Rapid diversification of the Variable Seedeater superspecies complex despite widespread gene flow

Ocampo, Diego; Winker, Kevin; Miller, Matthew J.; Sandoval, Luís; Uy, J. Albert C.

doi:10.1016/j.ympev.2022.107510

Cited by 6 publications

(21 citation statements)

References 75 publications

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“…We found that corvina is the most differentiated subspecies, with paired F ST values that are twice the value between hoffmanni andhicksii. This pattern is consistent with our expectations of stronger differentiation between phenotypically differentiated subspecies and with the hierarchical population structure identified previously (Ocampo et al, 2022a).…”

Section: Genetic Structure Among Subspeciessupporting

confidence: 93%

“…In a previous study, we found evidence for reduced gene flow near the contact zone between the all-black S. c. corvina and the piedS. c. hicksii and S. c. hoffmanni subspecies (Ocampo et al, 2022a). Here, we have extended the genomic aspect of our previous study by increasing sample size and spatial resolution of this region and adding phenotypic data.…”

Section: Genetic Structure Among Subspeciesmentioning

confidence: 58%

“…We executed our models in two steps (as in Corbett et al, 2020). First, we built a model that estimated effective population size for the three lineages, based on the topology and time of divergence of the mitochondrial (ND2) phylogenetic reconstruction (Ocampo et al, 2022a), in which the two pied subspecies (i.e., S. c. hicksii, S. c. hoffmanni ) are sister taxa to the black S. c. corvina (Figure 2A). Second, we built demographic models that added bidirectional bouts of gene flow and estimated the strength of the bouts.…”

Section: Testing Possible Demographic Scenariosmentioning

confidence: 99%

“…Based on our results and previous work on the genus Sporophila , we suggested a possible biogeographic scenario that explains the distribution, divergence, and patterns of gene flow between subspecies of S. corvina . The radiation of the genus of Sporophilaseedeaters was initiated around the late Miocene to early Pliocene in South America, followed by multiple independent bouts of colonization of Middle America (Mason & Burns, 2013;Mason et al, 2018;Ocampo et al, 2022a). The ancestral population of the S. corvina likely diverged from the S. intermedia ancestor, in the late Pliocene, after a trans-Andes dispersion event (Ocampo et al, 2022a;Stiles, 1996), and dispersed northwards through the Panamanian isthmus (O'Dea et al, 2016).…”

Section: Biogeographic History Of S Corvinamentioning

confidence: 99%

“…The Variable Seedeater (Sporophila corvina ) is a small tanager species which consists of four subspecies demonstrating relatively low genetic differentiation yet substantial phenotypic divergence (Ocampo et al, 2022a). Three subspecies occur in relatively close proximity across Costa Rica and Panama.…”

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Replicate hybrid zones suggest a limited role of plumage in reproductive isolation among subspecies of the Variable Seedeater (Sporophila corvina)

Ocampo

Winker²,

Miller³

et al. 2022

Preprint

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After establishing secondary contact, recently diverged populations may remain reproductively isolated or hybridize to a varying extent depending on factors such as hybrid fitness and the strength of assortative mating. Replicated contact zones between hybridizing taxa offer a unique opportunity to explore how different factors interact to shape patterns of hybridization. Here, we used genomic and phenotypic data from three independent contact zones between subspecies of the Variable Seedeater (Sporophila corvina), to examine how coloration and genetic divergence shape patterns of hybridization. We found that plumage coloration has limited introgression across contact zones, but the degree of plumage divergence does not explain overall patterns of introgression. Across two parallel contact zones between populations with divergent phenotypes (entirely black vs. pied plumage) populations hybridized extensively across one contact zone but not the other, suggesting that plumage divergence is not sufficient to maintain reproductive isolation. Where subspecies hybridized, hybrid zones were wide and formed by later-generation hybrids, suggesting that hybrids present similar or higher fitness than parental subspecies. Moreover, contemporary gene flow has played an important role in shaping patterns of genetic diversity between populations. Overall, our results demonstrate that divergence in plumage coloration is important in reducing gene flow but insufficient in maintaining reproductive isolation in this clade, and that other factors such as divergence in song and time since secondary contact may also play an important role in driving patterns of reduced hybridization and gene flow.

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Section: Genetic Structure Among Subspeciessupporting

confidence: 93%

Section: Genetic Structure Among Subspeciesmentioning

confidence: 58%

Section: Testing Possible Demographic Scenariosmentioning

confidence: 99%

Section: Biogeographic History Of S Corvinamentioning

confidence: 99%

mentioning

confidence: 99%

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Replicate hybrid zones suggest a limited role of plumage in reproductive isolation among subspecies of the Variable Seedeater (Sporophila corvina)

Ocampo

Winker²,

Miller³

et al. 2022

Preprint

Self Cite

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Mitochondrial introgression and mito-nuclear discordance obscured the closely related species boundaries in Cletus Stål from China (Heteroptera: Coreidae)

Xue

Zhang

Wang

et al. 2023

Molecular Phylogenetics and Evolution

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Genomic islands of speciation harbor genes underlying coloration differences in a pair of Neotropical seedeaters

Nguyen,

Repenning,

Suertegaray Fontana

et al. 2023

Preprint

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Incomplete speciation can be leveraged to associate phenotypes with genotypes, thus providing insights into the traits relevant to the reproductive isolation of diverging taxa. We investigate the genetic underpinnings of the phenotypic differences betweenSporophila plumbeaandS. beltoni.S. beltonihas only recently been described based, most notably, on differences in bill coloration (yellow vs. black inS. plumbea). Both species are indistinguishable through mtDNA or reduced-representation genomic data, and even whole-genome sequencing revealed low genetic differentiation. Demographic reconstructions attribute this genetic homogeneity to gene flow, despite divergence in the order of millions of generations. We found a narrow hybrid zone in southern Brazil where genetically, yet not phenotypically, admixed individuals appear to be prevalent. Despite the overall low genetic differentiation, we identified three narrow peaks along the genome with highly differentiated SNPs. These regions harbor six genes, one of which is involved in pigmentation (EDN3) and is a candidate for controlling bill color. Within the outlier peaks we found signatures of resistance to gene flow, as expected for islands of speciation. Our study shows how genes related to coloration traits are likely involved in generating prezygotic isolation and establishing species boundaries early in speciation.

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Rapid diversification of the Variable Seedeater superspecies complex despite widespread gene flow

Cited by 6 publications

References 75 publications

Replicate hybrid zones suggest a limited role of plumage in reproductive isolation among subspecies of the Variable Seedeater (Sporophila corvina)

Replicate hybrid zones suggest a limited role of plumage in reproductive isolation among subspecies of the Variable Seedeater (Sporophila corvina)

Mitochondrial introgression and mito-nuclear discordance obscured the closely related species boundaries in Cletus Stål from China (Heteroptera: Coreidae)

Genomic islands of speciation harbor genes underlying coloration differences in a pair of Neotropical seedeaters

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