3300023083: Plant litter microbial communities from Arlington Agricultural Research Station in Wisconsin, United States - UWRJ-L103-311B-2

Overview

Basic Information

• IMG/M Taxon OID: 3300023083
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0095510 | Gp0290904 | Ga0247734
• Sample Name: Plant litter microbial communities from Arlington Agricultural Research Station in Wisconsin, United States - UWRJ-L103-311B-2
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 488221391
• Sequencing Scaffolds: 11
• Novel Protein Genes: 11
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	6
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces violaceusniger group → Streptomyces malaysiensis	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Plant Litter → Unclassified → Unclassified → Plant Litter → Soil Microbial Communities From Arlington Agricultural Research Station In Wisconsin And Kellogg Biological Station In Michigan, Replicating The Bioenergy Cropping Systems Trials (Bcsts)

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → agricultural field → plant litter
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: USA: Wisconsin
• Coordinates
  • Lat. (^o): 43.3
  • Long. (^o): -89.38
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F008896	Metagenome / Metatranscriptome	326	Y
F028504	Metagenome / Metatranscriptome	191	Y
F040152	Metagenome / Metatranscriptome	162	N
F071385	Metagenome / Metatranscriptome	122	N
F075961	Metagenome / Metatranscriptome	118	Y
F078799	Metagenome / Metatranscriptome	116	Y
F080377	Metagenome	115	Y
F087408	Metagenome / Metatranscriptome	110	N
F093369	Metagenome / Metatranscriptome	106	N
F095434	Metagenome / Metatranscriptome	105	Y
F104598	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0247734_1093713	Not Available	835
Ga0247734_1112167	Not Available	743
Ga0247734_1120476	Not Available	710
Ga0247734_1135931	Not Available	658
Ga0247734_1152521	Not Available	613
Ga0247734_1158300	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae	599
Ga0247734_1159677	All Organisms → cellular organisms → Bacteria → Terrabacteria group	596
Ga0247734_1164255	Not Available	585
Ga0247734_1164480	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	585
Ga0247734_1172467	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium	568
Ga0247734_1175342	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Streptomycetales → Streptomycetaceae → Streptomyces → Streptomyces violaceusniger group → Streptomyces malaysiensis	562

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0247734_1093713	Ga0247734_10937132	F095434	VSDLPAPPRPYRGSAILHAVLALVILVVAAISGGDAVKALLVAAAYFVIATGWSWFRFRQREARAAPPERHPSSNGNGRP
Ga0247734_1112167	Ga0247734_11121671	F075961	YFNIMSTKYFQYKMKPIETIFWIGTAGVLYMAANNIVKNVAKDVVKDVFKKTVKHNDHNPCTWW
Ga0247734_1120476	Ga0247734_11204761	F087408	MVFLVQSLYFGNQTLAASSNANNDCPVFSIKYGCDLSAWFHLIIDGLIAAFLGVFFHHLAHKQGLKLKKIVEEHDAMKKRRREFAIQSLKNHFTTLLFSMSLINKLEPMYASDTKNRDNIKDQINRNYEIVSRVINDIKNVLLFLNDVLEPQTINDVDQLCRTINQGYVKDENKQLRVIDYTETKNKIKGLCKTFDELHPAVVPIQELFQHTSSNPSSNNHTLKKLNYQDIALYCR
Ga0247734_1135931	Ga0247734_11359312	F104598	VVTLRAGVREVRVLGSLVAYRLEQETGRPADPALVKRLTLSLYLSPRRTPSPTGDLPLGRLVRKWVFRSAIGKDTRKAALKALEAAEQLDVATLESRWRQR
Ga0247734_1152521	Ga0247734_11525211	F071385	LHRSAASATPGPLRRAAGSALVRLGLRLGYEGSVPPLVAQPVNSVGVGLQSDTHTVSAVSTAFATASDLERELAAPFGIRVARLRT
Ga0247734_1158300	Ga0247734_11583002	F080377	MRAKQSVLGLVYPGREVRRAPLVGMQFLHERPMRVADFVTPR
Ga0247734_1159677	Ga0247734_11596771	F078799	RAVGLARELRPLSCGRGTVPADLGIRFVAIHRGLYEQSGFFAADCPARAEAMLRARGWRLLTRDGAISTYAR
Ga0247734_1164255	Ga0247734_11642551	F040152	VAAVSALIGLALGSSATRSVATGLYLTGCFLIVLGVFSGVRGPLRPAGADEDAEPMGALLGVGIFSKGMRHATGDERDDARSTTWLFLALGLVMVVVGIAVDPRTSLF
Ga0247734_1164480	Ga0247734_11644802	F028504	NDHMELVLVIFLLVVGPLALLYGRDSRIDDVQRRRDYQG
Ga0247734_1172467	Ga0247734_11724671	F008896	MTTWIAVAALVLAGLAIVLFVLAIRRLLSRQANVTETMLRRYDDRLAGFAQVLTDALATLQSSRPLATLELEEDPEPMVRALELARERTSADGAIALVTGGKGTPIVATVGLSESETNHIARMGFPDYRGARAIEVGFAGDLAAPEGETPVRSGLVMP
Ga0247734_1175342	Ga0247734_11753421	F093369	MTRRLRSTPITGASPLLRAGPPAGPATVLTPAPGLLPLAHPQKPNGQCRLRPSPVSCRSRRPGSRRLHAGHRLASQRAPARLIPGSWVHPGFGVTCVVFDTSTAIRSRSPSRSPPDTSRVPFPHRSPRSRHRSRSMWRFEASPRRATPKGQQSLISCTTPLQQALPTS