3300009988: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_233 metaG

Overview

Basic Information

• IMG/M Taxon OID: 3300009988
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114297 | Gp0127582 | Ga0105035
• Sample Name: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - RS_233 metaG
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 40344473
• Sequencing Scaffolds: 24
• Novel Protein Genes: 25
• Associated Families: 24

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	18
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 miliaceum	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	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella soli	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 → Anthephorinae → Digitaria → Digitaria exilis	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?
F000330	Metagenome / Metatranscriptome	1285	Y
F000492	Metagenome / Metatranscriptome	1078	Y
F001266	Metagenome / Metatranscriptome	734	Y
F004539	Metagenome / Metatranscriptome	433	Y
F006253	Metagenome / Metatranscriptome	377	Y
F012755	Metagenome / Metatranscriptome	277	Y
F013855	Metagenome / Metatranscriptome	267	Y
F015908	Metagenome / Metatranscriptome	251	Y
F020484	Metagenome / Metatranscriptome	223	Y
F034784	Metagenome / Metatranscriptome	173	Y
F036567	Metagenome / Metatranscriptome	169	Y
F038521	Metagenome / Metatranscriptome	165	Y
F040454	Metagenome / Metatranscriptome	161	N
F044252	Metagenome / Metatranscriptome	154	Y
F047460	Metagenome / Metatranscriptome	149	Y
F062397	Metagenome / Metatranscriptome	130	Y
F065366	Metagenome / Metatranscriptome	127	Y
F068340	Metagenome / Metatranscriptome	124	Y
F080773	Metagenome / Metatranscriptome	114	Y
F080955	Metagenome / Metatranscriptome	114	Y
F082073	Metagenome / Metatranscriptome	113	Y
F086473	Metagenome / Metatranscriptome	110	N
F086518	Metagenome / Metatranscriptome	110	Y
F105532	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0105035_100607	Not Available	2220
Ga0105035_101091	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 miliaceum	1807
Ga0105035_104528	Not Available	1104
Ga0105035_107237	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	931
Ga0105035_108367	Not Available	883
Ga0105035_109341	Not Available	849
Ga0105035_109553	Not Available	842
Ga0105035_110089	Not Available	826
Ga0105035_111045	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella soli	797
Ga0105035_112373	Not Available	762
Ga0105035_113739	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	734
Ga0105035_118150	Not Available	659
Ga0105035_119902	Not Available	636
Ga0105035_120309	Not Available	630
Ga0105035_120827	Not Available	623
Ga0105035_122541	Not Available	602
Ga0105035_123621	Not Available	590
Ga0105035_124862	Not Available	576
Ga0105035_126160	Not Available	563
Ga0105035_126239	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	563
Ga0105035_128738	Not Available	540
Ga0105035_129981	Not Available	529
Ga0105035_131239	Not Available	519
Ga0105035_133367	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	502

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105035_100607	Ga0105035_1006071	F062397	LGGWMCMNVLRINMGLGPSFGLWPSSFPVLALDHGPRHFMLQNRPKTCKNEVPPKYMCKCENG*
Ga0105035_101091	Ga0105035_1010912	F036567	VICEKLKAAASSNFYPLFLSDLAPELNTKVVPNFIVEMLTKFQLKRMSIAGDNRKLQKLCFL*
Ga0105035_104528	Ga0105035_1045281	F086518	VRAIYKPRKPPVEGVAQPPLKWARPAGLMGLGWPAYPLSVLPRSPLSRVDSSHLLEFMSFTIAPLWTSLSWRYLQRKDRIGNPSLNLYLLCLIPKYLDLIFVGLVLWALLEEWASNQHGLWSFLWALAFVFLRVGARSR
Ga0105035_104543	Ga0105035_1045431	F105532	MDWEDFQRDHHRPHLLVVSVEPTTAPELPVVKADVERLAVRLGAIGNYAIKAEGITIHAAFEDKGDAERFAEVFRPKQITRESEWASKAWARMDGAALQRIADILGGVRLTTKRRRFSPR
Ga0105035_107237	Ga0105035_1072372	F065366	MFVVQLLVPSGGRWKSSMDVTVVVELASRIQDLVQNESGELLAHGVDPISRVTFIPHLRHLSFRKKALTLCALVQL*
Ga0105035_108367	Ga0105035_1083671	F086473	MFKNLSSTTTHHDLSKFIDTDGASHKVMISNTTPSVVLILITESKQAIPIELASDRQSLDFYRSYKLSNYSNSGL
Ga0105035_109341	Ga0105035_1093411	F080773	MSSSLALSCNIRSFVIELDYGYRYLLEVCSELSDICFLIWLRYYSMLALHDR
Ga0105035_109553	Ga0105035_1095531	F013855	MGSIGCVRCENIRRDFVARTFALIAPVRPILHRVYCRNKMLPNAPKHYETHHNMSLGSDAVDWADLLKRFLLQLFGLNFCFNCNSSA*FEPSIVKQ*NSPKWTQTQRNKTKHDFRFQWGWISCIRCEKFGNDFVA*TFALIALVQPISHRVSCSNEMVPNAPKHYET*
Ga0105035_110089	Ga0105035_1100891	F020484	MAKTLDAARSEIRNRLQRWDKMDITLLFGINFGRIRTRWKEKFVHFAMEQCFSICSVLEIKIKIREDEAAMGQ*
Ga0105035_111045	Ga0105035_1110451	F015908	VLATQAQAESRTYCLEVIPEKSVQACGVGCGPTYTVDVSSGVLTLGVNHARRLFSEPVKSDGTIYVRYRDPSGATLKFIGHGNGEYQISNAGNSCNYRFVPTVGKPPWNS*
Ga0105035_112373	Ga0105035_1123731	F040454	LEFRGASPRERLKPIEEEKGQASRPRGVEPAGLLPVGLHFFGFFCCELFDASQAYVLLNFALDSTVFPSK*
Ga0105035_113739	Ga0105035_1137392	F082073	PSSVSEILTAAKELLLKESMPSKKPSQSTVKPTNGVGTKTIQLQEGDDSKTAIIIAELGDK*
Ga0105035_118150	Ga0105035_1181501	F000492	QGELVQLMQKFVPRSHVGIFPNKRTQSTTVDPKLMFWCIA*
Ga0105035_119902	Ga0105035_1199021	F006253	MLLRKLDAKRAKLVQLMQKFVPRCLIRFFGTNAPDPQHWTLNSCSGAFLSIWVHLEPFRYCTKLGAKRAKLVQLMQKFVPRCLVRNFRNECSRSTPLEPKLMFCCVSFRLGAFGTVLLLHETWCKTRQTGAINAKVRAAMS
Ga0105035_120309	Ga0105035_1203091	F001266	MHSGPFGYLTKLGAKRAELVQKFVPRSRVGIFRNERTR
Ga0105035_120827	Ga0105035_1208271	F044252	VFFAKNSDATLWHKLCALIAPVQPVLNRVSCSNETLTNAPKHYENALKHEFTVEWGGSRAFVAKNSDASSCHELLY*
Ga0105035_122541	Ga0105035_1225411	F047460	LMFLLHFVMFGCIYDCFVTALNSVQMGQSGAINAKVRATKSRRDFLQ*
Ga0105035_123621	Ga0105035_1236211	F068340	MEWIGCDGCEKSRCDFVARTFALIAPVHPILHRVSCSYKTIRNAPKHYERLQNMSLGSNWVDQVCLLAKITT*LRGTNFCINCTSSVCFAPSFMQLRNNPKCTQILQNILKHYFRVQWGGSGAFVAKNTM*LCGTNFCIN*TSSVCFETSFL
Ga0105035_124862	Ga0105035_1248621	F086518	VDGCRELNKVRAIYEPRKPPVEGEAEPPRKRARPAGPIGLGRPAYPLSGSPRSHLSRADSSHLLEFMSFTIAPLWTPLSWRYLRGKDRIGNPSLNLHLLCLIPKYLDLIFVGLVPWALLEDGCA
Ga0105035_126160	Ga0105035_1261601	F004539	VRTGFGVHTMHRFMLPKLRLVFSQRTCPIHFLRPKTKFLGGFARFRYREVPVVRSGFWVHTMHHFVLPKLRLVFSQRTCPMHFFRPKTKFLGGFARFRCREVPVVRSGLGAHTMHHFMLPKLRLIFSQQTCRIHFLRPKTKF*
Ga0105035_126239	Ga0105035_1262391	F034784	PLRFDGTGFQRWKILMQSHLQAKGLNVWRVTSEGTKSNSQQEKQYDAIAKCAILNSLGENVFNRVFACENTNVLWKTISENHEGTKDVANERYHVLIDKLNSFKQLDHENAKLCTHG*
Ga0105035_128738	Ga0105035_1287381	F000330	MSLGSNGVDRVRSLQTIPTRLRGTNFCTISARLAPNLVTQPNGPQCTKIVRNAPKHEFRVQWNGSGVIV
Ga0105035_129981	Ga0105035_1299811	F080955	MNFFGEELKHWTPPSKKKFKEKAIIKFSKNKKKLATNVVFPRISSIFDPQAIFSVELLPGGGQAHHKMDCILTPAFIGSRCRIRGARQHPAKQST*
Ga0105035_131239	Ga0105035_1312391	F038521	MTAQELQGKRANGLSEKTNFGAKIALSQLIDGAARKTYSGTQVIQGPCFLDA*
Ga0105035_133367	Ga0105035_1333671	F012755	DPCQSFGITSLLFSGYTISLTGRVLGEQRGGAAEILSRMVVDHEN*