Param: the name of the measured parameter: Nombre d'individus morts, Nombre d'individus vivants, Poids de l'individu or Poids total des individus vivants (in English: number of dead oysters, number of alive oysters, mass of the individual and total mass of alive individuals).Ĭode_param: code of the measured parameter. Biométrie initiale (in English: initial biometrics) is equivalent to P0 (first data collected during the campaign). For example, data collection on corresponds to P1_S19. For intermediate operations, we use the previous name of the operation followed by an underscore and the number of the week. The name of the quarterly operation (P0, P1, P2, P3 or RF: last data collection). Blank cells indicate that this information was not available.ĭate: the date of data collection (format DD/MM/YYYY). Ploidy: the ploidy of the oysters: diploïdes or triploïdes (in English: diploid or triploid). Blank cells indicate that this information was not available. For example, 014-P-055.Ĭlass_age: the age class of the oyster: N0 (spat), J1 (half-grown) or A2 (commercial size). Mnemonic_site: the mnemonic is a unique identifier of the site and is constructed as follows: code of the marine area - P (for monitoring point) - order number of the monitoring location in the marine area. The first thing we did in this project is to keep only 18 columns and rename them. The table contains 571101 rows and 34 columns. This data set is a modified extraction (carried out on ) of the RESCO REMORA Database ( ) available in SEANOE, an academic publisher or marine research data. This script also computes the mean cumulative mortality and mean mass of oysters per date x site x class age combination.Ĭode/2_analysis_sigmoide.Rmd does the logistic and Gompertz models of the mean cumulative mortality and mean mass for spat and half-grown oysters.Īll the data needed to run the analyses are stored in data folder.Īll figures produced by the analysis are saved in figs folder and are labelled as they are in the manuscript.ĪllDataresco.csv is a csv file containing the raw observations of oyster growth and mortality recorded within the REMORA, RESCO and ECOSCOPA programs. All the scripts for the analyses can be found in code folder.Ĭode/0_map_sampling_location.R contains the code to recreate the map of the sampling location.Ĭode/1_cleaning_data.R contains the code for data cleaning. All analyses can thus be run without changing paths. R project automatically assigns the root directory to the directory in which the project is. Open the R project file in the downloaded folder.
The project can be cloned or downloaded by clicking "Clone or download" at the top right of this page. This work is licensed under a Creative Commons Attribution 4.0 International License.
It can recreate all analyses and figures in the text. This repository contains the data sets, analyses and figures of the above-mentioned paper. All Rights Reserved.Analyses and data from A 26-year time series of mortality and growth of the Pacific oyster C. During this period, the water temperature was below 16☌.Ĭopyright © 2014, American Society for Microbiology.
An initial increment in the number of PCR-positive oysters was reported at both field sites during the survey in the absence of significant mortality. Mass mortality was observed among oysters a few days after increases in the number of PCR-positive oysters and viral-DNA amounts were recorded. This difference may be related to earlier increases in water temperature. Although similar massive mortality rates were reported at the 4 sites, mortality was detected earlier in the pond and in the nursery than at both field sites. Mortality rates were recorded based on regular observation, and samples were collected to search for and quantify OsHV-1 DNA by real-time PCR. For this purpose, a single batch of Pacific oyster spat was deployed in 4 different locations in the Marennes-Oleron area (France): an oyster pond ("claire"), a shellfish nursery, and two locations in the field. Additional data are necessary to better describe mortality events in relation to environmental-parameter fluctuations and OsHV-1 detection. gigas in Europe have been related to the detection of a variant of OsHV-1 called μVar. Since 2008, mass mortality outbreaks among C. This virus has been classified as Ostreid herpesvirus 1 (OsHV-1) within the family Malacoherpesviridae. A particular herpesvirus was purified from naturally infected larval Pacific oysters, and its genome was completely sequenced. A number of bivalve species worldwide, including the Pacific oyster, Crassostrea gigas, have been affected by mass mortality events associated with herpesviruses, resulting in significant losses.
0 kommentar(er)
