3300026665: Grasslands soil microbial communities from Kansas, USA, that are Nitrogen fertilized - NN588 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026665
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053063 | Gp0054411 | Ga0208070
• Sample Name: Grasslands soil microbial communities from Kansas, USA, that are Nitrogen fertilized - NN588 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 6903973
• Sequencing Scaffolds: 13
• Novel Protein Genes: 13
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	4
Not Available	7
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	1
All Organisms → cellular organisms → Bacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Loam → Grasslands → Soil → Soil Microbial Communities From 10 Grassland Sites In Ca, Co, Ks, Ky, Mn, Mo, Nm, Sc, Tx, That Have Been Nitrogen Fertilized

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): grassland biome → land → fertilized soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Manhattan, Kansas, USA
• Coordinates
  • Lat. (^o): 39.070856
  • Long. (^o): -96.582821
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002517	Metagenome	552	Y
F004936	Metagenome / Metatranscriptome	418	Y
F008846	Metagenome / Metatranscriptome	327	Y
F010697	Metagenome / Metatranscriptome	300	Y
F014202	Metagenome / Metatranscriptome	265	Y
F016541	Metagenome / Metatranscriptome	246	Y
F029549	Metagenome / Metatranscriptome	188	N
F034121	Metagenome / Metatranscriptome	175	N
F053848	Metagenome / Metatranscriptome	140	Y
F064871	Metagenome / Metatranscriptome	128	Y
F075059	Metagenome / Metatranscriptome	119	Y
F075813	Metagenome	118	Y
F099227	Metagenome / Metatranscriptome	103	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0208070_100257	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	799
Ga0208070_100275	Not Available	784
Ga0208070_100288	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	771
Ga0208070_100344	Not Available	732
Ga0208070_100349	Not Available	730
Ga0208070_100471	Not Available	677
Ga0208070_100484	Not Available	671
Ga0208070_100581	Not Available	642
Ga0208070_100835	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	572
Ga0208070_100951	All Organisms → cellular organisms → Bacteria	548
Ga0208070_101167	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	516
Ga0208070_101168	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	515
Ga0208070_101202	Not Available	510

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0208070_100257	Ga0208070_1002571	F002517	YIVNAEGDKLVDVGPNGEKIVSETVRILSQLPTLGAPRLVTLRYSDIGGKEEDARERKSGLRNPAYVHGIVVKMGAQQDFSFFDHFEELLFDRIGTPPRNSAANVEQIRQTTNDRIDHTVFEMNKFVVDKNPMVGLAWRNISDAVQAKFKDVPEPARTKQIEDLTRQTYYVYIFLDLYARMDDLRSRGIMSPNDAMIVEWKHDWLPNLMGSEIGRWMLENNLMEYYSEPMIKDLCEAAATSAKSQTPAADTH
Ga0208070_100275	Ga0208070_1002752	F053848	MDVRLTNVYVADARLVAEGLVQPEDAMAVFVGRAGKGRVAPFVVRRSYTGAGGWYREAMAVLAPNGDVVWRSPERPLTLRGSNKIDTFTDEVHGVAVDSADDHELVLLVGGDEVGRVPMAVLDEDPPWSSGSETDVLDEALKKSTVVWVEVPGEGGTNGRAVPVWYGTLDGRIYVLVGGSEQHVPGLAEAERAVLIARSKEQQSL
Ga0208070_100288	Ga0208070_1002882	F010697	MTIIEIRPFRNGWQVYESAGVQPAFLSQRQAIDYATCRACFRSGEIRILDSNGTVERIIPFDETDRKL
Ga0208070_100344	Ga0208070_1003441	F075813	MASSPPWPFDDDDDRPSGSVRPLSPADLQAILAHLG
Ga0208070_100349	Ga0208070_1003492	F014202	GPEPAAVLEVLSPGGLERYFEELAPVLGDKAPPSEYDALAERYGLTIENGWIEELERTYGVKL
Ga0208070_100471	Ga0208070_1004711	F008846	MTDPMLVRRLALDLRNLADKTLELRGVVEDYRHDLVRTLEDDWCDPAELQAVHRQVQELWESMDRAEAKLRSGSRRMSPLLWLE
Ga0208070_100484	Ga0208070_1004841	F064871	MHVYMLQQLAADRVAELRADAQRVRHQRVRRAQRASEASKARIEREWR
Ga0208070_100581	Ga0208070_1005812	F075059	MAPLLQSATTPTDGDAVVTVRGDLDGETAGQLWQYLSYLVGQGHHHIVLDLRGMVLIDSA
Ga0208070_100835	Ga0208070_1008352	F004936	VGAGGAGGLVEGVNRTGVKDLAIGTFKIANAEVVVAHLSSDILLSKSAAESNAGVLGQEYLSSHFAILDMGGMALYLRHPDSR
Ga0208070_100951	Ga0208070_1009511	F016541	MSNGQDFEEKERQRKTRRKVFYLTFATLAVISAGFLIAKLSGLILPIIVGGLLAFLIQRK
Ga0208070_101167	Ga0208070_1011671	F099227	ILWEAMNIHSVGPALYLAPRAATRDGRFDFACAHPADCALLAKHFDARVAGKKSKSPLPARKFRELRVVWKESTESTLHLDDKLWPDEKQRQKSSSEIKITVKLSALIILQPAPAVKT
Ga0208070_101168	Ga0208070_1011682	F034121	MMRVLKRLQDKATTGAGKKLVLPEPRRVRFLIRGEGPVSAGAVTIECCPESRKAGKFWMELATIPVPANSGLAQY
Ga0208070_101202	Ga0208070_1012021	F029549	VASPPDSEVAEEPAPGGAERLSYLDAGGRLASRETAQFAVVRDFDDHGNVISLMTERLAR