3300009993: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_106 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300009993
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114297 | Gp0127575 | Ga0105028
• Sample Name: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_106 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 57889147
• Sequencing Scaffolds: 26
• Novel Protein Genes: 33
• Associated Families: 29

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
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	2
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	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	2
Not Available	17
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	2
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Anthephorinae → Digitaria → Digitaria exilis	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Oryzinae → Oryza → Oryza sativa	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 → Unclassified → Unclassified → Unclassified → Switchgrass Associated → 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: 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?
F000199	Metagenome / Metatranscriptome	1639	Y
F000255	Metagenome / Metatranscriptome	1449	Y
F000492	Metagenome / Metatranscriptome	1078	Y
F000698	Metagenome / Metatranscriptome	930	Y
F000770	Metagenome / Metatranscriptome	897	Y
F000927	Metagenome / Metatranscriptome	831	Y
F004718	Metagenome / Metatranscriptome	426	Y
F007513	Metagenome / Metatranscriptome	349	Y
F012546	Metagenome / Metatranscriptome	279	Y
F019205	Metagenome / Metatranscriptome	231	Y
F028677	Metagenome / Metatranscriptome	190	Y
F030963	Metagenome / Metatranscriptome	183	Y
F032517	Metagenome / Metatranscriptome	179	Y
F032552	Metagenome / Metatranscriptome	179	Y
F037084	Metagenome	168	Y
F040424	Metagenome / Metatranscriptome	161	Y
F046126	Metagenome / Metatranscriptome	151	Y
F053045	Metagenome / Metatranscriptome	141	Y
F055475	Metagenome / Metatranscriptome	138	Y
F061504	Metagenome / Metatranscriptome	131	N
F065367	Metagenome / Metatranscriptome	127	N
F067314	Metagenome / Metatranscriptome	125	Y
F068375	Metagenome / Metatranscriptome	124	Y
F072997	Metagenome	120	Y
F076802	Metagenome / Metatranscriptome	117	N
F079533	Metagenome / Metatranscriptome	115	N
F089797	Metagenome	108	Y
F103562	Metagenome / Metatranscriptome	101	N
F104353	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105028_103661	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	1605
Ga0105028_106380	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	1231
Ga0105028_107552	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	1136
Ga0105028_107625	Not Available	1131
Ga0105028_108817	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	1055
Ga0105028_109947	Not Available	996
Ga0105028_116363	Not Available	793
Ga0105028_117381	Not Available	771
Ga0105028_117899	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae → Panicodae → Paniceae → Anthephorinae → Digitaria → Digitaria exilis	761
Ga0105028_121114	Not Available	707
Ga0105028_121793	Not Available	697
Ga0105028_125144	Not Available	656
Ga0105028_125784	Not Available	650
Ga0105028_126376	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	644
Ga0105028_128111	Not Available	625
Ga0105028_129407	Not Available	611
Ga0105028_129665	Not Available	608
Ga0105028_133204	Not Available	577
Ga0105028_133313	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	576
Ga0105028_133759	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Oryzoideae → Oryzeae → Oryzinae → Oryza → Oryza sativa	572
Ga0105028_134265	Not Available	568
Ga0105028_137978	Not Available	542
Ga0105028_138649	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae	537
Ga0105028_140088	Not Available	528
Ga0105028_141920	Not Available	516
Ga0105028_142574	Not Available	512

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105028_103661	Ga0105028_1036612	F032517	MNLSLSSSSFDKIINPYSEFLGLYGGGADDLVERRGGGGIPSVNLMEELLGSLIPPRSNMSLLGAGLSSSMLRGVSETECLREELADASDVDECVLLLPAMNFMRSLMVTPCCTHSKTNTPGVSCRRENNISKSGTN*
Ga0105028_106380	Ga0105028_1063802	F076802	MPDPSFGAQYFDLPQPKQGMRIMGAYARRNMEDIDAIRRHTTQLEDGTAGITYQMGLLGLAPPEQFNGGTFQQYYDQGYNARANQGD*
Ga0105028_107552	Ga0105028_1075521	F007513	VEVRETVVVTVLQQVVALPAVLLVVFSTAMDHGTKALDEVSRHHAFLAVVFVSHAVDGTRDTLCLVLLTLL*
Ga0105028_107625	Ga0105028_1076251	F019205	KTDMTGRLTDAVDLVIDFATLGEYGLEPVDRPAPPCEGRRRSGSLRSTGAWSAAVDRFATH*
Ga0105028_108817	Ga0105028_1088171	F061504	MENPSLNISLLCLAPKHLDLILWALSFGLHWRVDVHERASNHHGLRSFVRALAFVFLRVIA*
Ga0105028_109947	Ga0105028_1099471	F103562	DAFERLAGLFKKGTAHQDYPTSEVFEGPLASTSRAYDVEGIPLEQHVSVYHSGRSDEVLPKEPEVKHAEPEGESFVGKLTGLFKRGTAHQDYPTTEVYEGPLASTSRAYEVDGIPLEQHVTVYHSGRSDEVAPKEEPAPKEPSSDAFARLAGLFKKGTAHQDYPTSEVFEGPLATTSRAYDVEGIPLEQHVSVYHSGRSDEVLPKEAEVKHVEPEREPGESFVDRLTGLFKRGAAHQDYPTSEVYEGPLASTSRAYEVEGIPLEQHVTAYHSGRSDEVLPKEEPVAKEPSKDAFERLAGLFKKGTAHQDYPTSEVFEGPLASTSRAYDVEG
Ga0105028_111298	Ga0105028_1112981	F000770	VSSINETLPNAPKHYETHKNMSLGINWVDRVRSF*
Ga0105028_116088	Ga0105028_1160881	F072997	SLGSDAVDWADLLHRILLQLCGLNFCFNCNSSA*FEPSIVNQRNGPKCTQTLRNKTKHDFRFQWGWISCIRCEKFGHDFVA*TFALIAPVQPILHRVSCSNEMVPNASKHYETQQKLSLGSNGVDQVHSLQKLPTQVRGTIF*INWTISAHFALSLLP*
Ga0105028_116363	Ga0105028_1163631	F012546	MGSSLALSCNIRSFVIELDYVYRYLLEVYSELSSICFLSWLHYYSMISLHNCPALEIVSLLFLELYQLFQYSY
Ga0105028_117381	Ga0105028_1173811	F068375	MTQSEEIMLQVDNKDKEGVVHGFWMVQSIKDVLDRGKESHQEVTRER*
Ga0105028_117899	Ga0105028_1178991	F040424	LKSFECDKEVIDHASTIRVPSSVSEILAAAKELSLKEPMPSKKPSQSSVKPTNGVGTKTIQLQEGDDSKTAIIGAGLGDK*
Ga0105028_121114	Ga0105028_1211141	F065367	MSAEQKDLGDSAMGDGEKTCQCCQFYGVPCRQVRATEDEATTRRNQRLFSSTKRKRSRQEQLAEDSLFLDGPSVNELQTIQKRKDPEYSADT
Ga0105028_121793	Ga0105028_1217931	F079533	STQLVLNKYNTNYEALRLADSTALAFKSWQNFIKANYYKLMNYHKPSYIVINQN*
Ga0105028_125144	Ga0105028_1251442	F037084	MGWIGCIRCEKSRRDIVARTFALIAPVHPVLHQVSCSYETIPNAPKHYETHQNMSLRSNGVDQVRSLRKIQCDFVARTFVLIEPVQYVLKQVSCSYGTIPNAPKYY
Ga0105028_125784	Ga0105028_1257841	F089797	MVPNAPKHYETHQNKSLGSDGVDRVDLLQKILTQLCGLNFYI
Ga0105028_125784	Ga0105028_1257842	F046126	PNAPKHYETHQNKSLGSDGVDRVDLLQKILTQLCGLNFYINYNSLARFELSIVKQQNRPKCTQTLRNKTKHEFMVQWGGSGESIMKTLDTTSWHELLH*
Ga0105028_125807	Ga0105028_1258071	F072997	SLGSDAVDWADLLHRILLQLCGLNFCFNCNSSA*FEPSIVKQRNGPKCTQTL*NKTKHDFRFQWGWVSCIRCEKFGHDFVP*TFALIAPVQPILHRVSCSNEMVPDAPKHYETQQKMSLGSNWVDWVRSL*KHQTRLCGTNFCINCTSSANFAPSLLS*
Ga0105028_126376	Ga0105028_1263762	F030963	AGAGFLITRLVIIFFFLVKTRGAMLAEVCLRLEADCSKSG*
Ga0105028_128111	Ga0105028_1281111	F053045	VARTFALIALVHPVLHRVSYSYVTIPNAPKHYETHQNKSLGSDGVDRVDLLQKILTQLCGLNFYI
Ga0105028_129407	Ga0105028_1294071	F000492	HYCTKLGAKRAELVQLTQKFLPRGRIRIFRNERTLSTPLDP*
Ga0105028_129407	Ga0105028_1294072	F000199	MFLIIWAHLGPFGFLTEFGAKRAELVQKFVPRSRIGIFHNKSTRSTPLDPELIFLRISYHLGAFGTIWLPYETRCNTGRTSAKVRATKTHRNFSQQTHTIYP
Ga0105028_129665	Ga0105028_1296651	F000698	FLCVRTIFVHLGLFSLLLKLGAKRAELVQKFVPRNRFGIFPNKRTRSTPLDSKLMFWCVFRTIWVHSGPFGCLTKLSGKRAELVQKFVPRSCVRIFRNEHTRSTPFVPKLTFWCISYHLGVFGTVWLPYETRWKTGRTSAKVRATKSRRNFSQRTHPIHSIGP*
Ga0105028_133204	Ga0105028_1332041	F067314	VVPHLWVKLHTSAELKPIRIVVPTVLGELRFGHITSFWDEWFHGVMFWKVSG
Ga0105028_133313	Ga0105028_1333131	F104353	VLGVGVGSGVYELEPPREWDELLPVIFLNAPETFRPMPFMMERKQVQLETGYVRKTELNVLTRELLLLSCSKAMRERGLLNSNLEQKFNENPRAKFKRV*
Ga0105028_133759	Ga0105028_1337591	F055475	GPITRARARQLNLQVSSFLSNVYCESENRLLPNDLIVLRNKGEDQQGCGEGLGGVEDQQGRPDQDGGPNRFDFVSVSDSRNRPH*
Ga0105028_134265	Ga0105028_1342651	F000492	MKLGAKRVELVQLMQKFVPRSHVVIFRNERT*STPLDHKLMF
Ga0105028_137978	Ga0105028_1379781	F000255	MGWIGCVRCKNSRRDFEAGAFALIALVHPVLHRVSCGYETIPNAPKHYAM
Ga0105028_138649	Ga0105028_1386491	F032552	MIVGLAISCSKIGQKPAKTKYLQNICANAKTTNNRAEVRMVSDFDIKCMPLSKLNRG*
Ga0105028_139374	Ga0105028_1393741	F028677	MNAPDPPHWTLNSCFGVYCTIWMYLEPFGCLTKLGAKRAEVV
Ga0105028_140088	Ga0105028_1400881	F000199	RFGAFHTILVHLRPFGCLTELSAKRDELVQKFVPRSRVGIFRNKRTRSSPMDPKLMFWCVSYRLGALGIVRLPYETRCKTGRTSAKVRATKSHQNF*
Ga0105028_141920	Ga0105028_1419201	F004718	AFCSVSVHLAMFRYYTELGAKWVELVQLMKKFMPRNRIRVFRNERTRSTPLDAKLMNWCVL*
Ga0105028_141920	Ga0105028_1419202	F004718	MFHYYMKLGAKRVELVQLMKKFVPQNRIVVFCNERTRSTPLDAK
Ga0105028_142574	Ga0105028_1425741	F000927	MGSGATNFMGATSKHILSTEIFPDFIHLYSRGDKKIKNSKPLTKIKSTESFTKDLVLKFLPETSPELNILQKIFQDLTHYDKLVIQLI*