3300000860: Marine microbial communities from the coastal margin of the Columbia River, USA - metatranscriptome 33 PSU, 16m

Overview

Basic Information

• IMG/M Taxon OID: 3300000860
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0084963 | Gp0057246 | Ga0011713
• Sample Name: Marine microbial communities from the coastal margin of the Columbia River, USA - metatranscriptome 33 PSU, 16m
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Maryland
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 9628445
• Sequencing Scaffolds: 7
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → unclassified Rhodobacteraceae → Rhodobacteraceae bacterium TMED160	1
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → unclassified Dehalococcoidia → Dehalococcoidia 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 → marine neritic zone → sea water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Columbia River plume, coastal ocean
• Coordinates
  • Lat. (^o): 46.233
  • Long. (^o): -124.16
  • Alt. (m): N/A
  • Depth (m): 16

Associated Families

Family	Category	Number of Sequences	3D Structure?
F003977	Metagenome / Metatranscriptome	459	Y
F019651	Metagenome / Metatranscriptome	228	Y
F029925	Metagenome / Metatranscriptome	187	Y
F033962	Metagenome / Metatranscriptome	176	N
F050663	Metagenome	145	Y
F059360	Metagenome / Metatranscriptome	134	Y
F065210	Metagenome / Metatranscriptome	128	Y
F077260	Metagenome / Metatranscriptome	117	N

Associated Scaffolds

Scaffold	Taxonomy	Length
BpTDRAFT_101003	Not Available	1426
BpTDRAFT_102227	Not Available	1925
BpTDRAFT_104808	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → unclassified Rhodobacteraceae → Rhodobacteraceae bacterium TMED160	1741
BpTDRAFT_105945	Not Available	1500
BpTDRAFT_109060	All Organisms → Viruses → Predicted Viral	1350
BpTDRAFT_109887	Not Available	676
BpTDRAFT_110259	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Dehalococcoidia → unclassified Dehalococcoidia → Dehalococcoidia bacterium	917

Sequences

Scaffold ID	Protein ID	Family	Sequence
BpTDRAFT_101003	BpTDRAFT_1010032	F059360	MTLFKEVLVPANLVPAAAVIREGQALSNITGRKESVDCNISYMLKPKASL*
BpTDRAFT_102227	BpTDRAFT_1022276	F050663	MSDMTKEEAIEQARRNYMELFHDQETKLSNLYDECDELEEGDLEEWRIE*
BpTDRAFT_104808	BpTDRAFT_1048081	F077260	MRVLLLLVFVISFSAKIMELDAKDPNLSEIDTKLTESSISSDQLDAVFQDFFGLEAKSKIENETIISVVFENVQEEDALLVLQRSQEVKVLKLHKASIISGESEKSYNLEIIYVAG*
BpTDRAFT_105945	BpTDRAFT_1059452	F003977	MPRTKLSKQQLDYKEGLAHFKTWLKMNKQFEDRGLHGTDYYVRIVEELEAKVKQLEAKLKRKAKK*
BpTDRAFT_109060	BpTDRAFT_1090602	F033962	MTELKQYMAEQKRIKVIQWNKDREGNHCQGFTQKEFEQSMEVDRIKSRTRRTHSKGNLWVFNDTKDRELFTK*
BpTDRAFT_109060	BpTDRAFT_1090603	F019651	MTTLEKFQEEANINFVQTPSHADVELGELQTADGYELYYVTQDIQNLNYENELFYYKPDFDTIMAAIDDYRHREDTANVVCYDIEDWFDEYDMLNWLESEMDEESFEAFTNET*
BpTDRAFT_109887	BpTDRAFT_1098872	F065210	VIFMEITKSQFKSYDGIHELVITHSPHIRSIDIAQHIIDTQNEVVMLKNIIEDLRQREKKKEAIIDNTR*
BpTDRAFT_110259	BpTDRAFT_1102594	F029925	MFILKSILTQAGSVWQVESIAMRERDAKRILKRRQAQNDGSRRYG