Phylogeny, historical biogeography, and taxonomic ranking of Parnassiinae (Lepidoptera, Papilionidae) based on morphology and seven genes

Nazari, Vazrick; Zakharov, Evgueni V.; Sperling, Felix A. H.

doi:10.1016/j.ympev.2006.06.022

Cited by 97 publications

(130 citation statements)

References 90 publications

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“…They go on to use the timing of the split between India and Madagascar to calibrate their estimates of lineage divergence times. A more recent molecular study (Nazari et al 2007) that used both geological and fossil calibration points indicated a much earlier age for the first split within Troidina (\60 mya), corroborating previous estimates.…”

Section: Examplesupporting

confidence: 82%

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Vagility: The Neglected Component in Historical Biogeography

Kodandaramaiah

2009

Evol Biol

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The conceptual gap between ecological and historical biogeography is wide, although both disciplines are concerned with explaining how distributions have been shaped. A central aim of modern historical biogeography is to use a phylogenetic framework to reconstruct the geographic history of a group in terms of dispersals and vicariant events, and a number of analytical methods have been developed to do so. To date the most popular analytical methods in historical biogeography have been parsimony-based. Such methods can be classified into two groups based on the assumptions used. The first group assumes that vicariance between two areas creates common patterns of disjunct distributions across several taxa whereas dispersals and extinctions generate clade specific patterns. The second group of methods assumes that passive vicariance and within-area speciation have a higher probability of occurrence than active dispersal events and extinction. Typically, none of these methods takes into account the ecology of the taxa in question. I discuss why these methods can be potentially misleading if the ecology of the taxon is ignored. In particular, the vagility or dispersal ability of taxa plays a pivotal role in shaping the distributions and modes of speciation. I argue that the vagility of taxa should be explicitly incorporated in biogeographic analyses. Likelihood-based methods with models in which more realistic probabilities of dispersal and modes of speciation can be specified are arguably the way ahead. Although objective quantification will pose a challenge, the complete ignorance of this vital aspect, as has been done in many historical biogeographic analyses, can be dangerous. I use worked examples to show a simple way of utilizing such information, but better methods need to be developed to more effectively use ecological knowledge in historical biogeography.

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Section: Examplesupporting

confidence: 82%

“…Taking into account age estimates in Nazari et al (2007) andde Jong (2003), oceanic dispersals are more likely than ancient vicariance events. Extinctions are assigned a cost of five.…”

Section: Examplementioning

confidence: 99%

Vagility: The Neglected Component in Historical Biogeography

Kodandaramaiah

2009

Evol Biol

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“…Although multiple nuclear sequences are used for constructing phylogenies in multicellular organisms (Steppan et al, 2004;Mallarino et al, 2005;Nazari et al, 2007), mitochondrial (mtDNA) genes such as cytochrome b, cytochrome oxidase I and the mitochondrial control region are still probably the most widely used genetic markers for this phylogenetic reconstruction (Folmer et al, 1994;Simmons and Weller, 2001). More recently, a short section of the mitochondrial cytochrome oxidase I gene has been put forward as a universal candidate locus for species identification purposes or DNA barcoding (Hebert et al, 2003;Stoeckle and Hebert, 2008).…”

Section: Introductionmentioning

confidence: 99%

Pinniped phylogenetic relationships inferred using AFLP markers

2009

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Amplified fragment length polymorphisms (AFLPs) are widely used for phylogenetic reconstruction in plants but their use in animal taxa has been limited, and in mammals rare. In addition, their use has been largely limited to shallow relationships amongst species or subspecies. Here, we genotype 23 pinniped species for 310 AFLP markers and find a strong phylogenetic signal, with individuals coclustering within species, and overall a good agreement between our phylogeny and those constructed using mitochondrial DNA and nuclear sequences even at nodes B15 million years old. Although supporting the existing ideas about pinniped relationships, our data shed light on relationships within the hitherto relatively unresolved Phocine species group, and provide further supporting evidence for raising two subspecies of Zalophus californianus, Z. c. californianus and Z. c. wollebaeki, to species level. Plotting AFLP divergence time estimates against those based on both mtDNA and nuclear sequences we find strong linear relationships, suggesting that the different markers are evolving in a clocklike fashion. These data further emphasize the utility of AFLP markers as general tools for phylogenetic reconstruction.

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“…Another concern is the possibility of phylogenetic relationships being confounded by the repeated introgression of mtDNA. To a certain degree, the same pitfalls apply to nuclear genes and because of these complications, many recent studies use a multi-locus, multigenome or whole-genome approach to avoid biased phylogenetic inference from single-gene data (Begun et al, 2007;Nazari et al, 2007;Winterton et al, 2007;Regier et al, 2008). Such a multi-locus strategy does not work for mtDNA as it is inherited as a single linkage group.…”

Section: Discussionmentioning

confidence: 99%

Introgression as a likely cause of mtDNA paraphyly in two allopatric skippers (Lepidoptera: Hesperiidae)

et al. 2009

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Gene transfer between species during interspecific hybridization is a widely accepted reality in plants but is considered a relatively rare phenomenon among animals. Here we describe a unique case of mitochondrial DNA (mtDNA) paraphyly in the skipper genus, Erynnis, that involves well-diverged allopatric species. Using molecular evidence from both mitochondrial and nuclear genomes, we found high levels of intraspecific divergence in the mitochondrial genome within E. propertius (over 4% pair-wise sequence divergence) but no such differentiation in the nuclear genome. Sequence comparisons with related Erynnis suggest that past, but recent and infrequent introgression between E. propertius and E. horatius is the most reasonable explanation for the observed pattern of mtDNA paraphyly. This example of putative introgression highlights the complexity of mtDNA evolution and suggests that similar processes could be operating in other taxa that have not been extensively sampled. Our observations reinforce the importance of involving multiple genes with different modes of inheritance in the analysis of population history of congeneric taxa.

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Phylogeny, historical biogeography, and taxonomic ranking of Parnassiinae (Lepidoptera, Papilionidae) based on morphology and seven genes

Cited by 97 publications

References 90 publications

Vagility: The Neglected Component in Historical Biogeography

Vagility: The Neglected Component in Historical Biogeography

Pinniped phylogenetic relationships inferred using AFLP markers

Introgression as a likely cause of mtDNA paraphyly in two allopatric skippers (Lepidoptera: Hesperiidae)

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