3300008250: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9B Gulf of Mexico

Overview

Basic Information

• IMG/M Taxon OID: 3300008250
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118071 | Gp0127829 | Ga0105354
• Sample Name: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9B Gulf of Mexico
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 621505971
• Sequencing Scaffolds: 17
• Novel Protein Genes: 20
• Associated Families: 17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	11
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae	1
All Organisms → cellular organisms → Archaea	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Methane-Oxidizing Microbial Communities From Mesocosms In The Gulf Of Mexico And Hudson Canyon, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Unclassified → Unclassified → Methane Seep Mesocosm → Methane-Oxidizing Microbial Communities From Mesocosms In The Gulf Of Mexico And Hudson Canyon, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): marine cold seep biome → mesocosm → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Gulf of Mexico
• Coordinates
  • Lat. (^o): 27.37
  • Long. (^o): -90.57
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002753	Metagenome / Metatranscriptome	532	Y
F012354	Metagenome	281	Y
F013096	Metagenome / Metatranscriptome	274	Y
F014192	Metagenome	265	Y
F021319	Metagenome	219	N
F035075	Metagenome / Metatranscriptome	173	Y
F059128	Metagenome / Metatranscriptome	134	Y
F060045	Metagenome	133	Y
F061265	Metagenome / Metatranscriptome	132	Y
F066858	Metagenome / Metatranscriptome	126	N
F076187	Metagenome	118	Y
F078840	Metagenome	116	N
F090504	Metagenome	108	N
F101338	Metagenome	102	N
F101886	Metagenome / Metatranscriptome	102	N
F103878	Metagenome / Metatranscriptome	101	Y
F105357	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105354_1126955	Not Available	1004
Ga0105354_1137994	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae	951
Ga0105354_1142788	Not Available	930
Ga0105354_1154727	All Organisms → cellular organisms → Archaea	882
Ga0105354_1161823	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	857
Ga0105354_1168766	Not Available	834
Ga0105354_1184577	Not Available	786
Ga0105354_1188803	Not Available	774
Ga0105354_1209293	Not Available	724
Ga0105354_1221185	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota	699
Ga0105354_1223078	Not Available	695
Ga0105354_1285582	Not Available	594
Ga0105354_1312146	Not Available	561
Ga0105354_1339882	All Organisms → cellular organisms → Archaea	532
Ga0105354_1370733	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	504
Ga0105354_1373748	Not Available	501
Ga0105354_1374325	Not Available	501

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105354_1126955	Ga0105354_11269551	F101338	SLSRAVLGLVARAPAVYMPFFKRILCEGIISAVFVRLEIQVFVPYFTLLTLLTGIQ*
Ga0105354_1137994	Ga0105354_11379942	F035075	LICVDDNAISVKYVNKKNQRSIWVIQKNIGDEEKWALKKEELEKKIRKHKSKPLYE*
Ga0105354_1140886	Ga0105354_11408861	F059128	IVLVINAAKVEYARQLNHLNHLEVSFIFSELTTPKNLDRYVANEVTKITITMLLVI*
Ga0105354_1142788	Ga0105354_11427884	F012354	NIPKPIPIEKNAIDNLNNVGLPVFLKPMYEIILITTPTNNPIRLRIISKKNSNYADSVTVLNKVSEQIF*
Ga0105354_1154727	Ga0105354_11547272	F066858	IPAKKLAPAEKISRMRDASNGFLSIFLFRKIYDADAKRTTANKILKISGDRSEDMNAPSTVPGTAINPSFQPRESSMRFCLAYTAVDATELLNTANKLLLTASVGENPTNVNTGTIIIPPPRPIIEPNKPATNPSGMSQILSINVLG*
Ga0105354_1161823	Ga0105354_11618232	F101886	MLKKSAIIGFCLFNVVLFILIGIEVAAVTPERAMSEGVTQRIYASISTLDYIMAALWGAILYTILAAKTEHFLRVSWLYLGFYLCDIHFSHYMSMEMNDPYFTPGALFLVVIQAWFLYWAKNKINAANAAVSN*
Ga0105354_1168766	Ga0105354_11687662	F105357	MDIDKVAVSTRLKRDEDRYLVLIDVDPTASTNDEFLKVFPKGYHGLFEFDNELDAKQYLIEVNKKLGLGKL*
Ga0105354_1184577	Ga0105354_11845771	F078840	TYDLHSISNSEHFTVKVSPNPLIVKLDNIPTLIFLLDLVTSIVCESEMYSDNFLSKPLFGEVLSSTINIV*
Ga0105354_1188803	Ga0105354_11888031	F076187	SIPDSISPALTVSTMICPDGLVSTATTHFFELINVEKFFENFNTSRNVKSFPKIPLIPEIDIFNASNLDTLFINSEWN*
Ga0105354_1208088	Ga0105354_12080881	F059128	TTILAIKAAKTEYAIQLNHLKILDVSFILSELTTPKNLDKYVANEVTKITKIILLDISLI
Ga0105354_1209293	Ga0105354_12092931	F002753	SEISSVKLTDSDRFTPAAFETESVKLTDSDKFTSAAFEIESVKLTDSDRFTPAVFEIESTSNTVSDRFTPADFAIESVNDTDSVRFTPADFAIESVNDTDSVRFTPAAFDIESVNDTDSDRFTPAAFAIESVKLTDSDRFTLDAFETESVKLNVSEIETLCALVTVHAGSYTAVVKLTDSVRFTLADFDIESVNDTDSDRFTPAVSEIESVKLTDSERFTPAASEIESVKLTDSDRFTLD
Ga0105354_1221185	Ga0105354_12211853	F012354	PKPIPIAKKAIVSRNSVGLPVFLNPIYEIIPIIIPTEKPIRFRIISNKNSNVANLLAVLNKV*
Ga0105354_1223078	Ga0105354_12230782	F090504	MEIFIILIIIFGLILPYWAGVMAKRKGKSFVLWCILQLLFFFPIVLIAFHSPIEKKK*
Ga0105354_1285582	Ga0105354_12855822	F060045	MISNYSKPIRVQESVNIWKNLVFVNAIWVVPLVVLAAKKTTMMHTNVSAVKCVLSR*
Ga0105354_1312146	Ga0105354_13121462	F061265	MSLDWDLIWKILQVVALLIIAREIDKRIRKRKNK*
Ga0105354_1339882	Ga0105354_13398822	F013096	VVGDSAVGLSTLSHTNTVAVYEPEALGVHDNAGLIDCPAVKEPVIHANDTV
Ga0105354_1349760	Ga0105354_13497601	F103878	FVRTKSIPINAVTDADDKKVLFSSPYINCIKNGISMNAPNIIRSTPIAKKTVLLLFIFENGGYLKIIEIQHNKTLLYLYFTYEI*
Ga0105354_1370733	Ga0105354_13707331	F014192	KNNKVENVKKFIIVKLYGAKPSIVTAPSKKGVKNITKNLLLSKAIKLKSLLLNN*
Ga0105354_1373748	Ga0105354_13737481	F002753	EIESAKLTVSVRFTPAVFEIESVNNTVSVRFTPAVFEIESAKLTVSVRFTPAVFEIESVNNTVSDRFTPAVFQIESVNNTVSDRFTPATFDIESVKISDSDRFTPADFAIESVKLTDSERFTPATFDIESVNDTDSDRFTPADFDVSSVNDTDSDRFTPAALDVSS
Ga0105354_1374325	Ga0105354_13743251	F021319	VGAARFIEIPRATTISGTKISPPPTPKRLDIIPAKKLAPAEKTSKMRDVSNGFLSIFLFRKMYDADAKRTSANKILKISGERSEDMNAPSTVPGTAINPSFQPSESSMRFCLAYTAVDATELLNTANKLLLTASVGENPTNV