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 3300027373

3300027373: Bioremediated contaminated groundwater microbial communities from EPA Superfund site, New Mexico - SAE3-05 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300027373 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0095509 | Gp0056883 | Ga0209016
Sample NameBioremediated contaminated groundwater microbial communities from EPA Superfund site, New Mexico - SAE3-05 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size324193948
Sequencing Scaffolds15
Novel Protein Genes15
Associated Families7

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → Methanoregula formicica1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae2
All Organisms → cellular organisms → Bacteria3
All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae2
Not Available3
All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae → unclassified Lentisphaerota → Lentisphaerota bacterium1
All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae → Lentisphaeria → Victivallales1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium ADurb.BinA3951
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Pirellulales → unclassified Pirellulales → Pirellulales bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameBioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico
TypeEngineered
TaxonomyEngineered → Bioremediation → Tetrachloroethylene And Derivatives → Tetrachloroethylene → Unclassified → Bioremediated Contaminated Groundwater → Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico

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

Location Information
LocationEspanola, New Mexico, United States
CoordinatesLat. (o)35.992Long. (o)-106.0797Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020376Metagenome224Y
F067350Metagenome / Metatranscriptome125Y
F079376Metagenome / Metatranscriptome116Y
F083634Metagenome112Y
F084812Metagenome / Metatranscriptome112Y
F086799Metagenome / Metatranscriptome110Y
F089576Metagenome109Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209016_1000061All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae → Methanoregula → Methanoregula formicica162148Open in IMG/M
Ga0209016_1000080All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae144164Open in IMG/M
Ga0209016_1001901All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanomicrobiales → Methanoregulaceae15182Open in IMG/M
Ga0209016_1006022All Organisms → cellular organisms → Bacteria5941Open in IMG/M
Ga0209016_1007092All Organisms → cellular organisms → Bacteria5176Open in IMG/M
Ga0209016_1014135All Organisms → cellular organisms → Bacteria2972Open in IMG/M
Ga0209016_1016474All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae2632Open in IMG/M
Ga0209016_1024219All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae1916Open in IMG/M
Ga0209016_1039848Not Available1275Open in IMG/M
Ga0209016_1040432All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae → unclassified Lentisphaerota → Lentisphaerota bacterium1261Open in IMG/M
Ga0209016_1050903All Organisms → cellular organisms → Bacteria → PVC group → Lentisphaerae → Lentisphaeria → Victivallales1040Open in IMG/M
Ga0209016_1077143Not Available737Open in IMG/M
Ga0209016_1078366All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium ADurb.BinA395727Open in IMG/M
Ga0209016_1090502All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Pirellulales → unclassified Pirellulales → Pirellulales bacterium647Open in IMG/M
Ga0209016_1098900Not Available603Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209016_1000061Ga0209016_1000061107F083634MLKLANQVIVLDRLNINGRLHRLSRELQIIVGHTEDRLTLSNDEFGLLVSAPTLEEGIAGISDELSMLWEIYVAEKPANLTRDALRLRSNLKSLVAAGAGS
Ga0209016_1000080Ga0209016_1000080101F089576MFGLPDITVLSMGVVVGLIVLALLYWGLKFNPKSDA
Ga0209016_1001901Ga0209016_10019018F083634MFRLADQVIVLDRLIINGRLHRLSRELRITVEHDADRLTLSNDEFGLLVSAPTLAEGIAGISDELSVLFNVYVAENPANLTRDALRLRSNLESLVTAGANS
Ga0209016_1006022Ga0209016_10060227F067350MLAWIIHKKWMKDENMLKKKVIGDAAVVAALRRGHRQELYFEQIAVFRHQFMNYSS
Ga0209016_1007092Ga0209016_10070921F079376MLPGVGDHGMSDIVIIREPGRPCVSFGVMRVCRTTEEGGRQIKHRESDSLVVPMKAGNAAGGKEATHESVV
Ga0209016_1014135Ga0209016_10141354F067350MKDENMLKKKVFGDAAVVAALRRGHRQELYFEQIAVFRH
Ga0209016_1016474Ga0209016_10164744F067350MKDENMLKKKVFDDSAVAAALRRGHRQELYFEQIAVFRH
Ga0209016_1024219Ga0209016_10242192F067350MKDENMLKKKVFGDAAGVAALRRGHRQELYFEQIAVFRH
Ga0209016_1039848Ga0209016_10398482F067350MKDENMLKKKVFGDAAVVAALRRGHRQVLYFEQIAVFRHQFMNYSG
Ga0209016_1040432Ga0209016_10404321F067350MKDEYMLKKKVFEDATVVAALRRGHRQELYFEQIAVF
Ga0209016_1050903Ga0209016_10509032F067350MKDENMLKKKVFGDATVVAALRRGYRQELYFEQIAVFRHSFMNYSG
Ga0209016_1077143Ga0209016_10771432F067350KGENMLKKKVFGDAAVVAALRRGHRQELYFEQIAVFRHQFMNYSG
Ga0209016_1078366Ga0209016_10783661F086799MKAKKVTYSRLISKGNYENAKIEIELEVEAGEKAVDVFAAAKNWVEKRITIEKLSDYMVEKAKKVMEDKRNHTLAQIEEAEEILLKAKEKDEELPF
Ga0209016_1090502Ga0209016_10905022F020376MDGKTGTRRERWMQRAEAAYRRMFEGKSEEELVTLTQREDMAVMIGKELAAFLLEEHVARDPAAQPKEASSTCCPKCGQAGAPAVQKGEELPERTLTTRAGDIGLRRQRWRCAKCRIVFFSAGRSPGAGDGRL
Ga0209016_1098900Ga0209016_10989002F084812MKKSTLNLDNHAKGLLIGLISKAINDDKSLASDDIEKLKEIKKQLQEE
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