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 3300013041

3300013041: Corn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-3 (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300013041 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0090294 | Gp0175827 | Ga0154017
Sample NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - Diel MetaT C5pm-3 (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size3740944
Sequencing Scaffolds9
Novel Protein Genes9
Associated Families8

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium 5G121
Not Available7
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameCorn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Unclassified → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → rhizosphere → soil
Earth Microbiome Project Ontology (EMPO)Host-associated → Plant → Plant rhizosphere

Location Information
LocationUSA: Michigan
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001296Metagenome / Metatranscriptome728Y
F028810Metagenome / Metatranscriptome190Y
F030315Metagenome / Metatranscriptome185Y
F035772Metagenome / Metatranscriptome171Y
F035850Metagenome / Metatranscriptome171Y
F061214Metagenome / Metatranscriptome132Y
F069734Metagenome / Metatranscriptome123N
F073595Metagenome / Metatranscriptome120Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0154017_10581All Organisms → cellular organisms → Bacteria → environmental samples → uncultured bacterium 5G12502Open in IMG/M
Ga0154017_12829Not Available576Open in IMG/M
Ga0154017_13538Not Available578Open in IMG/M
Ga0154017_13676Not Available585Open in IMG/M
Ga0154017_14311Not Available936Open in IMG/M
Ga0154017_15990Not Available572Open in IMG/M
Ga0154017_17441All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → sordariomyceta → Sordariomycetes → Sordariomycetidae → Diaporthales → Gnomoniaceae → Ophiognomonia → Ophiognomonia clavigignenti-juglandacearum663Open in IMG/M
Ga0154017_18710Not Available502Open in IMG/M
Ga0154017_19026Not Available577Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0154017_10581Ga0154017_105811F035850MSVGVSRQVVEPMPPRKASREWERARTKTDTGGQVEHTEVIEITLVKELGKIVP*
Ga0154017_12829Ga0154017_128291F028810FQVTYPTIQLPSGMHGRSCAIRVIVRLGLSLPATEFRPPRLNAPDRACRITPVRNPLLGTAFRSLEMTARSRATFPRSVLLAYPFGSTL*
Ga0154017_13538Ga0154017_135381F001296MEVAERRQPLRASERPLRATGSGQEAASGEPGRIDPAAGENSHRGAERRIVRRFCSQCSMPCMPVESQAGNQVT
Ga0154017_13676Ga0154017_136761F035772MLLARCKTADQLYRLLFRFPLPFGIFESLRIKAFHRTRNRSARLPNPPDHLSLPAASSISRFGYGSSFLVRYVSGGLLF
Ga0154017_14311Ga0154017_143111F069734MSPWLNRTLHPRLAPRMNLRVHTGHGNLGVPSGAFSVPIRRSTIGKPTMNSPIGTFTYAFHHASVTVPTS
Ga0154017_15990Ga0154017_159901F035772MLLARCKTADQLHRLLFQLPLPFGTLTSLQIKAFRQIRNRSARLPNPPDSLSLPAAGSISRVGYGSSFLVRYVSGGLLF
Ga0154017_17441Ga0154017_174411F061214VLSVISARCRLVNGFAKLTNTGLALKETPINGGFTDEGPKVAEYPGR*
Ga0154017_18710Ga0154017_187101F073595VVRARSVKTFRNVGDVKNTTAGLRTKSNLREKRRDPWHRANVPT
Ga0154017_19026Ga0154017_190261F030315VIKYNEFIIITKYENILLIRNDVEALKYKYQIGLDTLLVYTIKYEY*
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