Oak Population Genomics

Gailing, Oliver; Hipp, Andrew L.; Plomion, Christophe; Carlson, John E.

doi:10.1007/13836_2021_100

Cited by 3 publications

(8 citation statements)

References 152 publications

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“…Genome-wide genetic patterns differentiating oak species with different local adaptations have been detected as signatures of selection in the face of gene flow. Genome regions of high interspecific differentiation, surrounded by regions with low differentiation, distributed across nine of the twelve chromosomes, have been observed when Q. robur and Q. petraea were compared via genome scanning [199,[259][260][261][262][263]. Gailing et al [199] pointed out that such patterns have been predicted by models of early stages of ecological speciation amid gene flow and strong divergent selection [262][263][264], as is the case for the interfertile species Q. robur and Q. petraea.…”

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

“…This is particularly true for the white oak section, Quercus (sometimes referred to as subgenus Leucobalanus), for which sequence-based genetic markers, high density genetic linkage maps, QTLs, transcriptome resources, and whole genome assemblies are available for multiple species. Recently, the development of genomic, transcriptomic, and experimental resources for the genus Quercus and their applications of these resources to population genomic analyses were reviewed [199]. Here, we describe the genomics and genetics tools and resources available for white oaks.…”

Section: Emerging Tools and Resources For White Oak Biology Research ...mentioning

confidence: 99%

“…The Q. robur and Q. petraea high-density composite map has been used to identify genomic regions associated with the adaptive traits and signatures of selection across species [212]. The evaluation of markers showing segregation distortion suggested that male gametophytic selection may be serving as a pre-zygotic reproductive barrier, at least partially, between the species [199]. The high collinearity between Q. petraea and Q. robur crosses [208] and Q. rubra (Northern red oak) genetic maps [209] enables the comparative mapping of adaptive traits and the identification of conserved genomic regions important in the environmental adaptation between oak sub-sections.…”

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

“…Lower density genetic maps and full-sib families have also been generated for QTL analyses in European white oaks for a variety of traits including late flushing [213,214], bud burst timing [213,215], height growth [213], leaf morphology [213,216], water use efficiency [217], stomatal density [212], response to waterlogging [218], seed production and seed mass [219], and branching traits [220]. Applications for genetic maps in oak species have been more extensively reviewed [199]. The colocation of QTL for the timing of vegetative bud burst [221] between oak and chestnut (Castanea sativa Mill.)…”

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

“…Gaining further understanding of the adaptive divergence through hybridization and introgression could be invaluable to addressing climate change. As species range shifts, new opportunities for genome shuffling may be necessary for adaptation and long-term survival in new ecological niches [199].…”

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

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Will “Tall Oaks from Little Acorns Grow”? White Oak (Quercus alba) Biology in the Anthropocene

Abbott,

Staton,

Lohtka

et al. 2024

Forests

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Quercus alba L., also known as white oak, eastern white oak, or American white oak, is a quintessential North American species within the white oak section (Quercus) of the genus Quercus, subgenus Quercus. This species plays a vital role as a keystone species in eastern North American forests and plays a significant role in local and regional economies. As a long-lived woody perennial covering an extensive natural range, Q. alba’s biology is shaped by a myriad of adaptations accumulated throughout its natural history. Populations of Q. alba are crucial repositories of genetic, genomic, and evolutionary insights, capturing the essence of successful historical adaptations and ongoing responses to contemporary environmental challenges in the Anthropocene. This intersection offers an exceptional opportunity to integrate genomic knowledge with the discovery of climate-relevant traits, advancing tree improvement, forest ecology, and forest management strategies. This review provides a comprehensive examination of the current understanding of Q. alba’s biology, considering past, present, and future research perspectives. It encompasses aspects such as distribution, phylogeny, population structure, key adaptive traits to cyclical environmental conditions (including water use, reproduction, propagation, and growth), as well as the species’ resilience to biotic and abiotic stressors. Additionally, this review highlights the state-of-the-art research resources available for the Quercus genus, including Q. alba, showcasing developments in genetics, genomics, biotechnology, and phenomics tools. This overview lays the groundwork for exploring and elucidating the principles of longevity in plants, positioning Q. alba as an emerging model tree species, ideally suited for investigating the biology of climate-relevant traits.

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Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

Section: Emerging Tools and Resources For White Oak Biology Research ...mentioning

confidence: 99%

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

Section: Oak Genetic Maps and Genomesmentioning

confidence: 99%

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Will “Tall Oaks from Little Acorns Grow”? White Oak (Quercus alba) Biology in the Anthropocene

Abbott,

Staton,

Lohtka

et al. 2024

Forests

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Progress and Prospects of Population Genomics of North American Hardwoods

Gailing

Staton

Schlarbaum

et al. 2021

Population Genomics

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Evolutionary Processes Shaping Postglacial Gene Pools of High-Altitude Forests: Evidence from the Endemic Eucalypts of Tasmania

Jones

Harrison

Hudson

et al. 2023

Forests

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Climatic changes during the Pleistocene were responsible for dramatic redistributions of plant species worldwide. On the rugged southern hemisphere island of Tasmania, temperature increases following the last glaciation saw upslope migration of climatically suitable species from lowland refugia and the expansion of eucalypt-dominated forests and woodlands in the Central Highlands. We integrate multiple lines of evidence (chloroplast and nuclear DNA markers, seedling morphology, and survival in common garden experiments) from a group of closely related endemic eucalypts (the alpine white gums) to argue that (i) the Central Highlands of the island were colonised by multiple glacial refugia with hybridisation among species and previously separated populations, and (ii) natural selection has filtered the admixed populations, resulting in local adaptation to the harsh sub-alpine environment. Chloroplast haplotype diversity decreased and nuclear microsatellite diversity increased with altitude, chloroplast sharing among taxa was common, and nuclear DNA differentiation of morphologically distinct taxa was lower in the Central Highlands compared with lowland regions. Local adaptation in the highlands was signalled by evidence from (i) a glasshouse trial in which directional selection (QST > FST) had shaped seedling morphological trait variation and (ii) population survival differences in 35-year-old reciprocal plantings along the major environmental gradients. We conclude that the evolutionary response of these island endemic trees to past climate change has involved the interplay of both hybridisation and natural selection, highlighting the importance of maintaining species interactions under future climate change.

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Oak Population Genomics

Cited by 3 publications

References 152 publications

Will “Tall Oaks from Little Acorns Grow”? White Oak (Quercus alba) Biology in the Anthropocene

Will “Tall Oaks from Little Acorns Grow”? White Oak (Quercus alba) Biology in the Anthropocene

Progress and Prospects of Population Genomics of North American Hardwoods

Evolutionary Processes Shaping Postglacial Gene Pools of High-Altitude Forests: Evidence from the Endemic Eucalypts of Tasmania

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