Molecular evidence in Diplotaxis (Brassicaceae) suggests a Quaternary origin of the Cape Verdean flora

Franzke, Andreas; Samani, Bibi-Rana Sharif; Neuffer, Barbara; Mummenhoff, Klaus; Hurka, Herbert

doi:10.1007/s00606-016-1384-5

Cited by 5 publications

(8 citation statements)

References 73 publications

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“…Cloning to test for multiple copies is often recommended, although this approach adds significant cost to a research project, particularly as the number of included taxa increases, and often with no improvement in phylogenetic signal. Irrespective of these recommendations, numerous recent phylogenetic studies continue to be published based on ITS and/or low-copy nuclear markers for which clon ing was not carried out (see, for example, Tank & Olmstead, 2009;Wahlert & al., 2014;Aubriot & al., 2016;Plunkett & Nicolas, 2016;Franzke & al., 2017;Glon & al., 2017;Villaverde & al., 2017).…”

Section: Resultsmentioning

confidence: 99%

Multi‐locus phylogeny of Ludwigia (Onagraceae): Insights on infra‐ generic relationships and the current classification of the genus

Liu

Hoch

Diazgranados

et al. 2017

TAXON

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Ludwigia (Onagraceae) is a worldwide wetland genus with 83 species currently classified as members of 23 sec tions. Past studies have documented the morphological diversity and complex evolutionary history. Here we provide the first comprehensive molecular phylogeny of Ludwigia, using our new data to examine the existing evolutionary hypotheses. We employed both nuclear (ITS, waxy) and chloroplast (rps16, rpl16, trnL‐trnF, trnL‐CD, trnG) DNA regions for this study. Our results suggest that the North Temperate haplostemonous (NTH) group and a second group that includes all other species of Ludwigia(clade B) form strongly supported sister clades. In the NTH group, a monophyletic sect. Ludwigia is sister to the Microcarpium complex, but sect. Microcarpium and sect. Isnardia are not monophyletic. In clade B, the multi‐species sec tions Jussiaea and Macrocarpon are well‐supported monophyletic clades, but others, including the largest sect. Myrtocarpus, are not monophyletic. In sum, this first molecular phylogeny of Ludwigia clarifies and supports several major relationships in the genus but also highlights parts of the classification that should be changed. Our results imply that allopolyploidy played an important role in the evolutionary history of the genus, giving rise to complex patterns of relationships that are not yet adequately reflected in the classification.

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Section: Resultsmentioning

confidence: 99%

Multi‐locus phylogeny of Ludwigia (Onagraceae): Insights on infra‐ generic relationships and the current classification of the genus

Liu

Hoch

Diazgranados

et al. 2017

TAXON

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“…Although previous studies confirm the long-term persistence of several plant lineages (reviewed in Fernández-Palacios et al, 2011;Vargas, 2007), there is mounting evidence that relatively recent (Quaternary) colonizers represent a substantial proportion of the endemic species pool of each archipelago (e.g. Désamoré et al, 2011;Franzke, Sharif Samani, Neuffer, Mummenhoff, & Hurka, 2017;García-Verdugo, Mairal, Monroy, Sajeva, & Caujapé-Castells, 2017;Jones, Reyes-Betancort, Hiscock, & Carine, 2014;Kondraskov et al, 2015). Positive correlations between the geological age of a given archipelago and lineage colonization time may be therefore restricted to very few cases (Kondraskov et al, 2015).…”

Section: Introductionmentioning

confidence: 92%

Pleistocene extinctions as drivers of biogeographical patterns on the easternmost Canary Islands

García‐Verdugo

Caujapé‐Castells²,

Illera

et al. 2019

Journal of Biogeography

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Subtropical islands are often viewed as refuges where Quaternary climatic shifts driving global episodes of extinction were buffered. Island biodiversity, however, may have been impacted by climatic fluctuations at local scales, particularly in spatially heterogeneous island systems. In this study, we generated a conceptual framework for predicting the potential impact of Pleistocene extinctions on the biogeographical pattern of the Canarian spermatophyte flora, with a focus on the easternmost Canarian islands (ECI). Then, we performed an exhaustive bibliographic revision (270 studies) to examine whether taxonomic, phylogenetic and phylogeographical data support our predictions. Although molecular information is limited for many lineages, the available data suggest that the majority of extant ECI plant taxa may be the result of relatively recent (<1 Ma) dispersal from surrounding insular and mainland areas. Different lines of evidence are compatible with the idea of a Pleistocene period of frequent lineage extirpation on ECI. Extinction may thus have provided new ecological opportunities for recent (re)colonization, with some cases of recent establishment mediated by facilitation. Considering background extinction on ECI, we describe five general patterns of colonization for Canarian plant lineages. In addition to factors related to island ontogeny and long‐distance dispersal, we suggest that Pleistocene extinctions may have significantly contributed to extant biogeographical patterns in the Canarian archipelago, such as the biased distribution ranges of island plants and the low endemic richness on ECI. This new scenario provides testable hypotheses for future studies dealing with the phylogeography, taxonomy and conservation of terrestrial biodiversity on the Canarian islands, and possibly, on other near‐shore islands.

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“…Programs such as PAUP* (Phylogenetic Analysis Using Parsimony *and other methods) [29] and MEGA (Molecular Evolutionary Genetics Analysis) [30] have been widely used to conduct analyses with most of the above-mentioned phylogenetic inference methods in studies with reptile and with Macaronesian flora lineages [31,32,33,34]. Phylogenetic studies with Macaronesian reptiles [35,36,37,38,39,40,41,42,43,44,45,46,47,48,49] are summarised in Table 1, with detailed information on molecular markers and software used, analyses conducted and corresponding bibliographic reference.…”

Section: Phylogenetic Inference and Divergence Time Estimationmentioning

confidence: 99%

“…To specifically perform ML and BI analysis with Macaronesian reptiles (Table 1) and plant lineages [19,20,21,31,32,33,34], two main software packages have also been often used: RAxML [52] and MrBayes [53]. Randomized Axelerated Maximum Likelihood (RAxML), and similar software packages such as PHYML [54] and GARLI [55], make use of ML estimations to perform phylogenetic inference; while MrBayes estimates phylogenies using a variant of the MCMC method called Metropolis-coupled MCMC.…”

Section: Phylogenetic Inference and Divergence Time Estimationmentioning

confidence: 99%

“…The evolutionary history of this huge diversity is not properly understood, and many lineages remain understudied, particularly in Azores and Cabo Verde. In fact, for Cabo Verde, few lineages were subject of molecular dating analyses to date, specifically: Campanula [21,71]; Diplotaxis [31]; Echium [32]; and Lotus [72], which represents about one-fourth of the total vascular plant diversity when considering lineages with more than one endemic species in the archipelago. On the other hand, only six reptile genera (i.e., Chalcides ; Chioninia ; Gallotia ; Hemidactylus ; Tarentola and Teira ) occur within the Macaronesian Region (see Figure 1B), and from these, only three occur in Cabo Verde [9].…”

Section: Phylogenetic Resolution and Divergence Time Estimation Ammentioning

confidence: 99%

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Shortcomings of Phylogenetic Studies on Recent Radiated Insular Groups: A Meta-Analysis Using Cabo Verde Biodiversity

Romeiras

Pena

Menezes

et al. 2019

IJMS

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Over the previous decades, numerous studies focused on how oceanic islands have contributed to determine the phylogenetic relationships and times of origin and diversification of different endemic lineages. The Macaronesian Islands (i.e., Azores, Madeira, Selvagens, Canaries, and Cabo Verde), harbour biotas with exceptionally high levels of endemism. Within the region, the vascular plants and reptiles constitute two of the most important radiations. In this study we compare relevant published phylogenetic data and diversification rates retrieved within Cabo Verde endemic lineages and discuss the importance of choosing appropriate phylogeny-based methods to investigate diversification dynamics on islands. From this selective literature-based review, we summarize the software packages used in Macaronesian studies and discuss their adequacy considering the published data to obtain well-supported phylogenies in the target groups. We further debate the importance of Next Generation Sequencing (NGS), to investigate the evolutionary processes of diversification in the Macaronesian Islands. Analysis of genomic data provides phylogenetic resolution for rapidly evolving species radiations, suggesting a great potential to improve the phylogenetic signal and divergence time estimates in insular lineages. The most important Macaronesian reptile radiations provide good case-studies to compare classical phylogenetic methods with new tools, such as phylogenomics, revealing a high value for research on this hotspot area.

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Molecular evidence in Diplotaxis (Brassicaceae) suggests a Quaternary origin of the Cape Verdean flora

Cited by 5 publications

References 73 publications

Multi‐locus phylogeny of Ludwigia (Onagraceae): Insights on infra‐ generic relationships and the current classification of the genus

Multi‐locus phylogeny of Ludwigia (Onagraceae): Insights on infra‐ generic relationships and the current classification of the genus

Pleistocene extinctions as drivers of biogeographical patterns on the easternmost Canary Islands

Shortcomings of Phylogenetic Studies on Recent Radiated Insular Groups: A Meta-Analysis Using Cabo Verde Biodiversity

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