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 3300020152

3300020152: Soil microbial communities from Anza Borrego desert, Southern California, United States - S1+v_10-13C



Overview

Basic Information
IMG/M Taxon OID3300020152 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0128792 | Gp0220312 | Ga0196971
Sample NameSoil microbial communities from Anza Borrego desert, Southern California, United States - S1+v_10-13C
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size269467853
Sequencing Scaffolds17
Novel Protein Genes19
Associated Families17

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus1
Not Available5
All Organisms → Viruses → Predicted Viral1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSystems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Sand → Desert → Soil → Systems Level Insights Into Methane Cycling In Arid And Semi-Arid Ecosystems

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

Location Information
LocationUSA: California
CoordinatesLat. (o)33.3049Long. (o)-116.2547Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003510Metagenome / Metatranscriptome482Y
F006324Metagenome376Y
F011252Metagenome / Metatranscriptome293Y
F012659Metagenome / Metatranscriptome278Y
F013351Metagenome / Metatranscriptome272Y
F020087Metagenome / Metatranscriptome226N
F031904Metagenome / Metatranscriptome181Y
F052479Metagenome / Metatranscriptome142Y
F053537Metagenome / Metatranscriptome141Y
F053745Metagenome140Y
F064378Metagenome / Metatranscriptome128Y
F064858Metagenome / Metatranscriptome128Y
F069970Metagenome123Y
F072580Metagenome / Metatranscriptome121Y
F091596Metagenome / Metatranscriptome107Y
F092690Metagenome / Metatranscriptome107Y
F105520Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0196971_1000806All Organisms → cellular organisms → Bacteria18119Open in IMG/M
Ga0196971_1006678All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae3175Open in IMG/M
Ga0196971_1006837All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Rhodopseudomonas → Rhodopseudomonas palustris3123Open in IMG/M
Ga0196971_1009252All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Solibacteraceae → Candidatus Solibacter → Candidatus Solibacter usitatus2553Open in IMG/M
Ga0196971_1019635All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae1611Open in IMG/M
Ga0196971_1020951Not Available1551Open in IMG/M
Ga0196971_1030315All Organisms → Viruses → Predicted Viral1244Open in IMG/M
Ga0196971_1039937All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1055Open in IMG/M
Ga0196971_1044427All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → unclassified Bryobacterales → Bryobacterales bacterium989Open in IMG/M
Ga0196971_1063101All Organisms → cellular organisms → Bacteria801Open in IMG/M
Ga0196971_1063370All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales799Open in IMG/M
Ga0196971_1064608Not Available789Open in IMG/M
Ga0196971_1090380Not Available638Open in IMG/M
Ga0196971_1093153Not Available626Open in IMG/M
Ga0196971_1109845All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes562Open in IMG/M
Ga0196971_1124544Not Available518Open in IMG/M
Ga0196971_1128995All Organisms → cellular organisms → Bacteria506Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0196971_1000806Ga0196971_100080613F013351MHKPVPKPSLLHLSIEQKNLASIPFAVLERRVGKHVSKIDIAGTKVLPDGAQIDVRWQVQGNSELGLPTEQDLDIFIALGVLTFRNDFAKTITFTGREIAAILGIHGVHGKFYQRLKMAMDRFIPLRFRGVAATDRQEDIKWLNVFQEASFTLDRTSGRCVGSVTWTDKLIQSMNNGFFGFSTPAGTWNSTELRRSTCTVSSLSHSRSRI
Ga0196971_1006678Ga0196971_10066783F105520MPPPRVELSRTELDFLHRLLLDMQRRLGGDVSTRAEDEEAVAAIELALAVLGWDGDTPPDLDAQVGLGAAVQLKLGADAMCAYRQWRAERRRAGAPGRQFTP
Ga0196971_1006837Ga0196971_10068375F012659MQSEDRLLEVLVEIRNWIRAAARAPVKTSLEAALPDSKSRMAYQMLDGSRSMDQVRVACKMSPNALVALASRCISMGLMQVNEEKKRVRLFDLVDFDLIDAGDLPKSGAKD
Ga0196971_1009252Ga0196971_10092521F011252LSQYSFIEPNAAFPLPPTFNFDEYIETEQELWALFPETDGRRVNFVQIGLTAMIYAEAPDRGAELGPDETYILMPCADYTMRPIRMRACRRLTLSEYRMGHLTAIKLVGKVNEAGDVMREIGCQILGEEVIQEAQARLADYGDDQ
Ga0196971_1019635Ga0196971_10196352F092690MGSCTHPMKASAVTEAPATEEHQARLVRNLLALRMVLALDQMQTGRWSDRIDEIDEELASLGHDMKSTAACAMEGLRRSVLLPRLVNRRSRAVRHSRKLPQG
Ga0196971_1020951Ga0196971_10209512F072580VKAVYSVRGFPVPEQPSYIHKLEGILAEARKPKPIPFFRRRDIESLFGLRKRQTVNLMHRIGAVRVSRELAVEQRDLVRWLEQMVEDPSVAAEWRRHQRVIGRIIDLKAETAARAVKIVLPDPERSVELPDGVSLRPGLLTISFNSEQQLLERLFLLARVLASQTDVLSGLSRSTSSQREADERDLRSHL
Ga0196971_1030315Ga0196971_10303153F064858VNTPRISFVHAAELTPEVEAAVNDAFEYHKWDADKIAAGTKVREALASAVKVIIANVPPCPDRTTAIRKLREARMDVNSAITHDGKY
Ga0196971_1036820Ga0196971_10368203F091596MAYQPGTTAPESGIYWCSVCKVPVQFKSGEQLPACKNLCGRGKWEFVKAAETK
Ga0196971_1039937Ga0196971_10399372F031904MKPTPKSLPGLAEIEREVLAESRAWGRQRLEERLQKLADEHGEVFPPPATQAARRDAAQRIGRGKARR
Ga0196971_1044427Ga0196971_10444272F020087MPTTTVQNMYGRPFEILEGDDLRSVCEQTIKNGGGALATNTAMMCRPFCASGAGNPIISALRSPIPGFEWDEVWFGFEDFTSEEDFLREHGYYGSGRCYIVVNTDGRKKLVALKDFIAHVPETILGARLHALGHGMFRYSKFFINKNRLPHHTHDVKEEAYWIEPTMIVDYDLFDERCFMTLGLHQDFGPKELREHLTAAAWDDPQMVLKRHARWYYMR
Ga0196971_1063101Ga0196971_10631011F003510LEEGTYAIPFTGAGGEQRQEITAQELGAILSGIDLTEAKRRKRYRRGNAEPA
Ga0196971_1063370Ga0196971_10633702F053537MKYMHKAIWQSDGNLVIRGNSRALLFRALEDVRADLEKRQDGEQLKRTLAALDQVLGTYDGPLPSAIELLGDPMREQVSRNLLKA
Ga0196971_1064608Ga0196971_10646081F064378MAITTNNIQTGGAVVRLGGTVDADANNADWFDVTPQGTDIGCTTGGITVTYSLETSDIFCDQVTAPVDVAITGETATIEFSMLESTAENLKLAMGNFASSEDESGVAYWVGVGGSKTLSFVPLELEIVDNDTGYLTTWTFFRTVAQGIETNFERENPTAFGVTFTAYAA
Ga0196971_1090380Ga0196971_10903801F053745MSKSNKAVQSVQVTQSEDASLVKKPSYLLELEAKWVRWTKIDDKEAYEALKDLSGDLWGELRKLEAQLCKEIENREMPEDFKEFTKARIRDTWRDIIGHQKIGLDK
Ga0196971_1093153Ga0196971_10931532F052479MLAEKKLLDIETIEAQSAFELPDRVMPLVTVVITNVLNDLTVEVDVSNNRVAVQVCAAVLLLNTIIAPNQLECEIEQ
Ga0196971_1109845Ga0196971_11098452F069970MSSQIQVGAKVTFDNDKIEVFKKETNLDNKEIQQYRKLVLAGIDQVGIVKEPGVTMTTVSYSDGWDLPIPTKYLVVLPEV
Ga0196971_1124544Ga0196971_11245442F006324DGDTGTDADIAAFFSCLADQCCATCGTPDFNRDGDAGTDADIESFFRALAGGAC
Ga0196971_1128995Ga0196971_11289951F006324EAFFACLSGNCCTSCFAGGADFDGDGDTGTDADIEAFFRVLSGQPC
Ga0196971_1129519Ga0196971_11295192F091596TTAPESGIYWCSVCKVPVQFKSGEQLPACKNLCGRGKWEFVKSENGEV
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