Project Detail : PRJDB5769

AccessionPRJDB5769
Project TypePrimary submission
Project Data TypeMetagenome

General info

Project titleTime-series monitoring of potentially toxic diatoms of the genus Pseudo-nitzschia in Tokyo Bay, Japan with massively parallel sequencing technology
Project Description
Currently, there is no available tool to exactly identify and quantify all 48 Pseudo-nitzschia species at once. In this study, we applied massively parallel sequencing-based technology to investigate the distribution and population dynamics of this genera in Tokyo Bay. We also attempted to quantify abundances of each species using both the relative abundance detected in the massively parallel sequencing-based survey and the cell count data obtained by light microscopic observation. Pseudo-nitzschia species appeared constantly in the sampling location from July 10 - September 9, 2016. The cell densities fluctuated from 2 to 300 cells mL-1 (n = 10). Fourteen operational taxonomic units (OTUs) of Pseudo-nitzschia were detected, and 99.9% of the massively parallel sequencing (MPSs) were this genus. The most dominant OTUs each contained a single species; by abundance, these were P. multistriata, P. pungens, P. fraudilenta, P. multiseries, and P. galaxiae, in that order. Species identification was possible in 10 of the 14 OTUs. The cell abundances of the top five species were estimated at 1,976-246,395, < 0.03-52,999, 5-42,820, 4-24,617, and < 0.03-1,007 cells L-1, respectively. The detection limit was 0.03 cells L-1.
Release Date2019-05-08
RelevanceEnvironmental

Grant 1

GrantIdJSPS KAKENHI Grant Number 25292130
TitleScientific Research (Kiban-B) from the Japan Society for the Promotion of Science
Agency abbreviationJSPS
AgencyJapan Society for the Promotion of Science

Grant 2

GrantIdJSPS KAKENHI Grant Number 02523180
TitleJapan Society for the Promotion of Science
Agency abbreviationJSPS
AgencyJapan Society for the Promotion of Science

Project Type

Sample scope/Material/Capture/Methodology

Sample ScopeEnvironment
MaterialPartialGenome
CaptureTargetedLocusLoci
MethodologySequencing

Objective

ObjectiveRawSequenceReads

Target

Organism information

Organism namemarine plankton metagenome
Taxonomy ID1874687