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 3300023224

3300023224: Spruce roots microbial communities from Bohemian Forest, Czech Republic ? CRU4



Overview

Basic Information
IMG/M Taxon OID3300023224 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0128948 | Gp0256503 | Ga0224575
Sample NameSpruce roots microbial communities from Bohemian Forest, Czech Republic ? CRU4
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size26533064
Sequencing Scaffolds17
Novel Protein Genes20
Associated Families14

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis1
Not Available12
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Paludibaculum → Paludibaculum fermentans1
All Organisms → cellular organisms → Bacteria → Acidobacteria1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests
TypeHost-Associated
TaxonomyHost-Associated → Plants → Roots → Unclassified → Unclassified → Roots → Soil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests

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

Location Information
LocationCzech Republic: South Bohemian Region
CoordinatesLat. (o)49.0427Long. (o)13.6161Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001329Metagenome / Metatranscriptome721Y
F013972Metagenome / Metatranscriptome266Y
F034248Metagenome / Metatranscriptome175Y
F038386Metagenome / Metatranscriptome166Y
F040829Metagenome / Metatranscriptome161Y
F050832Metagenome / Metatranscriptome144Y
F065766Metagenome / Metatranscriptome127Y
F069077Metagenome124Y
F080186Metagenome115Y
F089693Metagenome108Y
F101194Metagenome / Metatranscriptome102Y
F102190Metagenome / Metatranscriptome101Y
F102319Metagenome / Metatranscriptome101Y
F104140Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0224575_100172All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis2801Open in IMG/M
Ga0224575_100524Not Available1830Open in IMG/M
Ga0224575_101592All Organisms → cellular organisms → Bacteria1187Open in IMG/M
Ga0224575_104270All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Paludibaculum → Paludibaculum fermentans779Open in IMG/M
Ga0224575_104394Not Available769Open in IMG/M
Ga0224575_105667Not Available683Open in IMG/M
Ga0224575_106076Not Available661Open in IMG/M
Ga0224575_106205Not Available654Open in IMG/M
Ga0224575_106773Not Available625Open in IMG/M
Ga0224575_107274Not Available605Open in IMG/M
Ga0224575_107929Not Available581Open in IMG/M
Ga0224575_108288Not Available569Open in IMG/M
Ga0224575_108516Not Available562Open in IMG/M
Ga0224575_109212Not Available543Open in IMG/M
Ga0224575_109247All Organisms → cellular organisms → Bacteria → Acidobacteria541Open in IMG/M
Ga0224575_109298Not Available540Open in IMG/M
Ga0224575_110429All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium511Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0224575_100172Ga0224575_1001722F089693MTVPAVIQPNIQLGISDQTNIALNLFSTTLRTANTREELERSWVAIEQDIAIQEQLEAMRREHRNLH
Ga0224575_100524Ga0224575_1005241F102190MECVVKTLRDVKVTGSKPAGTKNPTMLRVGVAQAGCDPRVI
Ga0224575_101592Ga0224575_1015921F080186AEIVKEVPKLSLDEMKEVARALREAMEDADDLSDVLAVLENPGKPIPMSEIRKKYRAF
Ga0224575_102170Ga0224575_1021702F104140MTYSMKSKNKLEGDSNFRAWKTRIDLILAKNKVLDIVKGKIMEPQFEEGKEKEP
Ga0224575_103559Ga0224575_1035591F101194MKNYIQTTKKTINTILVNFTLAKFTGALVTIIMVALIKYMITGNLHIEYCEFXNNVAIGLFGWTINTATISLLSEYFGIKGINFNLKQFLYGYDTMGAGNDYTSKDFKAKLYNAMESDDGSDPSKQLDKGKGIDKGYNEGN
Ga0224575_104270Ga0224575_1042702F001329MAQTHYTSKTKRRPKNSDRKDPSAATMAALRQLEAAAKK
Ga0224575_104394Ga0224575_1043941F013972MTVPNRRQPNIEPGLQDQTNIALNLFNTILQTATNRTELERSWAAIKSDISIQEQREARQRQLRN
Ga0224575_105667Ga0224575_1056671F102190VREFVVKALCDVKVTGSKPARTKILAILRVGVAQARCDPLVNLIA
Ga0224575_106076Ga0224575_1060762F038386MTSTQVTATSSLDALAATAGSAARAILRTLNVPGRQRHSRRVQKAGPKFPHTAATKPTVTGKPKITVFAPGFS
Ga0224575_106205Ga0224575_1062051F013972MTVPVVRQPNIEPGLLDQTHITLNLFDTILKTSTTRVELERLWATIERDINIQEQLEARQRQPGNQP
Ga0224575_106773Ga0224575_1067731F050832MVMDVVVVDKTKLMKEGNDGPFRAMLRSILLSVLHV
Ga0224575_107274Ga0224575_1072742F034248GRIHLALAPVAVIAIVYTGLIWRKAGHRFLAEGFGLAAIVAIMTSYYACDYDLLLLIVPLLAMLTRPKAPQADKVSRYLEVTGLLLLLLTPVYWFTRYLHAECLMTLPLLALGIALARRLSHAEMYFVRFPAEDRIQDLQQ
Ga0224575_107929Ga0224575_1079291F089693MTVPAVTQPNIQPRLSNQTHIALNLFDTILKTANTREELERSWAAIEQDIATQEQLL
Ga0224575_108288Ga0224575_1082882F102319MIPGPITSWSKSLLRYKFKPKVMDAAAANRTSLMKKKKDGPSRAMLRSILLSVLHL
Ga0224575_108516Ga0224575_1085161F089693MTIPRVIQPNIQLGISDQTNIALNLFNTTLRTASTREELERSWAAIEQDIATQEQLEARQRERRNLH
Ga0224575_108747Ga0224575_1087471F104140MKSENKLEGPSNFRAWKKRIELILAKNKVLDIVKGKIMEPQFEEGKEKEPHNVAFMEKFKDNDINGMSII
Ga0224575_109212Ga0224575_1092121F065766MGDEKKDDGAGDPIKMLLEEALVRQRNEMMDNFAQILQW
Ga0224575_109247Ga0224575_1092471F069077TRGGIPKSYGHLITAVVNNGATGLIFEDAEGMIRFVTLTGVTERELVRN
Ga0224575_109298Ga0224575_1092981F013972MTVPVTRQPNIQPGLSDQTHIALNLSDTILKTATTQVELERSWAAIEWDINIQEQLEARQPQLRNHP
Ga0224575_110429Ga0224575_1104291F040829MDGLIQPDLNPTTERQESSLRPILVGIVIVGIVVGAFALIFRGEQKKPVTPPAYAANLKFSDLKTSAAQNFAGATFSYFD
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