NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300025397

3300025397: Methane-oxidizing microbial communities from mesocosms in the Hudson Canyon - EN10B Hudson Canyon (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025397 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0118071 | Gp0127828 | Ga0209290
Sample NameMethane-oxidizing microbial communities from mesocosms in the Hudson Canyon - EN10B Hudson Canyon (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size174893486
Sequencing Scaffolds15
Novel Protein Genes20
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales1
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Candidatus Pseudothioglobus → Candidatus Pseudothioglobus singularis1
Not Available3
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa1
All Organisms → cellular organisms → Archaea2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMethane-Oxidizing Microbial Communities From Mesocosms In The Gulf Of Mexico And Hudson Canyon, Usa
TypeEnvironmental
TaxonomyEnvironmental → 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
LocationHudson Canyon
CoordinatesLat. (o)39.54Long. (o)-72.4Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012354Metagenome281Y
F016531Metagenome / Metatranscriptome246Y
F027203Metagenome195Y
F055413Metagenome138Y
F058538Metagenome / Metatranscriptome135N
F066454Metagenome / Metatranscriptome126N
F084730Metagenome / Metatranscriptome112Y
F095618Metagenome / Metatranscriptome105Y
F099440Metagenome / Metatranscriptome103N
F101886Metagenome / Metatranscriptome102N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209290_1000041All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Oceanospirillales122933Open in IMG/M
Ga0209290_1001767All Organisms → cellular organisms → Bacteria9418Open in IMG/M
Ga0209290_1002582All Organisms → cellular organisms → Bacteria6679Open in IMG/M
Ga0209290_1014058All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Gammaproteobacteria incertae sedis → Candidatus Pseudothioglobus → Candidatus Pseudothioglobus singularis1590Open in IMG/M
Ga0209290_1017000Not Available1376Open in IMG/M
Ga0209290_1023117All Organisms → cellular organisms → Bacteria → Proteobacteria1097Open in IMG/M
Ga0209290_1024542All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae → unclassified Methylococcaceae → Methylococcaceae bacterium1051Open in IMG/M
Ga0209290_1035462Not Available809Open in IMG/M
Ga0209290_1041981All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → unclassified Flavobacteriales → Flavobacteriales bacterium721Open in IMG/M
Ga0209290_1050986All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Pseudomonadaceae → Pseudomonas → Pseudomonas aeruginosa group → Pseudomonas aeruginosa631Open in IMG/M
Ga0209290_1057306Not Available582Open in IMG/M
Ga0209290_1061080All Organisms → cellular organisms → Archaea556Open in IMG/M
Ga0209290_1064064All Organisms → cellular organisms → Bacteria538Open in IMG/M
Ga0209290_1064242All Organisms → cellular organisms → Archaea537Open in IMG/M
Ga0209290_1064985All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium533Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209290_1000041Ga0209290_10000417F055413MLNITDLAESKELDSKAMAGVRGGFNPFAILDGSTSLTSKVADVNQLFAFDLAQNNVGAVTNNQAINGGNGLTYAPVDQTLTQASSMSVYDIGNVSVS
Ga0209290_1001767Ga0209290_10017675F055413MLKVTDLAINKELDSKTMTSVRGGFDPFAILIDGSTSLNNKVADVDQVFAFGFEQNNAAAVTNNQAINGGNGLAYAPVTQNLDQYSDMNVSGIGNVSVS
Ga0209290_1001767Ga0209290_10017678F055413MLKVTDLTVNKELDSKTMTSVRGGFDPFAILIDGSTSLNNKVADVDQAFAFGFAQNNAAAVTNNQAINGGNGLAYAPVTQNLDQYSDMNVSGIGNVSVS
Ga0209290_1002582Ga0209290_100258210F055413MLKVTDLAINKELDSKTMTSVRGGFDPFAILIDGSTSLTNKVADVDQVFAFGFEQNNAAAVTNNQAINGGNGLAYAPVTQNLDQYSDMNV
Ga0209290_1002582Ga0209290_10025824F055413MLKVTDLTVNKELDSKAMTSVRGGFDPFAILIDGSTSLNNKVADVDQVFAFGFAQNNAAAVTNNQAINGGNGIAYAPVTQNLDQYSDMNVSGIGNVSVS
Ga0209290_1002582Ga0209290_10025825F055413MLNIKDLAENKELDSKTMAGVLGGFDPFAILIDGSTSSSNKVADVDQVFQLALSQTNAGEVTNNQAINGGNGIVYAPVDQNLSQSNWMDVAGIGNVSVS
Ga0209290_1002582Ga0209290_10025829F055413MLKITDLAENKELDRKTMSGVRGGFDPFAILIDGSTSLTNKVADVDQAFAFGLAQNNAGAVTNNQAINGGNGITYAPVNQTLTQDSTMSVYDIGNVYVS
Ga0209290_1014058Ga0209290_10140585F084730VEPVFTVGYFSYLNCITSGVYLYDLGNRIYGYGTPKRALIFFNSFYK
Ga0209290_1017000Ga0209290_10170002F055413MLKVTDLAVNKALDSKTMASVRGGFDPFSILVDGSTSLNNKVADVDQIFQLALSQTNAGEVTNNQAINGGNGIVYAPVDQNLSQSNWMDVSGLGNVSVS
Ga0209290_1023117Ga0209290_10231172F016531MLSGISGVSRLSQSAISSGFDGSVVSNVNAPDRLLVLGFVGSRVASELIDRGESTVIIKDEDRSLANDKINDRTPGDVVN
Ga0209290_1024542Ga0209290_10245421F058538MYSQYETTVMNRRRLHDLLTWANRKYHLEYEVVQENRDVFYVIFHDLNIKQTVAIQKQIKGSSQPEHFDMH
Ga0209290_1035462Ga0209290_10354621F055413MLKVTDLTVNKELDSKTMTSVRGGFDPFAILIDGSTSLNNKVADVDQVFAFGLAQNNAGAVTNNQAINGGNGLAYAPVNQHLDQYSDMTVSGIGNVSVS
Ga0209290_1035462Ga0209290_10354622F055413MLNITDLAESKELDSKAMASVRGGFDPFAILDGSTSLNSKVADVNQLFAFDLAQNNAGAVTNNQAINGGNGIAYAPVTQTLTQGSSMS
Ga0209290_1041981Ga0209290_10419812F066454MSIRLDILILINSGVTDRSEIMERLGINIRSVSNCVRFLVKEGWVDHSRESISAVGSVGYRITQVGIDKIKASTVDEYRQSPKRKIPAYEVMRSHLGVGDNVSRSELINL
Ga0209290_1050986Ga0209290_10509861F101886MLKKSAIIGFCLFNVVLFILIGIEVAAVTPERAMSEGVTQRIYASISTLDYIMAALWGAILYTILTAKTEHFLRASWLYLGFYLCDIHFSHYMSMEMNDPYFTPGALFLVVIQAWFLYWAKTRIDAANVAVSN
Ga0209290_1057306Ga0209290_10573061F055413MLNIADLTTSKELDTKTMTSVRGGFDPFAIIDGSTSLNNKVADVDQIFMFDLAQNNAGQVTNNQAIQGGNGITYAPVTQHLDQYSDMTVRGIGRVSVS
Ga0209290_1061080Ga0209290_10610802F012354LKIKSSRINPVANIPKPIPIAKKAIDNLNNVGLAVFLNPIYEIVPITRPTKSPTRFRIISRKNSNYADSVTVLNKV
Ga0209290_1064064Ga0209290_10640641F095618LNTVSETFFNTLYMFRKPGILLRTFSHRATNFRPNILVTNTPVISMINNTKIIPDPGIVVSKLNIASGRYFCGTRLLISSKKNLITMTLKTRGIQKRRPEIK
Ga0209290_1064242Ga0209290_10642421F027203VTTAPAPARYNRLKTSREIPKMPEASMVGLSKVSVPIEVEMLGFTLNTMITFSYNS
Ga0209290_1064985Ga0209290_10649851F099440VQLIKLKNQVLNGVNLIDENGKKIMVCGLHNTEQEKYIENFSQWT
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