3300003713: Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - ESP_74LU_5_RNA (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300003713
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0046785 | Gp0088393 | Ga0008274
• Sample Name: Marine microbial communities from expanding oxygen minimum zones in the Saanich Inlet - ESP_74LU_5_RNA (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7844115
• Sequencing Scaffolds: 12
• Novel Protein Genes: 13
• Associated Families: 12

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	5
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Yersiniaceae → Yersinia → Yersinia pseudotuberculosis complex → Yersinia pestis	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 → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Pseudo-nitzschia → Pseudo-nitzschia australis	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

Alternative Ecosystem Assignments

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

Location Information

• Location: Saanich Inlet, British Columbia, Canada
• Coordinates
  • Lat. (^o): 48.6
  • Long. (^o): -123.5
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000237	Metagenome / Metatranscriptome	1498	Y
F001583	Metagenome / Metatranscriptome	668	Y
F009426	Metagenome / Metatranscriptome	318	Y
F010163	Metagenome / Metatranscriptome	307	Y
F021791	Metagenome / Metatranscriptome	217	Y
F023489	Metagenome / Metatranscriptome	210	Y
F027881	Metagenome / Metatranscriptome	193	Y
F028939	Metagenome / Metatranscriptome	190	Y
F059360	Metagenome / Metatranscriptome	134	Y
F070259	Metagenome / Metatranscriptome	123	Y
F099352	Metatranscriptome	103	Y
F102464	Metagenome / Metatranscriptome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0008274_100669	Not Available	2013
Ga0008274_100843	Not Available	1295
Ga0008274_101303	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	1628
Ga0008274_101372	Not Available	2456
Ga0008274_101842	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Yersiniaceae → Yersinia → Yersinia pseudotuberculosis complex → Yersinia pestis	1463
Ga0008274_102623	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	1290
Ga0008274_102625	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales	600
Ga0008274_103203	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Skeletonemataceae → Skeletonema → Skeletonema marinoi-dohrnii complex → Skeletonema marinoi	591
Ga0008274_103812	Not Available	1306
Ga0008274_104820	Not Available	544
Ga0008274_107056	All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Spirotrichea	589
Ga0008274_107573	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Bacillariophyceae → Bacillariophycidae → Bacillariales → Bacillariaceae → Pseudo-nitzschia → Pseudo-nitzschia australis	648

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0008274_100669	Ga0008274_1006695	F070259	MKSESLVIVNQHVTVNDLPNFAHTAHHAQKVVTAGNKPDS*
Ga0008274_100843	Ga0008274_1008431	F021791	MLVRFCVDYRIKPHIPPFEQIPANFVKFQPCGYTIQVGYLR*
Ga0008274_101303	Ga0008274_1013033	F028939	MKSNLVKSQNYKLFKYNLLKLQIYSDQPSFDIFNFSNDTLEYIEAHLKQVLKIIFEYHVCQFKILFIGFPVISKMKQMKLIHFTNHTFISEKS*
Ga0008274_101372	Ga0008274_1013721	F027881	HKLNIMSLTMARGERMRSVLTHASCTGIHVNPSSVRVSSAL*
Ga0008274_101609	Ga0008274_1016091	F000237	FF*FHYIIALGISLSASHLSDLTLTIIANIF*SVFNNIYKTYYIIFTNKHLNVDQLTRLMILHYFTP*YYLYLVKLHVLFCHES*DTDSGENIYEDKSGSYVS*FYDAFLKEIQDAWY*TLYVFVYFFLHHFNGATVNYFFFERWNISELDEVRFYGVAPH*YFRPLMGILVISPTHYEGLMWMGLFFILLAFLPIFYNFYNVYHKYVATIPMQNSLLQTSFFIFFMMSLYCTASMLPCGRYYYEPEGGYVGNP*VKFSYQFVYLYLG*FVHHLDLFDHYIFQFSQTFIRKCSSYSLRTLVLRKAASKKTSSRKAFAK**
Ga0008274_101842	Ga0008274_1018421	F059360	MIMTLFKEVLVPANLVPAAAVIREGQALFVITGRTASVDCIISYMSKFKV*
Ga0008274_102623	Ga0008274_1026234	F010163	LSLKIANKSFFSSNLINQNYFKHLFSKIKILKFIKKETFSFYLSWLILFTFTKLYHIKTKINYFTAYILFSFFTHQKLISYVINVNLSLTNTLINVNDIKGNPKFFYSAGMFNLQKTQKVRQPKAIITILKSLLVKIKVFRTKPVALHFNNLFFNHQSYIYKKLKRKIFIKLVTSYNYHPHNGCRLKKKKRIKIRTRTKKL*
Ga0008274_102625	Ga0008274_1026251	F010163	LSLKIANKSFFSSNLINQNYFKHLFSKIKILKFIKKETFSFYLSWLILFTFTKLYHIKTKINYFTAYILFSFFTHQKLISYVINVNLSLTNTLINVNDIKGNPKFFYSAGMFNLQKTQKVRQPKAIITILKSLLVKIKVFRTKPVALHFNNLFFNHQSYIYKKLKRKIFIKLVTSYNYHPHNGCRLKKKKRIKIRTRTKK
Ga0008274_103203	Ga0008274_1032031	F099352	MVFNGAEAFKGASAPSLEREVSVTSNNNRVLLDSQELNAASGAFNLCCGEAYARFSELKRLKVHPGNMTKERDAVESCSANVYNGIKASCVEQFDAVKSCLSDNPDVWAKCASMRRELEVCSVKNNLGELKKLSS*
Ga0008274_103812	Ga0008274_1038121	F023489	FEDFVSGGVTTSRCSCGAEATKVVSATKCVLEGASGDFPGRHMKWVREHEMAGRK*
Ga0008274_104820	Ga0008274_1048201	F009426	SMSAVVNKNLKLQSGMVPGETSYSIIIFMTTSPCVISVGAARETLFEGKADYCMIVCE*
Ga0008274_107056	Ga0008274_1070561	F001583	HLSDLTLTIIANIF*SLFNFAYKTYYVIFTNKHLNTDQLTRLMMFHYFTP*YYLYLVKLHALFCHES*DSDSGENVYEDKSGSYVS*FYDAFLKEIQDA*Y*TLYVFVYFFIHHFDASTVNYHFFER*NISELDEIRFYGVAPH*YFRPLMGLLVVSPSHYEGLM*MGL*FVLLASLPIIYNFYNTNNSYLPIIP
Ga0008274_107573	Ga0008274_1075731	F102464	IDQMLPPKKKQSPEDRAKDLEGVLNWMRSNDVSPVPDVEEDKPVGFDKVPSVPVKRRSPEDRKADVDDITEWIRQGKPSEKPGSPTDEFDAIDQMLPPKKKQSPEDRAKDLEGVLNWMRSNDVSPVPDVEEDKPVGFDKVPSVPVKRRSPEDRKADVDDITEWIRQGKPSEKPGSPTDEFDAIDQMLPPKKKQSPEDRAKDLEGVLNWMRSNDVS