Merging applied gene conservation activities with advanced generation breeding initiatives: a case study of Pinus radiata D. Don

Gapare, Washington J.

doi:10.1007/s11056-013-9398-0

Cited by 8 publications

(6 citation statements)

References 56 publications

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“…An important indicator of genetic resource conservation is the amount of genetic diversity, which is widely recognized as a key determinant of the long-term survival of species [10,11]. Genetic diversity in forests is determined by gene flow, genetic drift, selection, mutation, and other processes [12,13], and it provides the raw material for the adaptation, evolution, and survival of species under changing environmental conditions [14,15].…”

Section: Introductionmentioning

confidence: 99%

Genetic Diversity and Population Structure of Natural Pinus koraiensis Populations

Tong

Lewis

Zhou

et al. 2019

Forests

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Studying the genetic diversity and population structure of natural forest populations is essential for evaluating their ability to survive under future environmental changes and establishing conservation strategies. Pinus koraiensis is a conifer species with high ecological and economic value in Northeast China. However, its natural forests have been greatly reduced in recent years, mostly due to over exploitation and over utilization. Here, we evaluated the genetic diversity and population structure of seven populations of P. koraiensis located throughout its native distribution. A total of 204 samples were genotyped with nine polymorphic nuclear SSR (simple sequence repeat) markers. The results showed high genetic diversity in all populations, with an average expected heterozygosity of 0.610, and the northern-most populations (Dailin (DL) and Fenglin (FL)) showed slightly higher diversity than the other five populations. The level of genetic differentiation among populations was very low (FST = 0.020). Analysis of molecular variance (AMOVA) showed that only 2.35% of the genetic variation existed among populations. Moreover, STRUCTURE analysis clearly separated the seven populations into two clusters. Populations DL and FL from the Xiaoxinganling Mountains comprised cluster I, while cluster II included the five populations from the Changbai Mountains and adjacent highlands. Our research on the genetic diversity and population structure of P. koraiensis in natural forests of China can provide a basis for the implementation of programs for the conservation and utilization of P. koraiensis genetic resources in the future.

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Section: Introductionmentioning

confidence: 99%

Genetic Diversity and Population Structure of Natural Pinus koraiensis Populations

Tong

Lewis

Zhou

et al. 2019

Forests

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“…However, the degradation and disappearance of natural forests occurred in the last centuries have caused serious biodiversity losses. An important indicator of biodiversity is the amount of genetic diversity (Shachak et al 2008) that is widely recognized as the key component for the long-term survival of a species (Gapare 2014). Genetic diversity is a foundation of sustainability providing raw material for adaptation, evolution and survival, especially under changing environmental and disease conditions (Reed and Frankham 2003).…”

Section: Introductionmentioning

confidence: 99%

Estimating the genetic diversity and structure ofQuercus trojanaWebb populations in Italy by SSRs: implications for management and conservation

et al. 2017

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Studying the genetic diversity and structure of the current forest populations is essential for evaluating the ability to survive future biotic and abiotic changes and planning conservation strategies. Quercus trojana Webb is an eastern Mediterranean tree species with a fragmented distribution range, and its westernmost outposts are located in southern Italy. The demand for timber and cropland over the centuries has severely reduced its occurrence in this part of the range. We assessed the genetic diversity and structure of the extant Italian populations of Q. trojana and derived conservation guidelines. A total of 322 samples were genotyped with six polymorphic nuclear microsatellite markers. A high genetic diversity in all populations, two main gene pools, and a highly divergent single population were observed. Based on the allelic richness and heterozygosity estimation, we identified populations that can be considered as valuable source material for conservation programs and those requiring adequate measures to reestablish gene flow and reduce fragmentation. Finally, a comparison with a set of eastern Mediterranean samples indicated a relationship between the Italian and the Greek gene pools. The need to protect these marginal, disjunct populations was further reinforced.

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“…This study focuses on radiata pine ( Pinus radiata D.Don), an important plantation species in temperate maritime regions of the southern hemisphere. Pinus radiata is native to the west coast of California (USA) and the Cedros and Guadalupe islands (Mexico), but has been widely planted elsewhere, including Chile, Australia and New Zealand [ 8 ]. In New Zealand, it occupies c. 90% of the 1.7 million hectares of planted forests (as of April 2019; MPI), and the Radiata Pine Breeding Company (RPBC) is currently prioritising genetic gain for volume, form, wood density, and stiffness [ 9 ].…”

Section: Introductionmentioning

confidence: 99%

High density linkage maps, genetic architecture, and genomic prediction of growth and wood properties in Pinus radiata

et al. 2022

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Background The growing availability of genomic resources in radiata pine paves the way for significant advances in fundamental and applied genomic research. We constructed robust high-density linkage maps based on exome-capture genotyping in two F1 populations, and used these populations to perform quantitative trait locus (QTL) scans, genomic prediction and quantitative analyses of genetic architecture for key traits targeted by tree improvement programmes. Results Our mapping approach used probabilistic error correction of the marker data, followed by an iterative approach based on stringent parameters. This approach proved highly effective in producing high-density maps with robust marker orders and realistic map lengths (1285–4674 markers per map, with sizes ranging from c. 1643–2292 cM, and mean marker intervals of 0.7–2.1 cM). Colinearity was high between parental linkage maps, although there was evidence for a large chromosomal rearrangement (affecting ~ 90 cM) in one of the parental maps. In total, 28 QTL were detected for growth (stem diameter) and wood properties (wood density and fibre properties measured by Silviscan) in the QTL discovery population, with 1–3 QTL of small to moderate effect size detected per trait in each parental map. Four of these QTL were validated in a second, unrelated F1 population. Results from genomic prediction and analyses of genetic architecture were consistent with those from QTL scans, with wood properties generally having moderate to high genomic heritabilities and predictive abilities, as well as somewhat less complex genetic architectures, compared to growth traits. Conclusions Despite the economic importance of radiata pine as a plantation forest tree, robust high-density linkage maps constructed from reproducible, sequence-anchored markers have not been published to date. The maps produced in this study will be a valuable resource for several applications, including the selection of marker panels for genomic prediction and anchoring a recently completed de novo whole genome assembly. We also provide the first map-based evidence for a large genomic rearrangement in radiata pine. Finally, results from our QTL scans, genomic prediction, and genetic architecture analyses are informative about the genomic basis of variation in important phenotypic traits.

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Merging applied gene conservation activities with advanced generation breeding initiatives: a case study of Pinus radiata D. Don

Cited by 8 publications

References 56 publications

Genetic Diversity and Population Structure of Natural Pinus koraiensis Populations

Genetic Diversity and Population Structure of Natural Pinus koraiensis Populations

Estimating the genetic diversity and structure ofQuercus trojanaWebb populations in Italy by SSRs: implications for management and conservation

High density linkage maps, genetic architecture, and genomic prediction of growth and wood properties in Pinus radiata

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