3300000336: Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Thermokarst Bog cDNA B3 Metatranscriptome

Overview

Basic Information

• IMG/M Taxon OID: 3300000336
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0063124 | Gp0053525 | Ga0026149
• Sample Name: Permafrost microbial communities from permafrost in Bonanza Creek, Alaska - Thermokarst Bog cDNA B3 Metatranscriptome
• Sequencing Status: Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 12359873
• Sequencing Scaffolds: 11
• Novel Protein Genes: 11
• Associated Families: 11

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	9
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	1
All Organisms → cellular organisms → Archaea → TACK group	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Soil → Unclassified → Permafrost → Soil → Soil Microbial Communities From Permafrost In Bonanza Creek, Alaska

Alternative Ecosystem Assignments

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

Location Information

• Location: Bonanza creek, Alaska, USA
• Coordinates
  • Lat. (^o): 64.7
  • Long. (^o): -148.3
  • Alt. (m): N/A
  • Depth (m): .3 to .7

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000396	Metagenome / Metatranscriptome	1185	Y
F001346	Metagenome / Metatranscriptome	718	Y
F001679	Metagenome / Metatranscriptome	653	Y
F010305	Metagenome / Metatranscriptome	305	Y
F011566	Metagenome / Metatranscriptome	289	Y
F032176	Metagenome / Metatranscriptome	180	Y
F041058	Metagenome / Metatranscriptome	160	Y
F041780	Metagenome / Metatranscriptome	159	Y
F051759	Metagenome / Metatranscriptome	143	Y
F052605	Metagenome / Metatranscriptome	142	Y
F100490	Metagenome / Metatranscriptome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
thermBogB3DRAFT_100013	Not Available	847
thermBogB3DRAFT_100046	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobia subdivision 3 → unclassified Verrucomicrobia subdivision 3 → Verrucomicrobia subdivision 3 bacterium	1418
thermBogB3DRAFT_100123	Not Available	773
thermBogB3DRAFT_100214	Not Available	621
thermBogB3DRAFT_100560	Not Available	506
thermBogB3DRAFT_101267	Not Available	506
thermBogB3DRAFT_101367	Not Available	610
thermBogB3DRAFT_102326	Not Available	572
thermBogB3DRAFT_102800	Not Available	579
thermBogB3DRAFT_103914	Not Available	659
thermBogB3DRAFT_111289	All Organisms → cellular organisms → Archaea → TACK group	580

Sequences

Scaffold ID	Protein ID	Family	Sequence
thermBogB3DRAFT_100013	thermBogB3DRAFT_1000131	F001346	VVSAGPVKTFRNVGDVKNDTADLSMKGNLRVKRRDPWHRANAQPKAAADPALSGEDAETESQTCLYLVHRPVAQPPAEAS*
thermBogB3DRAFT_100046	thermBogB3DRAFT_1000464	F052605	PEFIERTKRTAESKIDVVRFKIIPGDWGKVRSGWLIWLLTNRSASFGEAKFTGSSGGVRTPSNANEGLGGEER*
thermBogB3DRAFT_100123	thermBogB3DRAFT_1001231	F010305	LKRAXKPHSKFSDRKALDGPATRPGTPLAVENGVGKLTAPEKGAPNVSTGKRDWRAPI
thermBogB3DRAFT_100214	thermBogB3DRAFT_1002141	F041058	MLKTTPLDCEIKSNLRXQRRDPWHRANAPSKAVADPEPVVKTRTKKSQACLDLVRRPVAQPP
thermBogB3DRAFT_100560	thermBogB3DRAFT_1005601	F051759	MGFAQAGVVAGEGKAVTSDRPRSREKXGCDAPGSIDPAAGENGGWGAKRRSVQRSGLRCSVPGMPVVGKAANRITWNP*
thermBogB3DRAFT_101267	thermBogB3DRAFT_1012671	F001679	PGTWGMSWRQEAMKGVEDCDKPGVAVKRAPIPGFPN*
thermBogB3DRAFT_101367	thermBogB3DRAFT_1013671	F011566	GAK*SDFQPCSPPACTVLNIAIGSAGRLASLLPDYRFRRSPDRCFKTRRRLLSRLGPDARNGLSLARNGCSFRSLHSEVNVPGLPLRFQLAASSARSALLLRYPNRLAPVSAASMLSGPLQSPRLARKPRLQPPLPLRTFTSRRIKAFCWICCISARLPNQPDFPSLPAAGFYLPGSIASSYY*
thermBogB3DRAFT_102326	thermBogB3DRAFT_1023261	F100490	SERGGTNIGQFTRLLRSLELRAVSHRTVLLLWDQKRLLRMRDCFRGPKIHLPTQG*
thermBogB3DRAFT_102800	thermBogB3DRAFT_1028001	F041780	VAACSPTGMHGQNVAVRMTGLNSLCSPRLPLGRSASTLWAQPASHSNRNRHLETAFLLPCSDFPYPELRDRLERSQPASSITLPYPIRVRSVLNSLPDAFGFRRGHGHKTRFPLAARQSRPILEPPLPFGVSPPPDHNAQSDSDREVCFGKMPDIPSLPERIIVNKSTFGSTFQARYILPSFTVP*
thermBogB3DRAFT_103914	thermBogB3DRAFT_1039141	F000396	L*PRNGGLETGSRFGRVKGRFEIPVPSDLFSQPNSPPACNGTELRSQNRRVSSFPLPIALFGGQRFNASRLTSQLFRPEPVSRSGLSLSRNDCPFPGHRFEVKAPDLLLRHPAVRSSCPFEFQFPHALRLAPIRARSLPKSRCPTLARHSQRFLGSPLPFGAFRTLPDQSVRPDSMLESSPPERSRLPFTPWLQVYFTSFDARSPLQAR*
thermBogB3DRAFT_111289	thermBogB3DRAFT_1112892	F032176	GDMGVLKGYSLMKMVPGKNPTSVGLWXFMTMSEKLGWLNDTITLVTFEAADPMWMDLNVTIWEWK*