3300026893: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_21-May-14 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026893
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114663 | Gp0115674 | Ga0209883
• Sample Name: Groundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_21-May-14 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 58403968
• Sequencing Scaffolds: 8
• Novel Protein Genes: 10
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	1
Not Available	2
All Organisms → cellular organisms → Archaea → Asgard group → Candidatus Thorarchaeota → Candidatus Thorarchaeota archaeon	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	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?
F000212	Metagenome / Metatranscriptome	1580	Y
F015593	Metagenome / Metatranscriptome	253	Y
F027760	Metagenome / Metatranscriptome	193	Y
F044595	Metagenome	154	Y
F054132	Metagenome	140	Y
F065441	Metagenome / Metatranscriptome	127	Y
F082695	Metagenome / Metatranscriptome	113	N
F088774	Metagenome / Metatranscriptome	109	Y
F104469	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209883_1000847	All Organisms → cellular organisms → Eukaryota → Opisthokonta	4136
Ga0209883_1001218	All Organisms → cellular organisms → Eukaryota → Opisthokonta	3100
Ga0209883_1001836	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales	2195
Ga0209883_1013865	Not Available	562
Ga0209883_1013926	All Organisms → cellular organisms → Archaea → Asgard group → Candidatus Thorarchaeota → Candidatus Thorarchaeota archaeon	560
Ga0209883_1014164	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	555
Ga0209883_1014956	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	539
Ga0209883_1017303	Not Available	500

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209883_1000847	Ga0209883_10008472	F082695	LFVLLSYESQTGDESDVARWAHKLMNRSVANRTITKPEAMCELGQLPMVICSESIETVSITGQTRCSIDTTTSTILSQYKNRPNTQERLSLHEFYHAKRNNHSMTTAANHREFVPHYVGGRGQPVYPVTDTKQSISYARSEILKHMPWSQKNPMPNECDWVAIFKEFLQDPSCPAGVKLGFERAKLRYELRRKGIQEVFQPDTEHSNATDDLDDDEIGDVIALTESLGYTEDELDKMEENGFCIGRDYDWGRRVYTVSNICII
Ga0209883_1001218	Ga0209883_10012181	F082695	KLMNRSVANRTITKQEAMCELGGLPMVICSESIETISITGSTKCATDTNTSTILSQYRNRPDAQQHLSLHQFYHIKKNKKLASTPSYREFIPHYVGGKGQPVYPITRSYARSELLKHLPWGRKNPMPNDCDLITMFKQFLENPKCPVGVRLGFERAKLRKELKEKGIQEAFQPDIEHSSNTDDVDDDEVGEVIALTESLGYTEDELEKLENNGFFLGKDYDWGKRIYTVSNPTIHHTRFGIILNY
Ga0209883_1001836	Ga0209883_10018363	F044595	MNGLVAFVRAAAAMESFRGCASALHLTLPASFQLDRNEDQLHPGEGSA
Ga0209883_1004738	Ga0209883_10047381	F104469	QRLRLNPTFLAPEVSNIAYLHDIEDKTITVDNDDASDNNLHQMNVEADVNSVASSGSVAAVDSFSENKFVDTTKAPAGDSDYACFTTSQKCITSLMYLLDDMECPDYAFQCIMDWARNCFETGFDFNPKSKTCLGNLKWMYDSLHNAKQMLPNVMLIQLPDPLPDTKSMDVICYDFVPQLLSILQNKEMMSANNLVLDPNNPLAMYKPQNCRLGKALSGSVYQDMYQRLVSNPTKQLLCPLICYTDGTQIDALSRFSVESFLFMPAVLSHVTRCKAEAWRPFGYVQHVRSTQTKLNGAAKARNYHAQLQAMLQGLQRVQTGVDSRLQNVEIYCFGKCLRVDVLCPILFIAADTPAADKLCGHF
Ga0209883_1010573	Ga0209883_10105731	F000212	MKLITKIIVMTFFLMNSTMSLGLRTETQCHPQCSWKCDDPHCPAICDPVCEPPKCHTSCAEPKNAICDVKCEKPECEIKCPDKGCEMFDCPKCVTVCKQPHCVTHCQAPKPECEAVCEEPRCDWKCHKPNCPKPKCELVCENPNCVPKVECCPCAMGAPR
Ga0209883_1013865	Ga0209883_10138651	F015593	AKGEIELADEVEMKLTEDEKISHSNAWRSHRETTESLKKSRGKVYSLLLGQCTQVLIDKMKQDTDWVTISESFDPTLLFKLIEKFVLKQSDNQYATAVLISEQLSILSFRQDDHLGNAAYYDRFTTRVEVARQAGVCYYSPALLEEKATQLKLGAYDDLASDAKKKVVDQVEQEYLAYLFLNNSNA
Ga0209883_1013926	Ga0209883_10139261	F065441	KREMYAKIALLMFYPFRQLNDLTYNGSYWRLFHNELKKHINKENTVFWKKGFEILQNIQDRSTLEKHVKRARDPISITTKNEKPNDANGIQAKSMAGNSAMGDILDMNKQLK
Ga0209883_1014164	Ga0209883_10141641	F027760	CQLDLTPNDHKIERKKIKSKLDDLNNKLAQEMTGRKFKLEPEQFSPEVTVKHYQTSSKKVAFRCKMKQIPANSNDATTGHKLQGMSKDAIIVSSWPTGGLAAMFKNWEYVVLSRVRTLSGLYLVKPIDMDKSFQPSPQLASYMDKIRKFEKDMLEKRKQAISKTFL
Ga0209883_1014956	Ga0209883_10149561	F054132	QSRKPVDLARVQAIEFLDAALGADRRQLIKQYVENHDSAPKLAERIWQAIYDLSQGFIYAYQTALEEAMRQNGNARWKPLTPLLFARLVHYYGTDAKLRVFRYERWIPGKWMELHRVYMRASELGFDRVPVVMPSAGPNATPWTIEQEYLYVLLVHQLNTGNMSPPQLDWAMSQLRAWS
Ga0209883_1017303	Ga0209883_10173032	F088774	IDVGSTVQADAKFLRRVFLGLVLLTLATGFLAGLTTVQAMTDKTGTCVLLCQ