3300000853: Marine plume microbial communities from the Columbia River - Metatranscriptome 15 PSU

Overview

Basic Information

• IMG/M Taxon OID: 3300000853
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0084963 | Gp0055526 | Ga0009253
• Sample Name: Marine plume microbial communities from the Columbia River - Metatranscriptome 15 PSU
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Maryland
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7327946
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Trebouxiophyceae → Chlorellales → Chlorellaceae → Auxenochlorella → Auxenochlorella protothecoides	1
Not Available	3
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater And Marine Microbial Communities From The Columbia River, Usa, Of Estuaries And Plumes Across Salinity Gradients
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Neritic Zone → Unclassified → Freshwater And Marine → Freshwater And Marine Microbial Communities From The Columbia River, Usa, Of Estuaries And Plumes Across Salinity Gradients

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine biome → plume front → sea water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Columbia River plume, coastal ocean
• Coordinates
  • Lat. (^o): 46.239
  • Long. (^o): -124.161
  • Alt. (m): N/A
  • Depth (m): 1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F011641	Metagenome	288	N
F021109	Metagenome	220	Y
F025718	Metagenome	200	Y
F045787	Metagenome / Metatranscriptome	152	N
F058891	Metagenome / Metatranscriptome	134	N
F059360	Metagenome / Metatranscriptome	134	Y
F099287	Metagenome / Metatranscriptome	103	Y
F105059	Metagenome / Metatranscriptome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
NpTDRAFT_100963	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Trebouxiophyceae → Chlorellales → Chlorellaceae → Auxenochlorella → Auxenochlorella protothecoides	1294
NpTDRAFT_103024	Not Available	686
NpTDRAFT_103025	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1149
NpTDRAFT_105041	All Organisms → cellular organisms → Bacteria	866
NpTDRAFT_106626	All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon	606
NpTDRAFT_107103	Not Available	1569
NpTDRAFT_107480	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium	762
NpTDRAFT_108086	Not Available	872

Sequences

Scaffold ID	Protein ID	Family	Sequence
NpTDRAFT_100963	NpTDRAFT_1009632	F059360	MIMPLFNELVPANLVPAAAVIREGRALFGMTGRKGFVDGIAS*
NpTDRAFT_103024	NpTDRAFT_1030242	F099287	MSARGKGNQKTNTNAAATLLAFGWLIISPEGAHSDDPLTVAAQEIQDLNDSIDDLGYKDEFISLIEEAEDKYDIAVSAQSTQSQTSDLYDDSLDAKATALEEKELAQSAVDGQTVTVATALDNKNDAYDA
NpTDRAFT_103025	NpTDRAFT_1030251	F099287	LNKLLRISTVILLAFGWLFIAPTEANSDDPLTVAAQQIEELNNSVSDLGYQDEFISLIEEAEDKYDLAVSAQSTQSQTSDLYDNSLDLKATALEEKDLAQSAVDEQTVEVATALEHKNNAYDALGVANINLSNAQQALDSAGSVGLAPR
NpTDRAFT_104035	NpTDRAFT_1040353	F105059	MKISVEYWDYTCGDGCCYDWGYDVFVDGEKIGQINDTPEELADLLNEYFNTKEK*
NpTDRAFT_105041	NpTDRAFT_1050411	F025718	IAKVNIVDRKTGDIVAKNQILKCEHHKSVESLNRDLAKFGLPRKFQFVKWVA*
NpTDRAFT_106626	NpTDRAFT_1066261	F045787	MQKLLIKLIELMGIVAGDKVVIESVDNFLWRLDLPLGKLSGGTYDSGYWGDAHIEDTDAWLTFTVGNLHAENEFSIGEGRVNLNYAAGNEGLAYTGDLEDVVTQRIKDLYNLKADGSEQGMQGDDYISLDIWVDDFDDVEFTGEQMDADFDDTTSENYLKQF
NpTDRAFT_107103	NpTDRAFT_1071033	F021109	MNTLNRIQAEQALARHEAHEKAMLKSPWIRESVEAYRSADEAQIATVEAIRKKWYGF*
NpTDRAFT_107480	NpTDRAFT_1074801	F011641	MADERLALVDKILAYVSSPFRLFAMVLMAVLTFAGYFVYTNQELLIGAYKESKKIPSIAEDRVEDAAAHLFKQSGAIVVAVFKVNPMFGTSM
NpTDRAFT_108086	NpTDRAFT_1080863	F058891	MHKKDVLLFIKERQEALSKMKASQFAGRITREEQALYQEAWSYIDPKAKVCFSCGRSPQIMSVALLNYYEANKPKRRKKK*