Gene flow, mating patterns and inbreeding depression in Roupala montana var. brasiliensis, a neotropical timber species

Pereira, Fernanda B.; Sebbenn, Alexandre M.; Boshier, David H.; Rossini, Bruno C.; Marino, Celso L.; Freitas, Miguel L. M.; Rosa, João R. B. F.; Vidal, Edson; Tambarussi, Evandro V.

doi:10.1007/s11056-023-10009-7

Cited by 3 publications

(2 citation statements)

References 62 publications

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“…This fragmentation directly results in a reduction in population size and isolation between populations. Pollen gene flow is restricted in fragmented habitats, leading to an increase in inbreeding rates (i.e., selfing and mating among relatives) and a decrease in genetic diversity [1][2][3][4][5]. Self-pollination and mating among relatives can reduce phenotypic fitness, physiological efficiency, and offspring viability in natural outcrossing species [6,7].…”

Section: Introductionmentioning

confidence: 99%

Genetic Diversity, Mating System, and Seed Viability Reveal a Trade-Off between Outcrossing and Inbreeding in Pinus yunnanensis var. tenuifolia, an Ecologically Important Conifer Species Growing in a Hot-Dry River Basin Habitat in Southwest China

Li,

Wen,

Huang

et al. 2024

Forests

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Revealing the relationship between the mating system (i.e., the outcrossing/inbreeding degree) and the fitness of seeds in tree species under wild conditions is essential for understanding the ecological adaptability and evolutionary stability of the species. This study collected open-pollinated seeds from seven wild populations of Pinus yunnanensis var. tenuifolia that exhibited fragmentation in the Nanpan–Hongshui River basin, an ecologically fragile area in China. The seeds and sprouts (germinated seeds) from 20 families were genotyped (24 seeds and 24 sprouts per family) using twelve microsatellite loci to reveal the genetic diversity, mating status, and effect of inbreeding on the three seed quality indicators (thousand-seed weight, germination rate, and germination potential). The three seed quality indicators differed significantly between families (p < 0.001). Higher values of genetic diversity (except the observed heterozygosity) were observed in the sprout group than those in the seed group. Families from different populations showed a notable genetic differentiation (Φst = 0.12), and a large part of families from the common populations had a high degree of coancestry, which signified that the current habitat fragmentation is limiting gene flow between populations. High levels of outcrossing rates (tm) were observed in both the seed group (tm = 0.974) and the sprout group (tm = 0.978), indicating that a low proportion of seeds were self-fertilized. Although there was a slightly higher single outcrossing rate (ts = 0.888) and a lower proportion of biparental inbreeding (tm − ts = 0.077) in sprouts compared to the seeds (ts = 0.871, tm − ts = 0.091), indicating that a part of inbred seeds were purged during the germination stage, curve fitting between the outcrossing rate and seed quality indicators showed that a certain degree of biparental inbreeding (ts between 0.89 and 0.91 and tm − ts between 0.09 and 0.11) did have a positive effect on seed germination ability. This highlights that excessive inbreeding or outbreeding seems to be unfavorable to seed viability. The peculiar relationship between seed viability and the mating system in P. yunnanensis var. tenuifolia was likely an evolutionary consequence of a trade-off between the nature of mixed mating and its specific ecological niche.

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Section: Introductionmentioning

confidence: 99%

Genetic Diversity, Mating System, and Seed Viability Reveal a Trade-Off between Outcrossing and Inbreeding in Pinus yunnanensis var. tenuifolia, an Ecologically Important Conifer Species Growing in a Hot-Dry River Basin Habitat in Southwest China

Li,

Wen,

Huang

et al. 2024

Forests

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“…Several empirical studies have compared genetic diversity between older and younger individuals in long-lived species to look for evidence of population decline or the genetic consequences of known decline and fragmentation, with mixed results (Kettle et al, 2007;Labonne et al, 2016;Pereira et al, 2023;Schmidt et al, 2018;Vranckx et al, 2012;Yineger et al, 2014). A meta-analysis by Vranckx et al (2012) found that studies comparing genetic diversity between adult and sapling trees in fragmented habitat overall found higher allelic richness in adult trees.…”

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confidence: 99%

Pitfalls and windfalls of detecting demographic declines using population genetics in long‐lived species

Clark,

Fitzpatrick,

Bradburd

2024

Evolutionary Applications

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Detecting recent demographic changes is a crucial component of species conservation and management, as many natural populations face declines due to anthropogenic habitat alteration and climate change. Genetic methods allow researchers to detect changes in effective population size (Ne) from sampling at a single timepoint. However, in species with long lifespans, there is a lag between the start of a decline in a population and the resulting decrease in genetic diversity. This lag slows the rate at which diversity is lost, and therefore makes it difficult to detect recent declines using genetic data. However, the genomes of old individuals can provide a window into the past, and can be compared to those of younger individuals, a contrast that may help reveal recent demographic declines. To test whether comparing the genomes of young and old individuals can help infer recent demographic bottlenecks, we use forward‐time, individual‐based simulations with varying mean individual lifespans and extents of generational overlap. We find that age information can be used to aid in the detection of demographic declines when the decline has been severe. When average lifespan is long, comparing young and old individuals from a single timepoint has greater power to detect a recent (within the last 50 years) bottleneck event than comparing individuals sampled at different points in time. Our results demonstrate how longevity and generational overlap can be both a hindrance and a boon to detecting recent demographic declines from population genomic data.

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Pitfalls and windfalls of detecting demographic declines using population genetics in long-lived species

Clark,

Fitzpatrick,

Bradburd

2024

Preprint

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Detecting recent demographic changes is a crucial component of species conservation and management, as many natural populations face declines due to anthropogenic habitat alteration and climate change. Genetic methods allow researchers to detect changes in effective population size (Ne) from sampling at a single timepoint. However, in species with long lifespans, there is a lag between the start of a decline in a population and the resulting decrease in genetic diversity. This lag slows the rate at which diversity is lost, and therefore makes it difficult to detect recent declines using genetic data. However, the genomes of old individuals can provide a window into the past, and can be compared to those of younger individuals, a contrast that may help reveal recent demographic declines. To test whether comparing the genomes of young and old individuals can help infer recent demographic bottlenecks, we use forward-time, individual-based simulations with varying mean individual lifespans and extents of generational overlap. We find that age information can be used to aid in the detection of demographic declines when the decline has been severe. When average lifespan is long, comparing young and old individuals from a single timepoint has greater power to detect a recent (within the last 50 years) bottleneck event than comparing individuals sampled at different points in time. Our results demonstrate how longevity and generational overlap can be both a hindrance and a boon to detecting recent demographic declines from population genomic data.

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Gene flow, mating patterns and inbreeding depression in Roupala montana var. brasiliensis, a neotropical timber species

Cited by 3 publications

References 62 publications

Genetic Diversity, Mating System, and Seed Viability Reveal a Trade-Off between Outcrossing and Inbreeding in Pinus yunnanensis var. tenuifolia, an Ecologically Important Conifer Species Growing in a Hot-Dry River Basin Habitat in Southwest China

Genetic Diversity, Mating System, and Seed Viability Reveal a Trade-Off between Outcrossing and Inbreeding in Pinus yunnanensis var. tenuifolia, an Ecologically Important Conifer Species Growing in a Hot-Dry River Basin Habitat in Southwest China

Pitfalls and windfalls of detecting demographic declines using population genetics in long‐lived species

Pitfalls and windfalls of detecting demographic declines using population genetics in long-lived species

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