3300026389: Metatranscriptome of enriched cultures of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1.12 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300026389
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0132855 | Gp0291465 | Ga0247507
• Sample Name: Metatranscriptome of enriched cultures of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1.12 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 55921905
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038	1
Not Available	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Enriched Cultures Of Pce-Dechlorinating Microbial Communities From Ithaca, New York, Usa
• Type: Engineered
• Taxonomy: Engineered → Modeled → Simulated Communities (Microbial Mixture) → Unclassified → Unclassified → Defined Medium → Enriched Cultures Of Pce-Dechlorinating Microbial Communities From Ithaca, New York, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): Unclassified
• Earth Microbiome Project Ontology (EMPO): na → na → na

Location Information

• Location: USA: New York
• Coordinates
  • Lat. (^o): 42.4447
  • Long. (^o): -76.485
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F022683	Metagenome / Metatranscriptome	213	N
F031111	Metagenome / Metatranscriptome	183	N
F080090	Metagenome / Metatranscriptome	115	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0247507_100959	All Organisms → cellular organisms → Bacteria	6969
Ga0247507_109085	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Methanomicrobia → Methanotrichales → Methanotrichaceae → Methanothrix → Methanothrix soehngenii	1299
Ga0247507_122263	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038	594
Ga0247507_127063	Not Available	503

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0247507_100959	Ga0247507_1009595	F031111	MNNQVFFSIFKNKTRRKKEKSRFLIGKKRCISYIPQNSYYQTIVNIPAAYNFSCYYPQNLPSSQIGKQVKEISKPLNLALIKLFKPKLTFP
Ga0247507_109085	Ga0247507_1090851	F080090	YWSEPLRVDKKLSNADSWREVHEEDQAALRPGLQDISISRT
Ga0247507_122263	Ga0247507_1222631	F022683	PLTDFYAKWSKDSLDMMSKGMAMYNRMSRAWTEVGEGSAAEKPEDMLKKWTEAFSGSYNELFEMYAQPFKMFGMGGQTPGKEAWEEAFAKWQKMFTAMPSGPAPAAGDEFMNFSKNWFEGYSKIWQTWMESMQRMGEACKSAVSEGEKPDAAMGAFTEISDRFMQQWSAFVTEQAQAFFTLWRSRLPSEKKEPAKKAK
Ga0247507_127063	Ga0247507_1270631	F080090	MYWSEPLRVDKKLSNADSWREVHEEDQAALRPGLQDISISRT