3300022749: Metatranscriptome of freshwater microbial communities from Pennsylvania, United States - DR:GLUT (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300022749
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114818 | Gp0293682 | Ga0255028
• Sample Name: Metatranscriptome of freshwater microbial communities from Pennsylvania, United States - DR:GLUT (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 30228324
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 6

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Pucciniomycotina → Pucciniomycetes → Pucciniales → Pucciniaceae → Puccinia → Puccinia striiformis → Puccinia striiformis f. sp. tritici → Puccinia striiformis f. sp. tritici PST-78	2
Not Available	1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Pooideae → Triticodae → Triticeae → Triticinae → Triticum → Triticum aestivum	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 → Sediment → 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 → stream → fresh water
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Water (non-saline)

Location Information

• Location: USA: Pennsylvania
• Coordinates
  • Lat. (^o): 41.1553
  • Long. (^o): -78.3938
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F002654	Metagenome / Metatranscriptome	539	Y
F020828	Metagenome / Metatranscriptome	221	Y
F032472	Metagenome / Metatranscriptome	180	Y
F035626	Metagenome / Metatranscriptome	171	Y
F045749	Metagenome / Metatranscriptome	152	Y
F092835	Metagenome / Metatranscriptome	107	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0255028_107519	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Malpighiales → Rhizophoraceae → Rhizophora → Rhizophora mucronata	739
Ga0255028_108073	All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage	695
Ga0255028_109036	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Pucciniomycotina → Pucciniomycetes → Pucciniales → Pucciniaceae → Puccinia → Puccinia striiformis → Puccinia striiformis f. sp. tritici → Puccinia striiformis f. sp. tritici PST-78	638
Ga0255028_109663	All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Basidiomycota → Pucciniomycotina → Pucciniomycetes → Pucciniales → Pucciniaceae → Puccinia → Puccinia striiformis → Puccinia striiformis f. sp. tritici → Puccinia striiformis f. sp. tritici PST-78	607
Ga0255028_110765	Not Available	557
Ga0255028_111215	All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → Liliopsida → Petrosaviidae → commelinids → Poales → Poaceae → BOP clade → Pooideae → Triticodae → Triticeae → Triticinae → Triticum → Triticum aestivum	539

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0255028_107519	Ga0255028_1075191	F002654	MLNYQTFNDKVVCLKGNSPEQELKVPKLLLSENKEVFFKYNQEIGLEAAIF
Ga0255028_108073	Ga0255028_1080731	F045749	LLLTNYKDALPITNDDRRFCVMYGRIQNESELFDYFGGRDEAGEYFENLFRESELHAGAIKTFILNHTISEDFKPSGRAPDTVSRRLMIQASVSPEQSLVEDLINKHECGVVNGRILDVTWFKSLCEGEGDVLPQSRTLAHILNDIGYQQITGRRIKIKKTRENHYIWFKAKKGVDEESVKNEVQDFFGNDLDQVPF
Ga0255028_109036	Ga0255028_1090361	F035626	MASSIINNDAVQGETFLPEQIFVFVGLALRANLLGQLEQIEGYAPGHQVRFGSLNYTADISGDLIFDGFEPRPSVPHCHDGHDLALPPDSAQ
Ga0255028_109663	Ga0255028_1096631	F032472	LRANSLGHLEQIESYAPGRQVRFGSLNYTTDIREDLIFDGFEPLPSAPHCHDEHDLALPPNSALEAAPASASTLNSEPTAPIEDGWLDAASGAAIPTAIEPNTSPTLRDTRDSKEPDSEPSAPLPIESDWAPIMEFTSMDIFQHSPFGDILNSLRSLSLSGESWPNYFRQDW
Ga0255028_110765	Ga0255028_1107651	F092835	VRLRVGYQHSRFLSILTRFVDYYSPVLGRKAISIVVEPQGALTCWSSTLTVLADSGPFPG
Ga0255028_111215	Ga0255028_1112151	F020828	MEKLFWSQYTGTKHPMPLSDQLKQLVELHKAAEQAMKGFIVRLWPGDALPNSYFGLVTRLVDACPRLEVVKQPVCIEGARRAFARVKVQWAKLDAVKLIKEGPPEGKEHRHPEMYYEGVLKGARLVADECTKDVIFE