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 3300026926

3300026926: Grasslands soil microbial communities from Chapel Hill, North Carolina, USA that are Nitrogen fertilized - NN335 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026926 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053063 | Gp0054418 | Ga0207922
Sample NameGrasslands soil microbial communities from Chapel Hill, North Carolina, USA that are Nitrogen fertilized - NN335 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size7641167
Sequencing Scaffolds12
Novel Protein Genes13
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. JGI PP 4-B121
Not Available3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Grasslands → Soil → Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized

Alternative Ecosystem Assignments
Environment Ontology (ENVO)grassland biome → land → grassland soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationChapel Hill, North Carolina, USA
CoordinatesLat. (o)35.913Long. (o)-79.056Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008734Metagenome / Metatranscriptome329Y
F011175Metagenome / Metatranscriptome294Y
F013951Metagenome / Metatranscriptome267Y
F019724Metagenome / Metatranscriptome228N
F021822Metagenome / Metatranscriptome217Y
F023430Metagenome210Y
F023469Metagenome / Metatranscriptome210N
F025602Metagenome / Metatranscriptome201Y
F026654Metagenome / Metatranscriptome197Y
F029303Metagenome / Metatranscriptome188Y
F049197Metagenome147N
F053430Metagenome / Metatranscriptome141Y
F060395Metagenome / Metatranscriptome133Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207922_100034All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. JGI PP 4-B121396Open in IMG/M
Ga0207922_100053Not Available1200Open in IMG/M
Ga0207922_100123All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium923Open in IMG/M
Ga0207922_100169All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales838Open in IMG/M
Ga0207922_100227Not Available763Open in IMG/M
Ga0207922_100315Not Available705Open in IMG/M
Ga0207922_100354All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium680Open in IMG/M
Ga0207922_100687All Organisms → cellular organisms → Bacteria582Open in IMG/M
Ga0207922_100707All Organisms → cellular organisms → Bacteria578Open in IMG/M
Ga0207922_100992All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium531Open in IMG/M
Ga0207922_101102All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium517Open in IMG/M
Ga0207922_101234All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium504Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207922_100034Ga0207922_1000343F026654VTLLLVMIFEISIAMAIGFVLGRIWQIRCDLEQARGGAFTAPAVARIPHP
Ga0207922_100053Ga0207922_1000531F049197MVREEARRTLLREYDKWAKDHPDDATNMGGMVFFTYLQKEKSDLLDFHAVGGDKWATVHGWLYYTGRVR
Ga0207922_100123Ga0207922_1001232F013951MSQKTLPNQGVVKRDWVATGRIDFATRLNGDAADANQPNEFKLLVEERRIVESIAGNENLEIQWRLATLKEAKAVVTQYHKYLSENSLIKTVVETDVSVAPGDFIPLEKQ
Ga0207922_100169Ga0207922_1001692F019724MNKHFIANKYLPIALALAAFTAAGTAPAFAQQSGWDTGISTTNARPFVHKQSIRHSGYSAYARITDHSAVAPSSVGRPDPFGENEWFNR
Ga0207922_100227Ga0207922_1002271F025602MGSQAPFVSECPRCAHERVLTGYAADELVDLLASGADIEAYCSSCDVHWPISTEERADLSRALSRRA
Ga0207922_100315Ga0207922_1003151F023430MKIITTWHCTEILDGDGCEVTPREWLILVGPGEDLIFEVKTARQPTNKPNQPATQH
Ga0207922_100354Ga0207922_1003541F029303MRRSSAERRLRWLLMGPLAACAAGSALAQISAIGPNRLVDVIQVDERENQADVSMLFNCSMRFVTNIPANEGREVHIQLAPLADCRVSPFGQIPAEIPPLSAGTNIVTGARVESLGPGQITLTLTFARKERFVIAQGIDPRGLRLRLL
Ga0207922_100421Ga0207922_1004212F011175MISRLPVLGAITVMTLNCGVAVAGPKLTSADYVMPGCREAASLITLSSVGESEEQVSLTGFCAGTVVGLSFMGRPYGICVPGGTTAQQVASIVVQYIDGQPARIQDLNLFAVEALRANWPCPPAAGARELLAAH
Ga0207922_100687Ga0207922_1006871F060395MIAHNPLHGSGQAGFPHPALALGNNAHTPQRIGMTDRRQRQPASDEAMHASPENVAVLAPPRQRAMPKPADSEPKHRQRRLVHGHSVVAKVSTHNRPQPLALIGDGFMHSSLKLGLHRVQLRLQSFADRLP
Ga0207922_100707Ga0207922_1007071F021822MKTCLIITIGAVFMVLTHLAGANQADDTTITISGQTAGVTPFISKLTLQVSNTTVLKSIQFA
Ga0207922_100992Ga0207922_1009921F008734HHRIDRVEERSVLRRPTSETTNSLSVSERFRSIPEVFSGGGRGVLETLWFESESQLVS
Ga0207922_101102Ga0207922_1011021F053430HRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSGDRGSVTFSIVTDDARIVFNTSYHFPAPPP
Ga0207922_101234Ga0207922_1012341F023469DSNVVRKNNMVQHLRHISSSVYKHVQSFAKTNPDDLLEYFQNQTLMTSDEAKGVIARLQEVATILKTNCDNGTLLFDSEPEIFLGMEPIPPKKCE
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