3300004628: Microbial communities from bioreactor (seeded with sewage sludge) at LBNL, California, USA - Biofuel metagenome 4 (version 1)

Overview

Basic Information

• IMG/M Taxon OID: 3300004628
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0046201 | Gp0055637 | Ga0070399
• Sample Name: Microbial communities from bioreactor (seeded with sewage sludge) at LBNL, California, USA - Biofuel metagenome 4 (version 1)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 550558223
• Sequencing Scaffolds: 23
• Novel Protein Genes: 25
• Associated Families: 22

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae	3
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	7
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	2
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → PVC group	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Microbial Communities From Bioreactor (Seeded With Sewage Sludge) At Lbnl, California, Usa
• Type: Engineered
• Taxonomy: Engineered → Bioreactor → Anaerobic → Unclassified → Unclassified → Bioreactor → Microbial Communities From Bioreactor (Seeded With Sewage Sludge) At Lbnl, California, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Water (non-saline)

Location Information

• Location: Lawrence Berkeley National Laboratory, California, USA
• Coordinates
  • Lat. (^o): 37.8754404
  • Long. (^o): -122.2477251
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F007590	Metagenome / Metatranscriptome	348	Y
F010231	Metagenome	306	Y
F011839	Metagenome / Metatranscriptome	286	Y
F014318	Metagenome / Metatranscriptome	264	Y
F017253	Metagenome	242	Y
F033667	Metagenome / Metatranscriptome	176	Y
F042777	Metagenome / Metatranscriptome	157	Y
F046771	Metagenome / Metatranscriptome	150	Y
F051629	Metagenome / Metatranscriptome	143	Y
F063257	Metagenome / Metatranscriptome	129	Y
F063258	Metagenome / Metatranscriptome	129	Y
F063339	Metagenome	129	Y
F067328	Metagenome / Metatranscriptome	125	Y
F067350	Metagenome / Metatranscriptome	125	Y
F078103	Metagenome / Metatranscriptome	116	Y
F080760	Metagenome / Metatranscriptome	114	Y
F083634	Metagenome	112	Y
F084257	Metagenome / Metatranscriptome	112	Y
F084897	Metagenome / Metatranscriptome	112	Y
F086460	Metagenome / Metatranscriptome	110	Y
F091596	Metagenome / Metatranscriptome	107	Y
F106182	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0070399_1000062	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae	101260
Ga0070399_1000097	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	85515
Ga0070399_1000270	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	58309
Ga0070399_1000428	All Organisms → cellular organisms → Bacteria	47929
Ga0070399_1000470	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae	45454
Ga0070399_1000548	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	41952
Ga0070399_1000582	All Organisms → cellular organisms → Bacteria	40775
Ga0070399_1001542	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	23793
Ga0070399_1002641	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	16905
Ga0070399_1003660	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	13387
Ga0070399_1003933	All Organisms → cellular organisms → Bacteria	12694
Ga0070399_1004952	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	10659
Ga0070399_1012305	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	5302
Ga0070399_1014865	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae	4543
Ga0070399_1016893	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales	4109
Ga0070399_1020106	All Organisms → cellular organisms → Bacteria → Proteobacteria	3557
Ga0070399_1024266	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes	3043
Ga0070399_1031899	All Organisms → cellular organisms → Bacteria → PVC group	2424
Ga0070399_1069312	Not Available	1257
Ga0070399_1079068	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1122
Ga0070399_1110983	Not Available	837
Ga0070399_1161585	All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae	602
Ga0070399_1174195	Not Available	563

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0070399_1000062	Ga0070399_100006267	F080760	MTIKTTAAALSAEQALPIVDPQRETCVEFVKFCKEQHLKSRAAHTFLRVFHNKSWNAECEKIRESMRPEVNRIFEPAEKALNEGANCKEVLALLVRSLKEAEDL*
Ga0070399_1000081	Ga0070399_100008149	F033667	MILLVTSNDRRVECGVVLERAVGESVEVCESVRKAASRLRNNEYSAVIMDDPMVEADGEALESLLNNLGLAIPVYVNLAVSNADRIARELRVAQRRNRESRMIAVRAAESQLRSEIRDAVTGILLSTELAMTTPDMPMDALEKLTSVCQLASNIRSRLEVVN*
Ga0070399_1000097	Ga0070399_100009715	F063257	MRFPIRSMAIMKPHPGKRPDLIAFLREFYTMMCTKQYSRDLLLQDLKHPDDLVHIRYWLSDEARDAAMNDPDVHHYWKDLGAFGNITTIYEELEPIFSTREGIPGDDIIQAATKSDSA*
Ga0070399_1000270	Ga0070399_100027023	F067328	MALVWMVECKICAQRFPVLPRKAVKGKSTDSLVPHSGAGRFECPHCHELQDYSTDDFIPGEGHIVPSPKPE*
Ga0070399_1000428	Ga0070399_100042839	F007590	MEHPESPSGRYQAQIAVAKKVLEQKEDWANRAEWEVVKTRDGWEVYAWRVEHPKAKGAKRYLPWGYSVIELDNGLVPLTYHKKG*
Ga0070399_1000470	Ga0070399_100047012	F046771	MGERVSQLWFSEFILSGSDMTNDRKLFFFALALVLFLAASCKRGAEKKFKPSKLAGELYSGQSLQKVERTLDIMAGNFDTVEDRKPLPSDTRPPYRLLVISKKNARVEGQTGELMLTFFNDRLMTSQFYPADLATARAAVEAGQSLSLASGESHIEPSTRVWVGKDQNGRTYIGWIDKSLQAEQDAWVKQYGQ*
Ga0070399_1000548	Ga0070399_10005487	F042777	MSHERRQFVISIQAQPFRKKTRYYWIICRENNPDELVSWGFAPTQELAEIESSNEVRDLISGLTQGGRVDGTRYSAIHRC*
Ga0070399_1000582	Ga0070399_10005823	F063258	MCAFVVLGVLEWITLSPETVRVINGPNGVPPLEVSLRGVSVAVLVLFAFRSWIHFRREMREERERSGRE*
Ga0070399_1001542	Ga0070399_100154226	F106182	MKWMDRLFAWMLVALGGAHLLALWIPKLGLLRGPWTGGAAVAIISAGLMNAVRSRRKSDRFLRWCTALATLLTAAMCLITLYRFSGNVLHQPAALAISVLAVVELFFCVAR*
Ga0070399_1002641	Ga0070399_10026414	F086460	MLRHAPNPSSVKTMRLSAVLLLLATTLFAAPPTWKPASFSGLIIGQGRRQDAVRLLGTPDAFQRTRSGEELTYRARGDHKGDLTVRLDPSGIVVEVQEAFPIAIPRTQIYKEFGKDALTAHFSRAKCASDALYRNPRGVIELTLYPSRGIVLWPDQNGYDFAAILYTAKQPGLSRPPACMATVKH*
Ga0070399_1003660	Ga0070399_10036601	F010231	RLWALAGDVHSGGFAPAFTLSFHDSECSRKPPNAHSLGR*
Ga0070399_1003933	Ga0070399_10039334	F051629	MPLSANRIWRQLPNEIRVSASKVFWAETTKEQKQFLFAALAKANNVREISVRRAPIERLVNWTAATLTLPDQIANNLLQDYLLHDHRAMIVSYVESLGIPHSDGIIEEGFDLASLPKERVQDAARTLLASPDRQAAELYLKYLVVQGGPWSVIEEVLPTGDA*
Ga0070399_1004952	Ga0070399_100495210	F084257	MNARKTMKQFYTETEVAHALCISLEALHELLDKHVFDLDNPRPDVLEFTHAELLLLSVWAEPERACNVITMPGKDQIFI*
Ga0070399_1008326	Ga0070399_10083262	F091596	MHDPGSEAPQTGIYWCSVCKLPVQFKAGEVLPKCKNLCGRGKWEFIKATAAEK*
Ga0070399_1012305	Ga0070399_10123057	F078103	MKVEGIKVLSLVMSIAMVAVIVLSLAGGVGLGYAIIFGILNAFDRSRQLIKAAPTQVLTNSASSR*
Ga0070399_1014865	Ga0070399_10148658	F011839	MKPLPVPHVPGNTDAERFDNAVRKIFTVSKDDILKAEAKWKQSRARKQRAKKTA*
Ga0070399_1016893	Ga0070399_10168937	F083634	MYIMLKMADQTISLDRIRIGGRVCRLARKLFVTVEHENDRLTLSNEEFGLVVSAETLEEGIAGISEELATLWEVYVDADPANLTADALRLRSNLTSLVPAGVSL*
Ga0070399_1020106	Ga0070399_10201063	F063339	MNATQNPVGQSAEFHQTWQALMQQLERVLSLAHQRQPNRTETREAVSIAKHLLGKVGDQIDTANPE*
Ga0070399_1024266	Ga0070399_10242661	F010231	MGHWLAEVQFGGFAPAFTLSFHDSERSRSPPKTHSLGRYGQV*
Ga0070399_1031899	Ga0070399_10318992	F084897	MAKSDAFAETSKARFEVATAQEVNLGVGGSFKAAEIGVLGTSGGLND*
Ga0070399_1069312	Ga0070399_10693123	F017253	ALSSANGGSYTQGRIADPESSGSSRNAARAERCTPKTTAAALDG*
Ga0070399_1079068	Ga0070399_10790683	F014318	MGHTGESMSDLYDKIKEDVAFRKQWAEKCGFGFELPSIVPNVPKTRAKSKSMKAA*
Ga0070399_1110983	Ga0070399_11109832	F067350	MLKKKVYDETAGVAALRRGYQPTLYFEQIATAPHKFMNYSG*
Ga0070399_1161585	Ga0070399_11615851	F067350	MLKKKVCDDTAGVAALRRGYQQTLYFEQIATATHKFMNYSG*
Ga0070399_1174195	Ga0070399_11741952	F067350	MLKKKVFDDTAGVATLR*GYQQALYFEQIATAPHKFMNYSG*