3300010276: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 15_59_3.3_214_A2 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300010276
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0121361 | Gp0153738 | Ga0134104
• Sample Name: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 15_59_3.3_214_A2 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 258359976
• Sequencing Scaffolds: 29
• Novel Protein Genes: 32
• Associated Families: 28

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	25
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	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	2

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?
F000255	Metagenome / Metatranscriptome	1449	Y
F000330	Metagenome / Metatranscriptome	1285	Y
F000392	Metagenome / Metatranscriptome	1188	Y
F000770	Metagenome / Metatranscriptome	897	Y
F002244	Metagenome / Metatranscriptome	578	Y
F002513	Metagenome / Metatranscriptome	552	Y
F003727	Metagenome / Metatranscriptome	471	Y
F004068	Metagenome / Metatranscriptome	454	Y
F004834	Metagenome / Metatranscriptome	421	Y
F006732	Metagenome / Metatranscriptome	365	Y
F009663	Metagenome / Metatranscriptome	314	Y
F010244	Metagenome / Metatranscriptome	306	Y
F012742	Metagenome	277	Y
F014817	Metagenome / Metatranscriptome	259	Y
F016911	Metagenome / Metatranscriptome	243	Y
F017083	Metagenome / Metatranscriptome	242	Y
F020484	Metagenome / Metatranscriptome	223	Y
F024245	Metagenome	206	Y
F053713	Metagenome / Metatranscriptome	140	Y
F061504	Metagenome / Metatranscriptome	131	N
F065367	Metagenome / Metatranscriptome	127	N
F066369	Metagenome / Metatranscriptome	126	Y
F083626	Metagenome / Metatranscriptome	112	Y
F087072	Metagenome / Metatranscriptome	110	Y
F088753	Metagenome / Metatranscriptome	109	N
F101010	Metagenome / Metatranscriptome	102	N
F101228	Metagenome / Metatranscriptome	102	Y
F105007	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0134104_1000915	Not Available	29898
Ga0134104_1018294	Not Available	1813
Ga0134104_1020772	All Organisms → cellular organisms → Bacteria	1642
Ga0134104_1029213	Not Available	1272
Ga0134104_1043323	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	936
Ga0134104_1047046	Not Available	878
Ga0134104_1050455	Not Available	832
Ga0134104_1052102	Not Available	811
Ga0134104_1056773	Not Available	759
Ga0134104_1057541	Not Available	751
Ga0134104_1059523	Not Available	732
Ga0134104_1060086	Not Available	727
Ga0134104_1062531	Not Available	704
Ga0134104_1063479	Not Available	696
Ga0134104_1067910	Not Available	660
Ga0134104_1068695	Not Available	654
Ga0134104_1071211	Not Available	637
Ga0134104_1071662	Not Available	634
Ga0134104_1076257	Not Available	605
Ga0134104_1076555	Not Available	603
Ga0134104_1078277	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	593
Ga0134104_1079095	Not Available	588
Ga0134104_1082182	Not Available	571
Ga0134104_1085712	Not Available	553
Ga0134104_1085981	Not Available	552
Ga0134104_1087039	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	547
Ga0134104_1089045	Not Available	538
Ga0134104_1089960	Not Available	533
Ga0134104_1092438	Not Available	523

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134104_1000915	Ga0134104_10009158	F087072	MQSRVFTKRVFSLELSEEELGIIAGALYCANNEDIICFVDKYKYPCAGYSFDEVAELQEKLSEEINKLIENR*
Ga0134104_1018294	Ga0134104_10182943	F101228	MTENYMNINRLCNAWYWVTERWKYFAVGVLAYLLIYCITGSNIQAVSGILIFMLMCLGVLWVNRLPHKDRVWCKRLVGITVILLAATVIITYNPVTALTITGEPSGDQIRWEITDGEPPYTVFVNGVEIVTDYPGTVVLTDSEPGKQYTAVVMDNESVADATVIGEYYTYPLWAWLLFAALLACLVVSIWLPYAAFGAAIAGGFLLLLIAPDPDYAPYLR
Ga0134104_1020772	Ga0134104_10207723	F010244	MTHKVKFAHAGKSQTRNSRAIVREGREVYRHPKNYFVVIEFEGICGKFRESFWPEDIEKQVYF*
Ga0134104_1029213	Ga0134104_10292131	F002513	MVLKVLWIKILFIKLTNSSKHSLMLAKIGIEVHLMHEFLPLEPFLV
Ga0134104_1043323	Ga0134104_10433231	F061504	MENPSLNISLLCLAPKYLDLILWALSFGLHWRVDVHEWASNHHGLRSFVRALAFVFLRVIA*
Ga0134104_1047046	Ga0134104_10470461	F088753	NDERLARRLSDWYGFVLSELTAGRVGDFIRSVPVDFVSLPFNGKRVENLINKCIKTLFEMAEDVRIPFETTAYMAESLRTGRKVRLRHAGQICSKKLGHALPVVLHKETITEMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCLSSDYDIAKRALRNITKDFVRDRMASFPRVDLKKDFFYLESGYGFDENGIIFINKGRVYYRTNDGTHELPDADLDSWEELHMQIARAVAKIIEYEVATEFEKEKYAREDDDWVLEIR*
Ga0134104_1050455	Ga0134104_10504551	F066369	MGQVRQ*NGMKPPETRVLDVKYVVRNHTDVLEHRNGV
Ga0134104_1052102	Ga0134104_10521021	F000255	MHRNTMKRTKTLVYGAMGRIGCIRCEKSRRDFAARTFALIAPVHPVLHRVSWSYEMITNAPKHYETHQNMSLGSNGVDQVRWMRNITT*
Ga0134104_1052102	Ga0134104_10521022	F000255	MGWIRCVGCEILQRDFVARTFALIAAVLSVLQQVSCSYKTISNAPKYYETHQNISLGC
Ga0134104_1052693	Ga0134104_10526931	F105007	YEKVKREISNGRRGVFMHTVPLGSTEDFYRNLGTTGDPANLACCLTEINDIFREMKRPVCINLVILRDKDQLCTLGDGIPKTLLIKRFDKVSNKNAFRFLRADTLRRLGNFVCIDLDGIKAREFDIACAYRYEMEEKNCAVDRLAQVYAAVFLELESAGIKFLTCSNRAGYAYGYLDELSVFADEKDAERIEGALKTADCIAESLKGAVKEFSVRDLYLFSPAKDGEPSMNDPYFRKLVKSHISQFFPEKRKDAVEEEEWVDMIR*
Ga0134104_1056773	Ga0134104_10567731	F053713	MKTVGNGRENPSTVPATVFFGREWKWEWKNRTGKRNRYYGISGTESIGREHADYDRESITQNGKIHTTTSNI*
Ga0134104_1057541	Ga0134104_10575412	F020484	MARTLDVAHSEIRRDRLQRCDKMNITLLFGINFGRIRTRWKEKFVHFAMEQCFSTGYVLEIERKIREDEAAMRQRGIKGGDDDEKQGLGP*
Ga0134104_1059523	Ga0134104_10595231	F002244	IVGNEPKRRLRVQCGALGAFVAKNSDATSWHEILH*
Ga0134104_1060086	Ga0134104_10600861	F006732	TIALIAPIHPILHRVLCSNETLPSAPKHYETHQNMSLGSNWMDRVRSLQKTPKSLRGTNYSINCTNSPYFAPSFMQLRNDPKCTQTL*
Ga0134104_1062531	Ga0134104_10625311	F000392	MGTYVLIDLL*AGGSVAPAQPTSL**N*GIFAQSCSTCLEGPYRKDSSGTHPCRGIERA*EPRIPSLCSLKSITHATGSKIGSSRSRWNRGTEHYPVGMKIHIEYPDIFF*KYNSPYHIEMGTYVLIDLL*AGGSVAPAQPTSL**N*GIFAQTYSTCLEGPNRNNSSGAHPCRAIDRA*EPGYLARAV*
Ga0134104_1063479	Ga0134104_10634791	F083626	VARTFALIAPVHPVLHRVSCSYEMIPNAPKYYEGPMGWIGCVRCEKSRCHFVARTFALIAPVHPILHRVSCSYEMIPNAPKHYKTHRNMSLGSNRVDQVCLLGKITT*LRGTNFCINCTSSVCFAPSFMQLRNDPKCTQILRNMPKHYFRVQLGGLGLSIAKNPDITSWHEFFH*
Ga0134104_1067910	Ga0134104_10679101	F004068	MGWIGCIHCEKFGHNFVARNFALIAPFQLILHRVSCSNKMVPNAPKHYETHQNMSLGSDGVDRVDLLQKILTQFCGLNFCIKFNSSARFEPSIVKQRNGPKCTQTLQNKTKHEFWVQWGGSGAFIATNSDTTSWHELLH*
Ga0134104_1068695	Ga0134104_10686951	F065367	MSAEQKDLGDSAMGDGEKTCPCCQFYGVPCRQVRATEDEATIRRNQRLFSDTKRKRSRQEQLADDSLFLDGPSLDEL
Ga0134104_1071211	Ga0134104_10712111	F012742	LIPPIAPLTKNFGVFCTISVHLEPFGCLTKLGAKRAELVQKFVTQSRVGIFHNERTQSNSLDPKLMFWFVSYYFVAFGTVWLPYGIRCKTGRTRAKVRATKSRRNFLHERTQSTPLDTKLPFWYVSYYLGAFGTFGCLTKLGAKWADLVKKFVPRSRIGIVRNESTRSTSLDPKLSFCCISYHLGAFGTVWLPYETRCKTGRTSAKVCATKL
Ga0134104_1071662	Ga0134104_10716621	F000770	DFKAQTCALIAPVQPILHQVSCSKETLTKAPKHYETHQTGV*
Ga0134104_1076257	Ga0134104_10762571	F000330	MHQNVSLGSNGVDRVRSLQKILTQLRGTNFCTSLARFAPSFVRQPNGPKWIQMVQNAPKHEFRVPWGGSGAFVAEN
Ga0134104_1076555	Ga0134104_10765551	F017083	MQYEIVIKGDRWCSCYTCLPRTVPAAAQTGRTTAAPGTGTGAPQMDQRLLTSTWPKQYTTIS
Ga0134104_1078277	Ga0134104_10782772	F016911	PALYRFMAIAHCGYLVLKMPSPASVLTVRGDRTAAVAAIEKLHALAVEATRSEEDPSTSRAGAPAKAPKVQPSDPDNIPVKTVQIGADSSRTTRIAGNLEEK*
Ga0134104_1079095	Ga0134104_10790951	F004068	RCIHCEKFGHNFMARTFALIAPFQLILHRVSCSNEMVPNAPKHYETHQTMSLGPDGMDRVDFLQKILTQLCGLNFCINFNSSARFEPSIVKQRNGPKCTQTLRNKTKHNFSVQWGGSGAFIAKNSNTTSWRELFH*
Ga0134104_1082182	Ga0134104_10821821	F024245	MFVVKKQDATSEAESGSFYAPQNPISQLVPPGNGI
Ga0134104_1082182	Ga0134104_10821822	F009663	LLRKNKKQLRKHKVVHCMHPETRSHNGHLPATESCETTQKLSFGPKELDWACSLQKNKTQLRKHKVVHFMHPKTRYNNLYLPATESRETTQKHCFGPKEVDWACSLRKNKTQLRKHKAVHCMHPKTRSHTGYLQAMESRETTQKLSFGPKEVDWACSL*
Ga0134104_1085712	Ga0134104_10857121	F024245	SGLGMFVAKKQDATSEAQSGAFYAPQNPISQLVPPGNGIARNHPET*
Ga0134104_1085981	Ga0134104_10859811	F004834	SRHVEQVWAKIPRFHRRLVGWAGATEPPAHYESMRT*
Ga0134104_1087039	Ga0134104_10870391	F003727	VFIKTGTKHASKGGIELAVLKAFREVLIEVLSFGLGVAELVLVCLIAVLLVDGLSFVHSVIYDVYKQAHNQEKEIKALSLSSIRKQIRYGDRGNIFGRFPNGMAKTMLEIAW*
Ga0134104_1089045	Ga0134104_10890451	F000255	MGWIRCVACEKLQRDFVARTFALIEPVQYVWQQDSCSYETIPNAPKYYETDQNISLESNGVYWVHLLRKIPT*
Ga0134104_1089960	Ga0134104_10899601	F014817	CIAAFHSVWVYLAIFCYYTKLSAKQVELVQLMHKFVS*
Ga0134104_1092438	Ga0134104_10924381	F101010	MFRIENAFATVWSVEDKGNYVKGRISTSEKNKEGKYVNSHWFVTFVGKAKEPALALSTKDRIKITSGKISNTTTGEGKDKKSYLNVVIFDFENMSNSQIDNQMDDLPF*