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

Overview

Basic Information

• IMG/M Taxon OID: 3300023224
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0128948 | Gp0256503 | Ga0224575
• Sample Name: Spruce roots microbial communities from Bohemian Forest, Czech Republic ? CRU4
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 26533064
• Sequencing Scaffolds: 17
• Novel Protein Genes: 20
• Associated Families: 14

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis	1
Not Available	12
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Paludibaculum → Paludibaculum fermentans	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil, Plant Litter And Rhizosphere Microbial Communities From European Coniferous Forests
• Type: Host-Associated
• Taxonomy: Host-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

• Location: Czech Republic: South Bohemian Region
• Coordinates
  • Lat. (^o): 49.0427
  • Long. (^o): 13.6161
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001329	Metagenome / Metatranscriptome	721	Y
F013972	Metagenome / Metatranscriptome	266	Y
F034248	Metagenome / Metatranscriptome	175	Y
F038386	Metagenome / Metatranscriptome	166	Y
F040829	Metagenome / Metatranscriptome	161	Y
F050832	Metagenome / Metatranscriptome	144	Y
F065766	Metagenome / Metatranscriptome	127	Y
F069077	Metagenome	124	Y
F080186	Metagenome	115	Y
F089693	Metagenome	108	Y
F101194	Metagenome / Metatranscriptome	102	Y
F102190	Metagenome / Metatranscriptome	101	Y
F102319	Metagenome / Metatranscriptome	101	Y
F104140	Metagenome / Metatranscriptome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0224575_100172	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Acrogymnospermae → Pinopsida → Pinidae → Conifers I → Pinales → Pinaceae → Picea → Picea sitchensis	2801
Ga0224575_100524	Not Available	1830
Ga0224575_101592	All Organisms → cellular organisms → Bacteria	1187
Ga0224575_104270	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Bryobacterales → Bryobacteraceae → Paludibaculum → Paludibaculum fermentans	779
Ga0224575_104394	Not Available	769
Ga0224575_105667	Not Available	683
Ga0224575_106076	Not Available	661
Ga0224575_106205	Not Available	654
Ga0224575_106773	Not Available	625
Ga0224575_107274	Not Available	605
Ga0224575_107929	Not Available	581
Ga0224575_108288	Not Available	569
Ga0224575_108516	Not Available	562
Ga0224575_109212	Not Available	543
Ga0224575_109247	All Organisms → cellular organisms → Bacteria → Acidobacteria	541
Ga0224575_109298	Not Available	540
Ga0224575_110429	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	511

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0224575_100172	Ga0224575_1001722	F089693	MTVPAVIQPNIQLGISDQTNIALNLFSTTLRTANTREELERSWVAIEQDIAIQEQLEAMRREHRNLH
Ga0224575_100524	Ga0224575_1005241	F102190	MECVVKTLRDVKVTGSKPAGTKNPTMLRVGVAQAGCDPRVI
Ga0224575_101592	Ga0224575_1015921	F080186	AEIVKEVPKLSLDEMKEVARALREAMEDADDLSDVLAVLENPGKPIPMSEIRKKYRAF
Ga0224575_102170	Ga0224575_1021702	F104140	MTYSMKSKNKLEGDSNFRAWKTRIDLILAKNKVLDIVKGKIMEPQFEEGKEKEP
Ga0224575_103559	Ga0224575_1035591	F101194	MKNYIQTTKKTINTILVNFTLAKFTGALVTIIMVALIKYMITGNLHIEYCEFXNNVAIGLFGWTINTATISLLSEYFGIKGINFNLKQFLYGYDTMGAGNDYTSKDFKAKLYNAMESDDGSDPSKQLDKGKGIDKGYNEGN
Ga0224575_104270	Ga0224575_1042702	F001329	MAQTHYTSKTKRRPKNSDRKDPSAATMAALRQLEAAAKK
Ga0224575_104394	Ga0224575_1043941	F013972	MTVPNRRQPNIEPGLQDQTNIALNLFNTILQTATNRTELERSWAAIKSDISIQEQREARQRQLRN
Ga0224575_105667	Ga0224575_1056671	F102190	VREFVVKALCDVKVTGSKPARTKILAILRVGVAQARCDPLVNLIA
Ga0224575_106076	Ga0224575_1060762	F038386	MTSTQVTATSSLDALAATAGSAARAILRTLNVPGRQRHSRRVQKAGPKFPHTAATKPTVTGKPKITVFAPGFS
Ga0224575_106205	Ga0224575_1062051	F013972	MTVPVVRQPNIEPGLLDQTHITLNLFDTILKTSTTRVELERLWATIERDINIQEQLEARQRQPGNQP
Ga0224575_106773	Ga0224575_1067731	F050832	MVMDVVVVDKTKLMKEGNDGPFRAMLRSILLSVLHV
Ga0224575_107274	Ga0224575_1072742	F034248	GRIHLALAPVAVIAIVYTGLIWRKAGHRFLAEGFGLAAIVAIMTSYYACDYDLLLLIVPLLAMLTRPKAPQADKVSRYLEVTGLLLLLLTPVYWFTRYLHAECLMTLPLLALGIALARRLSHAEMYFVRFPAEDRIQDLQQ
Ga0224575_107929	Ga0224575_1079291	F089693	MTVPAVTQPNIQPRLSNQTHIALNLFDTILKTANTREELERSWAAIEQDIATQEQLL
Ga0224575_108288	Ga0224575_1082882	F102319	MIPGPITSWSKSLLRYKFKPKVMDAAAANRTSLMKKKKDGPSRAMLRSILLSVLHL
Ga0224575_108516	Ga0224575_1085161	F089693	MTIPRVIQPNIQLGISDQTNIALNLFNTTLRTASTREELERSWAAIEQDIATQEQLEARQRERRNLH
Ga0224575_108747	Ga0224575_1087471	F104140	MKSENKLEGPSNFRAWKKRIELILAKNKVLDIVKGKIMEPQFEEGKEKEPHNVAFMEKFKDNDINGMSII
Ga0224575_109212	Ga0224575_1092121	F065766	MGDEKKDDGAGDPIKMLLEEALVRQRNEMMDNFAQILQW
Ga0224575_109247	Ga0224575_1092471	F069077	TRGGIPKSYGHLITAVVNNGATGLIFEDAEGMIRFVTLTGVTERELVRN
Ga0224575_109298	Ga0224575_1092981	F013972	MTVPVTRQPNIQPGLSDQTHIALNLSDTILKTATTQVELERSWAAIEWDINIQEQLEARQPQLRNHP
Ga0224575_110429	Ga0224575_1104291	F040829	MDGLIQPDLNPTTERQESSLRPILVGIVIVGIVVGAFALIFRGEQKKPVTPPAYAANLKFSDLKTSAAQNFAGATFSYFD