3300002865: Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_4 (Metagenome Metatranscriptome, Counting Only)

Overview

Basic Information

• IMG/M Taxon OID: 3300002865
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0110115 | Gp0061276 | Ga0006761
• Sample Name: Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_4 (Metagenome Metatranscriptome, Counting Only)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7251602
• Sequencing Scaffolds: 33
• Novel Protein Genes: 41
• Associated Families: 34

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae	1
Not Available	27
All Organisms → cellular organisms → Eukaryota	1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → Candidatus Nitrososphaera gargensis	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Fungi incertae sedis → Mucoromycota → Glomeromycotina → Glomeromycetes → Diversisporales → Diversisporaceae → Diversispora → Diversispora epigaea	1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	2

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies
• Type: Host-Associated
• Taxonomy: Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa, For Root-Enhanced Decomposition Of Organic Matter Studies

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → rhizosphere → soil
• Earth Microbiome Project Ontology (EMPO): Host-associated → Plant → Plant rhizosphere

Location Information

• Location: Hopland, California, USA
• Coordinates
  • Lat. (^o): 38.97364
  • Long. (^o): -123.117453
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000344	Metagenome / Metatranscriptome	1257	Y
F001296	Metagenome / Metatranscriptome	728	Y
F002654	Metagenome / Metatranscriptome	539	Y
F003269	Metagenome / Metatranscriptome	496	Y
F005082	Metagenome / Metatranscriptome	412	Y
F008133	Metagenome / Metatranscriptome	338	Y
F013305	Metagenome / Metatranscriptome	272	Y
F014631	Metagenome / Metatranscriptome	261	Y
F015217	Metagenome / Metatranscriptome	256	Y
F018876	Metagenome / Metatranscriptome	232	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0006761J43178_100035	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae	826
Ga0006761J43178_100106	Not Available	520
Ga0006761J43178_100131	Not Available	767
Ga0006761J43178_100278	Not Available	599
Ga0006761J43178_100429	Not Available	1004
Ga0006761J43178_100718	Not Available	587
Ga0006761J43178_100939	Not Available	572
Ga0006761J43178_100984	Not Available	822
Ga0006761J43178_101081	Not Available	584
Ga0006761J43178_101294	Not Available	540

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006761J43178_100035	Ga0006761J43178_1000352	F076133	LSGVRPTGRFDPCADAVTPEGFGCYCADQNAVEIPGGTTPPKGPVRRTNGARKGVTTAGRERT*
Ga0006761J43178_100035	Ga0006761J43178_1000353	F000344	MRPKHPHAAESGVGKHTARESERVQACAAGKERVTNAHPHK
Ga0006761J43178_100106	Ga0006761J43178_1001061	F034588	SPVSPTISIRVAPDPHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASASTAGSMITPWLNRTLHPRLAPWMNLRYQSGTSIPYLTSSALLISIHCPQSADHEL*
Ga0006761J43178_100131	Ga0006761J43178_1001311	F083053	ACRELDGNSGLTGDAGLMETGSTLDAKAEGERPKEIETASSVGQGKLDPLDAKIHPRRKPEDAKFEDSRGFNIDPTVDAEAGQPGEA*
Ga0006761J43178_100278	Ga0006761J43178_1002781	F014631	MVPSDPLDGSLSDRHARPELGIRIGCDVGPLLPAAGLIQLRIVALVLVRSPFR*
Ga0006761J43178_100407	Ga0006761J43178_1004071	F056192	RFEGQRAKREVAELER*SAARWYVKTIATRRGVKADRATRYGKFLRLKSGRAL*SGRDRKVLKGSGSPNTSGELWERKLATGDSR*SSPAGRKKPGEAGSGKPNGSIEILRQL*RCRPGASTRPRGFAARQTFAAGE*KAASRSKLLPERRADEHQSYDPRLNKTGRGERRAHVTSDPDAKLRPCMPVGERAIHRVTWN
Ga0006761J43178_100429	Ga0006761J43178_1004291	F047514	CDVLNRSMPESSEAVPRGAREGDNMETRDRAGVKAGCNACFDARPGRESLMEKGRQHIDESHALFGCRC*
Ga0006761J43178_100718	Ga0006761J43178_1007181	F025923	EQSQRRGLKNATESTTGIIPGDRGKVGGSWCHPPLQTALAV*
Ga0006761J43178_100939	Ga0006761J43178_1009391	F026580	NHSELNQVARGSFELERIAVTQRVNGCYCASARADDSGGLAHKKRVVSQTKEAERQDKVSIRTGKETRPRQGA*
Ga0006761J43178_100939	Ga0006761J43178_1009392	F003269	VKTRIRIRRRVLTWFVSRWRNHQLKQAEKPHSKFSARKTLDGPATRPKTPLAVENSVGKLAAPQKGAPNA
Ga0006761J43178_100976	Ga0006761J43178_1009761	F100491	RARGTAGGIKTVPSDRQAACSPTGMHGPNVASGTGET*ALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPT*RLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLK
Ga0006761J43178_100984	Ga0006761J43178_1009842	F035116	VSAPGSQAGGATISRSELKSLLEIQPHEMLDGPATRPKTPLAVENSVGKPAAAREGVAPNVGVGKEIGELPSP
Ga0006761J43178_101081	Ga0006761J43178_1010811	F027071	PCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSMPLAPALANLRSKHKRQHGNAPSGQRINSLRNHFTGKRFASSLPLHQLSLTLRIKITGHFNKAKLNSTDTSLLAKLCISSANALASTLAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTLNRRDNSCKYCYLAEVIR
Ga0006761J43178_101294	Ga0006761J43178_1012942	F015217	VTKQDRRRIERVLTFLSLERAQTKPENTVVLSVITGTSVLAFTRVSEGAALALTGLA
Ga0006761J43178_101671	Ga0006761J43178_1016711	F001296	MEVAERRHPLQASEKPLRATGPGQKAVCGEPGSIDPKAEKYGVRGAERRNVRRFCLRCSMPCIPVESQAGNQVTWN
Ga0006761J43178_101955	Ga0006761J43178_1019551	F046210	VIVANIQMKNLKIEAEKGFRRTLFEPELVDPNLEINFVNDAGAALKSCNVNS*
Ga0006761J43178_102119	Ga0006761J43178_1021191	F018876	VPSARLSFGLPASFGSFVPTLDAWTKSPLSVECRLSSQAGEVTLRFRSAVLSSTEAVDAFAPLPLPVTSPVELRLASSFVRISFFGLAGDRFPFPLNAVAPAQPATKLLLLPNFASP
Ga0006761J43178_103384	Ga0006761J43178_1033841	F044324	KPEEPQARKLEREDHLGIDGRAGDGDTLWIIAAGHTQHRREKIVNGDDGNDVVEVIRAEPEGAGTHEGIRMFVGGNTTADVADPGLEQSFEVDASQAGVGSNTDRKAAPTARKQRVSTRDHGWPGGGSP*
Ga0006761J43178_103459	Ga0006761J43178_1034591	F076910	PRWLAGSVQTYQVSRAQGGRCRAIAAVPYVPKSSRTAGPTIGSRCVSTGAPPILGGQGDQQLTGSVHTYRVCRGTETLGPSSEITRLRRSRNPARAILLDLANDTDEHVRPGTPCPSGTGPSNLQVPRRRAIASIARSHRSTVATSTTPPPGGWGEAREHTRKDLTSGLAREGQGGVLPNGSAWHRASNP
Ga0006761J43178_103565	Ga0006761J43178_1035651	F029031	VHRTVNLVSGSGPGTLIRWRTNKMECQRGAKGNRAERKGELFAG*
Ga0006761J43178_103565	Ga0006761J43178_1035652	F013305	VKGRFEQPEPVRNSLQTGFRALIRRSTKRVAGSKEDSVRRFLAARLMPCMPAGVELFDESLG
Ga0006761J43178_103756	Ga0006761J43178_1037561	F038031	FSITYDGNVKSLPRTEVARDYNRYTTADGEFEVLISNNLRKPQNGIATVSFKLARYLPDPTPGDFSNPYRNVRNSFGFSYGFDAITRAEVSVDVPRLRATVNTLIDSAFQGRLLGGER*
Ga0006761J43178_104220	Ga0006761J43178_1042202	F066349	MRGKISVDNNETPLLSIDFKEDIIVDVKDTSIFELIETDNKTESKLSFWDIIKDARDFAEELKNKKLTIILNIKGKETLIIGEKAKPSISQILSKSK
Ga0006761J43178_104295	Ga0006761J43178_1042951	F038031	MFTDPFSVTYNSVALSLPRTEVAKDYNRYRTADGEFEIIISNNLRQARDGIANASIKLVRRLPDPTPSNVFDNYRDIRNLFGFTYSFDAQTRAEASVDVPRLRTALLALVDSTLQGRIIAGEK*
Ga0006761J43178_104532	Ga0006761J43178_1045321	F027071	SCPLIKRARKKSCSNPISCYQHSHSGIAALPCGGAVSSNATDYNIELKLTTTLLRKQLPLFVQRRHLPSMPLAPVLANLRSKHKRQQGNAPSGQRFDSLRNHFTGKRFASSLPLHQLLLPLRTKITGHFNKAKLNSTDTSLLAKLCISSANALANILAISNFTLLAKHQTAVPEEISFDLLGPRLTGHIATTGLLPYQSVTRSIQQPRTDELTPVNIAI*
Ga0006761J43178_104761	Ga0006761J43178_1047611	F092500	PGILIGGGILMIIGVILVVISINSLSSLSVSMPTDISTKSLIQSALNFNQTAVKETARTVGISLGLAFSGMLVATILIVNGIIALIAGMVIFFIDRRHKKLNSVHQHAGSPIG*
Ga0006761J43178_104907	Ga0006761J43178_1049071	F047514	DVLNRSMPESTEAVPRGAGEVDNIGTRSRAGVRIGCNAYSDARSGREFQMEKGRQHIR*
Ga0006761J43178_105006	Ga0006761J43178_1050061	F008133	FQVIWFPARSPPACTALSVAIKSAGRFACRLPYERFLRPQDRCFQTRRSLPLSRDRVARNGLSLTRNDCRLSTASIPGSKFQTCYFAPSRIGFRARSANWLCYRLPGLLPGYGRFHASGPLRFYHPVRLAALTVSTPPQEYYLLRDQSVQRRMPPAGPPGEFARFPFAPRHPPFQFGCRIIVPGSLRFRRLAVPQ
Ga0006761J43178_105213	Ga0006761J43178_1052131	F082288	RPNNKTKNMISFLVLSSILGMALASTNAILTAQTANAQFVAKIGGPDTDQVNSRIIGTLLKPGFTNQYNLTMNGKTVPIQYSVLDGSLVGILSDPSRKSLDLAVNPQANGAALEVNVPRHVIDSKNAAGKDAPFIVKVDGNRISGEPSGICVGTCPNILNSFKETYNTNTDRVLTVLVGPESRFIEIIGNHTSA*
Ga0006761J43178_105953	Ga0006761J43178_1059531	F066797	IYQIISSADLGGVATIQRKKSKFDTIFLATLKTEVAKVFMTTEIAHELVDPNPKDYEK*
Ga0006761J43178_106579	Ga0006761J43178_1065791	F076910	RCQARSVQTYQVFRAQAGECRAVATVPYVPKSSRTAGPLMVSRCVSTGAPPVLGGHGDRQLAGSVHTYRVCRGTETLGPSSEVTRLRRSRNPARAILLDLANDTDEHVRPGNPAPANGSPSSNRGRLEEKPITLKARPHRSTVAPITGPRLGGRGSKEAHQKWPDLGVAPRGEGSVLPNVLGAVTEQA
Ga0006761J43178_107868	Ga0006761J43178_1078681	F082288	NKTKNMMSFLVLSSILGIAIVSTNAILTAQTVNAQFVVKLGGPDTDQVNSRIVGTLLKPGFTNKYNLTVNGKTIPIDYSVLDGSLVGILSDPSTKSLDLAVNPQANGAALEVNVPRHVIDSKNAAGKDAPFIVKVDGNRISGEPSGICVGTCPNILNSFKETHSTNTDRVLTVLVGPESRFIEIIGNHTSA
Ga0006761J43178_107977	Ga0006761J43178_1079771	F094971	GTIAKRGEAKLRALIRSAIERSRGGERQANRTSGKAGFL*
Ga0006761J43178_108075	Ga0006761J43178_1080751	F002654	VLNYQTFNDKVVCQKGNSPEQVFKVPKFLLSESKEVFKLYNQEIGLEAAIF*
Ga0006761J43178_108230	Ga0006761J43178_1082302	F027763	MALTDPQSITISGTTTPLPRTFAQGNESSYESADRLWKLSLNHNLIKQGRTRHLLRFDHAKIAANPLEAGENVRVNMAVYTVFDVPPPGFYTSAEILAVYTGFKALYSASSDAVITKLIGGES*
Ga0006761J43178_109259	Ga0006761J43178_1092592	F096396	MKSLISLWSRTANELAVRCRTSATRDVKTVTSRTENEGLWFLAVTLASFGKATEKWLNQGFVDPWDAPKFARTKGHLTGRPAFLQGFLDRVFCPDSGALMDEPD
Ga0006761J43178_109432	Ga0006761J43178_1094321	F102579	PACRFPFEGFRPNPVARVMSPPRQLPLMGLLALQSIVCSRPARESGSSHPWAFPFPVSPSVFLRLPSPTTFAVGSSSRKLSLPCRVLPNRARSVAAVRRRRLPGGFVPLRDINQRRHIWSASPTSQTVPSSAFRTPSTVSSATGLVGLFHPTATYRVRSPRVFPPMKPYRLVDGPYPRRWRLPAVRRLPAVRHEPAPRLQ
Ga0006761J43178_110875	Ga0006761J43178_1108751	F005082	FKPAENVKVSMSHYMVFDVPPAGYTAAEALEVYKGFKTLYSSTSDAMIVKLLGGES*
Ga0006761J43178_110875	Ga0006761J43178_1108752	F096396	MKSLTSLWSCMSHELGMRCCTSTTRDITTVTRRTEHEGLSFLAITLADYGKVIQKWLDHGHVVPSDAPAFARKRGHLNGLPVFLQGFLGRVFDPCSGALLNEPDIEAIYALRQLTLGFSKIALP
Ga0006761J43178_120767	Ga0006761J43178_1207671	F043723	LSLITSDDLVRVLSGTFDLSVVPADKHKTIFLMASHCCLNGPVGTNKPTTFPMVVGTVSISGYVGARVSNNSWRSFCQDIAMILTRNYPNVVEASQQHKVAGGLWPIAKSISEVRVNK*
Ga0006761J43178_120904	Ga0006761J43178_1209041	F043723	FLSLIHSDDLVRVLSGTFDISQVPVEKHRGIFLMASHCCLNGPVGTNKPTTFPLLPGTISISGYIGNRVSNNSWRSFCQDIAGVLLRSFPNIVAESQQQKVAGGLWPIAKSISEVRK*VGFITPYFYICVL*VIWTRCYQKNSW*