ArticleGenetics2009
Multilocus patterns of nucleotide diversity and divergence reveal positive selection at candidate genes related to cold hardiness in coastal Douglas Fir (Pseudotsuga menziesii var. menziesii).
Article in Genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed, 101 citations in OpenAlex.
- Contrasting levels of transcriptome-wide SNP diversity and adaptive molecular variation among conifers.Frontiers in plant science · 2025Article
- Spatially heterogeneous selection and inter-varietal differentiation maintain population structure and local adaptation in a widespread conifer.BMC ecology and evolution · 2024Article
- Pedigree reconstruction and spatial analysis for genetic testing and selection in a Larix kaempferi (Lamb.) Carrière plantation.BMC plant biology · 2022Article
- Identifying and testing marker-trait associations for growth and phenology in three pine species: Implications for genomic prediction.Evolutionary applications · 2022Article
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- A high-density exome capture genotype-by-sequencing panel for forestry breeding in Pinus radiata.PloS one · 2019Article
- Breaking RAD: an evaluation of the utility of restriction site-associated DNA sequencing for genome scans of adaptation.Molecular ecology resources · 2017Article
- Distinct patterns of natural selection in NaEcology and evolution · 2017Article
- Genetic Diversity and Population Structure of Whitebark Pine (Pinus albicaulis Engelm.) in Western North America.PloS one · 2016Article
- From genotypes to phenotypes: expression levels of genes encompassing adaptive SNPs in black spruce.Plant cell reports · 2015Article
- Article
- Association genetics and expression patterns of a CBF4 homolog in Populus under abiotic stress.Molecular genetics and genomics : MGG · 2015Article
- Article
- High-throughput transcriptome sequencing and preliminary functional analysis in four Neotropical tree species.BMC genomics · 2014Article
- Micro- and macro-geographic scale effect on the molecular imprint of selection and adaptation in Norway spruce.PloS one · 2014Article
- Detecting selection in the blue crab, Callinectes sapidus, using DNA sequence data from multiple nuclear protein-coding genes.PloS one · 2014Article
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- Imprints of natural selection along environmental gradients in phenology-related genes of Quercus petraea.Genetics · 2013Article
- Impact of Geography and Climate on the Genetic Differentiation of the Subtropical Pine Pinus yunnanensis.PloS one · 2013Article
- Article
Corrections and comments
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Authors and funding
9 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Forest trees exhibit remarkable adaptations to their environments. The genetic basis for phenotypic adaptation to climatic gradients has been established through a long history of common garden, provenance, and genecological studies. The identities of genes underlying these traits, however, have remained elusive and thus so have the patterns of adaptive molecular diversity in forest tree genomes. Here, we report an analysis of diversity and divergence for a set of 121 cold-hardiness candidate genes in coastal Douglas fir (Pseudotsuga menziesii var. menziesii). Application of several different tests for neutrality, including those that incorporated demographic models, revealed signatures of selection consistent with selective sweeps at three to eight loci, depending upon the severity of a bottleneck event and the method used to detect selection. Given the high levels of recombination, these candidate genes are likely to be closely linked to the target of selection if not the genes themselves. Putative homologs in Arabidopsis act primarily to stabilize the plasma membrane and protect against denaturation of proteins at freezing temperatures. These results indicate that surveys of nucleotide diversity and divergence, when framed within the context of further association mapping experiments, will come full circle with respect to their utility in the dissection of complex phenotypic traits into their genetic components.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.