3300026397: Metatranscriptome of enriched cultures of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1.SFe12 (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300026397
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0132855 | Gp0291468 | Ga0247510
• Sample Name: Metatranscriptome of enriched cultures of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1.SFe12 (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 71041590
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 4

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Candidatus Cloacimonetes	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae	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?
F024821	Metagenome / Metatranscriptome	204	Y
F031111	Metagenome / Metatranscriptome	183	N
F042955	Metagenome / Metatranscriptome	157	Y
F103516	Metagenome / Metatranscriptome	101	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0247510_103690	All Organisms → cellular organisms → Bacteria → FCB group → Candidatus Cloacimonetes	3263
Ga0247510_123839	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae	655
Ga0247510_126639	All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038	594
Ga0247510_128302	Not Available	564

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0247510_103690	Ga0247510_1036902	F031111	RTKRVKKVTGMKNQVLFSIFKNKTRRKKEKSRFLIGKKRCISNIPQNSYYQTIVNIPAAYNFCCYYPQNLPSSQIGKQVKKILKPLNLALIKLSKPKLTFP
Ga0247510_123839	Ga0247510_1238392	F024821	MEGSTREKFLHALMQYQEKHGQEKASAIQERFWQQRERVVAESAADIDWFPSWKKNQILESLLEKTYRDLIVE
Ga0247510_126639	Ga0247510_1266391	F042955	GKEAPMNRLARILPVAVAAGVLAWLWYSAWPELFRAGMPSITEDAEFALLVRLTGFVVLLGVAFWFAARNLMKK
Ga0247510_128302	Ga0247510_1283021	F103516	LLAGCGAATNVQVMKPVNGEIQSFLTPELLKSRCYNFMSAGREGEMIAKKSNVLLNECNLTAKDAVNRVTYLTYTTKDAYVAESGENQVISKRVMGNKDIEIESRLFYEKEGGVRGIQVLINDFVDKNYVKGYEPEWVVRALYREVKLQDGKIVVVRDGMTRDEFMKEDEIEHYKKLNRMLK