Maximize Resolution or Minimize Error? Using Genotyping-By-Sequencing to Investigate the Recent Diversification of Helianthemum (Cistaceae)

A robust phylogenetic framework, in terms of extensive geographical and taxonomic sampling, well-resolved species relationships and high certainty of tree topologies and branch length estimations, is critical in the study of macroevolutionary patterns. Whereas Sanger sequencing-based methods usually recover insufficient phylogenetic signal, especially in recently diversified lineages, reduced-representation sequencing methods tend to provide well-supported phylogenetic relationships, but usually entail remarkable bioinformatic challenges due to the inherent trade-off between the number of SNPs and the magnitude of associated error rates. The genus Helianthemum (Cistaceae) is a species-rich and taxonomically complex Palearctic group of plants that diversified mainly since the Upper Miocene. It is a challenging case study since previous attempts using Sanger sequencing were unable to resolve the intrageneric phylogenetic relationships. Aiming to obtain a robust phylogenetic reconstruction based on genotyping-by-sequencing (GBS), we established a rigorous methodological workflow in which we i) explored how variable settings during dataset assembly have an impact on error rates and on the degree of resolution under concatenation and coalescent approaches, ii) assessed the effect of two extreme parameter configurations (minimizing error rates vs. maximizing phylogenetic resolution) on tree topology and branch lengths, and iii) evaluated the effects of these two configurations on estimates of divergence times and diversification rates. Our analyses produced highly supported topologically congruent phylogenetic trees for both configurations. However, minimizing error rates did produce more reliable branch lengths, critically affecting the accuracy of downstream analyses (i.e. divergence times and diversification rates). In addition to recommending a revision of intrageneric systematics, our results enabled us to identify three highly diversified lineages in Helianthemum in contrasting geographical areas and ecological conditions, which started radiating in the Upper Miocene.España, MINECO grants CGL2014- 52459-P and CGL2017-82465-PEspaña, Ministerio de Economía, Industria y Competitividad, reference IJCI-2015-2345

Diversidad, rareza, evolución y conservación de la flora endémica de las Islas Canarias

The endemic vascular flora of the Canary Islands comprises over 680, taxa collectively accounting for more than 50% of the total native flora. To investigate geographical patterns of diversity within the endemic flora, distribution data from published sources together with other field observation and herbarium data were used to compile a data matrix comprising the distributions of ca. 90% of endemic taxa scored on a 10 × 10km UTM grid. WORLDMAP was then used to investigate patterns of endemic diversity, range size rarity (a measure of endemicity), phylogenetic diversity and threatened taxon richness. Endemic taxon richness was found to be highly heterogeneous across the archipelago, with cells containing between one and 139 taxa each (0.05-22.82% of endemic diversity). Patterns of variation in range size rarity and phylogenetic diversity were found to be largely congruent with endemic diversity, although some cells exhibited markedly higher range size rarity scores than would be predicted by their endemic diversity scores. In contrast, the pattern of endangered taxon richness across the archipelago differed markedly from endemic taxon richness. Many cells in Lanzarote, Fuerteventura and Gran Canaria exhibit higher endangered taxon richness scores than would be predicted from their endemic richness scores whereas in Tenerife, El Hierro, La Palma and La Gomera, the converse is generally true. The implications of the results both for understanding the evolution of Canary Island endemic diversity and for the conservation of the region’s unique and vulnerable flora are considered.La flora vascular endémica de las Islas Canarias comprende unos 680 táxones, lo que viene a representar más del 50% de la flora nativa. Con objeto de investigar patrones geográficos de diversidad en la flora endémica, se recopilaron los datos publicados que, junto con otras observaciones de campo y datos de herbario, sirvieron para completar una matriz de datos que abarca la distribución de cerca del 90% de los táxones endémicos usando cuadrículas UTM de10 × 10 km. A continuación, se utilizó el programa WORLDMAP para investigar los patrones de diversidad de los endemismos, el rango del grado de rareza (una medida de endemicidad), la diversidad filogenética y la riqueza en táxones amenazados. Se observó que la riqueza en endemismos es muy heterogénea a lo largo del archipiélago, con unos valores por cuadrícula que oscilan entre 1 y 139 táxones (0,05-22,82% de la diversidad de táxones endémicos). Los patrones de variación del rango del grado de la rareza y la diversidad filogenética resultaron ser en gran parte congruentes con la diversidad en endemismos, aunque algunas cuadrículas mostraron valores mucho más altos de rareza de los que podían ser predichos dada su diversidad de endemismos. En contraste, los patrones de riqueza en especies amenazadas en el archipiélago difirieron marcadamente de la riqueza en táxones endémicos. Muchas cuadrículas de Lanzarote, Fuerteventura y Gran Canaria mostraron valores más altos de riqueza en especies amenazadas que las que pudieran ser predichas sobre la base de su riqueza en táxones endémicos, mientras que en Tenerife, El Hierro y La Gomera la regla fue generalmente lo contrario. Se consideran las implicaciones que estos resultados suponen para la comprensión de la evolución de la diversidad de endemismos canaria y para la conservación de su singular y vulnerable flora

Establecimiento de plantas introducidas en la flora vascular silvestre canaria. II (Dicotiledóneas).

Establishment of introduced plants in the Canarian wild vascular flora. II (Dicots)Palabras clave. Corología, novedades, plantas invasoras, Islas Canarias, plantas ornamentales.Keywords. Chorology, new records, invasive plants, Canary Islands, ornamental plants

Diversification of Aeonium Species Across Macaronesian Archipelagos: Correlations Between Genome-Size Variation and Their Conservation Status

The rich endemic flora of the Macaronesian Islands places these oceanic archipelagos among the top biodiversity hotspots worldwide. The radiations that have determined the evolution of many of these insular lineages resulted in a wealth of endemic species, many of which occur in a wide range of ecological niches, but show small distribution areas in each of them. Aeonium (Crassulaceae) is the most speciose lineage in the Canary Islands (ca. 40 taxa), and as such can be considered a good model system to understand the diversification dynamics of oceanic endemic floras. The present study aims to assess the genome size variation within Aeonium distribution, i.e., the Macaronesian archipelagos of Madeira, Canaries and Cabo Verde, and analyse it together with information on distribution (i.e., geography and conservation status), taxonomy (i.e., sections), morphological traits (i.e., growth-form), geological data (i.e., island’s geological age), and environmental variables (i.e., altitude, annual mean temperature, and precipitation). Based on extensive fieldwork, a cytogeographic screening of 24 Aeonium species was performed. The conservation status of these species was assessed based on IUCN criteria. 61% of the taxa were found to be threatened (4% Endangered and 57% Vulnerable). For the first time, the genome size of a comprehensive sample of Aeonium across the Macaronesian archipelagos was estimated, and considerable differences in Cx-values were found, ranging from0.984 pg (A. dodrantale) to 2.768 pg (A. gorgoneum). An overall positive correlation between genome size and conservation status was found, with the more endangered species having the larger genomes on average. However, only slight relationships were found between genome size, morphological traits, and environmental variables. These results underscore the importance of characterizing the cytogenomic diversity and conservation status of endemic plants found in Macaronesian Islands, providing, therefore, new data to establish conservation priorities.info:eu-repo/semantics/publishedVersio

Taxonomy and nomenclature of Abutilon albidum (Malvaceae, Malvoideae), a cryptic Saharo-Canarian species recently rediscovered in Tenerife

Abutilon albidum, a cryptic Saharo-Canarian species, was thought to have been last collected in 1945 in Tenerife by E.R. Sventenius. In 2019, it was rediscovered in the same area. The characteristic features of the Canarian plants are discussed, especially in relation to the morphologically similar-looking and probably closely-related species Abutilon indicum and A. bidentatum. It is concluded that the plants from Tenerife and north-western Africa indeed represent a distinct species. The species is illustrated and a key for the identification of this and related species is presented.Peer reviewe

Data from: Independent homoploid hybrid speciation events in the Macaronesian endemic genus Argyranthemum

Well-characterised examples of homoploid hybrid speciation (HHS) are rare in nature yet they offer the potential to study a number of evolutionary processes. In this study we investigate putative homoploid hybrid species in the genus Argyranthemum (Asteraceae), a group of plants endemic to the Macaronesian archipelagos of the North Atlantic Ocean. We specifically address a number of knowledge gaps surrounding the origin(s) of A. sundingii and A. lemsii, which are thought to be derived from the same parental cross. Comparisons of leaf morphology suggest that A. sundingii and A. lemsii are distinct from their parental progenitors and distinguishable from each other based on leaf area. Ecological niche modelling (ENM) demonstrated that the homoploid hybrid species occupy novel habitats that are intermediate relative to the parental species. Nuclear SSRs and SNP data indicate that the homoploid hybrid species are distinct from the parental taxa, whilst population level sampling of chloroplast SSRs and Approximate Bayesian Computation show that A. sundingii and A. lemsii are independently derived from the same parental cross. As such, Argyranthemum represents an example of independent homoploid hybrid speciation events with evidence of divergence in leaf morphology and adaptation to novel intermediate habitats. On oceanic islands, which are often typified by steep ecological gradients and inhabited by recently derived species with weak reproductive barriers, multiple HHS events from the same parental cross are not only possible but are likely to have played a more important role in oceanic island radiations than we currently think

Argy-HHS-demuliplexed-GBS-data

Argy-HHS-demuliplexed-GBS-data.tar.gz contains demultiplexed reads for the samples used in this study, that were created following step one of the ipyrad assembly pipeline

Geographical isolation, habitat shifts and hybridisation in the diversification of the Macaronesian endemic genus <i>Argyranthemum </i>(Asteraceae)

Inferring the processes responsible for the rich endemic diversity of oceanic island floras is important for our understanding of plant evolution and setting practical conservation priorities. This requires an accurate knowledge of phylogenetic relationships, which have often been difficult to resolve due to a lack of genetic variation. We employed genotyping-by-sequencing (GBS) to investigate how geographical isolation, habitat shifts, and hybridisation have contributed to the evolution of diversity observed in Argyranthemum Webb (Asteraceae), the largest genus of flowering plants endemic to the Macaronesian archipelagos. Species relationships were resolved, and biogeographical stochastic mapping identified intra-island speciation as the most frequent biogeographic process underlying diversification, contrary to the prevailing view in Argyranthemum and the Canary Islands. D-statistics revealed significant evidence of hybridisation between lineages co-occurring on the same island, however there was little support for the hypothesis that hybridisation may be responsible for the occurrence of nonmonophyletic multi-island endemic (MIE) species. Geographic isolation, habitat shifts and hybridisation have all contributed to the diversification of Argyranthemum, with intra-island speciation found to be more frequent than previously thought. Morphological convergence is also proposed to explain the occurrence of nonmonophyletic MIE species. This study reveals greater complexity in the evolutionary processes generating Macaronesian endemic diversity.</p