3300010267: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 12_48_3.3_201_A2 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300010267
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0121361 | Gp0153735 | Ga0134101
• Sample Name: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 12_48_3.3_201_A2 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 236289755
• Sequencing Scaffolds: 36
• Novel Protein Genes: 42
• Associated Families: 37

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	4
Not Available	26
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	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 → Panicum sect. Panicum → Panicum hallii	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Oryzinae → Oryza → Oryza sativa	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 → Panicum sect. Hiantes → Panicum virgatum	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
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Carnobacteriaceae → Carnobacterium	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?
F000392	Metagenome / Metatranscriptome	1188	Y
F000661	Metagenome / Metatranscriptome	950	Y
F001014	Metagenome / Metatranscriptome	805	Y
F001543	Metagenome / Metatranscriptome	673	Y
F001564	Metagenome / Metatranscriptome	670	Y
F001938	Metagenome / Metatranscriptome	614	Y
F002059	Metagenome / Metatranscriptome	597	Y
F007513	Metagenome / Metatranscriptome	349	Y
F010244	Metagenome / Metatranscriptome	306	Y
F011273	Metagenome / Metatranscriptome	292	Y
F011737	Metagenome / Metatranscriptome	287	Y
F017103	Metagenome / Metatranscriptome	242	Y
F018309	Metagenome / Metatranscriptome	235	Y
F019591	Metagenome / Metatranscriptome	228	Y
F020484	Metagenome / Metatranscriptome	223	Y
F020859	Metagenome / Metatranscriptome	221	Y
F026477	Metagenome / Metatranscriptome	197	Y
F028691	Metagenome / Metatranscriptome	190	Y
F030332	Metagenome / Metatranscriptome	185	Y
F031344	Metagenome / Metatranscriptome	182	N
F032517	Metagenome / Metatranscriptome	179	Y
F046767	Metagenome / Metatranscriptome	150	Y
F046814	Metagenome / Metatranscriptome	150	N
F053045	Metagenome / Metatranscriptome	141	Y
F053732	Metagenome / Metatranscriptome	140	Y
F054508	Metagenome / Metatranscriptome	139	Y
F055387	Metagenome / Metatranscriptome	138	Y
F059780	Metagenome	133	Y
F062734	Metagenome / Metatranscriptome	130	N
F064345	Metagenome / Metatranscriptome	128	Y
F079533	Metagenome / Metatranscriptome	115	N
F082070	Metagenome / Metatranscriptome	113	Y
F087072	Metagenome / Metatranscriptome	110	Y
F088753	Metagenome / Metatranscriptome	109	N
F091897	Metagenome / Metatranscriptome	107	Y
F101010	Metagenome / Metatranscriptome	102	N
F105007	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0134101_1000108	All Organisms → cellular organisms → Bacteria	105640
Ga0134101_1000844	Not Available	29475
Ga0134101_1004588	All Organisms → cellular organisms → Bacteria	5629
Ga0134101_1004936	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	5250
Ga0134101_1008271	All Organisms → cellular organisms → Bacteria	3025
Ga0134101_1020376	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 → Panicum sect. Panicum → Panicum hallii	1427
Ga0134101_1031576	Not Available	1041
Ga0134101_1034245	Not Available	983
Ga0134101_1045335	Not Available	811
Ga0134101_1045440	Not Available	810
Ga0134101_1045517	All Organisms → cellular organisms → Bacteria	809
Ga0134101_1051360	Not Available	744
Ga0134101_1053042	Not Available	728
Ga0134101_1054215	Not Available	717
Ga0134101_1055396	Not Available	706
Ga0134101_1057536	Not Available	688
Ga0134101_1058319	Not Available	682
Ga0134101_1058727	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Oryzinae → Oryza → Oryza sativa	679
Ga0134101_1063539	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 → Panicum sect. Hiantes → Panicum virgatum	643
Ga0134101_1064251	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	638
Ga0134101_1065162	Not Available	632
Ga0134101_1068337	Not Available	612
Ga0134101_1068790	Not Available	609
Ga0134101_1070851	Not Available	596
Ga0134101_1071646	Not Available	592
Ga0134101_1072313	Not Available	588
Ga0134101_1073432	Not Available	582
Ga0134101_1075374	Not Available	572
Ga0134101_1076520	Not Available	566
Ga0134101_1079692	Not Available	550
Ga0134101_1082513	Not Available	537
Ga0134101_1082723	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Lactobacillales → Carnobacteriaceae → Carnobacterium	536
Ga0134101_1084671	Not Available	527
Ga0134101_1087003	Not Available	518
Ga0134101_1088250	Not Available	513
Ga0134101_1089036	Not Available	509

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134101_1000108	Ga0134101_100010835	F001564	LPGGTRPKLLNGEWPERPSLRFLVHWSLRREELCDPRLCPDAPEDGGRCDHCPLDKLDAAQSSETGLLIRRALDLRAALKLGVQVSLDEIRADEFYAMLILEEERERLDQERINSHGR*
Ga0134101_1000844	Ga0134101_10008443	F020859	MKKIIAKEVPPSNVDFRYYFDDEGLKSVSGKNCAVFVVPADRRRYSGFNMEEYEEIERTADSLIETFEEVSPKNEYYPTYKEAMLSHNIDYTSRKCHLLKKWAEYANPYDTSDIAEFLTITTGEEWNVRAFRGYSQGDYCEVVYCKAHHSEERITEIGKFWLGCGTEFCIDDCYGYYVPDTIRWPEGETLRKYLADCYGCKPEELEIYLYDGEHIVTDYRLMD*
Ga0134101_1004588	Ga0134101_10045887	F087072	MKSRAFTKRVFSLELSEEELSIIAGALYCVNNEDIKCFVDKYKYPCSEYSFDEVVELQEKLSEEINKLIENR*
Ga0134101_1004936	Ga0134101_10049364	F091897	MIGSTVSTFVNTQYQCCECGKNLGDKYSRLKGKKQPDVNIINGKQYCNKCADKHWND*
Ga0134101_1008271	Ga0134101_10082717	F059780	MYYLIGIKKGVHPCGNDGTLITRYKSEYKRRETAQRFAAMYALDEVYGLKVYSQKLCEMEPAEFIDYIRRNCKRII*
Ga0134101_1020376	Ga0134101_10203762	F031344	VKKSKRGRLIEGTSASIQQEDLEVNLPPPSSAYWRNEFQGASSGQGYPQGWTTQWEGSQEQAWGHAAAAPPPFSNYGYPPSSYQGEMPDPSFGAQYFDLPQPEQGMRIMGAYARRNMEDIDAIRRHTTQLEDGTAGIAYQMEHLGLAPLEQFNGGAFQQYYDQGYNARANQGD*
Ga0134101_1028629	Ga0134101_10286291	F105007	KDVVPKWYEKVKREISNGRRGVFMHTVPLGSTEDFYRNLGTAGDPANLASCLTEINYIFREMKRPVCINLVFLRDKDRLCTLGDNIPKTLLVKRFDKVNNKNAFRFLRADTLRRLGNFVCIDLDGIKAREFDIACAYRYEMEEKNCAVDRLAQVYAAVFLELESAGIKFLTCSSRAGYAYGYLDELSVFADEKDAERIEGALKTADCVAESLKGAVKEFSVRDLYLFSPAKDGEPSMNDPYFRKLVKSHISQFFPEKRKDAVEEEEEEWVDMIR*
Ga0134101_1031576	Ga0134101_10315761	F001014	MHLDTSFATCQVRLHNGMEPPKT*VLDIKDVVRNQIDILEHRNGVKIPKILVLDLKECIEIFHLVCLESYYSETFNQMHPDTSFRHGSGASTKWRETTQNMSFGPKVADWACPLLENKKQFWRHKLVH*
Ga0134101_1034245	Ga0134101_10342452	F028691	MHTDADFHNGLGAATKWHETTQNTSFRPKVCRAKLNGHFRASKWCENTQNMSFGPKGVH*
Ga0134101_1045335	Ga0134101_10453351	F020484	VARSEIRRDRLQRWNKMDITLLFGIDFGRIRTRWKGKFVHFAMEQCLSTCSILEIERKIREDEEAMGQRGIEGGDDDVKQ*
Ga0134101_1045440	Ga0134101_10454401	F088753	QELEMLKKTNDERLARRLSDWYGFVLSELTSGRVGDFIRSVPADFVSLLFNGKIVEKLINKCTRTLFEMAEDGRIPFETTAYMAESLRTGRKFRLRYAGQLCSKKLGPVLPIILHKETMTDMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCMSSDCNIAKKVLRNITKDFVKDRMSSFPKVDLKKDFFYLESGYGFGENGIIFINKGRAYYRTKDGTHELPDADLDSREELFMQISRAVAKVIEYEVATEFEKEKFAREDDDWVL
Ga0134101_1045517	Ga0134101_10455171	F001938	MVTCDNCGTGQECDSWADAMEFMLEEGWKKKLFDGEWKHYCPECQEVKEP*
Ga0134101_1045517	Ga0134101_10455172	F010244	MTHKVLFTHSDKSRAHIGRAKVREKVREGKEVCRRPEGRYIVLEFQGRSGKFREAFWPEDIIKDKLFL*
Ga0134101_1046542	Ga0134101_10465421	F032517	MNLSLSSSSSDKIINPYSEFLGLYGGGADDLVKRRGGGGIPSVNLMEELLGSLIPPRSNMSLLGAGLSSSMLRGDSETECLREELADVSDVDERVLLLPAMNFMRPLMVTPCCTHSKTNTPGFLAGGRTIYRRVE*
Ga0134101_1051360	Ga0134101_10513602	F001938	MIEIIYKNKYMATCDNCGTGQECDNWAEVIDFMNEEGWRKRLVDGEWKHYCPECSEVMKGNITTN*
Ga0134101_1053042	Ga0134101_10530421	F046814	NWVVVKEDDNKQDNLGFGFWNPVDLMSCSNEEFSLPNIDVASNSEMKNTDMIIARN*
Ga0134101_1054215	Ga0134101_10542153	F062734	VTDYPGTVVLTDSEPGKQYTAVVMDNESVADATVIGEYYTYPLWAWLLFAALLACLVVSIWLPYAAFGAAIAGGFLLLLIAPDPDYAPYLRIFAGAAFIVGLGGLAGRMQS*
Ga0134101_1055396	Ga0134101_10553961	F079533	LNKYNTNYEALRLADSTAFAFKSWQDFIKAIYYELMNYH*
Ga0134101_1057536	Ga0134101_10575361	F001543	VFIKTGTKHASKDGIELAVLKALGEVLIELLSFGFRVAVLILAPLLVVLLIDGFSLVHTVIYGTHKQTHNKEK*
Ga0134101_1058291	Ga0134101_10582911	F011273	VWLVLQQVLCNSETVPNAPKWKETHQTLSLGSNGVDLGRSL*
Ga0134101_1058319	Ga0134101_10583191	F054508	QTVLNAPKRYERHQNISLGSNGVDRVHSLRKMRKRFRGMNFCTSSARFEPSIVKLRNGPKCTETLQNKIKHDFRVQWGGSGAFVAKNFDATLWHELLH*
Ga0134101_1058727	Ga0134101_10587272	F055387	MLDIRATIAQKPKKKLYSSMAAMGFVHKEVRGGINHAHITKEVMGIRILSVLTSLP*
Ga0134101_1063539	Ga0134101_10635391	F007513	VEVRETVVVAVLLVVFSTAMDHGTEALEEVTMHHAFLAVVVVSLTVDGTGDTLCLILLTPL*
Ga0134101_1064251	Ga0134101_10642511	F030332	MPKGLANKRARGGMTSALTSMDLREQFAALSLGNAPHEDTIGATAVEIPFYHRIAFSQSDYALSRHIVIREDVILQVAPDLGDPCIGSSLSRWGWLYEVTRILNRAHSPGRAP*
Ga0134101_1065162	Ga0134101_10651621	F082070	MGVNLRLLVVVLGLQSLLFVRDVLLGPLGVRGVDQLLLAKGLFIITNY*
Ga0134101_1068337	Ga0134101_10683371	F028691	SGAATKWRETTRNTSFRGKVCGAKPKGRCRAPKWCENTQNVSFGLKGVH*
Ga0134101_1068790	Ga0134101_10687901	F020484	MVRTLDIACSEIRWDRLQRWDEMDITLLFGINFGRMRTCWKGKFVHFSMEQCFSTCSVLEIERKIREDEAAMEQRGIEGGDDDEKQGLGP*
Ga0134101_1070851	Ga0134101_10708511	F046767	VLCSSKTVPNAPKKIETHENMSLGSNCVNWERKF*EIVTRLCGTKFALIATGWPILHRVLCSSETVPNAPKWKETHENMSLGSNCVDRERRFREIMTRLCGTNSCINCTRLAHLHRVSCSSETVPNAPKRKETHQKMSLGSNGVDQERSLRKILTRHRCTNFCINCTSLARFAPSFVQ*
Ga0134101_1070907	Ga0134101_10709071	F019591	QMYPNTMQCTKT*VWGPMGLIGCVHCEKYRRDFVARTFVLIAPVHPILHRV*CSYERIPNAPKHYATHQNMSLESNGADWVRSLRKIPI*LHGTNFCINCTSSPRFAPSLMQL*NDPKRTQTICNAPKHQFRVQWGGLGAFVEKIPA*LGRTSFRINCTSSPCFASSFLRLRNNPKCTQTICNAPKHEFRVQWGGLGA
Ga0134101_1071646	Ga0134101_10716461	F064345	LCSIFVHLGLFRNCMKLGAKRGELVQLMQKFRPRSDVGIFCNGQSQSTPLDPKLLIQSVSLSLGAFGIVL*
Ga0134101_1072313	Ga0134101_10723131	F000661	WDEVASEFFTTNATDPPHWTLNSCFVAFRTIWVHLVPFGCLTKLGAKHFELVQKFVPRRRVGVFRDERTRSTPLDPKHMFWCVSYHLRAFGTVRLPYETRGKTFRISANVRGTKSHRSFSRRTHPIHPIGP*
Ga0134101_1073432	Ga0134101_10734321	F026477	LIAYHLRISRCFCAVTFQSYASSCRIELVAQRQHPASFMFSRSDLLWFALILGVGVISARLGLANGLDDPVA*
Ga0134101_1075374	Ga0134101_10753741	F053045	RRASATPTFALIAQVHPILHRVSCSYEKIPNEPEHNEMHQNMSLGSNGVDQVCWLRKITT
Ga0134101_1076520	Ga0134101_10765201	F017103	VAQTFALIAPGWPILHRVLCNSEMVSNAPKLKETYQNMSLGSNGVDRECSLGKILTGHHGTNFCINCTSLARFALSFVW*
Ga0134101_1079692	Ga0134101_10796922	F087072	MKSRVFTKRVFSLELSEEELGIIAGALYCANNEDIKCFVDKYKYPCDGYNFDEIAELKDRLSEEIN
Ga0134101_1082513	Ga0134101_10825131	F011737	MHLNVSLGYNGVDQVPSLRKIPKRLRGTNSCTSSARFASSFVRPPNGPECTQIVRNASNHQFTVLWGGSDEFFAKNSNANSWHFCTSSARFAPSFVRQPNDLECTQIGRNAPNRQFRVQWGRSGAFVAKNSDATSWHELLLYFGPVLHRVP*
Ga0134101_1082723	Ga0134101_10827232	F101010	MILFNNVYATVWEIEDKGNFVKGRISTSEKNKEGKYVNCYWFVTFVGKAKEPALALSTKDRIKITSGKISNTTTGEGKNKKTYTNITIFEFENVNNNQDNMQNVPF*
Ga0134101_1084671	Ga0134101_10846711	F002059	KFVPRSRVGIFHNKGTRSSPLHSKMMFWCISYYLGAFGTVWLHYENRSKKGRISAKVRATKSRRNFSQRTYRVHPIRPQTDVLVCFILFWCIWDRLVPLRNSVQNGPNKCKSSCHEVVSEFFATNAPGPPHWTLN*
Ga0134101_1087003	Ga0134101_10870031	F000392	PVQFKRYNSCYRFQNREFSVPNWKRGIEYYHVAMKTHIEYPDIFF*KYNSHYHIEMGTYILIDLL*AGGSVGPAQPTSLR*N*GIFAQTCSTCLEGPHRRDSSDAHPCRAIDRA*EPVIPSPCSLKAITHATGSKIGSSRSRWHSGTEYYPVGMKTHIEYPDIFF*KYNSPY
Ga0134101_1088250	Ga0134101_10882501	F018309	NAPDLHYWTLNSCFDAFLFVRVLLDHFSTARNLVQKRQTGAINANVHARCRARIFRNECSRSTPLDPKLLFWCFSFRLGAFGTVLLLHETWCKTRQTGTINAKFHATISRLNFLQRTLPIHTIGP*
Ga0134101_1088250	Ga0134101_10882502	F017103	VAQTFALIVIVWRVLHEVSCNSETDPNPPKRKETHQNMSLGSYGVDRERSLQKIQARNRGMKFCINCTSLARFAPSFMQ*
Ga0134101_1089036	Ga0134101_10890361	F053732	VCVLGQPEPVGSVLTFPSGYDTLEYSWVKATAVSVRLWILFVMLQNANKASGAA