Implications of genetic heterogeneity for plant translocation during ecological restoration

Crow, Taylor M.; Runcie, Daniel E.; Hufford, Kristina M.

doi:10.1101/2020.01.28.923524

Cited by 3 publications

(4 citation statements)

References 71 publications

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“…Linear models for population genetic differences can test for evidence of demic structure beyond what could be predicted from geographic distance alone (e.g., Crow et al, 2020;Gompert, Comeault, et al, 2014;Parchman et al, 2016). Additionally, alternative models can explicitly parameterize continuous clinal variation and guide understanding of the contribution of demic and clinal variation to population structure (Battey et al, 2020;Bradburd et al, 2013Bradburd et al, , 2016.…”

Section: Limitati On S and Further Direc Tionsmentioning

confidence: 99%

Model‐based genotype and ancestry estimation for potential hybrids with mixed‐ploidy

Shastry

Adams

Lindtke

et al. 2021

Molecular Ecology Resources

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Species are distributed across geographic ranges and potentially heterogeneous environments and experience barriers to dispersal, leading to clinal genetic differentiation, genetic subdivisions into local populations or 'demes', or some combination of both (Bradburd et al., 2013;Endler, 1977;Gompert & Buerkle, 2016). Even species with high rates of dispersal can have geographic ranges that are large relative to dispersal distances (e.g., Novembre et al., 2008; Phifer-Rixey et al., 2018), such that the distribution of traits and alleles is commonly heterogeneous and stratified among geographic locations. Quantifying this population heterogeneity and stratification is a fundamental component of empirical population genetics, both as a context for the study of evolutionary dynamics and as a component of learning about trait genetics in natural populations. Information about population structure and mixtures can reveal aspects of the underlying evolutionary processes and has played a significant role in shaping our understanding of the nature of hybridization, speciation and adaptation. This includes knowledge of the prevalence of gene flow

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Section: Limitati On S and Further Direc Tionsmentioning

confidence: 99%

Model‐based genotype and ancestry estimation for potential hybrids with mixed‐ploidy

Shastry

Adams

Lindtke

et al. 2021

Molecular Ecology Resources

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“…Pairwise genetic distance scores and genetic diversity estimates for each of the 24 study populations were taken from a previous study of mountain mahogany genetic structure (Crow et al 2020). In summary, total DNA was extracted from leaf samples from 30 individuals per population, digested with EcoRI and MseI restriction enzymes, and barcoded fragments were pooled and amplified (following Parchman et al 2012).…”

Section: Study Locations and Plant Materialsmentioning

confidence: 99%

“…In summary, total DNA was extracted from leaf samples from 30 individuals per population, digested with EcoRI and MseI restriction enzymes, and barcoded fragments were pooled and amplified (following Parchman et al 2012). For more detail on genetic sequence data processing and results, see Crow et al (2020).…”

Section: Study Locations and Plant Materialsmentioning

confidence: 99%

Plant performance predicted by genetic variation and environmental distance in important restoration shrub species Cercocarpus montanus

Crow

Hufford

Burney

2021

Restoration Ecology

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Seed transfer guidelines are used to guide the human‐mediated movement of plant propagules from collection to recipient sites and are designed to minimize the risk of introducing maladapted genotypes. The spatial scale of adaptation, however, is unknown for most species, making it difficult to assess the potential negative impacts of seed transfer. In this study, we generated seed transfer guidelines for an ecologically important shrub, alder‐leaf mountain mahogany (Cercocarpus montanus). We plant material from 24 populations of C. montanus along a latitudinal transect from the southern Rocky Mountains of New Mexico, Colorado, and Wyoming. Seeds and seedlings were sown and planted separately in common garden experimental sites representing dissimilar environments. We measured plant germination, survival, growth, and leaf morphology for three growing seasons, and found significant variation among populations. Environmental and genetic distance were useful predictors of population performance in our common garden trials, which we use to recommend broad‐scale seed transfer guidelines to minimize risk of maladaptation to restoration sites.

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“…The model in entropy and other structure-like models do not address these directly. Linear models for population genetic differences can test for evidence of demic structure beyond what could be predicted from geographic distance alone (e.g., Gompert et al, 2014a;Parchman et al, 2016;Crow et al, 2020). Additionally, alternative models can explicitly parameterize continuous clinal variation and guide understanding of the contribution of demic and clinal variation to population structure (Bradburd et al, 2013(Bradburd et al, , 2016Battey et al, 2020).…”

Section: Limitations and Further Directionsmentioning

confidence: 99%

Model-based genotype and ancestry estimation for potential hybrids with mixed-ploidy

Shastry

Adams

Lindtke

et al. 2020

Preprint

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Non-random mating among individuals can lead to spatial clustering of genetically similar individuals and population stratification. This deviation from panmixia is commonly observed in natural populations. Consequently, individuals can have parentage in single populations or involving hybridization between differentiated populations. Accounting for this mixture and structure is important when mapping the genetics of traits and learning about the formative evolutionary processes that shape genetic variation among individuals and populations. Stratified genetic relatedness among individuals is commonly quantified using estimates of ancestry that are derived from a statistical model. Development of these models for polyploid and mixed-ploidy individuals and populations has lagged behind those for diploids. Here, we extend and test a hierarchical Bayesian model, called entropy, which can utilize low-depth sequence data to estimate genotype and ancestry parameters in autopolyploid and mixed-ploidy individuals (including sex chromosomes and autosomes within individuals). Our analysis of simulated data illustrated the trade-off between sequencing depth and genome coverage and found lower error associated with low depth sequencing across a larger fraction of the genome than with high depth sequencing across a smaller fraction of the genome. The model has high accuracy and sensitivity as verified with simulated data and through analysis of admixture among populations of diploid and tetraploid Arabidopsis arenosa.

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Implications of genetic heterogeneity for plant translocation during ecological restoration

Cited by 3 publications

References 71 publications

Model‐based genotype and ancestry estimation for potential hybrids with mixed‐ploidy

Model‐based genotype and ancestry estimation for potential hybrids with mixed‐ploidy

Plant performance predicted by genetic variation and environmental distance in important restoration shrub species Cercocarpus montanus

Model-based genotype and ancestry estimation for potential hybrids with mixed-ploidy

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