3300025851: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9D Gulf of Mexico (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300025851
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118071 | Gp0127831 | Ga0209395
• Sample Name: Methane-oxidizing microbial communities from mesocosms in the Gulf of Mexico - GOM9D Gulf of Mexico (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 884533716
• Sequencing Scaffolds: 6
• Novel Protein Genes: 8
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	1
Not Available	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	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?
F013096	Metagenome / Metatranscriptome	274	Y
F018382	Metagenome	235	Y
F066858	Metagenome / Metatranscriptome	126	N
F091608	Metagenome	107	N
F101886	Metagenome / Metatranscriptome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0209395_1003506	All Organisms → cellular organisms → Bacteria → Proteobacteria	19340
Ga0209395_1053712	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	2602
Ga0209395_1188670	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa	925
Ga0209395_1202949	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales	868
Ga0209395_1314534	Not Available	587
Ga0209395_1335607	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Thaumarchaeota incertae sedis → Marine Group I → Marine Group I thaumarchaeote	552

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0209395_1003506	Ga0209395_10035069	F101886	MLKKILIIGFCLFNVAFFIQIGIEVAAVTPEQAMLEGMTQRIYASISTLDYIMAALWGAILYSILTAKKEHFLRASYLYLGFYLCDIHFSHYMSIEMNDPYFTPGALALVVIQAGFLFWAKTRIHAVSSSLSN
Ga0209395_1053712	Ga0209395_10537122	F101886	MLKKIVIIGFCLFNVALFIQIGIEVAAVTPEQAMLEGMTQRIYASISTLDYIMAALWGAILYTILTAKKEHFLRASYLYLGFYLCDIHFSHYMSIEMNDPYFTP
Ga0209395_1150943	Ga0209395_11509431	F066858	AKKLAPAEKTSKIRDVSNGFLSIFLFRKMYDADAKRTSANKILKISGERSEDMNAPSTVPGTAINPSFQPSESSMRFCLAYTAVDATELLNTANKLLLTASVGENPTNVNTGTIIIPPPRPIIEPNKPATNPSGMSQILSINVLG
Ga0209395_1188670	Ga0209395_11886702	F101886	EVAAVTPERAMLEGVTQRIYASISTLDYIMAALWGAILYTTLTAKSEHFLRASWLYLGFYLCDIHFSHYMSMEMNDPYFTPGALFLVVIQAWFLYWAKTRIDAANVAVSN
Ga0209395_1202949	Ga0209395_12029491	F091608	MKLSRKKRTPPLDLGKLQEVGSENRSSGKLTALAPYFLLLEEMKDKRSLNTPFISLEALARITTARIEGYEEDDVLGSYPDAWGRETISVPLPLLIALKDAWDSYRSADVGISLGESFGVEGKGQGKSKMKGRLEQRLKEHRIMNAVELAYLASGNTAEEVDAISL
Ga0209395_1237392	Ga0209395_12373922	F101886	MLKKSAIIGFCLFNVVLFILIGIEVAAVTPERAMLEGVTQRIYASISTLDYIMAALWGAILYTILTAKTEHFLRASWLYLGFYLCDIHFSHYMSMEM
Ga0209395_1314534	Ga0209395_13145342	F018382	GNHQINIDAAKVNLKPIKRKGGKYSIAGLAITKPKPKKIGTNEAKNVSLRLKTYSH
Ga0209395_1335607	Ga0209395_13356072	F013096	MLTDVVGDSAVGLSTLSQTNTVAVYDPESLGVHDNAGLID