3300026919: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_23-Sept-14 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026919
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115666 | Ga0209892
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T3_23-Sept-14 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 57622659
• Sequencing Scaffolds: 10
• Novel Protein Genes: 14
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	2
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae	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?
F010768	Metagenome / Metatranscriptome	299	Y
F023108	Metagenome	211	Y
F025224	Metagenome / Metatranscriptome	202	Y
F026270	Metagenome	198	N
F026867	Metagenome	196	Y
F027438	Metagenome / Metatranscriptome	194	Y
F039104	Metagenome / Metatranscriptome	164	Y
F042872	Metagenome	157	Y
F043284	Metagenome	156	N
F048834	Metagenome	147	N
F050335	Metagenome / Metatranscriptome	145	N
F058798	Metagenome / Metatranscriptome	134	Y
F072095	Metagenome	121	N
F096710	Metagenome	104	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209892_1003475	Not Available	1255
Ga0209892_1004537	Not Available	1050
Ga0209892_1006149	All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	878
Ga0209892_1006746	Not Available	834
Ga0209892_1007831	All Organisms → cellular organisms → Bacteria	768
Ga0209892_1009140	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	702
Ga0209892_1012728	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	585
Ga0209892_1015844	Not Available	519
Ga0209892_1015965	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Dinophyceae	517
Ga0209892_1016857	Not Available	502

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209892_1003475	Ga0209892_10034751	F072095	VAVIRDLEKEGVLPATASQSYGSAQLSQTTALIDLQVKHRDLRNRLDRIEEILESLLKKSGVQS
Ga0209892_1003475	Ga0209892_10034753	F042872	MTPQSIIDQIESGNCTVGSNPTPSESYHYNDLRRNGNTAVITEPKKKHYQQHSLLIRGGYPAEPAYHPNPSVARMWSAQR
Ga0209892_1004537	Ga0209892_10045371	F050335	VALSITQQPDSYHPAFNDTNFVITESSGGIYTKDNFKFIANVKVAATSVAKLKAPIYFGSVNKGVFNIGRIMESYVSNNWSFTDTSPSGCVDSFSDYEVEFGYEYSPSATGTITEYLDLTSATGTVWNAALNPFDLVTYAQAQYLATSASAKFLTNVRTRYIHR
Ga0209892_1004537	Ga0209892_10045372	F026270	RVIEKYPLLFEGGDEGYDGAVDQSPIVWLEIVDKIVKGDRTKWDFILDMPLIEFLNAMAFYKAKTKERQKRLEDAAGKGFNPYIVACLNEML
Ga0209892_1006149	Ga0209892_10061493	F025224	MADAMWMPGSFFDNVDKFANSLGYQNAGVAMELAMMSWNSPEERDAFITSITNAEVQGGTEKNYIKRK
Ga0209892_1006746	Ga0209892_10067464	F039104	MTNLKALVVKASINNIIKWRVYFAGELLATFENET
Ga0209892_1007831	Ga0209892_10078312	F026867	MKLRKQDQALSLRQLGAAYGLGYVRIKQMRELSGFPLIAGKVIPSDFDQWRLMQTGLNLPRPADRLRSAAGKAHALASRSDSRVSWRQIANTLKDEAWLHELREGNGSSDF
Ga0209892_1009140	Ga0209892_10091402	F048834	MAIPGVDWAAALDAYVAGDREEVVPPGWFTKIDIAKLWGKTPVYTNKVLTRMMKSGGAERKVFSIRIKICDRGSKVGHCR
Ga0209892_1010969	Ga0209892_10109692	F023108	MGKLFIVIISILLYSCSAQYHLNKAIKKGYVCEDTLQMDTIRIATIDSVPVIVNNEIIYEKFITQKDTIVKWKTKNVYVPKTRIELKREYKIKIKTIYKDKVVEKAQARAEGKK
Ga0209892_1012728	Ga0209892_10127281	F058798	MAEHKVEGGSMLLFIDPDGGTAYDTVVCLTSVSKSDSVTVVDASSACGPDKSPGTLELSYAFEGQHLQDPENGKISGTDLRILLRGEQTIGWKIAPEVPVEGDEIEEGTGYLSELSSTYSFDSVGTFTGTIQPYGTPTITISGGGGG
Ga0209892_1015844	Ga0209892_10158441	F043284	KLNNTRDKALELIGKTIGLASDAGAIIQQARADGQDIVAICEEAGITEEVGKRYEKVAAAQHKLANGDADPGLMRQTYLRIGFLPDPITMSEPSEPKHFLFPIMQARQWLASRGVKFISQDKGLRAQFLAEAEPIVKTYNELKDSA
Ga0209892_1015965	Ga0209892_10159652	F010768	VDNGGYNVHPVPPPNSEIKERIRKRYESKRIKIEKLLTLGYTTSGDP
Ga0209892_1016403	Ga0209892_10164032	F027438	MTTRKSHKARGATYETDIRDWFRANGYDSERLARTGAKDEGDVVVRSGF
Ga0209892_1016857	Ga0209892_10168571	F096710	MKDLVTKSALVSIFNSKQHDFLYIIKQVNTELFLPRVPKAVVKDMIKSEGLYNISYRIYTNEKGYESIYISKASKIVTK