WWP.ecogen: Genetic, environmental and trait data for Western white pine...

In hhwagner1/LandGenCourse: Interface for course "Landscape Genetic Data Analysis with R"

Genetic, environmental and trait data for Western white pine (Pinus monticola)

Description

See Maloney et al. (2016) for details of data collection. The phenological trait data are available in external file "WWP_phenotype_data.txt" in package 'LandGenCourse'. The following model was fitted to estimate the heritable d13C trait for mother trees: lmer(d13c ~ 1 + (1 | population) + (1 | family) + block).

Usage

WWP.ecogen

Format

An 'ecogen' object with 157 observations and the following slots:

XY

Spatial coordinates:

longitude

Latitude

latitude

Longitude

G

Genotypic data for 160 SNP loci unrelated to phenotypic trait (4 monomorphic loci were removed)

A

Allele frequencies derived from slot @G

S

Structures:

population

Sampled populations (n = 10)

plot

For each population, trees were sampled within 3 plots (n = 30)

family

Mother trees from which seeds were grown in common garden experiment (n = 157)

P

Estimates of heritable d13C trait from seedlings grown in common garden experiment:

Intercept

Global intercept of LMM (block 1)

prov.eff

Population effect, estimated from LMM

fam.eff

Family effect, estimated from LMM

References

Maloney, P.E.; Eckert, A.J.; Vogler, D.R.; Jensen, C.E.; Delfino Mix, A.; Neale, D.B. Landscape Biology of Western White Pine: Implications for Conservation of a Widely-Distributed Five-Needle Pine at Its Southern Range Limit. Forests 2016, 7, 93.

hhwagner1/LandGenCourse documentation built on Feb. 17, 2024, 4:42 p.m.