Intraspecific and interspecific polyploidy of Brazilian species of the genus Inga (Leguminosae: Mimosoideae)

Figueiredo, Marlene Feliciano; Bruno, R.L.A.; Silva, A.E. Barros e; Nascimento, Stella Noeme Bueno Pedroso do; Oliveira, Irenice Gomes de; Félix, Leonardo P.

doi:10.4238/2014.april.29.18

Cited by 10 publications

(7 citation statements)

References 20 publications

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“…Among ecologically dominant trees, similar variation also occurs, for example in Betula papyrifera (paper birch) (Grant & Thompson, ), Ginkgo biloba (Šmarda et al, ), Inga spp. (Figueiredo et al, ), Olea europaea (olive) (Besnard et al, ), Polylepis spp. (Schmidt‐Lebuhn et al, ) and Ulmus americana (American elm) (Whittemore & Olsen, ).…”

Section: Discussionmentioning

confidence: 99%

Remote sensing of ploidy level in quaking aspen (Populus tremuloides Michx.)

et al. 2019

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1. Ploidy level in plants may influence ecological functioning, demography and response to climate change. However, measuring ploidy level typically requires intensive cell or molecular methods. 2. We map ploidy level variation in quaking aspen, a dominant North American tree species that can be diploid or triploid and that grows in spatially extensive clones.We identify the predictors and spatial scale of ploidy level variation using a combination of genetic and ground-based and airborne remote sensing methods.3. We show that ground-based leaf spectra and airborne canopy spectra can both classify aspen by ploidy level with a precision-recall harmonic mean of 0.75-0.95 and Cohen's kappa of c. 0.6-0.9. Ground-based bark spectra cannot classify ploidy level better than chance. We also found that diploids are more common on higher elevation and steeper sites in a network of forest plots in Colorado, and that ploidy level distribution varies at subkilometer spatial scales. 4. Synthesis. Our proof-of-concept study shows that remote sensing of ploidy level could become feasible in this tree species. Mapping ploidy level across landscapes could provide insights into the genetic basis of species' responses to climate change. K E Y W O R D S adaptation, ploidy level, polyploidy, quaking aspen, reflectance, remote sensing, spectrometry, UAS S U PP O RTI N G I N FO R M ATI O N Additional supporting information may be found online in the Supporting Information section at the end of the article. How to cite this article: Blonder B, Graae BJ, Greer B, et al. Remote sensing of ploidy level in quaking aspen (Populus tremuloides Michx.). J Ecol. 2020;108:175-188. https ://doi.

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Section: Discussionmentioning

confidence: 99%

Remote sensing of ploidy level in quaking aspen (Populus tremuloides Michx.)

et al. 2019

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“…Other studies (e.g., Mandel et al, 2014 ; Weitemier et al, 2014 ; Grover et al, 2015 ) have focused on finding single copy genes for targeted enrichment using reference genomes from species within their study taxon, but without a reference Inga genome we cannot check directly for copy number in our target loci. In addition, knowledge of ploidy levels in Inga is far from complete but the limited data available suggest around 11% of species may be polyploid and ploidy may be variable within species (Hanson, 1997 ; Figueiredo et al, 2014 ). Yet the presence of paralogs within all Inga and Zygia accessions sequenced in this study indicates that the enrichment technique is sensitive enough to pick up the signature of an older whole genome duplication recently hypothesized to have occurred at the base of the Mimosoideae-Caesalpinieae-Cassieae (MCC) clade containing subfamily Mimosoideae, to which Inga belongs (Cannon et al, 2015 ).…”

Section: Discussionmentioning

confidence: 99%

Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae)

et al. 2015

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Evolutionary radiations are prominent and pervasive across many plant lineages in diverse geographical and ecological settings; in neotropical rainforests there is growing evidence suggesting that a significant fraction of species richness is the result of recent radiations. Understanding the evolutionary trajectories and mechanisms underlying these radiations demands much greater phylogenetic resolution than is currently available for these groups. The neotropical tree genus Inga (Leguminosae) is a good example, with ~300 extant species and a crown age of 2–10 MY, yet over 6 kb of plastid and nuclear DNA sequence data gives only poor phylogenetic resolution among species. Here we explore the use of larger-scale nuclear gene data obtained though targeted enrichment to increase phylogenetic resolution within Inga. Transcriptome data from three Inga species were used to select 264 nuclear loci for targeted enrichment and sequencing. Following quality control to remove probable paralogs from these sequence data, the final dataset comprised 259,313 bases from 194 loci for 24 accessions representing 22 Inga species and an outgroup (Zygia). Bayesian phylogenies reconstructed using either all loci concatenated or a gene-tree/species-tree approach yielded highly resolved phylogenies. We used coalescent approaches to show that the same targeted enrichment data also have significant power to discriminate among alternative within-species population histories within the widespread species I. umbellifera. In either application, targeted enrichment simplifies the informatics challenge of identifying orthologous loci associated with de novo genome sequencing. We conclude that targeted enrichment provides the large volumes of phylogenetically-informative sequence data required to resolve relationships within recent plant species radiations, both at the species level and for within-species phylogeographic studies.

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“…(Figueiredo et al. 2014), Larrea tridentata (creosote bush; Laport et al. 2012), Olea europaea (olive; Besnard et al.…”

Section: Introductionmentioning

confidence: 99%

Cytotype and genotype predict mortality and recruitment in Colorado quaking aspen (Populus tremuloides)

Blonder

Ray

Walton

et al. 2021

Ecological Applications

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Species responses to climate change depend on environment, genetics, and interactions among these factors. Intraspecific cytotype (ploidy level) variation is a common type of genetic variation in many species. However, the importance of intraspecific cytotype variation in determining demography across environments is poorly known. We studied quaking aspen (Populus tremuloides), which occurs in diploid and triploid cytotypes. This widespread tree species is experiencing contractions in its western range, which could potentially be linked to cytotype‐dependent drought tolerance. We found that interactions between cytotype and environment drive mortality and recruitment across 503 plots in Colorado. Triploids were more vulnerable to mortality relative to diploids and had reduced recruitment on more drought‐prone and disturbed plots relative to diploids. Furthermore, there was substantial genotype‐dependent variation in demography. Thus, cytotype and genotype variation are associated with decline in this foundation species. Future assessment of demographic responses to climate change will benefit from knowledge of how genetic and environmental mosaics interact to determine species’ ecophysiology and demography.

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Intraspecific and interspecific polyploidy of Brazilian species of the genus Inga (Leguminosae: Mimosoideae)

Cited by 10 publications

References 20 publications

Remote sensing of ploidy level in quaking aspen (Populus tremuloides Michx.)

Remote sensing of ploidy level in quaking aspen (Populus tremuloides Michx.)

Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae)

Cytotype and genotype predict mortality and recruitment in Colorado quaking aspen (Populus tremuloides)

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