On the continuum of evolution: a putative new hybrid speciation event in <i>Opuntia</i> (Cactaceae) between a native and an introduced species in southern South America

Köhler, Matias; Oakley, Luis J.; Font, Fabián; Peñas, M. Laura Las; Majure, Lucas C.

doi:10.1080/14772000.2021.1967510

Cited by 6 publications

(6 citation statements)

References 68 publications

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“…Studies of the extent of discordance in phylogenies have given important insights into a range of topics, including hybridization ( Patterson et al, 2012 ; Martin et al, 2013 ) and hybrid speciation ( Köhler et al, 2021 ), evolutionary conflict ( Hedtke and Hillis, 2010 ), horizontal gene transfer ( Davis et al, 2005 ) and rates of phenotypic innovation ( Parins-Fukuchi et al, 2021 ). Our study shows taxonomically complex Euphrasia represent a genus where phylogenetic discordance is extensive, at both shallow and deep nodes in the phylogeny.…”

Section: Discussionmentioning

confidence: 99%

Pervasive Phylogenomic Incongruence Underlies Evolutionary Relationships in Eyebrights (Euphrasia, Orobanchaceae)

et al. 2022

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Disentangling the phylogenetic relationships of taxonomically complex plant groups is often mired by challenges associated with recent speciation, hybridization, complex mating systems, and polyploidy. Here, we perform a phylogenomic analysis of eyebrights (Euphrasia), a group renowned for taxonomic complexity, with the aim of documenting the extent of phylogenetic discordance at both deep and at shallow phylogenetic scales. We generate whole-genome sequencing data and integrate this with prior genomic data to perform a comprehensive analysis of nuclear genomic, nuclear ribosomal (nrDNA), and complete plastid genomes from 57 individuals representing 36 Euphrasia species. The species tree analysis of 3,454 conserved nuclear scaffolds (46 Mb) reveals that at shallow phylogenetic scales postglacial colonization of North Western Europe occurred in multiple waves from discrete source populations, with most species not being monophyletic, and instead combining genomic variants from across clades. At a deeper phylogenetic scale, the Euphrasia phylogeny is structured by geography and ploidy, and partially by taxonomy. Comparative analyses show Southern Hemisphere tetraploids include a distinct subgenome indicative of independent polyploidy events from Northern Hemisphere taxa. In contrast to the nuclear genome analyses, the plastid genome phylogeny reveals limited geographic structure, while the nrDNA phylogeny is informative of some geographic and taxonomic affinities but more thorough phylogenetic inference is impeded by the retention of ancestral polymorphisms in the polyploids. Overall our results reveal extensive phylogenetic discordance at both deeper and shallower nodes, with broad-scale geographic structure of genomic variation but a lack of definitive taxonomic signal. This suggests that Euphrasia species either have polytopic origins or are maintained by narrow genomic regions in the face of extensive homogenizing gene flow. Moreover, these results suggest genome skimming will not be an effective extended barcode to identify species in groups such as Euphrasia, or many other postglacial species groups.

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Section: Discussionmentioning

confidence: 99%

Pervasive Phylogenomic Incongruence Underlies Evolutionary Relationships in Eyebrights (Euphrasia, Orobanchaceae)

et al. 2022

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“…The major role of hybridization in cactus speciation is recurrently explored in genera with high amounts of polyploids [ 13 , 14 , 28 ]. This is the case of the genus Opuntia [ 13 , 144 ], which presents approximately 60% of polyploid species [ 147 ].…”

Section: Discussionmentioning

confidence: 99%

“…This is the case of the genus Opuntia [ 13 , 144 ], which presents approximately 60% of polyploid species [ 147 ]. Recently, using an integrative approach with phylogenetic, cytogenetic, and taxonomic datasets, Köhler et al [ 14 ] showed that the octoploid (2n = 88) accessions of Opuntia aff. ficus-indica found in Santa Fe, Argentina likely presents a putative hybrid origin between the native O. rioplatensis and the introduced O. aff.…”

Section: Discussionmentioning

confidence: 99%

“…ficus-indica. This hybrid form was described as O. x cristalensis [14]. Some hybridization studies in our survey have been conducted using SSR markers amplified with heterologous primers.…”

Section: Hybridizationmentioning

confidence: 99%

“…Cactus species have been traditionally studied by morphologists, and several taxonomic reorganizations have been proposed in the last century (e.g., [ 4 , 6 , 7 , 8 ]). As an emblematic and ecologically relevant group, many evolutionary studies using genetic-based markers have been published in recent decades (e.g., [ 9 , 10 , 11 , 12 , 13 , 14 , 15 ]). However, in several examples, classical molecular markers often lack sufficient information to resolve phylogenetic relationships (e.g., [ 16 , 17 , 18 , 19 ]) and genetic variation at intraspecific level (e.g., [ 20 , 21 , 22 ]).…”

Section: Introductionmentioning

confidence: 99%

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Evolutionary Genetics of Cacti: Research Biases, Advances and Prospects

Franco

Amaral

Bonatelli

et al. 2022

Genes

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Here, we present a review of the studies of evolutionary genetics (phylogenetics, population genetics, and phylogeography) using genetic data as well as genome scale assemblies in Cactaceae (Caryophyllales, Angiosperms), a major lineage of succulent plants with astonishing diversity on the American continent. To this end, we performed a literature survey (1992–2021) to obtain detailed information regarding key aspects of studies investigating cactus evolution. Specifically, we summarize the advances in the following aspects: molecular markers, species delimitation, phylogenetics, hybridization, biogeography, and genome assemblies. In brief, we observed substantial growth in the studies conducted with molecular markers in the past two decades. However, we found biases in taxonomic/geographic sampling and the use of traditional markers and statistical approaches. We discuss some methodological and social challenges for engaging the cactus community in genomic research. We also stressed the importance of integrative approaches, coalescent methods, and international collaboration to advance the understanding of cactus evolution.

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Demographic inference provides evidence of a quaternary-driven impact on the cactus moth and sheds light on the putative role of an exotic host

Poveda-Martínez,

Moreyra,

Hasson

et al. 2024

Biol Invasions

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On the continuum of evolution: a putative new hybrid speciation event in Opuntia (Cactaceae) between a native and an introduced species in southern South America

Cited by 6 publications

References 68 publications

Pervasive Phylogenomic Incongruence Underlies Evolutionary Relationships in Eyebrights (Euphrasia, Orobanchaceae)

Pervasive Phylogenomic Incongruence Underlies Evolutionary Relationships in Eyebrights (Euphrasia, Orobanchaceae)

Evolutionary Genetics of Cacti: Research Biases, Advances and Prospects

Demographic inference provides evidence of a quaternary-driven impact on the cactus moth and sheds light on the putative role of an exotic host

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