DatabaseTSD: Database of TSD information for reptiles

In embryogrowth: Tools to Analyze the Thermal Reaction Norm of Embryo Growth

Database of TSD information for reptiles

Description

Database of TSD information for reptiles
The columns are:

• Species: Name of the species in binominal nommenclature

• Subspecies: Name of the subspecies

• Country: From which country the eggs come from

• Area: Name of the beach or region the eggs come from

• RMU.2010: For marine turtles, name of the RMU for this population; see Wallace, B.P., DiMatteo, A.D., Hurley, B.J., Finkbeiner, E.M., Bolten, A.B., Chaloupka, M.Y., Hutchinson, B.J., Abreu-Grobois, F.A., Amorocho, D., Bjorndal, K.A., Bourjea, J., Bowen, B.W., Duenas, R.B., Casale, P., Choudhury, B.C., Costa, A., Dutton, P.H., Fallabrino, A., Girard, A., Girondot, M., Godfrey, M.H., Hamann, M., Lopez-Mendilaharsu, M., Marcovaldi, M.A., Mortimer, J.A., Musick, J.A., Nel, R., Seminoff, J.A., Troeng, S., Witherington, B., Mast, R.B., 2010. Regional management units for marine turtles: a novel framework for prioritizing conservation and research across multiple scales. Plos One 5, e15465.

• RMU.2023: For marine turtles, name of the RMU for this population; see Wallace BP, Posnik ZA, Hurley BJ, DiMatteo AD, Bandimere A, Rodriguez I, Maxwell SM, Meyer L, Brenner H, Jensen MP, LaCasella E, Shamblin BM, Abreu Abreu-Grobois FA, Stewart KR, Dutton PH, Barrios-Garrido H, Dalleau M, Dell’amico F, Eckert KL, FitzSimmons NN, Garcia-Cruz M, Hays GC, Kelez S, Lagueux CJ, Madden Hof CA, Marco A, Martins SLT, Mobaraki A, Mortimer JA, Nel R, Phillott AD, Pilcher NJ, Putman NF, Rees AF, Rguez-Baron JM, Seminoff JA, Swaminathan A, Turkozan O, Vargas SM, Vernet PD, Vilaça S, Whiting SD, Hutchinson BJ, Casale P, Mast RB (2023) Marine turtle regional management units 2.0: an updated framework for conservation and research of wide-ranging megafauna species. Endangered Species Research 52:209-223.

• Incubation.temperature.set: Nominal incubation temperature

• Incubation.temperature.recorded: Nominal or real (if available) incubation temperature

• Duplicated.data: TRUE if these data are duplicated in database

• Duplicate: Unique code for the duplicate

• Incubation.temperature.Constant: Does the incubation temperature was set as constant or CTE was reported

• Incubation.temperature.Accuracy: What is the accuracy of the measure of temperature

• Incubation.temperature.SD: Experimental SD of incubation temperatures

• Incubation.temperature.Amplitude: How much the temperature could fluctuate around nominal temperature

• Correction.factor: Difference between the incubator temperature and the eggs temperature

• IP.min: Shorter incubation period

• IP.max: Longer incubation period

• IP.mean: Mean incubation periods

• IP.SD: Standard deviation for incubation periods

• Total: Total number of eggs incubated

• Hatched: Number of hatchlings

• NotHatched: Number of embryos with development visible but dead during incubation

• Undeveloped: Number of embryos showing no development

• Intersexes: Number of individuals intersexes or ambiguous for sex phenotype

• Males: Number of individuals indentified as males

• Females: Number of individuals indentified as females

• Sexed: Number of sexed individuals

• Box: Identity of the condition incubation

• Clutch: Identity or number of clutches

• Reference: Bibliographic reference

• Note: Diverse information for this incubation

• Digital_Identifier: A unique digital identifier

• Version: Date of the last modification for each record

The Incubation.temperature records are the incubation temperature of the incubator. If a correction factor was substracted in the publication to represent the temperature of the egg itself, it has been added here.

Usage

DatabaseTSD

Format

A dataframe with raw data.

Details

Database of TSD information for marine turtles

Author(s)

Marc Girondot [e-mail]

See Also

Other Functions for temperature-dependent sex determination: DatabaseTSD.version(), P_TRT(), ROSIE, ROSIE.version(), TSP.list, plot.tsd(), predict.tsd(), stages, tsd(), tsd_MHmcmc(), tsd_MHmcmc_p()

Examples

## Not run: 
library(embryogrowth)
data(DatabaseTSD)
DatabaseTSD.version()
totalIncubation_Lo <- subset(DatabaseTSD, 
         Species=="Lepidochelys olivacea" & (!is.na(Sexed) & Sexed!=0), 
         select=c("Males", "Females", "Incubation.temperature"))
tot_Lo <- with(totalIncubation_Lo, tsd(males=Males, females=Females, 
 temperatures=Incubation.temperature), parameters.initial = c(P=30.5, S=-0.4))
 predict(tot_Lo)

## End(Not run)

embryogrowth documentation built on Sept. 11, 2024, 8:16 p.m.