3300000221: Marine microbial communities from expanding oxygen minimum zones in Line P, North Pacific Ocean - June 2008 P12 2000m

Overview

Basic Information

• IMG/M Taxon OID: 3300000221
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0046785 | Gp0054009 | Ga0026465
• Sample Name: Marine microbial communities from expanding oxygen minimum zones in Line P, North Pacific Ocean - June 2008 P12 2000m
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 40682411
• Sequencing Scaffolds: 10
• Novel Protein Genes: 12
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	3
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	1
All Organisms → cellular organisms → Archaea	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium	1
Not Available	2

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 → Aphotic Zone → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

Alternative Ecosystem Assignments

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

Location Information

• Location: P12, Pacific Ocean
• Coordinates
  • Lat. (^o): 48.97
  • Long. (^o): -130.666667
  • Alt. (m): N/A
  • Depth (m): 2000

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006552	Metagenome	370	Y
F012125	Metagenome	283	Y
F020717	Metagenome / Metatranscriptome	222	Y
F027203	Metagenome	195	Y
F031535	Metagenome	182	N
F037770	Metagenome	167	Y
F038276	Metagenome	166	N
F066858	Metagenome / Metatranscriptome	126	N
F081452	Metagenome / Metatranscriptome	114	N
F099440	Metagenome / Metatranscriptome	103	N

Associated Scaffolds

Scaffold	Taxonomy	Length
LPjun08P122000mDRAFT_1001497	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	2402
LPjun08P122000mDRAFT_1001501	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	2399
LPjun08P122000mDRAFT_1002727	All Organisms → cellular organisms → Bacteria → Proteobacteria	1740
LPjun08P122000mDRAFT_1004106	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	1337
LPjun08P122000mDRAFT_1005143	All Organisms → cellular organisms → Archaea	1158
LPjun08P122000mDRAFT_1005261	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	1142
LPjun08P122000mDRAFT_1005474	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium	1111
LPjun08P122000mDRAFT_1007215	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus	926
LPjun08P122000mDRAFT_1008869	Not Available	811
LPjun08P122000mDRAFT_1009154	Not Available	795

Sequences

Scaffold ID	Protein ID	Family	Sequence
LPjun08P122000mDRAFT_1001497	LPjun08P122000mDRAFT_10014972	F038276	MNLDFLLRLTNYVNIDIEIYLAITKQFLTVLVIINHACVLLHDNHNYKDVFYDRLGNRYIRNACDFHNLHISYNNLGLVLEKFLLYIKIINNKV*
LPjun08P122000mDRAFT_1001501	LPjun08P122000mDRAFT_10015017	F012125	MLDMCYNVMKPDSGRKSFFSAGKPKNLPAFYFLVVAGIILMVLLFKWFV*
LPjun08P122000mDRAFT_1001762	LPjun08P122000mDRAFT_10017624	F066858	DADDKRTSANKILKISGERSEDMNAPSTVPGTAINPSFQPRESSMRFCLAYTAVDATELLNTANKLLLTASVGENPTNVNTGTIIIPPPRPIIEPNRPATNPSGMSQILSINVLG*
LPjun08P122000mDRAFT_1001823	LPjun08P122000mDRAFT_10018233	F027203	PAWYRRSKTSSDIPKMPEARIVGLSSVSVPIEVESVGFTLNIFSPFSYNS*
LPjun08P122000mDRAFT_1002727	LPjun08P122000mDRAFT_10027272	F020717	MTRKQSEIFDISIVACTRFLALLETTQCWDFLRPHHILHENKDIRCFRDLNEQKDISISVLKLMLSEN*
LPjun08P122000mDRAFT_1004106	LPjun08P122000mDRAFT_10041063	F081452	LSLALVAREDGVISDASRIFKDPTNFNIIISDKVA*
LPjun08P122000mDRAFT_1005143	LPjun08P122000mDRAFT_10051432	F038276	LFMNLDFLLRLTNYVNICKQIYLAVIKQFLTVLVIINHACVLLHGNHNYKDVFYDRLSNQYIRNACDFHNLHISCNNLGLVLEKFLLDVKIINNKV*
LPjun08P122000mDRAFT_1005261	LPjun08P122000mDRAFT_10052611	F006552	MNQYPTVWEATPNVEIPLLISPVLKIKSSRINPVANIPKPIPIAKKAIDNLNNVGLAVFLNPIYEIVPITRPTKSPTRLRIISKKNSNYADSVTVLNKV*
LPjun08P122000mDRAFT_1005474	LPjun08P122000mDRAFT_10054742	F099440	VQLIKLKNQVLNGVNLIDENGRKIMVCGLHNNGQEKYIENFSQWTCNLLASCIIYVD*
LPjun08P122000mDRAFT_1007215	LPjun08P122000mDRAFT_10072151	F031535	SIDKPSPKATTDNIIARGPKNTRAYVAIASANQLRGLTNEVNHFQVPFKTFEFYTVNIE*
LPjun08P122000mDRAFT_1008869	LPjun08P122000mDRAFT_10088691	F031535	AYVAIASANQLRGLTNEVNHFQVPFKTFEFYPANIE*
LPjun08P122000mDRAFT_1009154	LPjun08P122000mDRAFT_10091543	F037770	LAFNADTIVDLPEPGMPVKQTISFTKMKLLTNSSL*