3300001245: Estuarine microbial mat communities from Elkhorn Slough, Moss Landing, CA, USA - CR3B Metatranscriptome (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300001245
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0053052 | Gp0054304 | Ga0001182
• Sample Name: Estuarine microbial mat communities from Elkhorn Slough, Moss Landing, CA, USA - CR3B Metatranscriptome (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: Y
• Use Policy: Open

Dataset Contents

• Total Genome Size: 949145811
• Sequencing Scaffolds: 4
• Novel Protein Genes: 4
• Associated Families: 3

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	2
All Organisms → Viruses → Predicted Viral	1
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Estuarine Microbial Mat Communities From Elkhorn Slough, Moss Landing, Ca, That Are H2-evolving And Photosynthetic
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Mat Communities From Elkhorn Slough, Moss Landing, Ca, That Are H2-evolving And Photosynthetic

Alternative Ecosystem Assignments

• Environment Ontology (ENVO): estuarine biome → estuary → estuarine water
• Earth Microbiome Project Ontology (EMPO): Free-living → Saline → Water (saline)

Location Information

• Location: Elkhorn Slough, Moss Landing, CA
• Coordinates
  • Lat. (^o): 36.8
  • Long. (^o): -121.8
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F076655	Metagenome / Metatranscriptome	118	N
F093475	Metagenome / Metatranscriptome	106	Y
F102169	Metagenome / Metatranscriptome	102	N

Associated Scaffolds

Scaffold	Taxonomy	Length
JGI12048J13642_10007702	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	644
JGI12048J13642_10007703	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia	660
JGI12048J13642_10682611	All Organisms → Viruses → Predicted Viral	4160
JGI12048J13642_10797137	All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.	1070

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI12048J13642_10007702	JGI12048J13642_100077022	F093475	LTRWRIQRKTVTPEEAGLCGCRQFIAVWRERHYLRRGRVYKEEQEYSFYVSSVDPQRYDE
JGI12048J13642_10007703	JGI12048J13642_100077031	F093475	LTRWRIQRKTVTPEEAGLCGCRQFIAVWRERHYLRRGRVYKEEQEYSFYVSS
JGI12048J13642_10682611	JGI12048J13642_106826114	F102169	MAGVTNNTQRQFNLKTIGKNGNRVTVRLVPGFNVVDDAHWIEFVSKTGKVEDAYVAELKKKGQISFGKAEDDKELDEEGTKAKSKSRAMPKAKQTKPAE*
JGI12048J13642_10797137	JGI12048J13642_107971373	F076655	MLMEEAINKLVRDSINLVLGLPGYTIKAKQEDAPRPKGAYAVVDFLTGESIGWEQRNFTNNQADLDLTESISGLRNITMSINFYRDNAMDNSRKVRTALVRESIQSLFSEAGVGLVSRSEVRDIDSPTQDGWEERSQFDLVLNVVGTDSDIVQSILVADIAGRYQFRGLEYNSTIEVQ*