Sharing of chloroplast haplotypes among red oak species suggests interspecific gene flow between neighboring populations

Zhang, Ruhua; Hipp, Andrew L.; Gailing, Oliver

doi:10.1139/cjb-2014-0261

Cited by 26 publications

(37 citation statements)

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“…The four species represent a drought tolerance gradient with Q. ellipsoidalis being the most drought tolerant, followed by Q. coccinea and then Q. velutina, while Q. rubra is considered the most mesophilic red oak species [16,38]. Despite morphological and ecophysiological differences [8,16,38,39] between the four oak species, genetic differentiation between them is low at most nuclear genetic markers [7,8,10,25] as well as at chloroplast markers [14]. This is consistent with the tendency for closely related oak species to frequently hybridize with one other [40].…”

Section: Discussionmentioning

confidence: 99%

“…This result is also supported by previous studies and a recent restriction site associated sequencing (RAD-seq) phylogeny of the genus ( [9,[11][12][13]). Genetically intermediate forms were found in contact zones between Q. ellipsoidalis, Q. rubra and Q. velutina, in sympatric stands indicating gene flow among these three species [8,10,14]. High levels of interspecific gene flow were detected especially between Q. ellipsoidalis and Q. velutina.…”

Section: Introductionmentioning

confidence: 92%

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Adaptive Variation and Introgression of a CONSTANS-Like Gene in North American Red Oaks

Lind-Riehl

Gailing

2016

Forests

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Oaks provide a model system to study maintenance of species identity by divergent selection since they maintain morphological differences and ecological adaptations despite interspecific hybridization. The genome of closely related interfertile oak species was shown to be largely homogeneous, with a few genomic areas exhibiting high interspecific differentiation possibly as result of strong divergent selection. Previously, a genic microsatellite was identified as under strong divergent selection, being nearly fixed on alternative alleles in the two interfertile North American red oak species: Quercus rubra L. and Quercus ellipsoidalis E.J. Hill. Further genotyping in two other red oak species-Quercus velutina Lam. and Quercus coccinea Münchh.-revealed a similar bias for the Q. ellipsoidalis-specific allele. To further elucidate the basis of this differentiation, we sequenced the microsatellite in individuals from all four red oak species. Sequence variability was observed in the microsatellite motif which encodes a poly-Q repeat in a COL gene involved in phenology and growth. Furthermore, in neighboring (parapatric) Q. rubra/Q. ellipsoidalis populations, introgression of the Q. ellipsoidalis-specific allele into Q. rubra occurred at a lower rate than introgression of the Q. rubra-specific allele into Q. ellipsoidalis despite symmetric interspecific gene flow, indicating potential adaptive introgression. Introgression of adaptive alleles can be an important mechanism for rapid adaptation to new environmental conditions (e.g., climate change).

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 92%

Adaptive Variation and Introgression of a CONSTANS-Like Gene in North American Red Oaks

Lind-Riehl

Gailing

2016

Forests

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“…a,b), even when they occur in sympatry and gene flow is evident (Hipp et al ., , ; Cavender‐Bares et al ., ; Eaton et al ., ). Numerous studies using nuclear DNA markers – including microsatellites, random amplification of polymorphic DNA markers, or low‐copy nuclear genes – present similar evidence (Craft et al ., ; González‐Rodríguez et al ., , ; Curtu et al ., ; Cavender‐Bares & Pahlich, ; Craft & Ashley, ; Holtken et al ., ; Zhang et al ., ). By contrast, chloroplast DNA, which is maternally inherited (Dumolin et al ., ), typically shows extensive introgression (Whittemore & Schaal, ), and haploptypes are shared across species (Fig.…”

Section: Insights From the History Of The American Oaks For Understanmentioning

confidence: 97%

Diversification, adaptation, and community assembly of the American oaks (Quercus), a model clade for integrating ecology and evolution

2018

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Contents Summary669I.Model clades for the study and integration of ecology and evolution670II.Oaks: an important model clade671III.Insights from the history of the American oaks for understanding community assembly and ecosystem dominance673IV.Bridging the gap between micro‐ and macroevolutionary processes relevant to ecology679V.How do we reconcile evidence for adaptive evolution with niche conservatism and long‐term stasis?682VI.High plasticity and within‐population genetic variation contribute to population persistence683VII.Emerging technologies for tracking functional change685VIII.Conclusions685Acknowledgements686References686 Summary Ecologists and evolutionary biologists are concerned with explaining the diversity and composition of the natural world and are aware of the inextricable linkages between ecological and evolutionary processes that maintain the Earth's life support systems. Yet examination of these linkages remains challenging due to the contrasting nature of focal systems and research approaches. Model clades provide a critical means to integrate ecology and evolution, as illustrated by the oaks (genus Quercus), an important model clade, given their ecological dominance, remarkable diversity, and growing phylogenetic, genomic, and ecological data resources. Studies of the clade reveal that their history of sympatric parallel adaptive radiation continues to influence community assembly today, highlighting questions on the nature and extent of coexistence mechanisms. Flexible phenology and hydraulic traits, despite evolutionary stasis, may have enabled adaptation to a wide range of environments within and across species, contributing to their high abundance and diversity. The oaks offer fundamental insights at the intersection of ecology and evolution on the role of diversification in community assembly processes, on the importance of flexibility in key functional traits in adapting to new environments, on factors contributing to persistence of long‐lived organisms, and on evolutionary legacies that influence ecosystem function.

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“…E-mail: ogailing@mtu.edu North American clade comprising c. 195 species (Aldrich et al, 2003;Dodd & Afzal-Rafii, 2004;Peñaloza-Ram ırez et al, 2010;Moran, Willis & Clark, 2012). Sullivan et al, 2013) and sharing of plastid haplotypes (Zhang, Hipp & Gailing, 2015) through some combination of incomplete lineage sorting and interspecific gene flow (Muir & Schl€ otterer, 2005;Lexer, Kremer & Petit, 2006). Sullivan et al, 2013) and sharing of plastid haplotypes (Zhang, Hipp & Gailing, 2015) through some combination of incomplete lineage sorting and interspecific gene flow (Muir & Schl€ otterer, 2005;Lexer, Kremer & Petit, 2006).…”

Section: Introductionmentioning

confidence: 99%

Hybridization and divergence in multi-species oak (Quercus) communities

et al. 2016

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Oaks (Quercus: Fagaceae) commonly interbreed yet retain their morphological, genetic and ecological distinctiveness. Post-zygotic isolation mechanisms, such as ecologically dependent selection on adaptive loci, may therefore limit introgression. To test this hypothesis, we quantified hybridization and genetic divergence across the contact zone of four red oaks (Quercus section Lobatae) in the Great Lakes region of North America using a suite of 259 amplified fragment length polymorphisms and 27 genic and genomic microsatellite markers. First, we identified hybrids using genetic structure analysis and confirmed the reliability of our assignments via simulations. Then, we identified candidate loci for species maintenance with three complementary tests for selection and obtained partial gene sequences linked to an outlier locus and three other loci. We detected evidence of recent hybridization among all species and considerable gene flow between Q. ellipsoidalis and Q. velutina. Overall, c. 20% of Q. velutina had recent ancestry from Q. ellipsoidalis, whereas nearly 30% of Q. ellipsoidalis had a Q. velutina ancestor. Most loci were negligibly to weakly differentiated among species, but two gene-linked microsatellites deviated significantly from neutral expectations in multiple, complementary outlier tests. Both outlier loci were located in the same 15-cM bin on an existing Q. robur linkage map, a region under divergent selection in other oak species. Adaptive loci in this highly differentiated genomic region may contribute to ecological divergence among species and limit introgression. ADDITIONAL KEYWORDS: genetic divergence -introgression -outlier loci -Quercus sectionLobatae -red oaks -selective sweep.

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Sharing of chloroplast haplotypes among red oak species suggests interspecific gene flow between neighboring populations

Cited by 26 publications

References 56 publications

Adaptive Variation and Introgression of a CONSTANS-Like Gene in North American Red Oaks

Adaptive Variation and Introgression of a CONSTANS-Like Gene in North American Red Oaks

Diversification, adaptation, and community assembly of the American oaks (Quercus), a model clade for integrating ecology and evolution

Hybridization and divergence in multi-species oak (Quercus) communities

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