3300006569: Aqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_N_<0.8_RNA (Metagenome Metatranscriptome)

Overview

Basic Information

• IMG/M Taxon OID: 3300006569
• GOLD Reference (Study | Sequencing Project | Analysis Project): Gs0114433 | Gp0116195 | Ga0075500
• Sample Name: Aqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_N_<0.8_RNA (Metagenome Metatranscriptome)
• Sequencing Status: Permanent Draft
• Sequencing Center: DOE Joint Genome Institute (JGI)
• Published?: N
• Use Policy: Open

Dataset Contents

• Total Genome Size: 9589387
• Sequencing Scaffolds: 6
• Novel Protein Genes: 6
• Associated Families: 5

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
Not Available	3
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	1
All Organisms → cellular organisms → Bacteria	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)

• Name: Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series
• Type: Environmental
• Taxonomy: Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Alternative Ecosystem Assignments

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

Location Information

• Location: USA: Delaware
• Coordinates
  • Lat. (^o): 39.283
  • Long. (^o): -75.3633
  • Alt. (m): N/A
  • Depth (m): N/A

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001679	Metagenome / Metatranscriptome	653	Y
F030134	Metagenome / Metatranscriptome	186	Y
F077370	Metatranscriptome	117	Y
F081750	Metagenome / Metatranscriptome	114	Y
F084398	Metagenome / Metatranscriptome	112	N

Associated Scaffolds

Scaffold	Taxonomy	Length
Ga0075500_102792	Not Available	824
Ga0075500_111079	Not Available	710
Ga0075500_120626	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira pseudonana	581
Ga0075500_124724	All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta	500
Ga0075500_128019	Not Available	633
Ga0075500_129092	All Organisms → cellular organisms → Bacteria	1427

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0075500_102792	Ga0075500_1027921	F030134	KDKIQPVLQRFKLRSCNFLIVEQTNNMCGYNTYEKIIQHRGSS*
Ga0075500_111079	Ga0075500_1110791	F077370	KKVLKQNSQQLAVPKPMSILGETINRAIDILIDIYAVNSLGSTYYSFNATPSGAPIMTVNLTDLMILQFTEYSQLAKIYGLCKMKKLQLGFTRSSNYIGGASNIITNTPSFSLQLSTIPYSSGTTTLQRAVAQADNSVEVDLQTYAPKSWDVALPPHIVSNNRANNQTFVFGSQTWVSTKLYNVENFPDLFLNLGSLAFPSFDTAAPNQGYLVGQIHGRFQLSFAGPIVQ*
Ga0075500_120626	Ga0075500_1206262	F081750	MGQKTDARIFRQGIHKKN*ESKYIEKNNEESSLYLYKTLEIQKYLNRFFELYKIKIHNCRIFYSNGSLYVFVSFYLTAKTIYAINKDLIRYSKKFLLRAKRASSKK
Ga0075500_124724	Ga0075500_1247241	F084398	MARLELTLNFPKSFQIKTFNVKSEKKLSPLAKLILQSVQFKHFYYVRDDISYLLKSNPVERDFLLQALYSIVISLQNNLSINFFDIW
Ga0075500_128019	Ga0075500_1280191	F030134	QRFKLRSCNFLIVEQTNNMYGYNTYEKIIQHRGSS*
Ga0075500_129092	Ga0075500_1290922	F001679	VWRMSRRQEAMKGVEGCEKPGVAVKQAIIPGFPNYHVLNP*