEGFNHKLSYDKLNYPQCSCGKCPRFYWNMMNIGARGSGKTYTIVQMIKHYEKNKIMKDNIKYKLRTHLISPTIQANEIYQSLDSLNMDKDAHENYSDKLLLSIIADIKDKKEKYEDYLLYKKYYEKVMKIPENKIEKAYDDNPDMFHLLEKYNYQHPNELEHEPPELNIIILDDLVGSDAFTRKTKSTLVNAMIKNRHMGICFALLVQSIRAVPKNIRLNCSVFQLATFKNKKMILEDIYEEISNVIDLNGFEELYDHATTKPYGSLIIDTTNGKRFLSNLDFELTLN
Ga0209891_1007180	Ga0209891_10071802	F089902	MMTERAQKLMDAIYQERNTWADTEQKLVAAIIRKTMEHVKSMTAQKLNNLTVLDRGDMMTLSKEVENL
Ga0209891_1009918	Ga0209891_10099181	F033034	MKVAKLTKKAQDIVNQIMSADAVDIDHGRVDERVYYGQMHLTGEGLECNVNVDGDIGEMIISNESLNAAVISEGTIEIDSEHIKDNPYGDMTITLYKLSKINAV
Ga0209891_1010957	Ga0209891_10109571	F104717	AVDQSPIVWLEIVDKIVKGDRTKWDFILDMPLIEFLNAMAFYKAKTKERQKRLEDAAGKGFNPYIVACLNEML
Ga0209891_1011059	Ga0209891_10110591	F011485	KTSGSAFAGFDIGKTYFGVDGYVGGVILPDSNSIDESHWKLGVGKALKISEKFSLRGDLQVLRHQSSILGGRNSTEIAPKIALVNPYLTPYIRGSHDFNLGQSGYIVGAERPTDVFGWFTLTPTVEYGKFTDYDVVAVKIGVSRTFFNHLQPYAEVGYYDNNFQSSKYKFASQEFSGDVVAVAGVRWNF
Ga0209891_1011537	Ga0209891_10115372	F067478	MSQATYRGCQYNTDTAKQEYRQWYSQTHAPAHPQNRYRGVAYRPCQNWN
Ga0209891_1011606	Ga0209891_10116061	F002909	VAQIDLSKLPDALDTYLGDASQGSLLQQIIVEWWNKKVIPPIWANLDANGTNASSKLRQSFIPGTITKSPTSINTILLAEDYWEFVEYGRKPTRGGHIEGTPYLWQSLKTWISQKGIKPAEDQTYDSLAKAIAKKIHRSGTKAQPFLEKAFTESIQMELVN
Ga0209891_1012286	Ga0209891_10122861	F014117	MKHLHNDTTAAIATAISGSSAVLHFANTWQPLFALVLAIVGIVSGLFAIRYYAKKIDAIDGKGK
Ga0209891_1013092	Ga0209891_10130921	F100847	MAKYINIEGNQVIDLTPDYNRPLALVDITVLNKLTELLPKGDFNSIRHNFREQIMKTINLEELVQTSEDFITFHRSVNLIREICQGEIHEVDVDKLRRGIGKFEM
Ga0209891_1014674	Ga0209891_10146741	F018169	KSCKSNNIFAWFDFCGNPTSENINLINTATGKNVTYIFTFNTAWRMDTNVDPELRHLASLGNKAIATQLHLNLLAEKLGLTLIWSFEYVSNYIPMISVCFSNDVNVIADKSLNIMSVNESKKSKLTKHTLNVITKAVTVKRDLSAVYVDVKAKMDEKAICAKHNVSVN