Sample 3300002870

Basic Information
IMG/M Taxon OID	3300002870 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0110115 \| Gp0061278 \| Ga0006763
Sample Name	Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_6 (Metagenome Metatranscriptome, Counting Only)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Basic Information

IMG/M Taxon OID

3300002870 Open in IMG/M

GOLD Reference
(Study | Sequencing Project | Analysis Project)

Gs0110115 | Gp0061278 | Ga0006763

Sample Name

Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_6 (Metagenome Metatranscriptome, Counting Only)

Sequencing Status

Permanent Draft

Sequencing Center

DOE Joint Genome Institute (JGI)

Published?

Use Policy

Open

Dataset Contents
Total Genome Size	8290812
Sequencing Scaffolds	22
Novel Protein Genes	24
Associated Families	22

Dataset Contents

Total Genome Size

8290812

Sequencing Scaffolds

Novel Protein Genes

Associated Families

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
Not Available	16
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa	1
All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Rhabditina → Rhabditomorpha → Rhabditoidea → Rhabditidae → Peloderinae → Caenorhabditis → Caenorhabditis elegans	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Pectobacteriaceae → Pectobacterium → Pectobacterium brasiliense	1

Dataset Phylogeny

Taxonomy Groups

Number of Scaffolds

All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium

Not Available

All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila

All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa

All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.

All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Rhabditina → Rhabditomorpha → Rhabditoidea → Rhabditidae → Peloderinae → Caenorhabditis → Caenorhabditis elegans

All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Pectobacteriaceae → Pectobacterium → Pectobacterium brasiliense

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

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

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
Location on Map

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Location Information

Location

Hopland, California, USA

Coordinates

Lat. (^o)

38.97364

Long. (^o)

-123.117453

Alt. (m)

N/A

Depth (m)

Location on Map

Zoom:

Family	Category	Number of Sequences	3D Structure?
F001291	Metagenome / Metatranscriptome	729	Y
F001758	Metagenome / Metatranscriptome	640	Y
F005048	Metagenome / Metatranscriptome	413	Y
F014312	Metagenome / Metatranscriptome	264	Y
F014482	Metagenome / Metatranscriptome	262	Y
F024042	Metagenome / Metatranscriptome	207	Y
F027071	Metagenome / Metatranscriptome	195	Y
F032547	Metagenome / Metatranscriptome	179	N
F034588	Metagenome / Metatranscriptome	174	N
F037587	Metagenome / Metatranscriptome	167	Y
F038031	Metagenome / Metatranscriptome	166	Y
F039900	Metagenome / Metatranscriptome	162	Y
F040542	Metagenome / Metatranscriptome	161	Y
F048649	Metagenome / Metatranscriptome	148	Y
F061433	Metagenome / Metatranscriptome	131	N
F065302	Metagenome / Metatranscriptome	127	Y
F070921	Metagenome / Metatranscriptome	122	Y
F076133	Metagenome / Metatranscriptome	118	Y
F086444	Metagenome / Metatranscriptome	110	N
F096396	Metagenome / Metatranscriptome	104	Y
F100491	Metatranscriptome	102	Y
F104505	Metagenome / Metatranscriptome	100	Y

Family

Scaffold	Taxonomy	Length	IMG/M Link
Ga0006763J43179_100001	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	508	Open in IMG/M
Ga0006763J43179_100019	Not Available	585	Open in IMG/M
Ga0006763J43179_100023	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	566	Open in IMG/M
Ga0006763J43179_100053	Not Available	743	Open in IMG/M
Ga0006763J43179_100084	Not Available	606	Open in IMG/M
Ga0006763J43179_100086	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Oscillatoriophycideae → Chroococcales → Microcystaceae → Microcystis → Microcystis aeruginosa	607	Open in IMG/M
Ga0006763J43179_100621	Not Available	586	Open in IMG/M
Ga0006763J43179_101249	Not Available	917	Open in IMG/M
Ga0006763J43179_101830	Not Available	551	Open in IMG/M
Ga0006763J43179_101883	Not Available	741	Open in IMG/M
Ga0006763J43179_102990	Not Available	576	Open in IMG/M
Ga0006763J43179_103065	Not Available	742	Open in IMG/M
Ga0006763J43179_105009	Not Available	907	Open in IMG/M
Ga0006763J43179_105585	Not Available	1160	Open in IMG/M
Ga0006763J43179_105986	Not Available	641	Open in IMG/M
Ga0006763J43179_105988	Not Available	725	Open in IMG/M
Ga0006763J43179_106162	All Organisms → Viruses → Riboviria → Orthornavirae → Lenarviricota → Leviviricetes → Norzivirales → Fiersviridae → unclassified Fiersviridae → Leviviridae sp.	554	Open in IMG/M
Ga0006763J43179_106308	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Ecdysozoa → Nematoda → Chromadorea → Rhabditida → Rhabditina → Rhabditomorpha → Rhabditoidea → Rhabditidae → Peloderinae → Caenorhabditis → Caenorhabditis elegans	692	Open in IMG/M
Ga0006763J43179_107131	Not Available	584	Open in IMG/M
Ga0006763J43179_107307	Not Available	631	Open in IMG/M
Ga0006763J43179_109009	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Pectobacteriaceae → Pectobacterium → Pectobacterium brasiliense	732	Open in IMG/M
Ga0006763J43179_113367	Not Available	576	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0006763J43179_100001	Ga0006763J43179_1000011	F014312	KVTAIETNKGTANGVVRLWERVKAERFALAMTPLVEAERLARKTERFSERPDKNG*
Ga0006763J43179_100019	Ga0006763J43179_1000191	F034588	PLDSLSFGGAGCESSRLPLRFTSPVSPTISIRVAPDAHPPVPADFRSESPRSSVPSGCPHRISGLLRRLALSFVARPFPKSPWFLLAQRRRFRPPRVASKPSSSADPYLLPQVAPASAFTAGSMITPWLNRTLHPRLAPWMNLRYQSGTSIPDLTSSALLISIHCPQSADHEL*
Ga0006763J43179_100023	Ga0006763J43179_1000231	F076133	GSFDPCADAVTPEGFGCYCADQNAVALSGGPTPPKGPAPSRARKGGASAGSERTWQSPSNLLNGAA*
Ga0006763J43179_100053	Ga0006763J43179_1000531	F001758	VTGEKLSQAGWLSSSESGSKGLKAEAEFTSSSGSVRALSVNAKKGLRDEERLETVPNSVK
Ga0006763J43179_100084	Ga0006763J43179_1000841	F037587	AQKENGSKPDSQLCSPPACTALNTATLERRASCLSTPRSPISRLPDQSFEAHCNFSPGWGWMLVTVFRSPATVAASTASIPGSTFLTCYFASAPIDSAARSILGSATGARFAPRPAASTLQTRCSFLDLDLPHTRPPLPFRTVTSLRIKAFCRICCSSTRLPIPPDLRSLPAAGLYH*
Ga0006763J43179_100086	Ga0006763J43179_1000861	F034588	LCRRSPLGFPLASDAFWRCRFQQGSELPRWRLHPPASPLIRTSGCPSFRISGFTGDRSSSRLDSLSFGGAGCESSRSPLRFASPVSPTISFWVAPDPHPPVPADFRSESPRSSVPSGRPLRISGLLRLFVLGFVAQTFPKSPWFLLAQRRRFRLSRVAPKLPSSADPYLPPQVAPASASTAGSMITPWLNRTLHPQLAPRM
Ga0006763J43179_100621	Ga0006763J43179_1006211	F032547	VQSRSSCVLPLVLPAPYFRSARIKAPGHASRLTPDRNPYLGTAFHSLDKTARFRTTLPKSMLLAYPFGSSLSLPRTRSIRPLVHAAWLAPNCANSTRQTRCPVPSQRPRPLFRPTLPFRAFGPFPIKALTSIPIERFTESTRPIALRSPLPAVLIEPATDQCSRLATSRSAYCLTN
Ga0006763J43179_101249	Ga0006763J43179_1012492	F104505	MPDRRHRRPCCLSWSSRLFRVLYAFGCRVHWVPRTRFDLVVSDWPAGFHRSPSAACLRLRLHPLVSFALLQSPPSRVRRRCLHRQRLPWGLRSLFATSPTGVRAPSVPALGAFPSATFLTSPTAFSAIRLVGLFHPTATSRVCSSGVFPRKQPCRLSPSLLMPSCRWPPTR*
Ga0006763J43179_101830	Ga0006763J43179_1018301	F065302	VQGSRYDSATRLHADVRFAARCSGIACHSPSPLFSMRVTVTSALNGHNTLPEPESRYGLSLAHNDAFATIARSTFLACTFVSPSDTFANPFDSRLLRSVRFRGRTGALSMPGTRFPRRSPTFPIDPRSPLPFRSSCENPPDQSVQPVPFQEARLARSIASYSPPLPLSIPLQINVNSLR
Ga0006763J43179_101883	Ga0006763J43179_1018831	F027071	PQVTTELSQAIRVFFLSSILTSSCPLIKRARKKSCSNLISFYQHSRSIFAALPCGGAVSSNAIDNNIELKLTTTPLRKQLPLFVQRRHRPSTPLAPALANLRSKHKRQHGNAPSGQRINFLRNHFTGKRFASSLPLHQLSLTLRIKIIGHFNKAKLNSTDTSLLAKLCISSANALANILAIGNFTLLANHQTAVPEEISFDLLGPFNRRYCYPRSAAISASCPTNTSTPNRQGNSCKYCYLAEVIR
Ga0006763J43179_102071	Ga0006763J43179_1020711	F100491	VPSDRQAACSPTGMHGPNVASGTGETALCFPLKVLANRGSLRRCASALHSDRSPLLDATFRSTAPRTGLATDPRNCVNVPGLHLRNDPQIRSGPFGYVLPHPLCLLWLGGRDLHTNPLPNPTRLIARLRTSAPLRELSLPRDQSSQPDFELQSLPLQVARSSFAPRSAATVLWIAQRFGSSFQIRYFLPGSLSLK
Ga0006763J43179_102990	Ga0006763J43179_1029901	F014482	LISSLALYRHTRHGALAGKSAGRFASLLPENLFPGSRINASWLAACFTLPGTGPLVTAFRSPATAAASRLPPFRGQSSQPATSRPPESFPCPVRPWLRNCLPGLRRWRLLHSLEPVTLPLPGPACRIALSPLPSGSFSSLGIKAFNRACCLPGPPGESARSPFAPRCPFSKVGASDHRSRAATFPPACCSSN
Ga0006763J43179_103065	Ga0006763J43179_1030651	F027071	PQVTTDFSQAYRVSFLSSILTSSCPLIKRARKKICSNPISCYQHSHSGIAALPCGGAVSSNATDYNIELKLTTTLLRKQLPLFVQRRHLPSMPLAPVLANLRSKHKRQQGNAPSGQRFDSLRNHFTGKRFASSLPLHQLLLPLRTKITGHFNKAKLNSTDTSLLAKLCISSANALANILAISNFTLLAKHQTAVPEEISFDLLGPRLTGHIATTGLLPYQSVTRSIQQPRTDELTPVNIAI*
Ga0006763J43179_105009	Ga0006763J43179_1050091	F039900	MNHSLADQDRETWNYVLSDYRTESERDSEADIPVPDRLLPRRRSLELVRMLKLGQMVGILLWLNRENLITLGGRERLLYLQSKASFEALEAGLRFARRLTQEEKLRSDFRHQMRELNRRPQSKHFRQSEARRIGVGYRDKGMLPEASSGARTAAQKDSFIPSHLIPNILLGSIRTVMPACLTADEEWVDLSMVAGSFGTQADIGARPLLPPL*
Ga0006763J43179_105308	Ga0006763J43179_1053081	F086444	ANKYLTKAFGALRAVSSEPMHQAAVATLERLLRLWIKEQRDASIALVRKQKISWGHVLLTASPTETKKVKGQSITQIKSPSKPSRSPFLSGKEKQELSSLLAAEWNVPEAMRADWVLLSASEQHTHYQDTIKRLKQHYENINKLSTSIHAKLGHRKKWIHAACEERGVAPTSKKDKANEFIWSQNFFKLNLTASNLAVDLVFAPNHYLTQDKYSCDDILTRLWSLDKVLTPGDVTEEICGVTVGLWKEWALRFEPDLSIDRAEIPQAVSLEDPNPFADLPDPDGS*
Ga0006763J43179_105585	Ga0006763J43179_1055852	F048649	MKKLIITLAALMVSIAAYGQGQFNFNNRIGTEVNARFVQASDATGQSSVGSPDWTVQLLGGPVGGTLAPLNPASTTFRGAGGTASAGYVTSVAPIVPGVDIGGTAAIVVRVMGPGGITQDFPYTIANLGGGTVIPPNLQMGTT
Ga0006763J43179_105986	Ga0006763J43179_1059862	F024042	MIEPVTRTHESGLVPRSSLSAEGKLRRAETALWGTSFRDEGKHGEPQDRQQGATPLHGRGGETVEVVRNHAGGTRGGLAAHPRRETRRRGSRASDSSASYDGGAIFGQPQE
Ga0006763J43179_105988	Ga0006763J43179_1059881	F040542	MTKFLLMSAAAAALIATPTMAAKNISPRASGVVGFHGVKAPAHQVKNPAAPLCGTGFGAELPTPDGLIAWNDTSNGYNTAGGADFKCTLAKTKIKEVDVYGYNAPANPEQYNVTIYKNSGADGTDEPNDSKVKCAYTGVSAEGGGQYPTHTLSHIKLPTACKVKAGHYWVAVQNNDSAGPWYWEMTSTLGGSAQGDWDDVNNFFGSGCTSFNNDEYLQQCLGYTYPD
Ga0006763J43179_106162	Ga0006763J43179_1061622	F096396	MSLWSCAADDLAARCCTSATRDIKTVSSRFEHEGLSFLAITLADFGKATQKWLDQGFVVPSDVPAFRRDRLTGLPVFMQGFLGRVFNPVSGVLLDDPC
Ga0006763J43179_106308	Ga0006763J43179_1063081	F001291	MSALLFVLASVVASTLAAPTPACIPDPASFYWKAPCDGQSFTNRIDVSSVTATQGGKPVDQQGGFDISTNIDLVAAINDKYGEVKSPLIDVGILEYSKGVTGKCEWKQVPTLGLLDNVDGCTVVKNCHLTGSPTSLEASLSVKDLAGPLYAGISTDTYYGLTMTFKDGQTPFLCVYSQDIVIKK*
Ga0006763J43179_107131	Ga0006763J43179_1071311	F005048	QDFVVETFASATTDNGRVALVVEPRHAERQALVRTLRELGRRAIGVATALDAVQMLVEDGAHVDTVFIEAVSDSLPSLELVEFLSHNHPRIRRVLIGEQHEIAASWVAQATGEVHALLETPCDPEAVHRVLHRLQFTPNDAALS*
Ga0006763J43179_107307	Ga0006763J43179_1073071	F038031	FRPRGLRTFGVKVPPALRSRQGWKERSVFSDPFSITYDGNVKSLPRTEVARDYNRYTTADGEFEVLISNNLRKPQNGIATVSFKLARYLPDPTPGDFSNPYRNVRNSFGFSYGFDAITRAEVSVDVPRLRATVNTLIDSAFQGRLLGGER*
Ga0006763J43179_109009	Ga0006763J43179_1090091	F061433	GCNATANNYVYDAYVYPADGSCFSPSGGYYFYTSYGYRITFNDTAVNITEYVAEDCDSTPYTDWYPRDNCPSNDDVVVSIWDEFPPDSYWSDQEFTGFGDEVWETILIANYYDAADCPDDSWISTQIQGWTECDTGLYFYCDDDEIHYDACTDLTDCASGCIEVYEPLDADCTASVDAPLFWSGYLDYTTSTSYQATCVGGSSSGSTLVASVAVVVAALALVF*
Ga0006763J43179_113367	Ga0006763J43179_1133671	F070921	VRFAGVTDLTDITSVVPQDAQNVLLSRYQIIPKFPHVLSYGWQKASFNLSHIPIAHVSFIPRLPSIDGDNHVRGATTPAGRVDFEPAVIVASPGQQVVEFHVKAQPGVDRDNLYYRVDWEVVGHADDTVNWVESLQRGGNGLSNSPKGGSLYFATWHLASAGVTTLSFVVLLAACLIALVNM*

NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters

3300002870: Avena fatua rhizosphere microbial communities - H1_Bulk_Litter_6 (Metagenome Metatranscriptome, Counting Only)

Overview

Ecosystem and Geography

Associated Families

Associated Scaffolds

Sequences