3300012521: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 10_41_5_180_A2 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300012521
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0121361 | Gp0153733 | Ga0134099
• Sample Name: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 10_41_5_180_A2 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 344667885
• Sequencing Scaffolds: 22
• Novel Protein Genes: 24
• Associated Families: 24

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria	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
Not Available	16
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminiclostridium → Ruminiclostridium papyrosolvens → Ruminiclostridium papyrosolvens C7	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 → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae 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 → Panicum sect. Hiantes → Panicum virgatum	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?
F000285	Metagenome / Metatranscriptome	1374	Y
F000330	Metagenome / Metatranscriptome	1285	Y
F000770	Metagenome / Metatranscriptome	897	Y
F001014	Metagenome / Metatranscriptome	805	Y
F001938	Metagenome / Metatranscriptome	614	Y
F002244	Metagenome / Metatranscriptome	578	Y
F004046	Metagenome / Metatranscriptome	455	Y
F004068	Metagenome / Metatranscriptome	454	Y
F004539	Metagenome / Metatranscriptome	433	Y
F004718	Metagenome / Metatranscriptome	426	Y
F007513	Metagenome / Metatranscriptome	349	Y
F009118	Metagenome / Metatranscriptome	322	Y
F010244	Metagenome / Metatranscriptome	306	Y
F018870	Metagenome	232	Y
F019078	Metagenome / Metatranscriptome	231	Y
F019942	Metagenome / Metatranscriptome	226	Y
F020484	Metagenome / Metatranscriptome	223	Y
F024708	Metagenome / Metatranscriptome	204	Y
F026477	Metagenome / Metatranscriptome	197	Y
F029958	Metagenome / Metatranscriptome	186	Y
F040454	Metagenome / Metatranscriptome	161	N
F061504	Metagenome / Metatranscriptome	131	N
F063614	Metagenome / Metatranscriptome	129	Y
F088753	Metagenome / Metatranscriptome	109	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0134099_1037422	All Organisms → cellular organisms → Bacteria → Proteobacteria	1473
Ga0134099_1049976	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	1144
Ga0134099_1050916	Not Available	1125
Ga0134099_1052204	Not Available	1099
Ga0134099_1055776	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Oscillospiraceae → Ruminiclostridium → Ruminiclostridium papyrosolvens → Ruminiclostridium papyrosolvens C7	1036
Ga0134099_1056368	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	1027
Ga0134099_1060278	Not Available	965
Ga0134099_1062096	Not Available	939
Ga0134099_1066211	Not Available	884
Ga0134099_1082052	Not Available	726
Ga0134099_1084186	Not Available	708
Ga0134099_1084354	Not Available	706
Ga0134099_1084775	Not Available	703
Ga0134099_1090796	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales → Clostridiaceae → unclassified Clostridiaceae → Clostridiaceae bacterium	659
Ga0134099_1101161	Not Available	596
Ga0134099_1103634	Not Available	583
Ga0134099_1107324	Not Available	564
Ga0134099_1113080	Not Available	537
Ga0134099_1116319	Not Available	524
Ga0134099_1116839	Not Available	521
Ga0134099_1116990	Not Available	521
Ga0134099_1120747	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	506

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134099_1037422	Ga0134099_10374222	F010244	MISKVKFTHSDKSRAHINCAELREGVEIYKHPRGHFVVLEFEGESGKFREAFWPENVEKVG*
Ga0134099_1049976	Ga0134099_10499762	F007513	VEVRETVVVTVLQRVVALPVVLLIVFSTAMDHGTEALEEVLRLHAFLAVVFVSHTVDGTRDTLCLVLLTLL*
Ga0134099_1050916	Ga0134099_10509161	F026477	MLVILMFVAWLLVDLLCFVAYHLRTSCCLCAITFQSHASSCRIELVAQKQHSASFMFSRSDLLWFALILGVGIISARLGLANGLDDPVA*
Ga0134099_1052204	Ga0134099_10522041	F000770	MARTCALIAPVQPILHQVLCSNERLPNAPKHYEMDHNKSLGSNLLDR
Ga0134099_1052204	Ga0134099_10522042	F004718	MFRYYMKLSAKQVELVQLMHKFVP*NRIGIFRNERTRSTPLDPKLMFWCV
Ga0134099_1055776	Ga0134099_10557765	F001938	MIEKIYKNKRMAICDNCGEGQECDSWAEVIDFMNEEGWRKKLVDGEWKHYCPECVEVKEP
Ga0134099_1056368	Ga0134099_10563681	F061504	MENPSLNISLLCLAPKYLDLILWALSFGLHWRVDVHEWASNHHGLRSFVRALAFVILRIIAWSWASPFHA
Ga0134099_1060278	Ga0134099_10602781	F009118	MHPDANFRNGLGAATKWRETFKNLSFRLKEMEWARLLQKNKKRF*
Ga0134099_1062096	Ga0134099_10620961	F004068	MRYIGCICCEKIRRDFVAQTFALIAPVQPILHRVSGNNEMVPNAPKHYETHQNMSLGPDGVDRVDLLQKILTQLCGLSFCINFNSSARFEPSIVKQRNGPKCTQTLRNKTKLKFSVQWGGSGAFITKNSDTTLWRELLH*
Ga0134099_1066211	Ga0134099_10662112	F020484	MARTLDVACSEIRRDRLQRWDEMDITLLFGINFGRIKTRWKEKFVQFAMEQCFSTGSVLEIERKIREDEAAMGQRVIEGDDDDVKQ
Ga0134099_1082052	Ga0134099_10820521	F088753	LSDWYGFVLSELTSGRVGDFIRSVPADFVSLLFNGKIVEKLINKCTRTLFEMAEDGRIPFETTAYMAESLRTGRKFRLRYAGQLCSKKLGPVLPIILHKETMTDMILREAKLLALSKVAVVVKLYCRIPGEFYPAVCCMSSDCNIAKKVLRNITKDFVKDRMSSFPKVDLKKDFFYLESGYGFGENGIIFINKGRAYYRTKDGTHELPDADLDSREELFMQISRAVAKVIEYEVATEFEKEK
Ga0134099_1084186	Ga0134099_10841861	F024708	HVVGKVVVKIIRIVVVEVKTLCGIALRFFGDTNQEDFTAEVLNFLVLFA*
Ga0134099_1084354	Ga0134099_10843541	F000330	RKWYETHQNMCLGSNGVDRVRSSRKTLKRLRGTNFCTSSAHFAPSFVRQPNGPDCTQIVRNAKKHQFRVQMGELGAFVAKNSDATSWHEVLH*
Ga0134099_1084775	Ga0134099_10847751	F029958	MKWAPTFSLIYYEQVALLHPPNRLASDETKEFLHKH
Ga0134099_1090796	Ga0134099_10907961	F063614	MTYARLRITIDTLVKTGLEKVNVLGIEDAQNDLWQIYEICEELLRFWEDEITDDQDYELEEIIAELPLLKRV*
Ga0134099_1101161	Ga0134099_11011612	F018870	IKWCIVCAPKPDLTTGTSRQRNRAKPPRNLVLGLKKWIGHVRCEKIRCNFGSTKWCIVCTPKPDLTTGTSQQWNRANPRRNLVLGLKNWIGDVRCEKTRRNFGSTKRCIVCTPKPDLTTGTSRQRNHAKPPRNLVLGLKKWIGQVRCEKTRRNFGSVKWCIVCTPKPVLTTGTSRQRNRA
Ga0134099_1103634	Ga0134099_11036341	F001014	MKPPETRVLDVKYVVRNQTDVVEHRNGVKIPKI*VLDLKECIKIFQVVCLESYYSETFNQMHADTSFRNRSGASTK*RKTFENMSFGPKVLDWASSLLKNKN
Ga0134099_1107324	Ga0134099_11073242	F019942	MIKISGLEHLTASEQPKVLGGLLDVSEGKPRSNQKDVLTT*
Ga0134099_1109976	Ga0134099_11099761	F002244	QTLRNATKDEFGVQWGGLGAFIVKTSDATLWHELLH*
Ga0134099_1113080	Ga0134099_11130801	F000285	KVRARSRVGIFRNESTRSTPLDPKLMFWCISYYLSAFGIIWLPYKTLRKTGGSFLHKFMPRSRVRSFCNEHIRSTPLDPKLTFWCVSNYLGASGTVWLLYKTRCKTGRTSAKVRAVKSRRNFLQRTNRIHPIAP*
Ga0134099_1116319	Ga0134099_11163192	F040454	VHKTSINSLDITLEFKGASPHERLKPTEEEKGQAGRPRGVEPAGLLPVGLHFFGFFFYELFDASQAYVLLNFALDSTVLPLK*
Ga0134099_1116839	Ga0134099_11168391	F004539	PLPGGTSCEIGFRGAYNDHFVLPKLRLVFSQRTCPIHFFRPKTKFLGGFARFRFREVQVVRSGFGVHTMHHFMLPKLRLVFPQRTCPIHLFRPKTKFIGGFARFRCQEVQVVRSGFGVHKMHHFVLPKLHLVFSQQTCPIDFFRPKTKFLGGFA*
Ga0134099_1116990	Ga0134099_11169901	F004046	FGHEFGPMKLFLSFPAKTHPIHYFRSKTHVLGGFAPFGCRKCTVAKSGPRMPFRHEFRQTKLFFIFSTKMHPIHYVRSETHVLGCFAPFGSSKCSFAKLCPGMLFWHEFGLTKLLSSFSAKTHPIHYFRSKTRILGGLAPFVCRKNTIAKSGPRMPF*
Ga0134099_1120747	Ga0134099_11207471	F019078	PKNGEKACPCCQFYGVPCRQVRATEDEATTRRNQRLFSSTKRKRSHQEQLVDNSLFLDSPSVDELQTIQKRKDPECSRDTQVKNQALYDYVDGLTITMNVIQPRGRKESKKQAAEIMQDEMLSSQGGQPSSAIHRRRMCDQCKQKGHYAKSCPQNHLTPVAPVQDLSL