3300005481: Sediment microbial communities from Lake Washington, Seattle, Washington, USA - Methylamine enrichment

Overview

Basic Information

• IMG/M Taxon OID: 3300005481
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0055738 | Gp0050988 | Ga0074210
• Sample Name: Sediment microbial communities from Lake Washington, Seattle, Washington, USA - Methylamine enrichment
• Sequencing Status: Finished
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 37194622
• Sequencing Scaffolds: 10
• Novel Protein Genes: 10
• Associated Families: 10

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	1
Not Available	5
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	1
All Organisms → cellular organisms → Bacteria → Acidobacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Sediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Freshwater → Lentic → Sediment → Sediment → Sediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): freshwater lake biome → freshwater lake → lake sediment
• Earth Microbiome Project Ontology (EMPO): Free-living → Non-saline → Sediment (non-saline)

Location Information

• Location: Lake Washington, Seattle
• Coordinates
  • Lat. (^o): 47.63458
  • Long. (^o): -122.26655
  • Alt. (m): N/A
  • Depth (m): 63

Associated Families

Family	Category	Number of Sequences	3D Structure?
F006851	Metagenome	363	Y
F015355	Metagenome / Metatranscriptome	255	Y
F034611	Metagenome / Metatranscriptome	174	Y
F036760	Metagenome / Metatranscriptome	169	Y
F046913	Metagenome	150	Y
F060244	Metagenome / Metatranscriptome	133	Y
F065754	Metagenome / Metatranscriptome	127	Y
F067730	Metagenome	125	N
F074834	Metagenome / Metatranscriptome	119	Y
F106175	Metagenome	100	Y

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0074210_113469	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria	863
Ga0074210_113618	All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae	842
Ga0074210_114803	Not Available	811
Ga0074210_116491	Not Available	900
Ga0074210_118038	Not Available	840
Ga0074210_121502	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	791
Ga0074210_122757	Not Available	851
Ga0074210_126773	All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium	794
Ga0074210_130281	All Organisms → cellular organisms → Bacteria → Acidobacteria	772
Ga0074210_135580	Not Available	852

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0074210_113469	Ga0074210_1134691	F006851	MARPARIDLRLFQQELATRLASKTTAQVESSRLGLSCAGERWLIRLA
Ga0074210_113618	Ga0074210_1136182	F034611	MLYSNTVLSLTSDLLAHKAFNHLRDDEISQLHHLLLKMQDPLTTIQQNLLLTFWIHADTRVLPPALLYRCNILLQQLGRSPLEELKMEMY*
Ga0074210_114803	Ga0074210_1148032	F074834	AALPAIRQQVEATAGALRDARLDPGSPRALALFSG*
Ga0074210_116491	Ga0074210_1164912	F106175	VNRRAWALTAASLFLAAACGAPPAKTELERTVSDRARGVRYVVPPGWKSFEGEIRSPAGSLLTLRVYDLVEADKAFVARLPDSLIPQLLEWAQLYYIVDGPPVRTATTVAGLAATELVYPIHVLKRDPPSKVIYWVVIRKTRLFVLRAAFPATSLAVEEPVLRKVVEGWAFVE*
Ga0074210_118038	Ga0074210_1180382	F060244	MAVAIIICFSSIKDGSTVSLAKRDLTDVGISGALHTGFGFFGPLNAAFALPALRLGWPRTAWPKVQRFHVLHSIRENLGPLCYTGSPVSARRATLDDPDSTACLFGPSLNQPRMARFS*
Ga0074210_121502	Ga0074210_1215022	F015355	VKTTLRYLSLNAQATWHRQVEDQLQHLHGLTPITAAEVVLEHQEEARPAFRVQVRLEVPGPGVHPKAVRHTREAARLIHGPALHAEARDNTLEAALLQATRELEHQVQARQLRR
Ga0074210_122757	Ga0074210_1227572	F046913	MISKLKEWFDHLIIPRPELSNMPICPFAKAAVTNQEYTVEETNLDDIAFQISNANVQVYKVCIFYLPNYELYEVEALEAKTKMLNRNFKHNNKVVLDSDPRNPFVINGVTTTFPDCYIWIIQDLTDLTFKSNSLKFTDYYSYWTKEH*
Ga0074210_126773	Ga0074210_1267731	F065754	MPLVGFRPTKARLIIEDTKASVLVMRVVVYPGDSVKLASGGRLEELNGVLRVRERKESGTRNGANDLGSLIYIAESGLAADFSPAKYQINVAMAGPKFDTLVRVALSGRLPTKFFVDAGERISRTETRGLGYEARAGKRTKVWDTLAHRILLVTNFSFILPIDVPEPRGDEATAHETVPGPSVATNAQVAELIDDLLVFHGETKHTLFALMCILGILAVAALVIGLVLFQRM*
Ga0074210_130281	Ga0074210_1302811	F036760	LRHVSSALLAVLVLAGCARPLAPTPTPASVDVLPYLLGDASLWPRRGNQPQNQIVDLARQELCWVKYANTRRFECWRWDDQFIYHAVDHGLDGDSNESYIFTDGRWIARYLPASASPTRPWSVDVRQNQLVWFDAACHVDPSRSHAFPYRQRAWFEPQREAGGDLGRRDTLVLEYQPYDLAGAAGAAEHYYLGLGAGWYEWERSGVPV
Ga0074210_135580	Ga0074210_1355802	F067730	MTVTTKTEIVGIREAVASLNKIEPKLRKQFAAELNQIAAPALNVARSRYASLGVPLSGMAKTWTNNNRKLFPYSVTKAQKGVKVKLDTRRNSASVITIQQTDQATAIFETAGRKTRNILATNLGATPPAGRTRLFGPAVYSKIREITREIEQASLRVVNKVNRELQ*