3300002088: Soil microbial communities from Manhattan, Kansas, USA - Sample 200um emPCR

Overview

Basic Information

• IMG/M Taxon OID: 3300002088
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0099547 | Gp0055129 | Ga0005637
• Sample Name: Soil microbial communities from Manhattan, Kansas, USA - Sample 200um emPCR
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 1663501
• Sequencing Scaffolds: 8
• Novel Protein Genes: 11
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Acidobacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter → Candidatus Koribacter versatilis	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → Candidatus Nitrososphaera gargensis	1
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Kansas (Konza Prairie Natural Area And Manhattan, Kansas, Usa)
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil Microbial Communities From Kansas (Konza Prairie Natural Area And Manhattan, Kansas, Usa)

Alternative Ecosystem Assignments

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

Location Information

• Location: Manhattan, Kansas, USA
• Coordinates
  • Lat. (^o): 39.214
  • Long. (^o): -96.5852
  • Alt. (m): N/A
  • Depth (m): 0

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000036	Metagenome / Metatranscriptome	4352	Y
F000850	Metagenome / Metatranscriptome	861	Y
F010264	Metagenome / Metatranscriptome	306	Y
F027058	Metagenome	196	Y
F030792	Metagenome / Metatranscriptome	184	Y
F033369	Metagenome / Metatranscriptome	177	Y
F049087	Metagenome / Metatranscriptome	147	Y
F060064	Metagenome / Metatranscriptome	133	Y
F068970	Metagenome	124	N
F084379	Metagenome	112	Y
F103456	Metagenome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI24811J26625_10010	All Organisms → cellular organisms → Bacteria → Acidobacteria	15424
JGI24811J26625_10015	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia	12688
JGI24811J26625_10072	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter → Candidatus Koribacter versatilis	4144
JGI24811J26625_10088	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	3694
JGI24811J26625_10097	All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → Candidatus Nitrososphaera gargensis	3493
JGI24811J26625_10157	All Organisms → cellular organisms → Bacteria	2329
JGI24811J26625_10241	All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae → Candidatus Koribacter	1377
JGI24811J26625_10410	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	700

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI24811J26625_10010	JGI24811J26625_1001020	F027058	VPQLLARAVFSFLPALADAELVVLINTAVIYFGAYLLFAMFWKRLRHHFRNPFLAALTLWLANVLLIMPVLGKGILGYKMPQGWFAASLPLLVSHWMFARGLQFQDRRS*
JGI24811J26625_10015	JGI24811J26625_100153	F033369	VSVLAQTTEADLRDTAVVMRSNEELVNALRTAPAAWMDTAIVVAFENRVELVPEDHPDPIYRLNSLQEQNGLAIGLAGIKSSGNARRTFQVQLFQEYKDQPWAHRCMDKLRRIVLQHSSSK*
JGI24811J26625_10072	JGI24811J26625_100723	F010264	MFTGKMIDDLITTVERAEGFQLDAEQESKLAYWYTVAQNELANLGTCELAGVA*
JGI24811J26625_10088	JGI24811J26625_100885	F000850	MKKPELTDVAWLGPKEEMDRASHRVGKCSECLEIICVEKAVTETENTQPETTEKLYAAFNAHVKLKHAEDFSQAA*
JGI24811J26625_10088	JGI24811J26625_100887	F084379	MLHVPTPELVHAMKDCLRDLENTKLISPSDLDIIDEKRILRQKIAELENEVSVGQEKAG*
JGI24811J26625_10097	JGI24811J26625_100975	F068970	LIEIELGTVVTLTLIMTSSLSFCLMIINFNIPAFGKYFGDIKVYSDVYTGGGNSSKPINQFDPVNKEIYVGQTIKWSNPTAGAPYPHIVVFVSNQSAELESKISNFTKPLHSSNGQSVVGNLNKLLIEDNNHNNKSNQTFSARSIVLPSVINTSSLTVKYLNANGSGIYSGAGYNFTGNERYVSSGLIWAGGVIPGNFAKINSFIVTFTKPGTYHYQCLIYPEMKGTIIVKPSLGLFELFGNQVK*
JGI24811J26625_10157	JGI24811J26625_101572	F060064	MFGKKGKDYVRFERWILILIVVVFALRLGLSLAGVSKAEYPVMTRTGIPTIPKATEWVSINLVLLVGILYCGIAVQTKGFGTYKHLFPLLLFQATIANWLVGMGIILGIVTGHNNVFTAVEHCGVCGADGLKWSHAVGHIVVTPPLFSLVSWLPASAILFVTRQVRPGAFEGPFVVALPKFVAFAAIAVASLVLILGIIRFS*
JGI24811J26625_10241	JGI24811J26625_102413	F049087	MISSFLLVSLLALADFSSFTYCHDNTRGPYESQCVRLDANAKGEITFKRRQADTVNLPIELSATAREKFVSLLSATNYLEHPETFESGKKIADLGAKRLTIETASGKREGTFNYSLRKDINDLSTFFEALLNQETMAFDINNAIQFERLSIPKRL
JGI24811J26625_10285	JGI24811J26625_102851	F103456	VMHGKGKCSICGLEKDIVAKVPNGGEILYCKQCLDNEIGSMLDNFNKINLVCLKCGSPNIQKDDPKAGINETDIINGIYANVTLTCNECNHRFFINVSDYGQT*
JGI24811J26625_10289	JGI24811J26625_102891	F000036	RAEAEREAGKLGFNYLLRYEHLIGENEDIKEVRCIFIELAPEGSLPEPPQRLHTRCATCGESAVHEQPWQAEVWADIHEFEHSRHHVRLFRQSRAQGLKEIAGWRDACA*
JGI24811J26625_10410	JGI24811J26625_104101	F030792	EDRYLTIEEVRIVSDLRIMHAKVDELYHLVTALKTRHNEADIVKYADQPILTEDIQRVDSIYLWFVKVKEENIAQRS*