Sample 3300005286

Overview

Basic Information
IMG/M Taxon OID	3300005286 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0063773 \| Gp0052323 \| Ga0065721
Sample Name	Mesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	Y
Use Policy	Open

Dataset Contents
Total Genome Size	1032006118
Sequencing Scaffolds	17
Novel Protein Genes	19
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	8
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
Not Available	1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → Microthrixaceae → Candidatus Microthrix → Candidatus Microthrix parvicella	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Rice-Straw Enriched Compost Microbial Community From Berkeley
Type	Engineered
Taxonomy	Engineered → Solid Waste → Grass → Composting → Bioreactor → Rice-Straw Enriched Compost → Rice-Straw Enriched Compost Microbial Community From Berkeley

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

Location Information
Location	Davis, California, USA
Coordinates	Lat. (^o)	38.5402727	Long. (^o)	-121.7500776	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Family	Category	Number of Sequences	3D Structure?
F000845	Metagenome / Metatranscriptome	863	Y
F006124	Metagenome / Metatranscriptome	381	Y
F006324	Metagenome	376	Y
F006745	Metagenome	365	Y
F016543	Metagenome	246	Y
F017764	Metagenome / Metatranscriptome	239	Y
F018543	Metagenome / Metatranscriptome	234	Y
F037197	Metagenome / Metatranscriptome	168	Y
F055517	Metagenome	138	Y
F057409	Metagenome	136	Y
F063452	Metagenome	129	Y
F064866	Metagenome / Metatranscriptome	128	Y
F067546	Metagenome	125	Y
F089942	Metagenome	108	Y
F093447	Metagenome / Metatranscriptome	106	Y
F099155	Metagenome	103	Y
F101365	Metagenome	102	Y

Family

Category

Number of Sequences

3D Structure?

F000845

Metagenome / Metatranscriptome

863

F006124

Metagenome / Metatranscriptome

381

F006324

Metagenome

376

F006745

Metagenome

365

F016543

Metagenome

246

F017764

Metagenome / Metatranscriptome

239

F018543

Metagenome / Metatranscriptome

234

F037197

Metagenome / Metatranscriptome

168

F055517

Metagenome

138

F057409

Metagenome

136

F063452

Metagenome

129

F064866

Metagenome / Metatranscriptome

128

F067546

Metagenome

125

F089942

Metagenome

108

F093447

Metagenome / Metatranscriptome

106

F099155

Metagenome

103

F101365

Metagenome

102

Scaffold	Taxonomy	Length	IMG/M Link
Ga0065721_10003693	All Organisms → cellular organisms → Bacteria	211873	Open in IMG/M
Ga0065721_10004014	All Organisms → cellular organisms → Bacteria	47155	Open in IMG/M
Ga0065721_10004119	All Organisms → cellular organisms → Bacteria	45418	Open in IMG/M
Ga0065721_10007040	All Organisms → cellular organisms → Bacteria	12003	Open in IMG/M
Ga0065721_10013402	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	4207	Open in IMG/M
Ga0065721_10048982	All Organisms → cellular organisms → Bacteria	54330	Open in IMG/M
Ga0065721_10053599	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	9730	Open in IMG/M
Ga0065721_10067330	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	3531	Open in IMG/M
Ga0065721_10068896	All Organisms → cellular organisms → Bacteria → Proteobacteria	3314	Open in IMG/M
Ga0065721_10084880	All Organisms → cellular organisms → Bacteria	2207	Open in IMG/M
Ga0065721_10087915	All Organisms → cellular organisms → Bacteria	2090	Open in IMG/M
Ga0065721_10092262	All Organisms → cellular organisms → Bacteria	1932	Open in IMG/M
Ga0065721_10164630	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	1045	Open in IMG/M
Ga0065721_10187717	Not Available	935	Open in IMG/M
Ga0065721_10201195	All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes	884	Open in IMG/M
Ga0065721_10251485	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria	725	Open in IMG/M
Ga0065721_10426385	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → Microthrixaceae → Candidatus Microthrix → Candidatus Microthrix parvicella	512	Open in IMG/M

Scaffold

Taxonomy

Length

IMG/M Link

Ga0065721_10003693

All Organisms → cellular organisms → Bacteria

211873

Open in IMG/M

Ga0065721_10004014

All Organisms → cellular organisms → Bacteria

47155

Open in IMG/M

Ga0065721_10004119

All Organisms → cellular organisms → Bacteria

45418

Open in IMG/M

Ga0065721_10007040

All Organisms → cellular organisms → Bacteria

12003

Open in IMG/M

Ga0065721_10013402

All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes

4207

Open in IMG/M

Ga0065721_10048982

All Organisms → cellular organisms → Bacteria

54330

Open in IMG/M

Ga0065721_10053599

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia

9730

Open in IMG/M

Ga0065721_10067330

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria

3531

Open in IMG/M

Ga0065721_10068896

All Organisms → cellular organisms → Bacteria → Proteobacteria

3314

Open in IMG/M

Ga0065721_10084880

All Organisms → cellular organisms → Bacteria

2207

Open in IMG/M

Ga0065721_10087915

All Organisms → cellular organisms → Bacteria

2090

Open in IMG/M

Ga0065721_10092262

All Organisms → cellular organisms → Bacteria

1932

Open in IMG/M

Ga0065721_10164630

All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes

1045

Open in IMG/M

Ga0065721_10187717

Not Available

935

Open in IMG/M

Ga0065721_10201195

All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes

884

Open in IMG/M

Ga0065721_10251485

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria

725

Open in IMG/M

Ga0065721_10426385

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → Microthrixaceae → Candidatus Microthrix → Candidatus Microthrix parvicella

512

Open in IMG/M

Scaffold ID	Protein ID	Family	Sequence
Ga0065721_10003693	Ga0065721_1000369314	F099155	MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLAIYPDEGPFSLVINPAQVVSVKPVRKAS*
Ga0065721_10004014	Ga0065721_1000401443	F006324	ADFDGDGDVGTDADIEAFFACLAGDCCATCFSGGADFDGDGDVGTDADIEAFFRVLAGGEC*
Ga0065721_10004119	Ga0065721_100041192	F037197	MAKPETASASEINTGLQLNHCSGVNWQSLAMTGFATRLV*
Ga0065721_10007040	Ga0065721_100070403	F017764	MSATLTIQLDSDVLQNAEQEAKARHTTLPEVVAQQLRVMARNWQTSRAGQTPVTDALRGAVTLPPDFDASAALTEELQKKHGRQG*
Ga0065721_10013402	Ga0065721_100134023	F101365	MYLNKHLIYWINRFPKTMSIELEDLMEALRYKLPGFEMEGTEFRGGFEIFIRLEGVTYINDDGLERQHYIVVTADSIRNAIRIYIYKEEKLTAGFDLIREPFCAVMQAVREYVKEHQAVDKLIGKFI*
Ga0065721_10048982	Ga0065721_100489821	F006324	ATSDYDGDGDAGTDQDIEAFFSCLAGNCCDTCWHLGADIDADGDSGTDADIEAFFRILAGSAC*
Ga0065721_10053599	Ga0065721_100535992	F089942	MNRETSSTARKGFCIFVDVFLEGSMPCVSDENGYIIFESELEAQKEIADHQMTRLREFLDGDREFEDAIQVDEFVVPVTVLPDGTIVDEAGNCFSPKPD*
Ga0065721_10067330	Ga0065721_100673305	F006124	MNWKDTVTDPDEVKVFLALDGPQYTWRTTSGIARQTGLSEEKVAGILKKYNLTLTRLSETPAVSGSALVGLIEKVGV*
Ga0065721_10068896	Ga0065721_100688964	F018543	MNWWANKGAAANRRPAGQWDGSGNLSAIVAADRAFPAAVAELDR*
Ga0065721_10084880	Ga0065721_100848803	F093447	MKPEMRQKLAREPFAEKIRKVAQLIRLAKAFPRRPRLIHAHPHGK*
Ga0065721_10087915	Ga0065721_100879153	F000845	MKNSETSSQAVAIPADAGFSPWQRLKSKRISYLAIPLLVMATIVEFVILATGWKYQQMVCLPQGMGVTFFGIGPIGAVILAVELLKLPLAVWAASRVGWQKGFMLIVGLPLICVLTFQLVKDMAVYEMTKAMEPASELLEKAAIEETRIAQLKGEVAAIENKKVEREQKLAEFAAKKAKAKADLEEALKRNDEARQDAISLTEYQTKELAAVESRQGAITR
Ga0065721_10092262	Ga0065721_100922622	F099155	MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLVIYPDEGPFSLVINPAHVVSVKPVRKAS*
Ga0065721_10099712	Ga0065721_100997121	F057409	MRSASLAAAVLLVFPTARAAAQLQTRTVPNPGVESFTFQSPSMGVRFSLNVGKPAGFTAGDGKKYPALIVTDGDFTFGNVFEAARSLSGAITPLFIISIGTSLEEGEPEHTRRRVYEFSPPGWDRKDTFGELVSQLCRQLKSPEDRCTGGSGRFLNAIATEMIPQLAARFPIDTAQLGLFGLSAGGFFASWAIFQPGSPFKKYIISSPAMAYGRGEIFRQEAAYAKANKDLPVGIYLAAGTLEAT
Ga0065721_10164630	Ga0065721_101646301	F064866	MKTPYPILFMFSLLAGAGLSAQQNVNQALSRYSYPIFTVTGNQQRTGTAFFYNANDTTYLVSNYHAIKGMNPLKKAITFITDTLYLKYPVKGSYETRILKIDVSEEVTGKTEIFSMVDRIDLFKIPVQLPSDADIRVINDLIDPLYLDVDPEEVIVFGFPTNPGSVPAFYSRQQRLEGAINPAGFADYDASLRINFPNSSDSARAILNATSRYYYFIRPYAAQGYSGAPVFGKFRTSDNQVVYRFTGVIFAGQPSTKQTWAIRGDIALQYLQGLF*
Ga0065721_10187717	Ga0065721_101877172	F055517	MASQMQARLKSEHTLRYPRLSPNMWYDVSPIFPGVTTRRVDIFGRRITRIRTARDYETVQAAHFEFRERPVEEEATVSA*
Ga0065721_10201195	Ga0065721_102011952	F063452	RLMRLRGQLRFPRPESPVVNVDPIPQNLVAVHDLLTESLTIANETANRFGWAVAIFPRTGRFDAPVFGVVTCGGESTTLTYRLLQSLMDLPVYVSGRVPATIRDGMAFGPRRSSPPPALLDQPVLHIMLTCCIGSTVDDLDRTMPLESTVFAGDLKAPIILLTECRPDGWPK*
Ga0065721_10251485	Ga0065721_102514851	F067546	MASVAPQRAPLSVRTEGPAIVLTLCEQLDDLTGPVLVDAVASAVATAPQRVEIDLTELLGWTDAGAQSLVRCRELCRDLPDGLHYRTGRGPGRDALLAAYR*
Ga0065721_10403932	Ga0065721_104039322	F016543	TMNLSNPLNPTTINNLPSDENGQLIDARSRPRSAGFGVASAYQTPRTVQLQVRFTF*
Ga0065721_10426385	Ga0065721_104263852	F006745	MHPAPPGPPAPSRQRRVSSAVLVYVAILMALQVFLVTVAAEAVLADEEGLAWATAAVSVALFLAATVFLRYLRP*

Scaffold ID

Protein ID

Family

Sequence

Ga0065721_10003693

Ga0065721_1000369314

F099155

MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLAIYPDEGPFSLVINPAQVVSVKPVRKAS*

Ga0065721_10004014

Ga0065721_1000401443

F006324

ADFDGDGDVGTDADIEAFFACLAGDCCATCFSGGADFDGDGDVGTDADIEAFFRVLAGGEC*

Ga0065721_10004119

Ga0065721_100041192

F037197

MAKPETASASEINTGLQLNHCSGVNWQSLAMTGFATRLV*

Ga0065721_10007040

Ga0065721_100070403

F017764

MSATLTIQLDSDVLQNAEQEAKARHTTLPEVVAQQLRVMARNWQTSRAGQTPVTDALRGAVTLPPDFDASAALTEELQKKHGRQG*

Ga0065721_10013402

Ga0065721_100134023

F101365

MYLNKHLIYWINRFPKTMSIELEDLMEALRYKLPGFEMEGTEFRGGFEIFIRLEGVTYINDDGLERQHYIVVTADSIRNAIRIYIYKEEKLTAGFDLIREPFCAVMQAVREYVKEHQAVDKLIGKFI*

Ga0065721_10048982

Ga0065721_100489821

F006324

ATSDYDGDGDAGTDQDIEAFFSCLAGNCCDTCWHLGADIDADGDSGTDADIEAFFRILAGSAC*

Ga0065721_10053599

Ga0065721_100535992

F089942

MNRETSSTARKGFCIFVDVFLEGSMPCVSDENGYIIFESELEAQKEIADHQMTRLREFLDGDREFEDAIQVDEFVVPVTVLPDGTIVDEAGNCFSPKPD*

Ga0065721_10067330

Ga0065721_100673305

F006124

MNWKDTVTDPDEVKVFLALDGPQYTWRTTSGIARQTGLSEEKVAGILKKYNLTLTRLSETPAVSGSALVGLIEKVGV*

Ga0065721_10068896

Ga0065721_100688964

F018543

MNWWANKGAAANRRPAGQWDGSGNLSAIVAADRAFPAAVAELDR*

Ga0065721_10084880

Ga0065721_100848803

F093447

MKPEMRQKLAREPFAEKIRKVAQLIRLAKAFPRRPRLIHAHPHGK*

Ga0065721_10087915

Ga0065721_100879153

F000845

MKNSETSSQAVAIPADAGFSPWQRLKSKRISYLAIPLLVMATIVEFVILATGWKYQQMVCLPQGMGVTFFGIGPIGAVILAVELLKLPLAVWAASRVGWQKGFMLIVGLPLICVLTFQLVKDMAVYEMTKAMEPASELLEKAAIEETRIAQLKGEVAAIENKKVEREQKLAEFAAKKAKAKADLEEALKRNDEARQDAISLTEYQTKELAAVESRQGAITR

Ga0065721_10092262

Ga0065721_100922622

F099155

MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLVIYPDEGPFSLVINPAHVVSVKPVRKAS*

Ga0065721_10099712

Ga0065721_100997121

F057409

MRSASLAAAVLLVFPTARAAAQLQTRTVPNPGVESFTFQSPSMGVRFSLNVGKPAGFTAGDGKKYPALIVTDGDFTFGNVFEAARSLSGAITPLFIISIGTSLEEGEPEHTRRRVYEFSPPGWDRKDTFGELVSQLCRQLKSPEDRCTGGSGRFLNAIATEMIPQLAARFPIDTAQLGLFGLSAGGFFASWAIFQPGSPFKKYIISSPAMAYGRGEIFRQEAAYAKANKDLPVGIYLAAGTLEAT

Ga0065721_10164630

Ga0065721_101646301

F064866

MKTPYPILFMFSLLAGAGLSAQQNVNQALSRYSYPIFTVTGNQQRTGTAFFYNANDTTYLVSNYHAIKGMNPLKKAITFITDTLYLKYPVKGSYETRILKIDVSEEVTGKTEIFSMVDRIDLFKIPVQLPSDADIRVINDLIDPLYLDVDPEEVIVFGFPTNPGSVPAFYSRQQRLEGAINPAGFADYDASLRINFPNSSDSARAILNATSRYYYFIRPYAAQGYSGAPVFGKFRTSDNQVVYRFTGVIFAGQPSTKQTWAIRGDIALQYLQGLF*

Ga0065721_10187717

Ga0065721_101877172

F055517

MASQMQARLKSEHTLRYPRLSPNMWYDVSPIFPGVTTRRVDIFGRRITRIRTARDYETVQAAHFEFRERPVEEEATVSA*

Ga0065721_10201195

Ga0065721_102011952

F063452

RLMRLRGQLRFPRPESPVVNVDPIPQNLVAVHDLLTESLTIANETANRFGWAVAIFPRTGRFDAPVFGVVTCGGESTTLTYRLLQSLMDLPVYVSGRVPATIRDGMAFGPRRSSPPPALLDQPVLHIMLTCCIGSTVDDLDRTMPLESTVFAGDLKAPIILLTECRPDGWPK*

Ga0065721_10251485

Ga0065721_102514851

F067546

MASVAPQRAPLSVRTEGPAIVLTLCEQLDDLTGPVLVDAVASAVATAPQRVEIDLTELLGWTDAGAQSLVRCRELCRDLPDGLHYRTGRGPGRDALLAAYR*

Ga0065721_10403932

Ga0065721_104039322

F016543

TMNLSNPLNPTTINNLPSDENGQLIDARSRPRSAGFGVASAYQTPRTVQLQVRFTF*

Ga0065721_10426385

Ga0065721_104263852

F006745

MHPAPPGPPAPSRQRRVSSAVLVYVAILMALQVFLVTVAAEAVLADEEGLAWATAAVSVALFLAATVFLRYLRP*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300005286: Mesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences