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 3300031491

3300031491: Metatranscriptome of soil surface biofilm microbial communities from soil inoculated with nitrogen-fixing consortium DG1, State College, Pennsylvania, United States - MICR_R3 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300031491 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0132857 | Gp0330686 | Ga0314824
Sample NameMetatranscriptome of soil surface biofilm microbial communities from soil inoculated with nitrogen-fixing consortium DG1, State College, Pennsylvania, United States - MICR_R3 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size13333482
Sequencing Scaffolds8
Novel Protein Genes9
Associated Families6

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia1
Not Available2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Surface Biofilm Microbial Communities From Soil Inoculated With Nitrogen-fixing Consortium Dg1, State College, Pennsylvania, United States
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Groundwater → Unclassified → Soil → Soil Surface Biofilm Microbial Communities From Soil Inoculated With Nitrogen-fixing Consortium Dg1, State College, Pennsylvania, United States

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → land → biofilm material
Earth Microbiome Project Ontology (EMPO)Unclassified

Location Information
LocationUSA: Pennsylvania
CoordinatesLat. (o)40.7997Long. (o)-77.8629Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000344Metagenome / Metatranscriptome1257Y
F001633Metagenome / Metatranscriptome660Y
F044880Metagenome / Metatranscriptome153Y
F053640Metagenome / Metatranscriptome141Y
F059886Metagenome / Metatranscriptome133Y
F080014Metagenome / Metatranscriptome115Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0314824_103121All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae824Open in IMG/M
Ga0314824_103206All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei810Open in IMG/M
Ga0314824_103270All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila802Open in IMG/M
Ga0314824_103413All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Escherichia783Open in IMG/M
Ga0314824_103661All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae752Open in IMG/M
Ga0314824_104096Not Available706Open in IMG/M
Ga0314824_105856All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila584Open in IMG/M
Ga0314824_107376Not Available523Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0314824_103121Ga0314824_1031211F001633GQLVGVGVRHTLFPGGTRLDTLAFAGVVLPDATLCGMQMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERRAGRGADTPATFIVARRHPYHGDGTGFWPIVGPALRV
Ga0314824_103206Ga0314824_1032061F001633FVTRSFPAAHAWTRSLFAGGDLPDATLRGMRMFRSHGGTVLTVAGRELSSEASAPGSDAPCRERRAGRGVDTPATFIFRVGTFYRGVGISLWLIVGPALRV
Ga0314824_103270Ga0314824_1032701F000344MRPKHLHAAESGVGKHTARESERVQACAAGKERVTN
Ga0314824_103413Ga0314824_1034131F053640TVAAQRSEMVAESTTGIIPGDRGKAGGNWCRPPLMPAKAVMRHISPVPLAGVVSGQSTHELGTEPQGAIRNRVEWSQATQGVSTCASTQLPQRLRLLLRRPERHRVSRRDDPAKRPHSPHEWGAQGTYGGGERTDLGKVREPPHRGGVKHTSPSCKRQRSLRGKRSDP
Ga0314824_103661Ga0314824_1036611F059886VIYASRLAFAVLRGGRHQLSPTFPRSPGIIPVVFSV
Ga0314824_103661Ga0314824_1036612F001633GTRLDALAFAGGVLPDATLRGMRMFRSHGGTVLIVSDRDLSSEAFAPGSDTPCRERRAGRGADTPATFFVARRHLYHGDGTGFWPVVGPALRV
Ga0314824_104096Ga0314824_1040961F080014FDVVGSPAELQAEVPGRPRKTTGTNASAKNELALAA
Ga0314824_105856Ga0314824_1058561F059886VIYASHLALAIGRGGRHQLSPAFPRSPGIIPAVLSATFFRPLRFD
Ga0314824_107376Ga0314824_1073761F044880MTASVKILFVSMMVAVALLTTTGTLTTAPSAEAQTPYCQVNPTACTPQFCAIYPQLCNLPVVNPVYPVYPVYPINQCGYVNCVAPINCAPVPYSPIYGQIYRPANCGVYPYGYGYNNLCTFNAPCNAPYVGGAPARLNLAVSPAIATCGSTPVTVQAHITDAYGVAVAN
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