Sample 3300009985

3300009985: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - LS_101 metaG

Overview

Basic Information
IMG/M Taxon OID	3300009985 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114297 \| Gp0127583 \| Ga0105036
Sample Name	Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - LS_101 metaG
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	36910399
Sequencing Scaffolds	33
Novel Protein Genes	35
Associated Families	33

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	3
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	2
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 sect. Hiantes → Panicum virgatum	6
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	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
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	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 → Phylloplane → Endophytes → Unclassified → Switchgrass Leaf → 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
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F000199	Metagenome / Metatranscriptome	1639	Y
F000255	Metagenome / Metatranscriptome	1449	Y
F000392	Metagenome / Metatranscriptome	1188	Y
F000492	Metagenome / Metatranscriptome	1078	Y
F001657	Metagenome / Metatranscriptome	655	Y
F003605	Metagenome / Metatranscriptome	477	Y
F004068	Metagenome / Metatranscriptome	454	Y
F007513	Metagenome / Metatranscriptome	349	Y
F011202	Metagenome / Metatranscriptome	293	Y
F014817	Metagenome / Metatranscriptome	259	Y
F017083	Metagenome / Metatranscriptome	242	Y
F017103	Metagenome / Metatranscriptome	242	Y
F017671	Metagenome	239	Y
F020484	Metagenome / Metatranscriptome	223	Y
F021701	Metagenome / Metatranscriptome	217	Y
F030332	Metagenome / Metatranscriptome	185	Y
F032517	Metagenome / Metatranscriptome	179	Y
F035610	Metagenome / Metatranscriptome	171	Y
F036567	Metagenome / Metatranscriptome	169	Y
F037522	Metagenome / Metatranscriptome	167	Y
F043726	Metagenome	155	Y
F046126	Metagenome / Metatranscriptome	151	Y
F048039	Metagenome / Metatranscriptome	148	Y
F051618	Metagenome / Metatranscriptome	143	Y
F051649	Metagenome / Metatranscriptome	143	Y
F055475	Metagenome / Metatranscriptome	138	Y
F056280	Metagenome / Metatranscriptome	137	Y
F057070	Metagenome / Metatranscriptome	136	Y
F057074	Metagenome / Metatranscriptome	136	Y
F067312	Metagenome / Metatranscriptome	125	Y
F068340	Metagenome / Metatranscriptome	124	Y
F072104	Metagenome / Metatranscriptome	121	N
F102417	Metagenome / Metatranscriptome	101	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0105036_100009	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	22621	Open in IMG/M
Ga0105036_100023	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	15065	Open in IMG/M
Ga0105036_100228	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes	4442	Open in IMG/M
Ga0105036_100441	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	3399	Open in IMG/M
Ga0105036_103529	Not Available	1329	Open in IMG/M
Ga0105036_103675	Not Available	1305	Open in IMG/M
Ga0105036_103713	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	1299	Open in IMG/M
Ga0105036_105072	Not Available	1130	Open in IMG/M
Ga0105036_108036	Not Available	912	Open in IMG/M
Ga0105036_108305	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta	898	Open in IMG/M
Ga0105036_108665	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	880	Open in IMG/M
Ga0105036_109264	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	853	Open in IMG/M
Ga0105036_110106	Not Available	818	Open in IMG/M
Ga0105036_111597	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	769	Open in IMG/M
Ga0105036_113873	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	708	Open in IMG/M
Ga0105036_113945	Not Available	707	Open in IMG/M
Ga0105036_116886	Not Available	650	Open in IMG/M
Ga0105036_117194	Not Available	645	Open in IMG/M
Ga0105036_117635	Not Available	637	Open in IMG/M
Ga0105036_118575	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	622	Open in IMG/M
Ga0105036_118583	Not Available	622	Open in IMG/M
Ga0105036_119604	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	606	Open in IMG/M
Ga0105036_119670	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → PACMAD clade → Panicoideae	605	Open in IMG/M
Ga0105036_120287	Not Available	596	Open in IMG/M
Ga0105036_121051	Not Available	586	Open in IMG/M
Ga0105036_121082	Not Available	586	Open in IMG/M
Ga0105036_122618	Not Available	566	Open in IMG/M
Ga0105036_123748	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	553	Open in IMG/M
Ga0105036_123974	Not Available	551	Open in IMG/M
Ga0105036_124998	Not Available	539	Open in IMG/M
Ga0105036_125004	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	539	Open in IMG/M
Ga0105036_127155	Not Available	517	Open in IMG/M
Ga0105036_127872	Not Available	510	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0105036_100009	Ga0105036_10000937	F003605	MAVGDQAQAAGYPIVPDTGEEGRVRWGALEINRTRDFLALVKALIPTGKSAYRTAGGISSGTANPSGGNDGDIYFKIIE*
Ga0105036_100023	Ga0105036_1000237	F003605	VAVGDAAAAAGLPLVPDEGPDGSGGKVKEGANEINRTRDMIAALLGLIPQSKSQYRTAAGISSGTAEPAGGVDGDIYFKILP*
Ga0105036_100228	Ga0105036_1002282	F003605	MAVGDDATTAGYPLVPDSGEEGRVRWGSREINRTRDFIAQVKALLPVGKEAYRQASGITSGTTDPQRGNDGDVYFKIIT*
Ga0105036_100441	Ga0105036_1004413	F036567	VICKKLKAAASSNFYPLFLSDLAPELNTKVVPNFIGNLLAKFQPKRIGIAGDNRKLQKLCFL*
Ga0105036_103529	Ga0105036_1035291	F020484	MARTLDVARSEIRRDRLQRWGEMDITLLFGINFGRMRTHWKGKFVHFAMEQCFSTSSVMEIERKIREDAAAMRQQGIEGGDDDVKQ*
Ga0105036_103675	Ga0105036_1036751	F004068	MGWIGCVRCENIQRDFVAQTFALIAPVQPILHRVSCSNKMVSNAPKPYETQQNMSLGSDGMDSVDLLQKILTQLCGLNFCINYNSSARFEASIVKQRNGPKCTQTLRNKTKHEFRVQWGGSGAFVLKNFEMTSWHELMH*
Ga0105036_103713	Ga0105036_1037131	F051618	MCEAIEDSGDLDKLGQGFASADPLEKVDIGDGTIPRPTFVNKNLSVEYKADLVNL
Ga0105036_105072	Ga0105036_1050722	F021701	YQRIPGNPLVGPTFLHTVSGADFVALGLAGEATLFAWPLTRPDSTGVAVVAEIHCHFHNRSHQAFRVYDQPSVIMEDIH*
Ga0105036_108036	Ga0105036_1080361	F017103	MARTSALFAPVWRILQQVSRSSKMVPNARERKEMHKNMSLGSNGVDRERSLRKILTRHRGTNFCINCTSLARFAPSFVQ*
Ga0105036_108305	Ga0105036_1083051	F055475	TPMDTNNTPQVDIQGQITRARARQLNLQVSSFLSNYSREFENSLLPNDLIVLRNKGEDQQGCGEGLGGVEDQQGRPDQDGGPNRFDFVSVSDSRNRPH*
Ga0105036_108665	Ga0105036_1086652	F056280	MAFLLCYQGFPPQRFFYHRWHISRCPGGGDLGIDSDGGSRCGTLRYGVLLLTGT*
Ga0105036_109264	Ga0105036_1092642	F007513	VEDRETVVFTVLQWVVALPVVLLVVLSTAMDHGTEALEEVLRLHAFLAVVFVSHAVDGTGDTICQVLLIPL*
Ga0105036_110106	Ga0105036_1101061	F035610	MHESTIYLITLIELFVHIDREKHSLRVLTPRETTKDKLANMLVSKSQAIE*
Ga0105036_111597	Ga0105036_1115972	F051649	MLLPDLAKEIEPKLENNSSSTQTQIDLKPKSTRIGTLIAQPVFGLRNSSSVYKQMIRSFYENSLDRLLHVEDQSATASREAPVFDVYPDPVESPQDSLDFITKALAKMQLKSCRDHTLAELLDNL*
Ga0105036_112978	Ga0105036_1129781	F067312	CRNFSQQTTRSTPLGPNLMFRCISYYLGAFGTVCCVTTLSSKRAKPVQKFLPRNRVAIFRNERTSTPLDSKLMFWCVSYYLGAFGTVWLPYKTRCKSGSGAKLRAMKSCRNLSQQTTRSTPLDPVFRCISHYLGAFGTVCCVTTLSSKRAKLMQKFVP*SRVGIFRNKHIQSTLLDPYLMFRCISYYFGAFGTVCCVTTLSSKRAKLVQKFMPRCRVGNFRNKRTQSTPLDSKLMFWCVLY
Ga0105036_113873	Ga0105036_1138731	F032517	MVNPYSECLGLYGGGADDLVERRGGGGIPSVNLMEELLGSLIPPRSNMSLLGAGLSSSMLRGDSETECLREELADASDVDEHVLLLPVTNLMMPLMVTPCCTHSKTNTPGVSCRRKNN
Ga0105036_113945	Ga0105036_1139451	F017083	VCGSVIMKIVFKVIGCSCYSCLPQTAPIAAQTDLKTAAPGTGTGAPQMDQRLLTNTWPKQCTKIKHTSKH*
Ga0105036_116886	Ga0105036_1168861	F046126	NEMVPNAPKHYETHQNKSLGSDGVDRVDLLQKILTQLCGLNFYINYNSLARFELSIVKQQNRPKCTQTLRNKTKHEFMVQWGGSGESIMKTLDTTSWHELLH*
Ga0105036_117194	Ga0105036_1171941	F000199	KLTFWCVRTIRVHSGLFGSLTKLDAKQAELVQKFALGSRVGIFRIERTRSTPLDPKLTFWWVSNYLGAFGTVWLPYETRRKTGRTSAKVCDTKSHRNFSQRTQLIHPFGP*
Ga0105036_117635	Ga0105036_1176351	F000492	MKLGAQRCELVQLMQKFVPRSHVGIFFNERTQSAQLDPKQCFGALHSGGMHLGSFRSCMK
Ga0105036_118575	Ga0105036_1185751	F048039	SGEVIKKFNLPSFQPLTEAQFESKMIDAIGQAVAQAFIKSATVMGNTMHNAVVKTFAEGTLPGCMGPYYIQPDQMQYTPLEVCMAPALSAQDSQTGTSNSQTPPQMTTAALAGTADPIYSTMLPIATTVQDGSASVFPKGWNPATGYGMHPDFFSMPPKILFSASASQPIASQPDPSAVQPMSAQQDASTTQLNAQDAWSP*
Ga0105036_118583	Ga0105036_1185831	F068340	LNAPNHEFRVQWGGSGAFVAKSSRCDFIEQTCPLIAPVQYVLHQLSTYKTIPNPPKYYETHNISLGSNGVDWVHSLRKISTHCGTNFCINCSSSSCFAPSFMQLRNDPKCTQTLITPKHEFRVQWGGLGAFVAKNTMFRGTNFCINTSSVCFETSFMQLQNDAKCTQILRNAPKH
Ga0105036_119604	Ga0105036_1196041	F057074	SSSMLRGDSETECLREELADASDVDERVLLLPAMNFMRPLMVTPCCTHSKTNTPGVSCRREINISKSGTN*
Ga0105036_119670	Ga0105036_1196701	F072104	VPDLSVSRDKFDLAEDDPHDPTTTSEPEAPMQSLNQLPVVTDLVDARSA*
Ga0105036_120287	Ga0105036_1202872	F057070	LDPVFDLAKYEKQVCLQILHTYSSTKKIAIKDWLRKKGIIKSLGEELYTLSDPRDHPRNFINFF*
Ga0105036_121051	Ga0105036_1210511	F043726	MFNYYTKLGAKWVELVQLMDKFVPLSRIGIFRNEHTRANPLDPKLKYWLVSYYLGAFWICFVIARNSLQNGLN*
Ga0105036_121082	Ga0105036_1210821	F001657	FCIKFHAVTKSQMHPNTMQRTKTGVYGPMGWIGCVRCEKSRCEFMARTFVLIAPVHTVFTEFYAVTKTIIDEPKHYETYQNMTLGSNGVDWVCSLRKIPTLRGTNFCINCTSPRFAPSFMQLRNDHKCSQTLFNAPKHESRVYWGGLGAFVAKNPDVTSWHELLH
Ga0105036_122618	Ga0105036_1226181	F000255	RRDFVARTYAINAPVDPILQRVSGSYETIPNAAKHYETHQNMSLGSNVDWVRSLKIMTRLRDTNFYIKITAV*
Ga0105036_123047	Ga0105036_1230471	F102417	MSAEQKELGDSAMGDGVHATVSVEQSITIQDQSSQTTYHLKNGEKTCPCCQFYDVPCRQ
Ga0105036_123748	Ga0105036_1237481	F030332	MDLREQLAALFLGNAPHEDTVGATAVEIPFYHRVAFSQPDYALSGHIVIREDVIFQVVPDLGDPCIGSSLSRWVWPCEVTRILNRAHGPS*
Ga0105036_123974	Ga0105036_1239742	F014817	LVRFRSVWVHLSMFRYYMKLVAKWVELVQLMHKYVP*
Ga0105036_124998	Ga0105036_1249981	F011202	GALRTIWVHSGPLGCLTKLGEKWAELVPKFVPECRFGIFCNERTRSTPLDPKLMFWGISYYLGAFRAAWLPYKTR*
Ga0105036_125004	Ga0105036_1250041	F037522	MLSRGSVLHLTLPVDRVTRRRYRMAQDSDDPLFIINIIVWVWVVILSIVALLY
Ga0105036_127155	Ga0105036_1271551	F017671	VFVGTGIGLTGNAIEEAVGTIEETPSVFVEQAIGNHFSDALRVRFSGAYGLDYNKEVFAAFGYGRYNGTERLVGSVGGFPLFARFSNADAFDIEGGLRYYFLPEGPTRTYAAGVIGLRFLQETDVTFRVPEIGLTLADRPYFESSALFLFGGDAGISQDISDQVAIGAELGL
Ga0105036_127872	Ga0105036_1278721	F000392	KYKSPYHIEMGTYVLIDLLAGGSVAPSQPTSLRNAIFAQTCSTCLEGPYRKDSSSAHPCRAIDRAEPRIPSPCSLKAITHATGSKIGSSRSRWNRGTEYYPVGMKTHIEYPDIFFKYNSPYHIEMGTYVLIDLLEGGSVAPAQPTSLRNVIFSQTCSTCLE

Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300009985: Switchgrass associated microbial communities from Austin, Texas, USA, to study host-microbe interactions - LS_101 metaG

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences