3300006192: Freshwater microbial communities from Pennsylvania, USA, analyzing microbe dynamics in response to fracking - TARM_MetaG_T_14

Overview

Basic Information

• IMG/M Taxon OID: 3300006192
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114818 | Gp0116266 | Ga0075011
• Sample Name: Freshwater microbial communities from Pennsylvania, USA, analyzing microbe dynamics in response to fracking - TARM_MetaG_T_14
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 724650584
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → Xanthomonadaceae → Xanthomonas	1
Not Available	5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Marinobacteraceae → Marinobacter → Marinobacter nauticus	1
All Organisms → cellular organisms → Bacteria → Proteobacteria	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater biome → planetary subsurface zone → fresh water
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Water (non-saline)

Location Information

• Location: Pennsylvania, USA
• Coordinates
  • Lat. (^o): 41.2451
  • Long. (^o): -76.9856
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F000695	Metagenome	931	Y
F087432	Metagenome	110	Y
F090615	Metagenome / Metatranscriptome	108	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0075011_10010456	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes → Clostridia	4575
Ga0075011_10072371	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → Xanthomonadaceae → Xanthomonas	1419
Ga0075011_10092176	Not Available	1209
Ga0075011_10170663	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Pseudomonadales → Marinobacteraceae → Marinobacter → Marinobacter nauticus	795
Ga0075011_10193162	All Organisms → cellular organisms → Bacteria → Proteobacteria	730
Ga0075011_10210424	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria	688
Ga0075011_10223766	Not Available	659
Ga0075011_10278005	Not Available	567
Ga0075011_10284403	Not Available	558
Ga0075011_10289104	Not Available	552

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0075011_10010456	Ga0075011_100104564	F087432	MIIYENGEYTPCTYRVTLQNRGVEETHYANFRTHWEDMVAKHDHLTNLNFEEIIFSAEQDARLQEISELSIPQGFQAQVREYVENGNFPDGYEHPLSDLKLKKERLQHQNDIDEAYQMILESEGLI*
Ga0075011_10072371	Ga0075011_100723712	F090615	VNAPVVAAPAAAPVPAPAQKPTAAGTLTRSEKLARIRALQVAAPEPTDPALITALRVRKNWLRPDSPIVDKAAVEGLKKLGVLLCPPPDPEGKSIPERRFIDIATEYLKAVPQARLLIEEAAVEHQAFWDADQPYIDQSDEDIHEEMVTAIKIANGERLRAAKAKAAAGS*
Ga0075011_10092176	Ga0075011_100921763	F087432	MIIYENGEYTPCTYRVTLQNKGVEETHYANFRTYWEDMVAKHEYLTNLSFEEITFSAEQDARLQEISELNIPQGFQAEVKEYVENGNFPEGLNNPLAGLKYKKEMNDAYKMILESEGLI*
Ga0075011_10170663	Ga0075011_101706631	F000695	MFGVQNFQDVEFREWADDMSPRLVTMMDILRFQVGSPVIISPHPDSLGRELGRSDLSAHNIDHW
Ga0075011_10193162	Ga0075011_101931622	F090615	APEPTDPSLIAALRVRKGWLRPDSPIVDKAAAEGLKKLGALLCPPPDADKRSATVKQINEVATEYLKAVPQARLLIEESAVEHQAFWDPDQPYVERTDVQLHGNLVTAIKTANADRLRAAEAKAAAVS*
Ga0075011_10210424	Ga0075011_102104241	F090615	PVPAPAQKPTPAASGTLTRSEKLAQMRALQLAAPEPTDPALIAALRVRKGWLRPDSSIVDKAAAEGLKKLGVLLCPPPDPDGKSIPERRFIDIATEYLKAVPQARLLIEESAVEQQASWDPDKVYVERTDADIHGNLVTAIKIANAERLRAAEAKASAGS*
Ga0075011_10223766	Ga0075011_102237661	F090615	VAAPVAPVVRAAPVPAPAQKPTPAASGTLTRSEKLAQMRALQLAAPEPTDPSLIAALRVRKGWLRPDSSIVDKAAVEGLKKLGALLCPPPDADKRSATVKQINEVATEYLKAVPQARLLIEEAVVEHQASWDPDKVYVERTDADIHEEMVTAIKTANADRLRAAEAKAAAGS*
Ga0075011_10278005	Ga0075011_102780052	F090615	APEPTDPSLIAALRVRKGWLRPDSPIVDKAAAEGLKKLGVLLCPPPDPDGKSIPERRFIDIATEYLKAVPQARLLIEESAVEHQASWDPDKVYVERTDADIHEEMVTAIKIANGERLRAARAKASAGS*
Ga0075011_10284403	Ga0075011_102844031	F090615	RAAPVPAPAQKPTPAASGTLTRSEKLAQMRALQLAAPEPTNPALITALRVRKGWLRPDSSIVDKAAAEGLKKLGVLLCPPPDADKRSATVKQINEVATEYLKAVPQARLLIEESVVEHQASWDPDKVYVERTDADIHEEMVTAIKTANADRLRAAEAKAAAGS*
Ga0075011_10289104	Ga0075011_102891041	F090615	RAAPVPAPAQKPTPAASGTLTRSEKLAQMRALQLAAPEPTDPSLIAALRVRKGWLRPDSSIVDKAAVEGLKKLGVLLCPPPDPEGKSIPAKLFNEIAAEYLKTVPQTRLLIEESAVEHQAFWDADQPYIDQSDEDIHEEMVTAIKMANADRLRAARAKASAGS*