3300010265: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 9_31_10_142_A3 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300010265
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0121361 | Gp0153732 | Ga0134098
• Sample Name: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 9_31_10_142_A3 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 225419778
• Sequencing Scaffolds: 24
• Novel Protein Genes: 28
• Associated Families: 20

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	2
All Organisms → cellular organisms → Bacteria	5
All Organisms → cellular organisms → Bacteria → FCB group → Candidatus Hydrogenedentes → unclassified Candidatus Hydrogenedentes → Candidatus Hydrogenedentes bacterium ADurb.Bin179	2
Not Available	7
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Butyricicoccus → unclassified Butyricicoccus → Butyricicoccus sp. AM05-1	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Klebsiella/Raoultella group → Klebsiella → Klebsiella pneumoniae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Syntrophomonadaceae → unclassified Syntrophomonadaceae → Syntrophomonadaceae bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → unclassified Lachnospiraceae → Lachnospiraceae bacterium	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass Degrading Microbial Communities From High Solid Loading Bioreactors In New Hampshire, Usa
• Type: Engineered
• Taxonomy: Engineered → Bioreactor → Unclassified → Unclassified → Unclassified → Switchgrass Degrading → Switchgrass Degrading Microbial Communities From High Solid Loading Bioreactors In New Hampshire, Usa

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Dartmouth College, New Hampshire
• Coordinates
  • Lat. (^o): 43.726
  • Long. (^o): -72.1429
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000698	Metagenome / Metatranscriptome	930	Y
F001564	Metagenome / Metatranscriptome	670	Y
F001938	Metagenome / Metatranscriptome	614	Y
F007513	Metagenome / Metatranscriptome	349	Y
F010244	Metagenome / Metatranscriptome	306	Y
F020859	Metagenome / Metatranscriptome	221	Y
F021959	Metagenome / Metatranscriptome	216	Y
F053364	Metagenome / Metatranscriptome	141	Y
F054066	Metagenome / Metatranscriptome	140	N
F059695	Metagenome / Metatranscriptome	133	N
F059780	Metagenome	133	Y
F064345	Metagenome / Metatranscriptome	128	Y
F070666	Metagenome / Metatranscriptome	123	Y
F075996	Metagenome / Metatranscriptome	118	N
F079824	Metagenome / Metatranscriptome	115	N
F085349	Metagenome / Metatranscriptome	111	Y
F088753	Metagenome / Metatranscriptome	109	N
F101228	Metagenome / Metatranscriptome	102	Y
F103108	Metagenome / Metatranscriptome	101	N
F105007	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0134098_1003850	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	8183
Ga0134098_1004454	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	7040
Ga0134098_1005128	All Organisms → cellular organisms → Bacteria	6099
Ga0134098_1007012	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	4403
Ga0134098_1008540	All Organisms → cellular organisms → Bacteria → FCB group → Candidatus Hydrogenedentes → unclassified Candidatus Hydrogenedentes → Candidatus Hydrogenedentes bacterium ADurb.Bin179	3538
Ga0134098_1010917	All Organisms → cellular organisms → Bacteria	2738
Ga0134098_1013856	Not Available	2118
Ga0134098_1014179	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Butyricicoccus → unclassified Butyricicoccus → Butyricicoccus sp. AM05-1	2068
Ga0134098_1015298	All Organisms → cellular organisms → Bacteria → FCB group → Candidatus Hydrogenedentes → unclassified Candidatus Hydrogenedentes → Candidatus Hydrogenedentes bacterium ADurb.Bin179	1917
Ga0134098_1015418	All Organisms → cellular organisms → Bacteria	1902
Ga0134098_1015802	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Klebsiella/Raoultella group → Klebsiella → Klebsiella pneumoniae	1858
Ga0134098_1017347	All Organisms → cellular organisms → Bacteria	1696
Ga0134098_1018365	All Organisms → cellular organisms → Bacteria	1606
Ga0134098_1023627	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1270
Ga0134098_1027460	Not Available	1109
Ga0134098_1030628	Not Available	1012
Ga0134098_1031773	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Syntrophomonadaceae → unclassified Syntrophomonadaceae → Syntrophomonadaceae bacterium	981
Ga0134098_1046606	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Syntrophomonadaceae → unclassified Syntrophomonadaceae → Syntrophomonadaceae bacterium	729
Ga0134098_1050479	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Lachnospiraceae → unclassified Lachnospiraceae → Lachnospiraceae bacterium	685
Ga0134098_1063226	Not Available	580
Ga0134098_1067188	Not Available	555
Ga0134098_1072012	Not Available	529
Ga0134098_1072147	Not Available	528
Ga0134098_1076985	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Panicinae → Panicum	505

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134098_1003850	Ga0134098_10038501	F075996	MLNSATGQAVGILLPFWSYIPTDRISPKGLLYPVSQVMKEGRLFRFVMLVGEPEEEVPLAGKDFFWQDTDRMYRPKYCAIDITADFKGRICTFTGLYARRDGLYVNGKRAGSFEDMRDIFVHYGLGEVWNLITGDIRPSCCVYKYGRLFVPETEVCLGLLSEKAQFPKGYDMKDLGRVERLLEDAGVFKIPEEISLAEVEEKLSKFSDLEK
Ga0134098_1004454	Ga0134098_10044547	F085349	MFKFLDIREQLREERRKNEELRALCKDLEDAAIELAEIVAANEKAIREVQDDG*
Ga0134098_1005128	Ga0134098_10051285	F103108	MEKTELIIPFTKKLAEAAGLAKETEKGEKFFRCLRMPGYFPPKGDIESFAERLCKLLLEKHEEALLYTENGLRRVLEDFPAAEEILEKLSSSWEEDAPDAYAVVSRSDDEWAVLFGYEDGVEAVLCKKGRTVRVGADEPER*
Ga0134098_1007012	Ga0134098_10070125	F020859	MKKIIAKEVHPSNVDFRHYFDDDGLKSVGGENCAVYIIPADRGRYSGFNLEEYEEIEEMADSLIETFEEVSPKNEYYPTYKEAMLSHNIDYTSRRCHLLKEWAEHANPYDTRDIAAFLTITTGEEWNVRAFRGYSQGDYCEVVYCKAHYSEEHITEIGKFWLGCGTEFYIDGCRGYYVPDTIRWQEGETLRKYLADCYGCKPDELEIYLYDGEHIVADYRLMD*
Ga0134098_1008540	Ga0134098_10085404	F053364	MHRTLHEFNWFCSCVIWGADPLIDIEIIKAEADGDEVRVRALKDRCNEENWIHYRFGEWYSHGSDELIRLAIAFLLYCREQYGEEVGA*
Ga0134098_1010917	Ga0134098_10109175	F059780	MYYLIGIKKGVHPCGNDGTLITRYKSEYKRRETAQRFAAKYALDEVYGLQVYSQKLCEMEPAEFIDYIRRNCKRII*
Ga0134098_1013856	Ga0134098_10138565	F103108	MEKTELLIPFTKKLAEAAGLAKETKKGERFFRCLRVPGYFPPKGDLESFAERLCKLLLEKHEEALLYTEGGLRRILEDFPAAEEILEKLSSSWEEDAPDAYAVVSRSDGEWAVLFGYEDSVEAVLCKKGRTIRIGADEPER*
Ga0134098_1014179	Ga0134098_10141794	F001938	MIEKIYKNKYMVVCDNCGTGQECDSWADVMDFMNEEGWKKKLLYGEWKHYCPECQEGLKC
Ga0134098_1015298	Ga0134098_10152984	F053364	MSDLLNDILVECCKLRGCYPLMHRTLHEFNWFCSCVIWGADPLIDIEIIKAEADGDEVRVRALKDRRNEENSIQNRFGEYYSHGSDELIRIAIAFLLYCREQYGEEVGA*
Ga0134098_1015418	Ga0134098_10154182	F001564	ERPSVRFLIHWALRREELCDPRLCPDAPEGGGRCDHCPLDKLDAAQSSETGLLIRRALDLRAALKLGVQVSLDEIRADEFYAMLILEEERERLDQERINSHGR*
Ga0134098_1015802	Ga0134098_10158022	F101228	MTENYMNINRLCNAWYWVTERWKYFAVGVLAYLLIYCITGSNIQAVSGILIFMLMCLGVLWVNRLPHKDRVWCKRLVGITVILLAATVIITYNPVTALTITGEPSGDQIRWEITDGEPPYTVFVNGVEIVTDYPGTVVLTDSEPGKQYTAVVMDNESVADATVIGEYYTYPLWAWLLFAALLACLVVSIWLPYAAFGAAIAGGFLLLLIAPDPDYAPYLRIFAGAAFIVGLGGLAGRMQS
Ga0134098_1015802	Ga0134098_10158024	F054066	MFGRSRKPKELNRFRVGKGFPGLNAVMYRLMNKPYLDIRIFRGYRQITRIVTPDTGMRRFVVEGIGAFVMPNEDQMLRQLHDSHAYYINYNINSSAPGEITYDLEPVAFVYPPLSPAEFQIELEGQTVADLLAETEKDMSWLWLLAGGAVLIFVLILIFGGV*
Ga0134098_1017347	Ga0134098_10173472	F010244	METFLPGMCGGKRTMTYKVKFTHSDKSHAHITSAKIREGREVYRNPRERFVVLEFEGESGKFREAFWTEDIVKVGLFYG*
Ga0134098_1018365	Ga0134098_10183652	F001938	VIEMIEKIYKNKYMATCDNCGEGQEFDTWTDALEYMFEEGWKKKLVDGEWKHYCPECGEAKEP*
Ga0134098_1018365	Ga0134098_10183653	F010244	MTHKVKFTHSDKSRANINRAELREGREVYRHPEGRYIVLEFQGQSGKFRESFWPEEIIKDKLFL*
Ga0134098_1023627	Ga0134098_10236272	F021959	MSEQEVARLQENIKTLFKDVDELKKDIKEIKKQLANRLPLWATVLMSLLTGIIGWLV*
Ga0134098_1027460	Ga0134098_10274602	F088753	QELEMLKKTNDERLARRLSDWYGFVLSELTSGRVGDFIRSVPADFVALPFNRKRVENLINKCIKTLFEMVKDGKIPFETTAYMAESLRTGRKVRLRHAGQICSKKLGHVLPVVLHKETITEIILREAKFLALSKVAVVVKLYSRIPDKFYPGVCYLSSDCDIAKRALRNITKDFIKDRMSSFPKVNLTKNFFYLESGYGFDESGIIFINKGRVYYRTNDGTHELPDADLDSREELYMQIARAVAKVIEYEVATEFEKEKFAREDDDWVLEIR*
Ga0134098_1030628	Ga0134098_10306282	F088753	QELEMLKKTNDERLARRLSDWYGFVLSELTSGRVGDFIRSVPADFVSLLFNGKIVEKLINKCTRTLFEMAEDGRIPFETTAYMAESLRTGRKFRLRYAGQLCSKKLGPVLPIILHKETMTDMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCMSSDCNIAKKVLRNITKDFVKDRMSSFPKVDLKKDFFYLESGYGFGENGIIFINKGRAYYRTKDGTHELPDADLDSREELFMQISRAVAKVIEYEVATEFEKEKFAREDDDWVLEIR*
Ga0134098_1031773	Ga0134098_10317731	F079824	MIYGFFGSIPGCPHNRGNHALRGNGKTLCLTFVGYLDSLRGRHVISNYKTSFSEFVPVEEIARMVVEENIRDTTILISEMQVYLNSLGVNSNDLKEFIGSVVGQSRKRNTDIHYDTQRYGDIHPRLRVQTDRAFLPRKFHRDGMPCSMDRCTEDHIIYLYQHDPYLPYEVIRLNAKAFGELYNTDEIIAVPKKKRKTRR
Ga0134098_1043714	Ga0134098_10437141	F105007	KDVVPKWYEKVKREISNGRRGVFMHTVPLGSTEDFYRNLGTTGDPANLACCLTEINDIFREMKRPVCINLVILRDKDQLCTLGDGIPKTLLIKRFDKVSNKNAFRFLRADTLRRLGNFVCIDLDGIKAREFDIACAYRYEMEEKNCAVDRLAQVYAAVFLELESAGIKFLTCSNRAGYAYGYLDELSVFADEKDAERIEGALKTADCIAESLKGAVKEFSVRDLYLFSPAKDGEPSMNDPYFRKLVKSHISQFFP
Ga0134098_1046606	Ga0134098_10466063	F079824	MIYGFFGSIPGCPHNRGNHALRGNGKTLCLTFVGYLDSLRGRHVISNYKTSFSEYVPVEEIARMVVEENIRDTTILITEMQVYLNSLGVNSNDLKEFIGSVVGQSRKRNTDIHYDTQRYGDIHPRLRVQTDRAFLPRKFHRDGMPCSMDRCT
Ga0134098_1049270	Ga0134098_10492701	F105007	KDVVPKWYEKVKREISNGRRGVFMHTVPLGSTEDFYRNLGTAGDPANLASCLTEINYIFREMKRPVCINLVFLRDKDRLCTLGDNIPKTLLVKRFDKVNNKNAFRFLRADTLRRLGNFVCIDLDGIKAREFDIACAYRYEMEEKNCAVDRLAQVYAAVFLELESAGIKFLTCSSRAGYAYGYLDELSVFADEKDAERIEGALKTADCVAESLKGAVKEFSVRDLYLFSPAKD
Ga0134098_1050479	Ga0134098_10504792	F001938	LIEKIYRNKYMATCDNCGTGQECDSWSDVMDFMNYEGWKKRLVDGEWKHYCPECQESEVEEG*
Ga0134098_1063226	Ga0134098_10632261	F000698	LGAKWVELVQLMDKFVPLSRIGIFRNECTRSTPSDPKLTFGAFRTIWVHSGPFGCLTKLGAKRAELVQKFVTRSRVGIFCNERNRSTPLDPKLMFWCVSYYLGAFGTIWLLYESRCKTGRSSAKVRATKLRRNFSQRTHVIHPIGH*
Ga0134098_1067188	Ga0134098_10671881	F070666	PQAIFSVELLPGGGQAHHKMDCILTPTFIGSRCRIRGARQHPAKQST*
Ga0134098_1072012	Ga0134098_10720121	F064345	MKLGAKHTELVQLMQKFVPQSHVRILHNERAQSTLLEPKLMFWCIAHCLGAFG
Ga0134098_1072147	Ga0134098_10721471	F059695	MEWMQVQMQSWQKQVLARLKGPFDVVPQLAYSKTIAKSDKKPSRHFIRSEAFVNEKVIYRKGPSNRANKVLEVGLWVSYILVLKQKF*
Ga0134098_1076985	Ga0134098_10769851	F007513	VEVRETVVVTVLQQVVALPAVLLVVFSTGMDHETEALEEVLRLHAFLAVVFVSHAVDGTVDTLCLVLLTLL*