3300005504: Poplar biomass bioreactor microbial communities from Brookhaven National Lab, NY - total biomass decay community

Overview

Basic Information

• IMG/M Taxon OID: 3300005504
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0056628 | Gp0051177 | Ga0074230
• Sample Name: Poplar biomass bioreactor microbial communities from Brookhaven National Lab, NY - total biomass decay community
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 335740875
• Sequencing Scaffolds: 17
• Novel Protein Genes: 17
• Associated Families: 15

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	8
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Acidobacteria	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Poplar Biomass Bioreactor Microbial Communities From Brookhaven National Lab, Ny
• Type: Engineered
• Taxonomy: Engineered → Solid Waste → Wood → Composting → Bioreactor → Poplar Biomass Bioreactor → Poplar Biomass Bioreactor Microbial Communities From Brookhaven National Lab, Ny

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): na → na → na

Location Information

• Location: Upton, NY
• Coordinates
  • Lat. (^o): 40.869444
  • Long. (^o): -72.886667
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000911	Metagenome / Metatranscriptome	840	Y
F002247	Metagenome / Metatranscriptome	578	Y
F006161	Metagenome / Metatranscriptome	380	Y
F011112	Metagenome / Metatranscriptome	295	Y
F020087	Metagenome / Metatranscriptome	226	N
F024403	Metagenome / Metatranscriptome	206	Y
F029666	Metagenome / Metatranscriptome	187	Y
F030027	Metagenome	186	Y
F040825	Metagenome / Metatranscriptome	161	Y
F045708	Metagenome / Metatranscriptome	152	Y
F046796	Metagenome / Metatranscriptome	150	Y
F056624	Metagenome	137	Y
F067044	Metagenome / Metatranscriptome	126	N
F085858	Metagenome / Metatranscriptome	111	Y
F086024	Metagenome / Metatranscriptome	111	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0074230_1000115	Not Available	538
Ga0074230_1021058	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	748
Ga0074230_1099428	Not Available	542
Ga0074230_1103160	Not Available	989
Ga0074230_1152902	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	546
Ga0074230_1193161	All Organisms → cellular organisms → Bacteria	507
Ga0074230_1299902	All Organisms → cellular organisms → Bacteria → Acidobacteria	801
Ga0074230_1414481	Not Available	768
Ga0074230_1431775	Not Available	525
Ga0074230_1471900	All Organisms → cellular organisms → Bacteria	518
Ga0074230_1511868	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	690
Ga0074230_1530921	All Organisms → cellular organisms → Bacteria	839
Ga0074230_1536879	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	506
Ga0074230_1695095	Not Available	1656
Ga0074230_1912979	Not Available	509
Ga0074230_1937581	Not Available	1468
Ga0074230_1949251	All Organisms → cellular organisms → Bacteria → Acidobacteria	512

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0074230_1000115	Ga0074230_10001151	F040825	ANDAVLPFPLRQALDRVDAQLDVLIYDAFPLPKAS*
Ga0074230_1021058	Ga0074230_10210581	F020087	IMPMTTVQNMYGRPFEILEGDDLRALCEQAIEAGGGALATNTAMMCRPFCASGAGNPIISAHRSPIPGFEWDEVWFGFEDFTSEEEFLRQHGYYGSGRCYIVVKVDGRKKLVALKDFIAHCPDIILGPALRALGHGMFRYSKFFINKNRLPHHTHDVKEEAYWIEPTMIVDYDLFDERCFMTLGLHQDFGPEQLRQYLTAGAWDDPAKALKQHARWFYMRPGNAMIMKTQNLHGPAALLPHYEPQFLD
Ga0074230_1099428	Ga0074230_10994281	F056624	MSENTDQLHELERHCELCREDVRERIALVDRRLLALEIVVRGEDGRNGIKSQLNSLCLRFDAFEKKAIRWIAIGTALPGIVVAVLGILKFIGKL*
Ga0074230_1103160	Ga0074230_11031601	F030027	QLDRLPLPGDPPIQPGVEHDNIRGAGYFDSPPEAEPPVIQ*
Ga0074230_1152902	Ga0074230_11529022	F024403	MRILLRLDVFVYAAELALNALDLMPCGFRLLGIQLRSSGARQPPLRSIHNRHHYLQIA*
Ga0074230_1193161	Ga0074230_11931612	F000911	MSISMDRFVSKGGFASYDPHQNQPQRVAIFQLQCRCCGYEPEDPVVAPRVCPKCHSTSWERFARPGSILDNAQRY*
Ga0074230_1299902	Ga0074230_12999021	F029666	RSLINLGVSAYSFLDPGSSFPLPRSFDFAAYIETEREFWALFPETEGKRVNFCQTGLTAQIFIESRDDGSDLRPEETYFLMPCPDSTLRPIRMAPCRRLTLDEFRMSHLTALKLIDKLHDTARVMDEVHLRILGPEILDESEL*
Ga0074230_1414481	Ga0074230_14144811	F046796	VYLRQAEAEEGKIAKLESMYYLLEDPTTQELMKDMVVGLAVQNGVAVPNGNKGDGAEKHYVGMQRVREYVKQIAAGQTFTAHEVYTLSIAHRGHGDPKYQHPEFERQRIASISLALTSMTKGGDLEIVKQGRGRECTVYRRAEGK*
Ga0074230_1431775	Ga0074230_14317752	F046796	HVEQMYYLLEDPATQELMKDVVVGMAVQNGVAVPDGNKGESGEKHYVGMQRVREFVARVPAGQTFTVHDIFNLTIEHMPSTPKIRHPEFEKQRKASISLALTSMVKGGDLEVAKQGRGRECTVYRKPEAS*
Ga0074230_1471900	Ga0074230_14719002	F067044	MKNSHLRMATLRFTKTVRDTMIDITVTVDRMIAEAGAKSEGAARCHLLSVIGGDQEVAAIAAAIADNG
Ga0074230_1511868	Ga0074230_15118681	F045708	MTELTKPIHRRTKDPFMHYRRRIVVSLEPGDVLSVRLEGTRTRYTAEIADVFRQLCTWHATAERRRKAEERKARRAK*
Ga0074230_1530921	Ga0074230_15309212	F006161	MALDSSFVAGVLAGMEGTLVELIDRVDIAELKASLDVLHSRVTALRVSIEPPAREPETEEESEPVAAETA*
Ga0074230_1536879	Ga0074230_15368791	F002247	IRELSGIGNVYLGTELVDIAEYELEVYEENPEDHEHHGSNWIPGTKKIRGTVTGELPIRKDLKLVTEEGYTLSFFLRDSMGSAVIVDSKLETTGNPVQ*
Ga0074230_1695095	Ga0074230_16950954	F086024	LQAVTRVKLEQASKVEMRMPTRLRNGEGRAGREETNKHLTRSAGVVSTACRYRGPDFLGHGIGKLKGFKRTG*
Ga0074230_1912979	Ga0074230_19129791	F085858	QLAKPFPKNEKAEDPLIMRTDDMKEFSEVIRSKIIPTTFVFQCTLCGLEISDYDRHFGLIKMNQHVMSEHANQVKSLDMEDLYSRKPTVVLESF*
Ga0074230_1937581	Ga0074230_19375812	F011112	VPAKPSWYSKIDEVIRQLEALPRPFVDRATVEFLLGVGRRRAQQIMAPCITDRVGANGLADRHALIERLRRFAVADDGYYERQRRRKMAEILAQLQKDRLERPQLLVEAPVEIINQDIEKLPAGVRLERGRITVEFDHAQQALEKLLALAMAIGNDFDWFERVTRHG*
Ga0074230_1949251	Ga0074230_19492511	F029666	PLIHLGVSAYSFLNPGSSFPLPRSFDFAAYIETEREFWALFPETEGKRVNFCQTGLTAQIFIESRDDGSELRPEETYFLMPCPDSTLRPIRMAPCRRLTLDEFRMSHLTALKLIDKLHDTARVMDEVHLRILGPEILNESEL*