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 3300003724

3300003724: Soil microbial communities from Colorado Plateau and Sonoran desert - Soil Crust after wet up 2B (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300003724 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0063445 | Gp0056424 | Ga0004769
Sample NameSoil microbial communities from Colorado Plateau and Sonoran desert - Soil Crust after wet up 2B (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size7414697
Sequencing Scaffolds11
Novel Protein Genes12
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter xylanophilus1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium1
Not Available2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Calotrichaceae → Calothrix1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Sphaeropleales → Selenastraceae → Monoraphidium → Monoraphidium neglectum1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From Four Geographically Distinct Crusts In The Colorado Plateau And Sonoran Desert
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Sand → Desert → Soil → Soil Microbial Communities From Four Geographically Distinct Crusts In The Colorado Plateau And Sonoran Desert

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

Location Information
LocationColorado Plateau and Sonoran desert
CoordinatesLat. (o)38.42Long. (o)-109.4099Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000818Metagenome / Metatranscriptome878Y
F001042Metagenome / Metatranscriptome794Y
F005661Metagenome / Metatranscriptome393Y
F008717Metagenome / Metatranscriptome329Y
F038139Metagenome / Metatranscriptome166Y
F044877Metagenome / Metatranscriptome153N
F058553Metagenome / Metatranscriptome135Y
F059546Metagenome / Metatranscriptome133Y
F076934Metagenome / Metatranscriptome117Y
F093150Metagenome / Metatranscriptome106Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0004769_100328All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → Rubrobacter → Rubrobacter xylanophilus612Open in IMG/M
Ga0004769_100368All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.790Open in IMG/M
Ga0004769_100590All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → environmental samples → uncultured Rubrobacteraceae bacterium851Open in IMG/M
Ga0004769_100833Not Available544Open in IMG/M
Ga0004769_100856Not Available556Open in IMG/M
Ga0004769_102333All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Nostocales → Calotrichaceae → Calothrix1318Open in IMG/M
Ga0004769_103322All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.592Open in IMG/M
Ga0004769_103457All Organisms → cellular organisms → Eukaryota → Viridiplantae → Chlorophyta → core chlorophytes → Chlorophyceae → CS clade → Sphaeropleales → Selenastraceae → Monoraphidium → Monoraphidium neglectum505Open in IMG/M
Ga0004769_103777All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria692Open in IMG/M
Ga0004769_108739All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → unclassified Nitrososphaera → Nitrososphaera sp.573Open in IMG/M
Ga0004769_110263All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae695Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0004769_100328Ga0004769_1003281F059546GVKLKKMMMLAALLAMLVVAAIPAIAQVEQGFEQETDSGEVEQSFEISGSGDNGNQCANVNGTTNTGNLQNQSGSIQYASDIEEFEQEEIGSDLSVTGTGSVTCEQQVNQAAAAG*
Ga0004769_100368Ga0004769_1003681F001042MTFTDDSLCGRSQDLTCAEASDKIVIDKLLVNKLTELLITSIYNVHTSRRSEIFLTSLDMHLAQDSISNKNDNARCEFTEKSTLLLESYQEDVPKSLGKAESCLGEALDLINLVVSASEAGVNNE*
Ga0004769_100590Ga0004769_1005901F076934SKLLAHPGADSPATRGRCRIVRKGLTVSTALHVRRPKGNKNDLYVLGKTSEDGPRVLCVTPASGIKTLPLFSNREAARRFLRATPLRFGLLRSGWRARKVLGSDLGSLFLLGFPTGIRAIGLDLTPEDLVGECCAEPLSEVA*
Ga0004769_100833Ga0004769_1008331F044877MTFTEGCPPGRSQDLTCVSEEMVTLDRKTLEEIFSLIGDCVDTIINLRHSGVFITSAKRCLLDTGNLELASSTEVSEAALLLDTWLDVVPKSHKEMDAWLQQANAITYLALAPIKLGKSNG*
Ga0004769_100856Ga0004769_1008561F059546GGIKLKKMIMLAALLAMLVVAAVPAIAQVGQDFEQETESGEVEQSFEISSEGSNGNQCANVNGTTNTGNLQTQTGAIQYASDIEELEQEDIGSDLSVTGTSTVECTQEVNQAAAAG*
Ga0004769_102333Ga0004769_1023332F058553MAQTRAVMPARYVPLADELLQTTGVSDYSTLIGILLSRYGKHLLSTWEIANCQQAAPVNPQPIVEVPIAQPETFT
Ga0004769_103322Ga0004769_1033221F001042IKLMTTSHLIGKNFASNVPKNFEADADDTIVIDKLLVNKLTELLITSIYSVHTSRRCEIFLTSLDMHLAQYSISNKNDTACREFTEKSSLLLESYQEDVPKSLGKAESCLGEAIDLINLIVSASEAEVNNNG*
Ga0004769_103457Ga0004769_1034571F038139MEQRKTEPKQSRFKVEQLERRIAPSAANFPPGQFPSGNPAKAPGNSNPNEMGGPKS*
Ga0004769_103457Ga0004769_1034572F000818MQPQEKKSRFQIVKLEERIAPAIVGVKINGGGNTPNGTANGVPTTNLNPAGFAPPGQN*
Ga0004769_103777Ga0004769_1037771F005661MQFRVAQTSGAGHVAREFGYHSGPLTPEMVHDAARTAKILDLQKQLRTAYNRHDAKIRANKVELERLTLEAIENGLTDKAQIDKYVSKAIVAGAKHDQHIVNLSQQLQNELNLVKVQGASTQTLANADFRQRLLLIKANHQAKGQIQTNGFQQSLKAIQASPQQAIAMQAKRAAFTNYINAKDFDPIPAVSGASTGGNNSSVGNNSKGFLDGLFDFFSGRK*
Ga0004769_108739Ga0004769_1087391F093150TALSFALVANKEAKAAVFIFAPTTAYTLGDTNGQDGVADTIFGGASLPVGIINGEGYRHEYRASYEFNLANLFLAPNTAITSAIFGVRANSVSSYARFSRLDLHGYIGDGQANVSDFEAGEYLDGRFLYSVINVDSTINPSPIFSFNVRPFLSTSINNNNTFAGFTLRVDDAYLALREDARLTIITADVPE
Ga0004769_110263Ga0004769_1102631F008717MTEPTGGGESFPELFGVIESYAQGDHNHQVKALRVISAAYLPLFEVPPMPDAKRVVEDVLRANDFLLTDPETGGLEPAAVDAVVSVATSRLSEEDLKWGAGCLLDVMDALRQRAQTEGYETYVLDADDVLDGLEAILAADIVEDAIEDILEGEA*
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