Sample 3300005504

Overview

Basic Information
IMG/M Taxon OID	3300005504 Open in IMG/M
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
Location on Map

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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

Scaffold	Taxonomy	Length	IMG/M Link
Ga0074230_1000115	Not Available	538	Open in IMG/M
Ga0074230_1021058	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium	748	Open in IMG/M
Ga0074230_1099428	Not Available	542	Open in IMG/M
Ga0074230_1103160	Not Available	989	Open in IMG/M
Ga0074230_1152902	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	546	Open in IMG/M
Ga0074230_1193161	All Organisms → cellular organisms → Bacteria	507	Open in IMG/M
Ga0074230_1299902	All Organisms → cellular organisms → Bacteria → Acidobacteria	801	Open in IMG/M
Ga0074230_1414481	Not Available	768	Open in IMG/M
Ga0074230_1431775	Not Available	525	Open in IMG/M
Ga0074230_1471900	All Organisms → cellular organisms → Bacteria	518	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0074230_1000115

Not Available

538

Open in IMG/M

Ga0074230_1021058

All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium

748

Open in IMG/M

Ga0074230_1099428

Not Available

542

Open in IMG/M

Ga0074230_1103160

Not Available

989

Open in IMG/M

Ga0074230_1152902

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium

546

Open in IMG/M

Ga0074230_1193161

All Organisms → cellular organisms → Bacteria

507

Open in IMG/M

Ga0074230_1299902

All Organisms → cellular organisms → Bacteria → Acidobacteria

801

Open in IMG/M

Ga0074230_1414481

Not Available

768

Open in IMG/M

Ga0074230_1431775

Not Available

525

Open in IMG/M

Ga0074230_1471900

All Organisms → cellular organisms → Bacteria

518

Open in IMG/M

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*

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*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

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

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences