3300026838: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_2-Sept-14 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026838
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115673 | Ga0209872
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_2-Sept-14 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 45341147
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium	1
Not Available	4
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	2

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?
F003806	Metagenome / Metatranscriptome	467	Y
F005780	Metagenome / Metatranscriptome	390	Y
F008079	Metagenome / Metatranscriptome	339	Y
F008926	Metagenome / Metatranscriptome	326	Y
F018483	Metagenome / Metatranscriptome	235	N
F035568	Metagenome / Metatranscriptome	172	N
F036108	Metagenome	170	Y
F055558	Metagenome	138	N
F063698	Metagenome / Metatranscriptome	129	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209872_1006208	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	791
Ga0209872_1008399	All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → unclassified Planctomycetota → Planctomycetota bacterium	649
Ga0209872_1009097	Not Available	619
Ga0209872_1010205	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	577
Ga0209872_1010630	Not Available	562
Ga0209872_1011266	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	543
Ga0209872_1011920	Not Available	524
Ga0209872_1012938	Not Available	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209872_1006208	Ga0209872_10062082	F005780	MAQETVSIAWCDNGMVDGKFMQGVTDVMLKSGINFTTTLRSQGNQIARQREKIIRYWYENNTSEWLLWVDSDVVISPEKFRLLWDNKDVKERPIVTGVYFTTDTPEEPLMIPMPTIFNFAEAQDGVVGIKRVHPMPENQLIKVEAAGMGFVL
Ga0209872_1008399	Ga0209872_10083991	F003806	MNEVVIPLKIQGIAQMKAELRELKGELASATDPAKMAALAQKAGELSDKIKDANDAVAVFASGSKFEQVSNGLGGIKSSLMSLDFAEAAEKSKTFATALGGINKADIAKSM
Ga0209872_1009097	Ga0209872_10090971	F055558	GKLMTYNFALIVMDRVFESESNTIEVLSDTAQIMSDIFALVETNTESDGDFELSINGNASPFYDSKTDILAGYAINFQVLTPYLSNSCVVPI
Ga0209872_1010205	Ga0209872_10102052	F018483	MMCQAVEAYIYSKKGVAVKINRIAIISDGRQMEMLAYAYAYANGDR
Ga0209872_1010630	Ga0209872_10106301	F035568	EVTDPGKVKAYLLNTIKMQILWSTSLTNRQERVTATDSTMPIVMDDDTDLYDKIRDDMQYQDNMAVIETYRGRITDRIKLIVFQTYFDKGYSTARAMAEYFRIPVTSAHYWIQEIKTDLKNLRDEN
Ga0209872_1010630	Ga0209872_10106302	F008079	MKIKDEYIGAKISHKGNRITLDANRYDYFVSIGLGYMFEEPTVSEPKVVKYKAVKGPIPAPET
Ga0209872_1011266	Ga0209872_10112661	F008926	KWKKIGDQIMDEPVKLYDDAMDAIRYATTYIRQEYYTDDSYYSF
Ga0209872_1011920	Ga0209872_10119202	F063698	ILAGGDGFKYHGTGTVTSVGYAALVVQEDTVFTSFSVDGTNVLSARGLSAITLQQGAYLPSGGASKITGFIISSGSVIGY
Ga0209872_1012938	Ga0209872_10129381	F036108	LAITAINHYVDFLSSEIDFYEKEELLEDTDYQEHKSQLPEVYALLNWIKLEYFKHEN