Sample 3300010287

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

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Sample 3300010287

3300010287: Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 5_19_20_110_A1 metaG

Overview

Basic Information
IMG/M Taxon OID	3300010287 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0121361 \| Gp0153728 \| Ga0134094
Sample Name	Switchgrass degrading microbial communities from high solid loading bioreactors in New Hampshire, USA - 5_19_20_110_A1 metaG
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	Y
Use Policy	Open

Dataset Contents
Total Genome Size	323556227
Sequencing Scaffolds	12
Novel Protein Genes	15
Associated Families	14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	1
All Organisms → Viruses → Predicted Viral	3
All Organisms → cellular organisms → Bacteria → unclassified Bacteria → 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
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	1
Not Available	4

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
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F001825	Metagenome / Metatranscriptome	629	Y
F001938	Metagenome / Metatranscriptome	614	Y
F009663	Metagenome / Metatranscriptome	314	Y
F010244	Metagenome / Metatranscriptome	306	Y
F014817	Metagenome / Metatranscriptome	259	Y
F020859	Metagenome / Metatranscriptome	221	Y
F036417	Metagenome / Metatranscriptome	170	Y
F042712	Metagenome / Metatranscriptome	157	Y
F069582	Metagenome / Metatranscriptome	123	N
F076802	Metagenome / Metatranscriptome	117	N
F088752	Metagenome / Metatranscriptome	109	N
F093139	Metagenome	106	N
F095116	Metagenome / Metatranscriptome	105	Y
F105007	Metagenome	100	N

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0134094_1006371	All Organisms → cellular organisms → Bacteria	6654	Open in IMG/M
Ga0134094_1011233	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia → Eubacteriales	3873	Open in IMG/M
Ga0134094_1031225	All Organisms → Viruses → Predicted Viral	1481	Open in IMG/M
Ga0134094_1031742	All Organisms → Viruses → Predicted Viral	1461	Open in IMG/M
Ga0134094_1036544	All Organisms → Viruses → Predicted Viral	1286	Open in IMG/M
Ga0134094_1054232	All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium	912	Open in IMG/M
Ga0134094_1056745	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	878	Open in IMG/M
Ga0134094_1072723	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	710	Open in IMG/M
Ga0134094_1077504	Not Available	673	Open in IMG/M
Ga0134094_1080683	Not Available	651	Open in IMG/M
Ga0134094_1091507	Not Available	587	Open in IMG/M
Ga0134094_1094872	Not Available	570	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0134094_1006371	Ga0134094_10063717	F001938	MIEKIYKNKYMATCDNCGTGQECDSWSDVMDFMNYEGWRKRLVDGEWKHYCPECWEAKEP
Ga0134094_1011233	Ga0134094_10112331	F010244	VKFTHSDKSHAHINRAEVREGKEVYRHPKNYFIVIEFQGAGGKFREAFWPEQILDEIMKVG*
Ga0134094_1014723	Ga0134094_10147237	F095116	MNNTVPDWVYETLKNDNLRVYENSDGKVIISQVNEWLVEDIMTPKEIIDYLRGIRKKPVVMHPRIFALGRHVPKGLVIDILQNRMGE*
Ga0134094_1031225	Ga0134094_10312254	F020859	MKKIIAKEVPPSNVDFRYYFDDEGLKSVSGKNCAVFVVPADRRRYSGFNMEEYEEIERTADSLIETFEEVSSKNKYYPTYKEAMLSHNIDYTSRKCHLLKKWAEYANPYDTSDIAEFLTITTGEEWNVRAFRGYSQGDYCEVVYCKAHHSEERITEIGKFWLGCGTEFCIDDCYGYYVPDTIRWPEGETLRKYLADCYGCKPDELEIYLYDGEHIVTDYRLMD*
Ga0134094_1031742	Ga0134094_10317425	F001938	VIGLIEKIYKNKYMVICDNCGTGQECDSWADVMDFMNEEGWKKRLVDGEWKHCCPECQESEG*
Ga0134094_1036544	Ga0134094_10365443	F088752	MKGLQSVYDQIISILKENNVLIHITPPRPYLIKKDDEERINAEAEDLFKKCKIEEYHSKMKEKEAYKLYFDEAYKYTNFYEEGDE*
Ga0134094_1054232	Ga0134094_10542321	F036417	VYPARTPLRELIPTVGVRLATDDGTIAFRARWKRRPVDLQRRILFWLREGKLLWFEDEWGRDLCFRPEAVWAAMVDGR*
Ga0134094_1056745	Ga0134094_10567451	F069582	SDCLSLASFIGIACLLSVINIRTTDGVVFNIMTSCETPSVLMNLLRSRCVVVLVKFLKVLVTCRKYGTRQA*
Ga0134094_1065226	Ga0134094_10652261	F105007	SNGRRGVFMHTVPLGSTEDFYRNLGTTGDPANLACCLTEINDIFREMKRPVCINLVILRDKDQLCTLGDGIPKTLLIKRFDKVSNKNAFRFLRADTLRRLGNFVCIDLDGIKAREFDIACAYRYEMEEKNCAVDRLAQVYAAVFLELESAGIKFLTCSNRAGYAYGYLDELSVFADEKDAERIEGALKTADCIAESLKGAVKEFSVRDLYLFSPAKDGEPSMNDPYFRKLVKSHISQFFPEKRKDAVEEEEWVDMIR*
Ga0134094_1072723	Ga0134094_10727231	F042712	MEYLFDESGRQKFLQLLADRPALEFVEASQALLHRLGVGSDIKGVLGDFPRYARHVRGAPRKDICVGAEEIDEHHFLFVVEGGADLQRLVVGVARVEGHLLDTLGGFEAPGVSVRG
Ga0134094_1077504	Ga0134094_10775041	F001825	MGQVRQRNGVKPSETVLDVKYVLRIQTDILEHRNDVQIPKMVLDLKECIEIFQIVCLESYSSETFNQMHVDTSFRNG
Ga0134094_1080683	Ga0134094_10806831	F014817	LDSCFGASRSIWVHLAMFHYNTKLGAKCVELVQLMHKFVP*
Ga0134094_1091507	Ga0134094_10915071	F009663	LSFGPKEVDWASSLRKNKTQLRKHKVVHCMHPKTRSHNLYLPETKSRETTQKLSFGPKEVDWAYSLRKNKTQLRKHKVVHFMHPKTRYNNLYLPATESRETTQKLSFGLKEVDWACLLRKNKTQLRKHKVVDSMLPKTLSHNGYLPATESGETTQKLSFGPKEVDWASSLRKNKTQLWKHKVVDSMHPKTLSHNG
Ga0134094_1094872	Ga0134094_10948721	F076802	PQQEQGMRIMGAYARRNMEDIDAIRRHTTQLEDGTAGIAYQMGLLGLAPPEQFNGGAFQQYYDQGYNARGNQGE*
Ga0134094_1111169	Ga0134094_11111691	F093139	VARTFALIALVQYVLHQVSCSYETIPNAPKHYETHQNMSLGSNGVDWVCSLQKIPTSLRGANSSINCTNSPYFAPSFMWLRNDPKCTQTLNTPKHEFRVQWSGSGAFVVKNLDTISWDELLHYLHQFSPFCTEFHAVTKWSQKQPNTMKCSKTWRG

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