3300010263: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 16_60_3.3_214_A3 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300010263
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0121361 | Gp0153739 | Ga0134105
• Sample Name: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 16_60_3.3_214_A3 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 219399360
• Sequencing Scaffolds: 36
• Novel Protein Genes: 40
• Associated Families: 25

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	2
All Organisms → cellular organisms → Bacteria	1
Not Available	22
All Organisms → Viruses → Predicted Viral	1
All Organisms → cellular organisms → Bacteria → Fusobacteria → Fusobacteriia → Fusobacteriales → Fusobacteriaceae → Fusobacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Thermotalea → Thermotalea metallivorans	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Zizaniinae → Zizania → Zizania palustris	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Syntrophomonadaceae → unclassified Syntrophomonadaceae → Syntrophomonadaceae bacterium	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
F001938	Metagenome / Metatranscriptome	614	Y
F003438	Metagenome / Metatranscriptome	486	Y
F004540	Metagenome / Metatranscriptome	433	Y
F006253	Metagenome / Metatranscriptome	377	Y
F008410	Metagenome / Metatranscriptome	333	Y
F010244	Metagenome / Metatranscriptome	306	Y
F010589	Metagenome / Metatranscriptome	301	Y
F017083	Metagenome / Metatranscriptome	242	Y
F017103	Metagenome / Metatranscriptome	242	Y
F019116	Metagenome / Metatranscriptome	231	Y
F020839	Metagenome / Metatranscriptome	221	Y
F028060	Metagenome / Metatranscriptome	192	Y
F038061	Metagenome / Metatranscriptome	166	N
F038199	Metagenome	166	Y
F044252	Metagenome / Metatranscriptome	154	Y
F063614	Metagenome / Metatranscriptome	129	Y
F068384	Metagenome / Metatranscriptome	124	N
F075996	Metagenome / Metatranscriptome	118	N
F083534	Metagenome / Metatranscriptome	112	Y
F087072	Metagenome / Metatranscriptome	110	Y
F088753	Metagenome / Metatranscriptome	109	N
F091897	Metagenome / Metatranscriptome	107	Y
F099151	Metagenome / Metatranscriptome	103	N
F103108	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0134105_1001677	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	14884
Ga0134105_1002702	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae	9403
Ga0134105_1003691	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	6975
Ga0134105_1004527	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	5801
Ga0134105_1006961	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Bacilli → Bacillales	4015
Ga0134105_1011898	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	2490
Ga0134105_1017117	All Organisms → cellular organisms → Bacteria	1841
Ga0134105_1018857	Not Available	1698
Ga0134105_1019477	Not Available	1651
Ga0134105_1019648	All Organisms → Viruses → Predicted Viral	1637
Ga0134105_1025349	All Organisms → cellular organisms → Bacteria → Fusobacteria → Fusobacteriia → Fusobacteriales → Fusobacteriaceae → Fusobacterium	1312
Ga0134105_1026785	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes	1252
Ga0134105_1027502	Not Available	1223
Ga0134105_1027844	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	1210
Ga0134105_1032475	Not Available	1064
Ga0134105_1032541	Not Available	1062
Ga0134105_1032850	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → Thermotalea → Thermotalea metallivorans	1054
Ga0134105_1035356	Not Available	988
Ga0134105_1038430	Not Available	919
Ga0134105_1042271	Not Available	846
Ga0134105_1042274	Not Available	846
Ga0134105_1044721	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Zizaniinae → Zizania → Zizania palustris	808
Ga0134105_1047843	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Syntrophomonadaceae → unclassified Syntrophomonadaceae → Syntrophomonadaceae bacterium	763
Ga0134105_1057408	Not Available	654
Ga0134105_1060448	Not Available	626
Ga0134105_1061272	Not Available	620
Ga0134105_1063762	Not Available	600
Ga0134105_1064172	Not Available	596
Ga0134105_1064284	Not Available	596
Ga0134105_1066678	Not Available	578
Ga0134105_1068072	Not Available	569
Ga0134105_1069191	Not Available	561
Ga0134105_1069377	Not Available	560
Ga0134105_1070848	Not Available	550
Ga0134105_1078986	Not Available	504
Ga0134105_1079155	Not Available	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134105_1001677	Ga0134105_100167729	F001938	VIEMIEKIYKKERMAICDNCGEGQVCDSWAEVIDFMNEEGWKKRLVDGEWKHFCPECVKVKEP*
Ga0134105_1002702	Ga0134105_100270211	F001938	LIEKIYRNKYMVRNKYMVTCDNCGTGQECDSWSDVMDFMNYEGWKTRLVDGEWKHYCPECQEGLR*
Ga0134105_1003691	Ga0134105_10036916	F099151	MKFREETYKENGRIIKKYFIDEKEVTQDVFFKLTDELYENTKFKQDEHPDEICNCDDCQYLLDLVREIKIASDSEALDILKNEIDFRVQEAYLEGQRVLANELGNYFLKYTVQLENEIDSLYENGTLDDCEEGDI*
Ga0134105_1004527	Ga0134105_10045276	F001938	MIEKIYKNKYMATCDNCGEGQEFDTWTDALEYMFEEGWKKKLFDGEWKHYCPECVESEVEHDA*
Ga0134105_1006961	Ga0134105_10069612	F087072	MKSRAFTKRVFSLELSEEELSIIAGALYCVNNEDIKCFVDKYKYPCSEYSFDEVVELQEKLSEEINKLIENRSTTQRLKPWA*
Ga0134105_1011898	Ga0134105_10118984	F063614	MTYARLRITIDTLVKTGLEKVNVLGVEESQADLWQIYDICQELLRFWEDEITDDQDYKLEEIIAELPLLQRV*
Ga0134105_1017117	Ga0134105_10171171	F091897	MIGSSIPTFLNIQYRCCKCGKDLGDKYSRFKGKKQPDVNIIKGKLYCNKCADKHWND*
Ga0134105_1017117	Ga0134105_10171174	F038199	MMQYTQAEFLQIIKQYNSTDRKVIKANLKRIMDIYNIKPADIAALGYSSRNVYAWTNKSTKNIPLFEQALNIAVKFNFSITEFIK*
Ga0134105_1018857	Ga0134105_10188572	F088753	MTERGRILQELEMLKNTNDERLARRLSDWYGFVLSELTAGRVGDFIRSVPVDFVSLPFNGKRVENLINKCIKTLFEMAEDVRIPFETTAYMAESLRTGRKVRLRHAGQICSKKLGHALPVVLHKETITEMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCLSSDYDIAKRALRNITKDFVRDRMASFPRVDLKKDFFYLESGYGFDENGIIFINKGRVYYRTNDGTHELPDADLDSWEELHMQIARAVAKIIEYEVATEFEKEKYAREDDDWVLEIR*
Ga0134105_1019477	Ga0134105_10194775	F103108	MEKTELIIPFTKKLAEAAGLAKETEKGEKFFRCLRMPGYFPPKGDIESFAERLCKLLLEKHEEALLYTENGLRRVLEDFPAAEEILEKLSSSWEEDAPDAYAVVSRSDDEWAVLF
Ga0134105_1019648	Ga0134105_10196484	F038199	MEYTQAEFLQLIQQYNSTDRKVIKANLKRIMDIYNVKPADIISLGYSPRNVYAWTNKSTKNIPLFEQALNIAVHFDFNITEFFK*
Ga0134105_1025349	Ga0134105_10253492	F063614	MTYTRLRITIDTLVKTGLEKVNVLGVEESQADLWQIYDMCQELMAFWDSELTEDRIDELEEIIAELPLLKRA*
Ga0134105_1026785	Ga0134105_10267852	F019116	MGGHIMAMKKKTSITLSARDKLLLELLAKKENRSQTKELEYLIRRRAEELGLKIEEP*
Ga0134105_1027502	Ga0134105_10275021	F088753	PADFVSLLFNGKIVEKLINKCTRTLFEMAEDGRIPFETTAYMAESLRTGRKFRLRYAGQLCSKKLGPVLPIILHKETMTDMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCMSSDCNIAKKVLRNITKDFVKDRMSSFPKVDLKKDFFYLESGYGFGENGIIFINKGRAYYRTKDGTHELPDADLDSREELFMQISRAVAKVIEYEVATEFEKEKFAREDDDWVLEIR*
Ga0134105_1027844	Ga0134105_10278442	F010244	MTHKVKFTHSDKSRAHINRAELREGKEVYRHPKGYFVVLEFQGRSGKFSEAFRPEDLTGVWPFGCTG*
Ga0134105_1032475	Ga0134105_10324752	F087072	MKSRAFTKRMFSLELSEEELGIIAGALYCANSEDIKCFVDQYKYPCADYGFDEVAELKEKLSEEINKLIESGE*
Ga0134105_1032541	Ga0134105_10325412	F001938	MIEKIYKNKYMVVCDNCGTGQECDSWADVMDFMNEEGWKKRLVDGEFKHYCPECQESEVEEG*
Ga0134105_1032850	Ga0134105_10328502	F001938	VIGLIEKIYKSNYMAICDNCGTGQECDSWADVMDFMNEEGWKKKLFDGEWKHYCPECVEAEEVVKDKLFL*
Ga0134105_1035356	Ga0134105_10353562	F091897	MIGSSISSFPNTQYQCCECGRNLGDKYSRLKGKKQPTVIIINDKQYCSKCADKHWDYQIKRM*
Ga0134105_1038430	Ga0134105_10384301	F088753	MLKKTNDERLARRLSDWYGFVLSELTSGRVGDFIRSVPADFVALPFNRKRVENLINKCIKTLFEMVKDGKIPFETTAYMAESLRTGRKVRLRHAGQICSKKLGHVLPVVLHKETITEIILREAKFLALSKVAVVVKLYSRIPDKFYPGVCYLSSDCDIAKRALRNITKDFIKDRMSSFPKVNLTKNFFYLESGYGFDESGIIFINKGRVYYRTNDGTHELPDADLDSREELYMQIARAVAKVIEYEVATEFEKEKFAREDDDWVLEIR*
Ga0134105_1042271	Ga0134105_10422712	F075996	MLNSATGQAVGILLPFWSYIPTDRISPKGLLYPVSQVMKEGRLFRFVMLVGEPEEEVPLAGKDFFWQDTDRMYRPKYCAIDITADFKGRICTFTGLYARRDGLYVNGKRAGSFEDMRDIFVHYGLGEVWNLITGDIRPSCCVYKYGRLFVPETEVCLGLLSEKAQFPKGYDMKDLGRVERLLEDAGVFKIPEEISLAEVEEKLS
Ga0134105_1042274	Ga0134105_10422742	F075996	MLNSATGQAVGILLPFWSYIPTDRISPKGLLYPVSQVMKEGRLFRFVMLVGEPEEEVSLAGKDFFWQDTDRMYRPKYCAVDITADFKGRICTFTGLYARRDGLYVNGKRAGSFEDMRDIFVHYGLGEVWNLITGDIRPSCCVYKYGRLFVPETEVCLGLLSEKVQFPKGYDMKDLGRVERLLEDAGVFKIPEEISLAEVEEKLS
Ga0134105_1044721	Ga0134105_10447211	F017083	MKNVIKVIGGSCYTCLPRTAPAAAQSARKTAAPGTGTGAPQMDQRLLMNTWPKQCTIISIQANTNKN*
Ga0134105_1047843	Ga0134105_10478432	F001938	MIEKIYKNKYMVTCDNCGTGQECDSWAEVIDFMNEEGWKKRLDDGEWQHFCPECQEGLKWLKNQDIQKFS*
Ga0134105_1051883	Ga0134105_10518831	F083534	IGGIRCEKSHRDFVARTFV*IEPVQYVLQQVSCSYKTIPNAPKYYETYRNITLGSNWVDWDCPLQKIPTSLRGTNFCINCTSSPRFAPSFMQLRNNPKCTKILQRSNGVDWVRSLQKIPMSLRGMNFSINCTDSPYFAPSVRQLRNDPKCTQTL*NTPRHEITVQWAGSGAFVAKNNNMTSWHELLH*
Ga0134105_1057408	Ga0134105_10574081	F010589	MFQNSRTLDILLERFQCTPLGPKLTFWVFAHHFGALKCPFGFAPHTLLLKLMFQVVSRHFVAAPDPL*KSVSGALNARVYASKTISCFVATNMPNPLFQSKTHVLGGSMPFRSRT*HVAITGIEVHLMHEFMPLELFLGFLQQTCPINYFRSKTYVL
Ga0134105_1060448	Ga0134105_10604481	F068384	RSTPLDPKLMFWYVSYYLGAFGTLWLPYSTQCKRGQTGAKVLATKSRWNFSNEHPRSTPLDPKLMFWCVLYYLGAFGTAWLRNNTYCKTGQTGEKLRAMKSHRNFFATNAPNSPHWIPNSCFGLFSTIWVHLRLFGCLTKLGAKWERTGAKVHATKSHQNFSQLKHPIRPIGP*
Ga0134105_1061272	Ga0134105_10612721	F003438	VSCIFGVSSSTALGIEGYLTSWKDKLGNHTLGTKA
Ga0134105_1061272	Ga0134105_10612722	F003438	MLLANVWPLNKTVPVVSCIFGVSSSTRLGIEGCRTCWKDELGNHTLGTKAQNMH
Ga0134105_1063762	Ga0134105_10637621	F028060	MEWVRCIRCEKFQNDFIAQTCALIAPVQPVLQRISCSYEKLPNAPKHYETHTNMSL
Ga0134105_1064172	Ga0134105_10641722	F017103	MVLIGSVRCKKFKQDIVARTFALIAPVWLVLQQVLCNSETVPNAPKWKEMHQNMSLGSNGVDREHSLQKILTTHRCTNFCINCSSLACFAPSFV
Ga0134105_1064284	Ga0134105_10642841	F044252	MAQTCALIAPVQPVLHRVSCSNETLTNAPKHYENAPKQEFTVQWGVSRAFVAKNSDGISWHEL
Ga0134105_1066678	Ga0134105_10666782	F004540	ERTQSTPLDLKLMFGVLHSVWVHLGSFRNRMRLDAKQGGLVQLMQKLVPQSHEGIFLYEHTQSTPLDPNLRFWCVA*
Ga0134105_1066876	Ga0134105_10668761	F006253	EFFGTNAPDPHHWTLNSYFGAFLSVWVHLEPFRYCTKLAAKHAKLMQKFVPGCLVRIFCNEHSRSTLWTLNSCFGAFLSVWGHLEPFRYCMKLVAKRAKLVQLMQKFVPRCLVRIFCNERSRSTPFDPKLMFGCVSLRSGAFWNSFATARNLVQNAPNWCN*
Ga0134105_1068072	Ga0134105_10680721	F001938	IYKNKYMATCDNCGTGQECDNWAEVIDFMNEEGWRKRLVDGEWKHYCPECSEVMKGNITTN*
Ga0134105_1069191	Ga0134105_10691911	F038061	TPLDPKLRFWCVSYYLGAFGTVFCPTTLSAKRVNWCNCSCHKVALEFFATNAPDPPHCTLNFCFRAICSILVHFGLFGCLTKLGAERAGLVQKFMPRSRIGIFRDESTRSDPLDPKLTFWCVSYYLGAFGTLWLPYNTQCKTGQTGAKVRAMKSR*
Ga0134105_1069377	Ga0134105_10693772	F020839	AQTGQKTAAPGIGTGAPPVAQRLLTNTWPKTMHNINIQANTNKN*
Ga0134105_1070848	Ga0134105_10708481	F000392	SPYHIEMGTYVLIDLL*AGGSVAPAQPTSLR*N*GIFAQTCSTCLEGPYRKDSSGAHPCRAIDRA*EPRIPSPCSLKAITHATGSKIGSSRSHWNRGTEYYPVGMKTHIEYPDIFF*KYNSPYHIEMGTYILIDLL*AGGSVAPAQPTSLRRN*GNFAQTCSTCLEGIYRKDSSGAHPCRAI
Ga0134105_1078986	Ga0134105_10789861	F017103	DIMAQTFALIAPVWRVLQQVSSNSETVPNAPKRKETKQNMSLGSNGVDREHSLRKILTKHRGTNCCINCTNLAHFAPSLLS*
Ga0134105_1079155	Ga0134105_10791551	F008410	VYASKTISCFVSTNMPKPLFQSKTHVLDGSMPFRSRT*HVANTVIEAHIMHEFMPLEPFLVFLQQTCPFHFFQSKTQVLVGFTPFCCRT*PVAKTSTGINIKHEFVPRKPFLVWLRRTCSIHIFRSNTHVYNSA*YLNALLHSF*RQLM*