3300009984: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_127 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300009984
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114297 | Gp0127576 | Ga0105029
• Sample Name: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_127 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 33739792
• Sequencing Scaffolds: 32
• Novel Protein Genes: 36
• Associated Families: 33

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Predicted Viral	1
Not Available	21
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	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	4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Tylenchina → Panagrolaimomorpha → Strongyloidoidea → Strongyloididae → Parastrongyloides → Parastrongyloides trichosuri	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Switchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Associated Microbial Communities From Austin, Texas, Usa, To Study Host-Microbe Interactions

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant surface

Location Information

• Location: USA: Austin, Texas
• Coordinates
  • Lat. (^o): 30.387
  • Long. (^o): -97.7301
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000255	Metagenome / Metatranscriptome	1449	Y
F000392	Metagenome / Metatranscriptome	1188	Y
F000698	Metagenome / Metatranscriptome	930	Y
F000927	Metagenome / Metatranscriptome	831	Y
F001657	Metagenome / Metatranscriptome	655	Y
F002578	Metagenome / Metatranscriptome	546	Y
F003605	Metagenome / Metatranscriptome	477	Y
F004068	Metagenome / Metatranscriptome	454	Y
F004253	Metagenome	446	Y
F004472	Metagenome / Metatranscriptome	436	Y
F004540	Metagenome / Metatranscriptome	433	Y
F004718	Metagenome / Metatranscriptome	426	Y
F007513	Metagenome / Metatranscriptome	349	Y
F023376	Metagenome / Metatranscriptome	210	Y
F028724	Metagenome	190	Y
F029305	Metagenome / Metatranscriptome	188	Y
F032517	Metagenome / Metatranscriptome	179	Y
F032552	Metagenome / Metatranscriptome	179	Y
F040454	Metagenome / Metatranscriptome	161	N
F044351	Metagenome	154	Y
F051618	Metagenome / Metatranscriptome	143	Y
F053045	Metagenome / Metatranscriptome	141	Y
F053835	Metagenome / Metatranscriptome	140	Y
F059087	Metagenome / Metatranscriptome	134	Y
F062397	Metagenome / Metatranscriptome	130	Y
F073743	Metagenome / Metatranscriptome	120	N
F076802	Metagenome / Metatranscriptome	117	N
F082022	Metagenome / Metatranscriptome	113	Y
F085070	Metagenome / Metatranscriptome	111	Y
F085746	Metagenome / Metatranscriptome	111	Y
F086781	Metagenome / Metatranscriptome	110	Y
F091151	Metagenome / Metatranscriptome	107	Y
F093512	Metagenome / Metatranscriptome	106	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105029_100099	All Organisms → Viruses → Predicted Viral	4229
Ga0105029_101086	Not Available	1630
Ga0105029_103511	Not Available	1051
Ga0105029_103961	Not Available	1007
Ga0105029_104318	Not Available	975
Ga0105029_104368	Not Available	970
Ga0105029_104439	All Organisms → cellular organisms → Bacteria → Proteobacteria	966
Ga0105029_105208	Not Available	908
Ga0105029_105623	Not Available	882
Ga0105029_107288	Not Available	801
Ga0105029_109732	Not Available	720
Ga0105029_109843	Not Available	718
Ga0105029_110542	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	700
Ga0105029_112676	Not Available	657
Ga0105029_112816	Not Available	654
Ga0105029_113037	Not Available	650
Ga0105029_113399	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	644
Ga0105029_113698	Not Available	639
Ga0105029_113882	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	636
Ga0105029_114069	Not Available	633
Ga0105029_114649	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	624
Ga0105029_115756	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	608
Ga0105029_117079	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	592
Ga0105029_117910	Not Available	581
Ga0105029_117958	Not Available	580
Ga0105029_118891	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Tylenchina → Panagrolaimomorpha → Strongyloidoidea → Strongyloididae → Parastrongyloides → Parastrongyloides trichosuri	569
Ga0105029_119632	Not Available	561
Ga0105029_120520	Not Available	551
Ga0105029_120887	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	548
Ga0105029_121251	Not Available	544
Ga0105029_125975	Not Available	503
Ga0105029_126084	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	503

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105029_100099	Ga0105029_1000994	F003605	MAVGDQAQAAGYPIVPDTGEEGRVRWGALEINRTRDFLALVKALIPTGKAAYRTAGGISSGTADPSGGNDGDIYFKIIE*
Ga0105029_100896	Ga0105029_1008961	F085070	VTDGSCRSVLPAGSELTGGVAVVEALVLALPGRGSIDVVTGSA
Ga0105029_101086	Ga0105029_1010861	F091151	VRPGLDSRFLQVGPSSGPRLPREDWAGWHHIGGQDVELTFYRRRSYRIVFRTQF*
Ga0105029_103511	Ga0105029_1035112	F004253	MQDHGKQNGVSIKQLQPTVIPKRMRAASASFHYALAARWTAQRAAAELRR*
Ga0105029_103961	Ga0105029_1039611	F062397	MCMIGLRINMGFGPSFGLWPSSFFVLALDHGPRHFMLQNRQKTCKNKVPPKYMCKRENDQ
Ga0105029_104318	Ga0105029_1043181	F093512	MSKDDWKAVYAKDDDLKFTKAGGNKIRRTTTPPIFSSEMLDILLIE*
Ga0105029_104368	Ga0105029_1043682	F023376	RHVEACRCGSERRRLEALGYKFDAEQAMPTTAAVRSRQTPSQDYGLAGALLGYQLDADVSAPLRITLKTFFGAAVIALIVALVRYTHTEPLPTRENVQILRTLDEFTRSASTEAGNTIPTFISSNGRLGVLTATGEPQDLVRSLLESDLRQGFCSQSVVNQVRHEYPGFYDHWPNDKLERMVLEKYPEYADRVCVLSVRFDATATDVIKYELKPRTLAGHALLWLRTLVIAGAFALACLNIYYRLIVGRMLSPVGSVA*
Ga0105029_104439	Ga0105029_1044392	F044351	MQADRDRAVAHGGDIVRIDGKALRMDHMVRDAFWAGGQAIVLLDPGSFLDEPGGARKRPRDPLKNLRAYAPSGELAWEAEQPEHDDHYYLIESRDPLVALSFSAYRCDLDLASGRILAKTKLK*
Ga0105029_105208	Ga0105029_1052081	F000255	MGWIGCVRREKSWRDFVARAFALIALVHPVLHRVSCGYDTIPNAPKH
Ga0105029_105623	Ga0105029_1056231	F004068	MGVGQLHSLRQIRTRLLAQTFALIAPFQLILHRVSCSNEMVPNAPKHYETHQNKSLGSDGVDRVDLLQKILTQLCGLNFYINYNSLARFELSIVKQQNRPKCTQTLRNKTKHEFMVQWGGSGESIMKTLDTTSWYELLH*
Ga0105029_107288	Ga0105029_1072881	F028724	RDWREIQIQNQFQKIANFKCDYLDNGSDSEFTVKTKNAQFFMNFPNIYKLWQISLI*
Ga0105029_109732	Ga0105029_1097322	F076802	MPDPSFGAQYFDLPRPEQGMRIMGAYARRNMEDIDAIRRHTSQLEDGTAGIAYQMGLLGLAPPEQFNGGAFQQYYDQGYNAR
Ga0105029_109843	Ga0105029_1098431	F002578	MKAPDPLHWTLNSCFGAFRTIWVHLRPFGCPMKLGAKRFELVQKFVPRRCVGVFRDERTGSTPLDPKH
Ga0105029_110542	Ga0105029_1105422	F032552	MGLAISCSKIGQKPAKTKYLQNICANVKTTNNWAEVRMVSDFDIKFMPLSKLNRG*
Ga0105029_112676	Ga0105029_1126761	F000927	MGSGATNFMQATSKHKLSTEIFPDFIHLYSRGDKKIKNSKQLTKINSTESFTKDLVLKFLPETSHELNILQKIFQDLTHYDKLVIQLT*
Ga0105029_112816	Ga0105029_1128162	F001657	MGWIGSVRCEKS*HDIVARTFALIAPIDPVLYRVS*SYETITNASQHYATHQNMSFGSNVADWVHLLKKIPT*LRGTNFCINCTSSPRFAPSLMQL*NDPKQSQTLCNL*KHESRVQWSGLGAYCINCISSPCFASSLMQLRNNP*
Ga0105029_113037	Ga0105029_1130371	F004718	MFRYYMKLGAKRVELVQLMDKFVPLSRIGIFRNERTRSTPLDPELKYWFVS*
Ga0105029_113399	Ga0105029_1133991	F007513	VEVRETVVVTVLQQVVALPAVLLVVFSTAMDHVTEALEEVLRLHAFLAVVFVSHAVDG
Ga0105029_113698	Ga0105029_1136982	F040454	LEFKGASPRKILKPTEEEKGQAGRPRGVGPAGLLPVGLHFFGFFFCELFDASQDYVLPNFALDSTVLPSK*
Ga0105029_113882	Ga0105029_1138822	F032517	SLPFMNLSLSSSSIDKMVNPYSECLGLYGGGADDLVERRGGGGIPSVNLMEELLGSLIPPRSNMSLLGAGLSSSMLRGDSETECLREELADALDVNECVLLLLATNLMMPLMVTPCFTHSKTNTPGVSCRRENNISKSGIN*
Ga0105029_114069	Ga0105029_1140691	F004540	FGALHTVWVHLGSFRNSMKLDALGELVQLMQKYVPRSHAGIFCNERTQSATLDRKLIFWCVA*
Ga0105029_114649	Ga0105029_1146492	F086781	MRIYDIEFDIDSFLDEMEELQRARRQRQQQIHRSADLGAGSSDTSDLDD*
Ga0105029_115756	Ga0105029_1157562	F085746	SYMQLPSDPGALKLVYELTQSGPYQGKLGIRANLDVANVIGAVRVNLSL*
Ga0105029_116663	Ga0105029_1166632	F053045	VARTFVLIAPVHTVLHRISCSYDNITNAPKHYETYENMSLGSNGVDWVRSLQKILT*
Ga0105029_117079	Ga0105029_1170791	F032517	ADDLVECRGGGGIPLVNLMEELLGSLIPPRSSMSLLGAGLSSSMLRGDLETECLREELADASDVDERVLLLPVMNFMRPLMVTPCCTHSKTNTPGVSCRRENNISKSGTN*
Ga0105029_117910	Ga0105029_1179101	F053835	VHICDTPFVDGVGLVEYFCTHLIYICGFSSEEDPDFVVEDVE*
Ga0105029_117958	Ga0105029_1179581	F000392	PAQPTSLR*N*GIFAQTCSTHLEGPYRKDSSGAHPCRAIDCA*ESRIPSPCSLKAITHATGSKIGSSRSRWNRGTEYYPVGMKTHIEYPDIFF*KYNSPYHIEMGTYVLIDLL*AGGSVAPAQPTSLR*N*GIFAQTCSTCLEGPYRKYSSGAHPCRAIDLA*
Ga0105029_118891	Ga0105029_1188911	F059087	GVHISFTHPPSANRSPMGAVAFAIGLKLLVPTPGKNGFRAVKDTIE*
Ga0105029_119632	Ga0105029_1196321	F000698	GPFGCITKLGAHRALLVQKFVPRSHDGIFRNERTRSTPLATKLMFWCISYHWVHSGPFGCLTKLGAKRAELVQKFVPRSRGGLFRNERTRSIPVDPKLMFWYVSYYLGAFGTIWLCYETRCEPGRTGPKVRATKSRRNFSQRRHPIHPIGP*
Ga0105029_120520	Ga0105029_1205201	F004718	MFHYYTELGAKWVELVQLMDKFVPLSRIGIFRNEHTR
Ga0105029_120887	Ga0105029_1208871	F051618	MCQAIEDSGDLDKLGQGFTSAYPLEKVAIGDGTIPRPTFVNKNLSAE
Ga0105029_121251	Ga0105029_1212512	F093512	MTMSKDDWKAVYAKDDDLKLTQAEGKKIRRTTTPPIFSSEMLDILLIE*
Ga0105029_123652	Ga0105029_1236521	F029305	PLAPKLMFWCVSSRLGPFGTISLLHETQSKTGQTGAINATVRATMFC*
Ga0105029_125975	Ga0105029_1259751	F004472	VHLGPFGRLTKLGAKRAELAQKFVPRSRIGNFHNEQSTPLDPKLMFWCVSYYLVAFGTVRLP
Ga0105029_126084	Ga0105029_1260842	F073743	VGSDQIRFFVDSWAVAWSAVLLLGYVAELTPWPSLKALRADSVARMMLALSAAAVLGLTLAGAREPSAILAAWAIITSSVKFLYDSLGELW*
Ga0105029_126438	Ga0105029_1264381	F082022	VQKFVPRNRVGIFPNERTRSTPLDPKLTFWCVFHTIWVHSGLFGCLTKLGAKRAELVQMFVPRSRVRIFRNERTRSTPLDPKMTF*