3300000843: Freshwater microbial communities from the Columbia River, along salinity gradients

Overview

Basic Information

• IMG/M Taxon OID: 3300000843
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0084963 | Gp0055498 | Ga0011302
• Sample Name: Freshwater microbial communities from the Columbia River, along salinity gradients
• Sequencing Status: Permanent Draft
• Sequencing Center: University of Maryland
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 5297491
• Sequencing Scaffolds: 8
• Novel Protein Genes: 9
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	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 → Freshwater → Lotic → 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): freshwater river biome → river → river water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Columbia River freshwater tidal region
• Coordinates
  • Lat. (^o): 46.184
  • Long. (^o): -123.182
  • Alt. (m): N/A
  • Depth (m): 1

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000331	Metagenome / Metatranscriptome	1285	Y
F003847	Metagenome / Metatranscriptome	465	Y
F006262	Metagenome / Metatranscriptome	377	Y
F006296	Metagenome / Metatranscriptome	376	Y
F025464	Metagenome / Metatranscriptome	201	Y
F048785	Metagenome / Metatranscriptome	147	N
F055443	Metagenome / Metatranscriptome	138	N
F096910	Metagenome	104	N

Associated Scaffolds

Scaffold	Taxonomy	Length
FwTDRAFT_101472	Not Available	553
FwTDRAFT_103521	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	550
FwTDRAFT_104006	All Organisms → cellular organisms → Bacteria	2469
FwTDRAFT_104531	Not Available	840
FwTDRAFT_104929	Not Available	750
FwTDRAFT_106119	Not Available	999
FwTDRAFT_106667	Not Available	515
FwTDRAFT_106812	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	619

Sequences

Scaffold ID	Protein ID	Family	Sequence
FwTDRAFT_101472	FwTDRAFT_1014721	F055443	RTKEAIWAALLATYKMYLLRGFRVVVIRGDQEFAAISDLAVALPTKPSLDWAAASQHCGLVEQNIHFLKEKIRSIRHSLPFERVPGIMVVRMVLHIVKFVNGFPRKGGVKHFSPGEIVTGRRLHADDLCLGFGIYCQVAENVEPRNSLAPCTRGAILLGSLGNLSGGQVFLALDTGHRIVWHLD
FwTDRAFT_103521	FwTDRAFT_1035212	F000331	SDIATFLTNAAWAIRSTYHTVLKASPGAAIFGRDMLFAIPYIADWNKIGDYRQRQTDLNTKRENNSRIDYDYKVGDKVLVRKDGILRKTESRYDSEPWTITSVHTNGTIRVERGSKSERLNIRRVTPFFE*
FwTDRAFT_104006	FwTDRAFT_1040063	F048785	LALVAVEQKLTTAMSAQTVADAAALAAVQSGEVVAQQLVALNEARIVSLEAQKYGDQGTTVVVVIELDGVQAQATASNAN*
FwTDRAFT_104531	FwTDRAFT_1045312	F006296	MMRLKSGSATKKTILPEPTCSQAILNRHAQKVRATQDRIELKLRGLAAEKTAIEAEIQVESSRTLLRELREVDDQIAKCNIELSDEVEMKLTEDEKIAHSNAWRTHREATESLKKSRGKIYSLLIGQCTQVLIDKMKQDSDWVMISESFDPILLLKLIEKYVLKQSDNQYATSVLIAEHMSILSFRQEDHMSNAAYYDRFTTRVEVTRQAGVCYY
FwTDRAFT_104929	FwTDRAFT_1049291	F006296	RGANATVPRKASEVGACKELEGHIFTIGSGNKGKDGDMLRTSMEKMTTYIGTKFGDEAAQEWISGKKIVPTEPTYSQAIKTRHAARVKATKDRIDLRLRGLTTEKAAIQAELLASPNDRTLLRELREVEDQMAKAEIELIDEVDMKLTEDEKISHANAWRSHRETTESLKKSRGKVYSLLFGQCTQVLVDKMKQDTDWVAISESFDPTLLFKLIEKFVLKQSDNQYATAVLIAEQLSILSFRQDDHLGNA
FwTDRAFT_106119	FwTDRAFT_1061192	F006262	VFTFTVAIKRAYLRSVYSTLGGVTLLAALAAKSIAAATVIESGQVVRSTSSSDVSVEFAEPGKGAPTPSEMVEMWESLLDDYDLAVYYLEQDGNLTPTDAQIYTKMVTVVLIAATSFGGDFSNFRREASYRGMS*
FwTDRAFT_106119	FwTDRAFT_1061193	F096910	WGVHQDPPSVQAEGAYIAEPDLYWRHLDSHVLRPQANRAGRIKHVWVKRNQKWPDHLHDCEIMQLAMVMLWNDLVTSSESIAS*
FwTDRAFT_106667	FwTDRAFT_1066672	F003847	ERENSKRIDYDYKVGDKVLIVKEGILRKAESRYGKEPWTITTVHTNGTIRVQCGSKSERINIRRVTPFSEDII*
FwTDRAFT_106812	FwTDRAFT_1068122	F025464	MAEDWKLQVSYKTPSGDMINIRAHTNDELSVLLEGIGDYSTQIAAVQRLVVGAYGVAPLATSPSTQGTVPSPSSAPPQAQAPSAMAP