The evolutionary history of the white‐rayed species of <i>Melampodium</i> (Asteraceae) involved multiple cycles of hybridization and polyploidization

Rebernig, Carolin A.; Weiss‐Schneeweiss, Hanna; Blöch, Cordula; Turner, Barbara; Stuessy, Tod F.; Obermayer, Renate; Villaseñor, José Luís; Schneeweiss, Gerald M.

doi:10.3732/ajb.1100539

Cited by 13 publications

(9 citation statements)

References 104 publications

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“…Genome size values for diploid species in section Melampodium range from 0.49 to 2.27 pg/1C (Rebernig et al, 2012;Weiss-Schneeweiss et al, 2012). The range of genome sizes for all species in section Melampodium are below average relative to other species in Asteraceae (2.91 ± 1.22, Vallès et al, 2013).…”

Section: Genome Size Evolutionmentioning

confidence: 96%

Differential Genome Size and Repetitive DNA Evolution in Diploid Species of Melampodium sect. Melampodium (Asteraceae)

et al. 2020

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Plant genomes vary greatly in composition and size mainly due to the diversity of repetitive DNAs and the inherent propensity for their amplification and removal from the host genome. Most studies addressing repeatome dynamics focus on model organisms, whereas few provide comprehensive investigations across the genomes of related taxa. Herein, we analyze the evolution of repeats of the 13 species in Melampodium sect. Melampodium, representing all but two of its diploid taxa, in a phylogenetic context. The investigated genomes range in size from 0.49 to 2.27 pg/1C (ca. 4.5-fold variation), despite having the same base chromosome number (x = 10) and very strong phylogenetic affinities. Phylogenetic analysis performed in BEAST and ancestral genome size reconstruction revealed mixed patterns of genome size increases and decreases across the group. High-throughput genome skimming and the RepeatExplorer pipeline were utilized to determine the repeat families responsible for the differences in observed genome sizes. Patterns of repeat evolution were found to be highly correlated with phylogenetic position, namely taxonomic series circumscription. Major differences found were in the abundances of the SIRE (Ty1-copia), Athila (Ty3gypsy), and CACTA (DNA transposon) lineages. Additionally, several satellite DNA families were found to be highly group-specific, although their overall contribution to genome size variation was relatively small. Evolutionary changes in repetitive DNA composition and genome size were complex, with independent patterns of genome up-and downsizing throughout the evolution of the analyzed diploids. A model-based analysis of genome size and repetitive DNA composition revealed evidence for strong phylogenetic signal and differential evolutionary rates of major lineages of repeats in the diploid genomes.

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Section: Genome Size Evolutionmentioning

confidence: 96%

Differential Genome Size and Repetitive DNA Evolution in Diploid Species of Melampodium sect. Melampodium (Asteraceae)

et al. 2020

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“…Previous studies have shown that the latter appears to have the most ecological signifi cance ( Wang et al, 1997 ;McArthur and Sanderson, 1999 ). Based on the phylogenetic relationships, polyploidy is a dynamic process in A. tridentata , stemming from multiple events, as has been found in other plant species ( Soltis and Soltis, 2000 ;Rebernig et al, 2012 ). McArthur and Sanderson (1999) found a tightly parapatric distribution between diploid subsp.…”

Section: Literature Citedmentioning

confidence: 99%

Deep sequencing of amplicons reveals widespread intraspecific hybridization and multiple origins of polyploidy in big sagebrush (Artemisia tridentata; Asteraceae)

Richardson

Page

Bajgain

et al. 2012

American J of Botany

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• Premise of the study: Hybridization has played an important role in the evolution and ecological adaptation of diploid and polyploid plants. Artemisia tridentata (Asteraceae) tetraploids are extremely widespread and of great ecological importance. These tetraploids are often taxonomically identified as A. tridentata subsp. wyomingensis or as autotetraploids of diploid subspecies tridentata and vaseyana. Few details are available as to how these tetraploids are formed or how they are related to diploid subspecies.• Methods: We used amplicon sequencing to assess phylogenetic relationships among three recognized subspecies: tridentata, vaseyana, and wyomingensis. DNA sequence data from putative genes were pyrosequenced and assembled from 329 samples. Nucleotide diversity and putative haplotypes were estimated from the high‐read coverage. Phylogenies were constructed from Bayesian coalescence and neighbor‐net network analyses.• Key results: Analyses support distinct diploid subspecies of tridentata and vaseyana in spite of known hybridization in ecotones. Nucleotide diversity estimates of populations compared to the total diversity indicate the relationships are predominately driven by a small proportion of the amplicons. Tetraploids, including subspecies wyomingensis, are polyphyletic occurring within and between diploid subspecies groups.• Conclusions: Artemisia tridentata is a species comprising phylogenetically distinct diploid progenitors and a tetraploid complex with varying degrees of phylogenetic and morphological affinities to the diploid subspecies. These analyses suggest tetraploids are formed locally or regionally from diploid tridentata and vaseyana populations via autotetraploidy, followed by introgression between tetraploid groups. Understanding the phylogenetic vs. ecological relationships of A. tridentata subspecies will have bearing on how to restore these desert ecosystems.

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“…5S rDNA loci may, however, change in number, most frequently being lost [Clarkson et al, 2005; Weiss-Schneeweiss et al, 2012]. Extent and rate of rDNA loci loss roughly correlates with a polyploid’s age: in younger allopolyploids and in autopolyploids, the number of loci often equals the sum of those of their progenitors [Clarkson et al, 2005; Chester et al, 2012; Rebernig et al, 2012], whereas in older allopolyploids maternal and/or paternal loci are often lost [Clarkson et al, 2005; Weiss-Schneeweiss et al, 2007, 2012; Kolano et al, 2011].…”

Section: Repetitive Dna and Chromosomal Evolutionmentioning

confidence: 99%

Evolutionary Consequences, Constraints and Potential of Polyploidy in Plants

Weiss‐Schneeweiss

Emadzade

Jang

et al. 2013

Cytogenet Genome Res

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Polyploidy, the possession of more than 2 complete genomes, is a major force in plant evolution known to affect the genetic and genomic constitution and the phenotype of an organism, which will have consequences for its ecology and geography as well as for lineage diversification and speciation. In this review, we discuss phylogenetic patterns in the incidence of polyploidy including possible underlying causes, the role of polyploidy for diversification, the effects of polyploidy on geographical and ecological patterns, and putative underlying mechanisms as well as chromosome evolution and evolution of repetitive DNA following polyploidization. Spurred by technological advances, a lot has been learned about these aspects both in model and increasingly also in nonmodel species. Despite this enormous progress, long-standing questions about polyploidy still cannot be unambiguously answered, due to frequently idiosyncratic outcomes and insufficient integration of different organizational levels (from genes to ecology), but likely this will change in the near future. See also the sister article focusing on animals by Choleva and Janko in this themed issue.

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The evolutionary history of the white‐rayed species of Melampodium (Asteraceae) involved multiple cycles of hybridization and polyploidization

Cited by 13 publications

References 104 publications

Differential Genome Size and Repetitive DNA Evolution in Diploid Species of Melampodium sect. Melampodium (Asteraceae)

Differential Genome Size and Repetitive DNA Evolution in Diploid Species of Melampodium sect. Melampodium (Asteraceae)

Deep sequencing of amplicons reveals widespread intraspecific hybridization and multiple origins of polyploidy in big sagebrush (Artemisia tridentata; Asteraceae)

Evolutionary Consequences, Constraints and Potential of Polyploidy in Plants

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