3300025211: Marine microbial communities from the Deep Pacific Ocean - MP2053 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025211
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053074 | Gp0054582 | Ga0208329
• Sample Name: Marine microbial communities from the Deep Pacific Ocean - MP2053 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 72936755
• Sequencing Scaffolds: 8
• Novel Protein Genes: 8
• Associated Families: 8

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium JCVI-SC AAA005	1
All Organisms → cellular organisms → Bacteria → Calditrichaeota → Calditrichia → Calditrichales → Calditrichaceae → Caldithrix	1
All Organisms → cellular organisms → Bacteria	2
Not Available	3
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Deep Ocean Microbial Communities From The Global Malaspina Expedition
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Oceanic → Unclassified → Deep Ocean → Deep Ocean Microbial Communities From The Global Malaspina Expedition

Alternative Ecosystem Assignments

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

Location Information

• Location: West of Cabo San Lucas, Mexico, North Pacific Ocean
• Coordinates
  • Lat. (^o): 14.53
  • Long. (^o): -118.77
  • Alt. (m): N/A
  • Depth (m): 4004.97

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002753	Metagenome / Metatranscriptome	532	Y
F016055	Metagenome / Metatranscriptome	250	Y
F052659	Metagenome / Metatranscriptome	142	N
F064788	Metagenome	128	Y
F065861	Metagenome / Metatranscriptome	127	Y
F082562	Metagenome	113	N
F089571	Metagenome	109	N
F095626	Metagenome / Metatranscriptome	105	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208329_1000312	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium JCVI-SC AAA005	10578
Ga0208329_1002493	All Organisms → cellular organisms → Bacteria → Calditrichaeota → Calditrichia → Calditrichales → Calditrichaceae → Caldithrix	3337
Ga0208329_1002715	All Organisms → cellular organisms → Bacteria	3137
Ga0208329_1006799	All Organisms → cellular organisms → Bacteria	1556
Ga0208329_1011325	Not Available	1052
Ga0208329_1011701	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales → Myoviridae	1028
Ga0208329_1028400	Not Available	567
Ga0208329_1029284	Not Available	555

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208329_1000312	Ga0208329_10003123	F052659	MLLSGNPGTETRSAVFIDGMLISSLLELNYQTIDKLQQGGVPDKVSWMKPSLRGRLRLEKLQAQERNLTIEDLNQSIRSKWVILWAEV
Ga0208329_1002493	Ga0208329_10024933	F089571	MFIIYLGKENERKMLKNIIVIVFSVLFLVVPASSQHVQQKYAITDKDEKVILNDNGTWEYAEEDKQNYYYKKVPPKTYNYEFKSQTWEERIEQAAHEYWRIRAHAELEQLGIPVTRYDPTTSDVPLYLKLEGGRIRTDFDSFTPLARGEVIDISGLWDPDKGDNPTLKIQGKLFLQITMKLDDQKKLFSQYNQRNYIPIPDDFQRILEFRDSLDVISLGMHDYNRDNTHIWPGIPHSFLYAPPGSYYDPNNPPIIHGDGFPYIQRGHLTLARREIPMTNSVYDNLLKRIDNLEGHGSIKIRYDMGKGIIETVTFEEVWLKINPYNGDPTHILKKVSLNKLE
Ga0208329_1002715	Ga0208329_10027152	F082562	VIKYIIGILITLSNILFAQVSEDSNNCFLNIELSLIHPILGGFGGTIGIEKNKFSYGLNSFGTKLNHMTKHYLLVNAEELAVYNWGVELYSDYYLKQNHAGIFLGLISSLNGFRFNDTPIPQTILVVYSVPRIGYRAYLPKKLKSFYFQFSLTTHFKVWNNKKKILYQEIDTKSIFLISQLTLGMKI
Ga0208329_1006799	Ga0208329_10067992	F065861	MGIIIVIRGKISLIYRENSIIFDLPFRVVLFMIRGEIIGRNNNSAAIPTLEEGLLHKNKLVLNCLT
Ga0208329_1011325	Ga0208329_10113251	F095626	LGRTTNAQPILLSIIYDLNMDLQRRLKRLRCTAFPYFLDTISPISILKLLLYLNDKSLKYRDFEAFIILENPDEESEYFN
Ga0208329_1011701	Ga0208329_10117011	F016055	MEEEFHIEKHGSLRKSKRLVNKRERLQIKKYLKGNSLEDFVDDNDIDDDIEYEEI
Ga0208329_1028400	Ga0208329_10284002	F064788	MEYTEKQVNFLKAAIAKHGEGSILTKSDLAEVAEDIGAKFPFWMTDARRSGSFTKVGKDMYRLPAINGGEGASVADIVVDEVSEVVIESKNKESETFDMSTYFNPAELIPAKDPL
Ga0208329_1029284	Ga0208329_10292841	F002753	LTDSDRLTSAAFEIESVKLTDSVRFTAAVFDIESVKLTDSVRFTAAVFDIESVKLTDSVRFTAAVFDIESVNDTDSVRFTGDVFDIESVNDTDSVRFTAAVFDIESVKLTDSVRFTVAVFDIESVKLTDSDRFRPAAFDIESVNDTDSDRFTGDVFDIESVNDTDSDRFRPAAFDIESVNDTDS