NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300005286

3300005286: Mesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1



Overview

Basic Information
IMG/M Taxon OID3300005286 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0063773 | Gp0052323 | Ga0065721
Sample NameMesophilic microbial community from rice straw/compost enrichment Sample: eDNA_1
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size1032006118
Sequencing Scaffolds17
Novel Protein Genes19
Associated Families17

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria8
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
Not Available1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → Microthrixaceae → Candidatus Microthrix → Candidatus Microthrix parvicella1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameRice-Straw Enriched Compost Microbial Community From Berkeley
TypeEngineered
TaxonomyEngineered → Solid Waste → Grass → Composting → Bioreactor → Rice-Straw Enriched Compost → Rice-Straw Enriched Compost Microbial Community From Berkeley

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationDavis, California, USA
CoordinatesLat. (o)38.5402727Long. (o)-121.7500776Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000845Metagenome / Metatranscriptome863Y
F006124Metagenome / Metatranscriptome381Y
F006324Metagenome376Y
F006745Metagenome365Y
F016543Metagenome246Y
F017764Metagenome / Metatranscriptome239Y
F018543Metagenome / Metatranscriptome234Y
F037197Metagenome / Metatranscriptome168Y
F055517Metagenome138Y
F057409Metagenome136Y
F063452Metagenome129Y
F064866Metagenome / Metatranscriptome128Y
F067546Metagenome125Y
F089942Metagenome108Y
F093447Metagenome / Metatranscriptome106Y
F099155Metagenome103Y
F101365Metagenome102Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0065721_10003693All Organisms → cellular organisms → Bacteria211873Open in IMG/M
Ga0065721_10004014All Organisms → cellular organisms → Bacteria47155Open in IMG/M
Ga0065721_10004119All Organisms → cellular organisms → Bacteria45418Open in IMG/M
Ga0065721_10007040All Organisms → cellular organisms → Bacteria12003Open in IMG/M
Ga0065721_10013402All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes4207Open in IMG/M
Ga0065721_10048982All Organisms → cellular organisms → Bacteria54330Open in IMG/M
Ga0065721_10053599All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia9730Open in IMG/M
Ga0065721_10067330All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria3531Open in IMG/M
Ga0065721_10068896All Organisms → cellular organisms → Bacteria → Proteobacteria3314Open in IMG/M
Ga0065721_10084880All Organisms → cellular organisms → Bacteria2207Open in IMG/M
Ga0065721_10087915All Organisms → cellular organisms → Bacteria2090Open in IMG/M
Ga0065721_10092262All Organisms → cellular organisms → Bacteria1932Open in IMG/M
Ga0065721_10164630All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1045Open in IMG/M
Ga0065721_10187717Not Available935Open in IMG/M
Ga0065721_10201195All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes884Open in IMG/M
Ga0065721_10251485All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria725Open in IMG/M
Ga0065721_10426385All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → Acidimicrobiales → Microthrixaceae → Candidatus Microthrix → Candidatus Microthrix parvicella512Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0065721_10003693Ga0065721_1000369314F099155MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLAIYPDEGPFSLVINPAQVVSVKPVRKAS*
Ga0065721_10004014Ga0065721_1000401443F006324ADFDGDGDVGTDADIEAFFACLAGDCCATCFSGGADFDGDGDVGTDADIEAFFRVLAGGEC*
Ga0065721_10004119Ga0065721_100041192F037197MAKPETASASEINTGLQLNHCSGVNWQSLAMTGFATRLV*
Ga0065721_10007040Ga0065721_100070403F017764MSATLTIQLDSDVLQNAEQEAKARHTTLPEVVAQQLRVMARNWQTSRAGQTPVTDALRGAVTLPPDFDASAALTEELQKKHGRQG*
Ga0065721_10013402Ga0065721_100134023F101365MYLNKHLIYWINRFPKTMSIELEDLMEALRYKLPGFEMEGTEFRGGFEIFIRLEGVTYINDDGLERQHYIVVTADSIRNAIRIYIYKEEKLTAGFDLIREPFCAVMQAVREYVKEHQAVDKLIGKFI*
Ga0065721_10048982Ga0065721_100489821F006324ATSDYDGDGDAGTDQDIEAFFSCLAGNCCDTCWHLGADIDADGDSGTDADIEAFFRILAGSAC*
Ga0065721_10053599Ga0065721_100535992F089942MNRETSSTARKGFCIFVDVFLEGSMPCVSDENGYIIFESELEAQKEIADHQMTRLREFLDGDREFEDAIQVDEFVVPVTVLPDGTIVDEAGNCFSPKPD*
Ga0065721_10067330Ga0065721_100673305F006124MNWKDTVTDPDEVKVFLALDGPQYTWRTTSGIARQTGLSEEKVAGILKKYNLTLTRLSETPAVSGSALVGLIEKVGV*
Ga0065721_10068896Ga0065721_100688964F018543MNWWANKGAAANRRPAGQWDGSGNLSAIVAADRAFPAAVAELDR*
Ga0065721_10084880Ga0065721_100848803F093447MKPEMRQKLAREPFAEKIRKVAQLIRLAKAFPRRPRLIHAHPHGK*
Ga0065721_10087915Ga0065721_100879153F000845MKNSETSSQAVAIPADAGFSPWQRLKSKRISYLAIPLLVMATIVEFVILATGWKYQQMVCLPQGMGVTFFGIGPIGAVILAVELLKLPLAVWAASRVGWQKGFMLIVGLPLICVLTFQLVKDMAVYEMTKAMEPASELLEKAAIEETRIAQLKGEVAAIENKKVEREQKLAEFAAKKAKAKADLEEALKRNDEARQDAISLTEYQTKELAAVESRQGAITR
Ga0065721_10092262Ga0065721_100922622F099155MKSLERLVVTPEHFPLEITVSTGEKYLLPHPDHVQMHPNTRDLVIYPDEGPFSLVINPAHVVSVKPVRKAS*
Ga0065721_10099712Ga0065721_100997121F057409MRSASLAAAVLLVFPTARAAAQLQTRTVPNPGVESFTFQSPSMGVRFSLNVGKPAGFTAGDGKKYPALIVTDGDFTFGNVFEAARSLSGAITPLFIISIGTSLEEGEPEHTRRRVYEFSPPGWDRKDTFGELVSQLCRQLKSPEDRCTGGSGRFLNAIATEMIPQLAARFPIDTAQLGLFGLSAGGFFASWAIFQPGSPFKKYIISSPAMAYGRGEIFRQEAAYAKANKDLPVGIYLAAGTLEAT
Ga0065721_10164630Ga0065721_101646301F064866MKTPYPILFMFSLLAGAGLSAQQNVNQALSRYSYPIFTVTGNQQRTGTAFFYNANDTTYLVSNYHAIKGMNPLKKAITFITDTLYLKYPVKGSYETRILKIDVSEEVTGKTEIFSMVDRIDLFKIPVQLPSDADIRVINDLIDPLYLDVDPEEVIVFGFPTNPGSVPAFYSRQQRLEGAINPAGFADYDASLRINFPNSSDSARAILNATSRYYYFIRPYAAQGYSGAPVFGKFRTSDNQVVYRFTGVIFAGQPSTKQTWAIRGDIALQYLQGLF*
Ga0065721_10187717Ga0065721_101877172F055517MASQMQARLKSEHTLRYPRLSPNMWYDVSPIFPGVTTRRVDIFGRRITRIRTARDYETVQAAHFEFRERPVEEEATVSA*
Ga0065721_10201195Ga0065721_102011952F063452RLMRLRGQLRFPRPESPVVNVDPIPQNLVAVHDLLTESLTIANETANRFGWAVAIFPRTGRFDAPVFGVVTCGGESTTLTYRLLQSLMDLPVYVSGRVPATIRDGMAFGPRRSSPPPALLDQPVLHIMLTCCIGSTVDDLDRTMPLESTVFAGDLKAPIILLTECRPDGWPK*
Ga0065721_10251485Ga0065721_102514851F067546MASVAPQRAPLSVRTEGPAIVLTLCEQLDDLTGPVLVDAVASAVATAPQRVEIDLTELLGWTDAGAQSLVRCRELCRDLPDGLHYRTGRGPGRDALLAAYR*
Ga0065721_10403932Ga0065721_104039322F016543TMNLSNPLNPTTINNLPSDENGQLIDARSRPRSAGFGVASAYQTPRTVQLQVRFTF*
Ga0065721_10426385Ga0065721_104263852F006745MHPAPPGPPAPSRQRRVSSAVLVYVAILMALQVFLVTVAAEAVLADEEGLAWATAAVSVALFLAATVFLRYLRP*
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