3300026926: Grasslands soil microbial communities from Chapel Hill, North Carolina, USA that are Nitrogen fertilized - NN335 (SPAdes)

Overview

Basic Information

• IMG/M Taxon OID: 3300026926
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053063 | Gp0054418 | Ga0207922
• Sample Name: Grasslands soil microbial communities from Chapel Hill, North Carolina, USA that are Nitrogen fertilized - NN335 (SPAdes)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 7641167
• Sequencing Scaffolds: 12
• Novel Protein Genes: 13
• Associated Families: 13

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. JGI PP 4-B12	1
Not Available	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria	2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	2

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 → grassland soil
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Soil (non-saline)

Location Information

• Location: Chapel Hill, North Carolina, USA
• Coordinates
  • Lat. (^o): 35.913
  • Long. (^o): -79.056
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F008734	Metagenome / Metatranscriptome	329	Y
F011175	Metagenome / Metatranscriptome	294	Y
F013951	Metagenome / Metatranscriptome	267	Y
F019724	Metagenome / Metatranscriptome	228	N
F021822	Metagenome / Metatranscriptome	217	Y
F023430	Metagenome	210	Y
F023469	Metagenome / Metatranscriptome	210	N
F025602	Metagenome / Metatranscriptome	201	Y
F026654	Metagenome / Metatranscriptome	197	Y
F029303	Metagenome / Metatranscriptome	188	Y
F049197	Metagenome	147	N
F053430	Metagenome / Metatranscriptome	141	Y
F060395	Metagenome / Metatranscriptome	133	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0207922_100034	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Rhodoplanes → unclassified Rhodoplanes → Rhodoplanes sp. JGI PP 4-B12	1396
Ga0207922_100053	Not Available	1200
Ga0207922_100123	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	923
Ga0207922_100169	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales	838
Ga0207922_100227	Not Available	763
Ga0207922_100315	Not Available	705
Ga0207922_100354	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium	680
Ga0207922_100687	All Organisms → cellular organisms → Bacteria	582
Ga0207922_100707	All Organisms → cellular organisms → Bacteria	578
Ga0207922_100992	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	531
Ga0207922_101102	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	517
Ga0207922_101234	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	504

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0207922_100034	Ga0207922_1000343	F026654	VTLLLVMIFEISIAMAIGFVLGRIWQIRCDLEQARGGAFTAPAVARIPHP
Ga0207922_100053	Ga0207922_1000531	F049197	MVREEARRTLLREYDKWAKDHPDDATNMGGMVFFTYLQKEKSDLLDFHAVGGDKWATVHGWLYYTGRVR
Ga0207922_100123	Ga0207922_1001232	F013951	MSQKTLPNQGVVKRDWVATGRIDFATRLNGDAADANQPNEFKLLVEERRIVESIAGNENLEIQWRLATLKEAKAVVTQYHKYLSENSLIKTVVETDVSVAPGDFIPLEKQ
Ga0207922_100169	Ga0207922_1001692	F019724	MNKHFIANKYLPIALALAAFTAAGTAPAFAQQSGWDTGISTTNARPFVHKQSIRHSGYSAYARITDHSAVAPSSVGRPDPFGENEWFNR
Ga0207922_100227	Ga0207922_1002271	F025602	MGSQAPFVSECPRCAHERVLTGYAADELVDLLASGADIEAYCSSCDVHWPISTEERADLSRALSRRA
Ga0207922_100315	Ga0207922_1003151	F023430	MKIITTWHCTEILDGDGCEVTPREWLILVGPGEDLIFEVKTARQPTNKPNQPATQH
Ga0207922_100354	Ga0207922_1003541	F029303	MRRSSAERRLRWLLMGPLAACAAGSALAQISAIGPNRLVDVIQVDERENQADVSMLFNCSMRFVTNIPANEGREVHIQLAPLADCRVSPFGQIPAEIPPLSAGTNIVTGARVESLGPGQITLTLTFARKERFVIAQGIDPRGLRLRLL
Ga0207922_100421	Ga0207922_1004212	F011175	MISRLPVLGAITVMTLNCGVAVAGPKLTSADYVMPGCREAASLITLSSVGESEEQVSLTGFCAGTVVGLSFMGRPYGICVPGGTTAQQVASIVVQYIDGQPARIQDLNLFAVEALRANWPCPPAAGARELLAAH
Ga0207922_100687	Ga0207922_1006871	F060395	MIAHNPLHGSGQAGFPHPALALGNNAHTPQRIGMTDRRQRQPASDEAMHASPENVAVLAPPRQRAMPKPADSEPKHRQRRLVHGHSVVAKVSTHNRPQPLALIGDGFMHSSLKLGLHRVQLRLQSFADRLP
Ga0207922_100707	Ga0207922_1007071	F021822	MKTCLIITIGAVFMVLTHLAGANQADDTTITISGQTAGVTPFISKLTLQVSNTTVLKSIQFA
Ga0207922_100992	Ga0207922_1009921	F008734	HHRIDRVEERSVLRRPTSETTNSLSVSERFRSIPEVFSGGGRGVLETLWFESESQLVS
Ga0207922_101102	Ga0207922_1011021	F053430	HRDGNYVGDYQLKVRPYFFKSEKGSLLLAASDDAVRKLQAGTAINFTGQAVTHKDGRTHIVLGRATPSSGDRGSVTFSIVTDDARIVFNTSYHFPAPPP
Ga0207922_101234	Ga0207922_1012341	F023469	DSNVVRKNNMVQHLRHISSSVYKHVQSFAKTNPDDLLEYFQNQTLMTSDEAKGVIARLQEVATILKTNCDNGTLLFDSEPEIFLGMEPIPPKKCE