3300024304: Subsurface microbial communities from Mancos shale, Colorado, United States - Mancos A_10_July_PB

Overview

Basic Information

• IMG/M Taxon OID: 3300024304
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0118431 | Gp0272194 | Ga0233391
• Sample Name: Subsurface microbial communities from Mancos shale, Colorado, United States - Mancos A_10_July_PB
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 51475452
• Sequencing Scaffolds: 9
• Novel Protein Genes: 9
• Associated Families: 9

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	1
All Organisms → cellular organisms → Bacteria → Nitrospirae	4
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	1
Not Available	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Subsurface Microbial Communities From Deep Shales In Ohio And West Virginia, Usa
• Type: Environmental
• Taxonomy: Environmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Deep Subsurface Sediment → Subsurface Microbial Communities From Deep Shales In Ohio And West Virginia, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): terrestrial biome → planetary subsurface zone → sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Subsurface (non-saline)

Location Information

• Location: USA: Colorado
• Coordinates
  • Lat. (^o): 38.96
  • Long. (^o): -106.99
  • Alt. (m): N/A
  • Depth (m): 10

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006921	Metagenome / Metatranscriptome	362	Y
F007886	Metagenome / Metatranscriptome	343	Y
F008161	Metagenome / Metatranscriptome	338	Y
F010093	Metagenome	308	Y
F012678	Metagenome / Metatranscriptome	278	Y
F025366	Metagenome / Metatranscriptome	202	Y
F037096	Metagenome / Metatranscriptome	168	Y
F056186	Metagenome	138	N
F092148	Metagenome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0233391_1000010	All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira	9793
Ga0233391_1000235	All Organisms → cellular organisms → Bacteria → Nitrospirae	3276
Ga0233391_1000705	All Organisms → cellular organisms → Bacteria → Nitrospirae	1708
Ga0233391_1001241	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1224
Ga0233391_1004599	All Organisms → cellular organisms → Bacteria → Nitrospirae	658
Ga0233391_1004924	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium	641
Ga0233391_1007247	All Organisms → cellular organisms → Bacteria → Nitrospirae	557
Ga0233391_1008002	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria	539
Ga0233391_1009446	Not Available	509

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0233391_1000010	Ga0233391_10000103	F056186	MGVGIMTKEQAVALREKWAEGENLPCRHLHLELEHNNDDYLTDNYHCTACGELVAANTRDPFQVV
Ga0233391_1000235	Ga0233391_10002353	F025366	MNVYGKWILQSVPCFGLGLLMLLSTVTPRQARSNVEAWFLYFGIENIPPWLADEYTDTWVFWIGSVGFCLWATQLYFRQNLRIGKLSVIIHDGEPWVQVDSHIDRSQAAPTSGRLYIYRIALTNSADVTFRNVEVKLTSLEKRSQNFHAIGSHLKLRNDQVGSTNFNVHPSKDPQFLDAMFVDVFNLFLGDNGSSFLRVTSLPEDMNRLIPVDKYEVKIMATSERGEMTIAELAFIPRPDQIPEFRLLTVQSFPGATGASS
Ga0233391_1000705	Ga0233391_10007052	F008161	METSQRDVLLGTITWWGFHALLMWMGAWHFFSRDLTDGALFASDLFAGGLIGATVLSLLRLSVGCHLLRFISLIGILLVLVRLWQGKAEWGSLTDVAIWAYTFYSFGPSSWRHSLYSRLGVFGKLKT
Ga0233391_1001241	Ga0233391_10012412	F006921	MKYIFLLITFFSLTTSKAQSLKSLEDNNGFKKYKLASKFVLGLGIKNKDAEGADKIVIDYANETIGDIPVKSIELYYLKDTLAKIIVKVPPEFYEKLIDALKNSFGQPTQDFSKNEKVNFDSTSSANYYKDNFLWKATRIRLEYLYTYPKASGGGYGAKNLQLVYSMNDYGQRLQRVQKGVNSAKNF
Ga0233391_1004599	Ga0233391_10045991	F007886	VLEDDGAGVVVFDVVLDGVLAGADEGGAAGVAGVAGDVDVVWLDVLGTVSFFSPVVGADASLSEEGFILSE
Ga0233391_1004924	Ga0233391_10049241	F010093	EQMKSSGSLRYIGNIDFLKEMMDYERITNFAQYRNQDFEKKYYTELFIPALYRSLDLTCQLSLDTSNRSDPFKMEKIASHKDVLGGNDAIAFRNNMGAALTLRLERLKRSLDAFRDARHACVDMEKLILKQLKK
Ga0233391_1007247	Ga0233391_10072471	F037096	MDQAAVDALVYWAGAFFLGGFAVGVIVKLLLGRIS
Ga0233391_1008002	Ga0233391_10080021	F012678	MLNQHSLEEIADIHRLLEDIKKEYEEGIKPVLVKNSPNLFRNPHTVPKLKKIQINRG
Ga0233391_1009446	Ga0233391_10094461	F092148	MSNIKKREDLSGKIKIALDKAIVKVVAETKAKNSYLVVADKKGNIKKIPAKDL