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 3300027664

3300027664: Cellulose adapted compost microbial communities from Newby Island Compost Facility, Milpitas, CA, USA - BGW Initial Compost (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300027664 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0000103 | Gp0054749 | Ga0207873
Sample NameCellulose adapted compost microbial communities from Newby Island Compost Facility, Milpitas, CA, USA - BGW Initial Compost (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size535314072
Sequencing Scaffolds28
Novel Protein Genes28
Associated Families20

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria11
All Organisms → Viruses → Varidnaviria → Bamfordvirae → Preplasmiviricota → Tectiliviricetes → Kalamavirales → Tectiviridae → Deltatectivirus2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Tenericutes → Mollicutes → Acholeplasmatales → Acholeplasmataceae → unclassified Acholeplasmataceae → Acholeplasmataceae bacterium2
Not Available6
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → PVC group1
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameComparative Metagneomics Of Mesophilic And Thermophilic Cellulose-Adapted Consortia
TypeEngineered
TaxonomyEngineered → Solid Waste → Feedstock → Composting → Unclassified → Feedstock Adapted Compost → Comparative Metagneomics Of Mesophilic And Thermophilic Cellulose-Adapted Consortia

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

Location Information
LocationBerkeley, CA
CoordinatesLat. (o)37.86971Long. (o)-122.31414Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003605Metagenome / Metatranscriptome477Y
F004655Metagenome / Metatranscriptome429Y
F005073Metagenome / Metatranscriptome413Y
F006745Metagenome365Y
F009995Metagenome / Metatranscriptome310Y
F012882Metagenome / Metatranscriptome276Y
F016569Metagenome / Metatranscriptome246Y
F018909Metagenome / Metatranscriptome232Y
F020718Metagenome / Metatranscriptome222Y
F024195Metagenome / Metatranscriptome207Y
F026607Metagenome / Metatranscriptome197Y
F026704Metagenome / Metatranscriptome197Y
F029294Metagenome189Y
F031917Metagenome / Metatranscriptome181Y
F036417Metagenome / Metatranscriptome170Y
F049584Metagenome / Metatranscriptome146Y
F074317Metagenome / Metatranscriptome119Y
F088555Metagenome109N
F098955Metagenome / Metatranscriptome103Y
F101252Metagenome102Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207873_1000655All Organisms → cellular organisms → Bacteria36872Open in IMG/M
Ga0207873_1001814All Organisms → cellular organisms → Bacteria19363Open in IMG/M
Ga0207873_1001967All Organisms → Viruses → Varidnaviria → Bamfordvirae → Preplasmiviricota → Tectiliviricetes → Kalamavirales → Tectiviridae → Deltatectivirus18052Open in IMG/M
Ga0207873_1001987All Organisms → Viruses → Varidnaviria → Bamfordvirae → Preplasmiviricota → Tectiliviricetes → Kalamavirales → Tectiviridae → Deltatectivirus17908Open in IMG/M
Ga0207873_1006070All Organisms → cellular organisms → Bacteria7151Open in IMG/M
Ga0207873_1009257All Organisms → cellular organisms → Bacteria5115Open in IMG/M
Ga0207873_1017619All Organisms → cellular organisms → Bacteria → Terrabacteria group → Tenericutes → Mollicutes → Acholeplasmatales → Acholeplasmataceae → unclassified Acholeplasmataceae → Acholeplasmataceae bacterium3214Open in IMG/M
Ga0207873_1022552All Organisms → cellular organisms → Bacteria2715Open in IMG/M
Ga0207873_1026053All Organisms → cellular organisms → Bacteria2453Open in IMG/M
Ga0207873_1036970All Organisms → cellular organisms → Bacteria1912Open in IMG/M
Ga0207873_1046110Not Available1631Open in IMG/M
Ga0207873_1049283All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1554Open in IMG/M
Ga0207873_1061416All Organisms → cellular organisms → Bacteria1323Open in IMG/M
Ga0207873_1062904All Organisms → cellular organisms → Bacteria → Terrabacteria group → Tenericutes → Mollicutes → Acholeplasmatales → Acholeplasmataceae → unclassified Acholeplasmataceae → Acholeplasmataceae bacterium1300Open in IMG/M
Ga0207873_1071423Not Available1186Open in IMG/M
Ga0207873_1098290All Organisms → cellular organisms → Bacteria939Open in IMG/M
Ga0207873_1102240All Organisms → cellular organisms → Bacteria → PVC group913Open in IMG/M
Ga0207873_1106596All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium886Open in IMG/M
Ga0207873_1111298All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium859Open in IMG/M
Ga0207873_1129184All Organisms → cellular organisms → Bacteria → Proteobacteria773Open in IMG/M
Ga0207873_1141639Not Available724Open in IMG/M
Ga0207873_1156279Not Available675Open in IMG/M
Ga0207873_1164396All Organisms → cellular organisms → Bacteria652Open in IMG/M
Ga0207873_1166920Not Available645Open in IMG/M
Ga0207873_1172858All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes629Open in IMG/M
Ga0207873_1176778Not Available619Open in IMG/M
Ga0207873_1191859All Organisms → cellular organisms → Bacteria583Open in IMG/M
Ga0207873_1199068All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria567Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207873_1000655Ga0207873_100065519F098955MDPSAIPVFLAGPFPVLHSANVLEREAEVQLDVGLIIGGLPTILAATSFPLDETWERVEAALSSGDARLGVAGIPHQVESPLGELEIFPSAYIGLECANGERLILAHIRGLDPDQDPESYAREVIAALLNGQSPAELGELIED
Ga0207873_1001814Ga0207873_10018147F098955MDSSAIPVFLAGPFPVLHTFRVQEIEQEVELDVALLISGIPTMLAATRFPLDDTWERIQRALSSGDARLGVAGMPHETQSITGTPEIFPSAYVGLECANGERLVLAHIKGSNREQESEAYARSVISAILEGKTPAELGEPIED
Ga0207873_1001967Ga0207873_100196716F024195VSGDKIFNVLGAIVTVALVTTVVSRPTSAQVIKAMGDAFSGSIRAALGK
Ga0207873_1001987Ga0207873_100198720F024195MGDKVFNVLGAIVTVALVTTIVSRPTSAQVIKSMGDAFAGSIRAALGK
Ga0207873_1006070Ga0207873_10060703F036417MVYPARVPLRKRIPTVLVRLATDDGEVVFRARWNRSPLELQRNILFRLRRGAPLWFEDEWGHGLCFRPECVWAAMVDGR
Ga0207873_1009257Ga0207873_10092574F020718MHESEIIPLRGEAVTLWRLARDREQLHCFLVEPPFGFWLGVERAGELVFSQTYHELDTALQQAEGLKSPLLVAGWTEVEDH
Ga0207873_1017619Ga0207873_10176193F018909MRWVKTAIGAVIAISVIPVIAETVMKLTGTGGALEGTVAATLLELSPLVFVAGVLAYLFTATGTRSRD
Ga0207873_1022552Ga0207873_10225521F012882ETSYFKAPDAVWVKLVIPTAPKGVGRDEFGPLESQTSIVVRR
Ga0207873_1026053Ga0207873_10260532F101252MHGLDALLSDLEWRRLRRRVSRHPAEAMFLNCWTWLRIMVLRSISR
Ga0207873_1036970Ga0207873_10369702F098955MDSSAIPVFLAGPFPVIYTYRVREAEREVELDVALLISGMPTMLAATRFPLDDTWERIRAALDSGDARLGVAGVPHEAESLFGTPEIFPSAYVGLECANGERLVLAHIRGSDREQQSESYARSVIAAILQGHTPADLGEPIDA
Ga0207873_1046110Ga0207873_10461102F026607MLKRFVSTTLAVAFALSASVALAGTYVTGPLPPEFGGGFIPPDPAVLKNVQKASKEGAKLAASVEKCYAKGAANFSKGKATGVDTCLNDPSKGVLPKYIAKVEKIASKAPGLPPCAGVPGSSGALIASLVQGFNSLVYCQSPSGAFVDGTATF
Ga0207873_1049283Ga0207873_10492832F016569EMSRIYWKNVHNRAGEYFYTAMCGYHFSKSDDGTYSATTPNMVMGVNDKTDRAALGGRYSSQFLERNFDPQYFSLRSLSRLSD
Ga0207873_1061416Ga0207873_10614162F098955MDPSAIPVFLAGPFPVLHSANVLDREAEVQLDVGLIIGGLPTILAATSFPLDETWERVEAALSSGDARLGVAGIPHQVESEIGETEVFPSAYVGLECANGERLILAHIRGPDRKQDPEAYAREVIAALLNGQTPA
Ga0207873_1062904Ga0207873_10629043F018909MRWVKTAIGAVIAISVIPIIAQTVADLTGAGGALEGTVAATLLDLAPLVFVAGVLAYLFTATGDRRRN
Ga0207873_1071423Ga0207873_10714231F012882ETSYFKAPDAVWVKLVIPTAPKGVGRDEFGPLDSQTSIVVRR
Ga0207873_1098290Ga0207873_10982902F088555MAIRMYFDETVSSLVRDDISPTLGSPDTYEGPAEGGSVERKLYLYSDNFQRTYSNVQISALNADADVQIHYALDQNGQPGTYQTNLQLPDGDYQTPVPVWVKVTFAPTTEPTLRTDLRHHLQWLEAIAG
Ga0207873_1102240Ga0207873_11022401F029294MKQETGETRDAIVEADEKRIQKILDANNHRKDPYWIVIFAKPAKGCVDGKPTLIKHIKPYAVKPAPQVGMIIGEVNNQKGEILWDVNMPQIPFDFDALRALGAEEANDVVVETTSIPGAYLTR
Ga0207873_1106596Ga0207873_11065963F049584MHQIGIVGLSYRHASTDEVARFSIPKADVPARLPELREALGVSELIYL
Ga0207873_1111298Ga0207873_11112981F004655MSQLQILSPVALGPSDVRTLNAPLATLAGKRLGIRRDHTWRSFEVFADKLAELARERLGVADVVMFDPESRIGTPERESARVAEFAREVDAAVVGLGT
Ga0207873_1129184Ga0207873_11291842F005073MTPGTLYLVLLLALFVAGIASLFYFGWLRRREKPPPGVKPLPRDDDWD
Ga0207873_1141639Ga0207873_11416392F006745VTTRSGRTFERGRRTSSAVLIYVIVLVALQVFLITVAAEALLDDDEALAWATAINSVVLAGAAAAFLRYLRP
Ga0207873_1156279Ga0207873_11562792F088555MALRMYFDETVSSLVRDDISPTLGSPDTYEGPGAGGTVERKLYIYSDNFQRTYSQVQLTSLNADAQVQLHYALDNNGSPGTWQTRVDLPDGDYRTPYPIWVRVTFAPTDEPTLRTDLRHWLQWLEAIAG
Ga0207873_1164396Ga0207873_11643962F026704MPSWGYDVDENAIRFSNYFHVLRELVHLHAGWLALEPDFERKYALGDHLHDDARSLSKIKRRLYELRHPSDYPGAPGERLRALLDELAAQDSPGDYRDFAYGVVKPTLAAALRIHLRELDPVVDEPSLR
Ga0207873_1166920Ga0207873_11669201F009995MVKVCDCFPQLKEITEAREQRYRANPDKPAPEGPQSTVEVKVTSIGHLNELVECKNSGHKFIIS
Ga0207873_1172858Ga0207873_11728582F003605MAVGDAARDAGYPLVPETGEDGRVRWGAREINRARDFIAQVKALIPTGKAGYRSAAGISSGTANPSGGADGDIYFKIIT
Ga0207873_1176778Ga0207873_11767781F018909MKWVKTAIGAVIAISVIPIIAETVMTLTGAGGALEGTVAATLLDLAPLVFVAGVLAYLFTATGTRGRD
Ga0207873_1191859Ga0207873_11918591F074317MAFPVRTCALIGKFADPRVAESVAALLPHLQARQVRVLVSED
Ga0207873_1199068Ga0207873_11990682F031917MSDGVADLKLAHLVELSKLGPRCRELEQEIATWLREHDVVFAGRTIPFVLMPHFISPAQQRAIRRAVGCLSAVLDRL
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