East–west genetic differentiation in Musk Ducks (Biziura lobata) of Australia suggests late Pleistocene divergence at the Nullarbor Plain

Guay, Patrick Jean; Chesser, R. Terry; Mulder, RA; Afton, AD; Paton, DC; McCracken, Kevin G.

doi:10.1007/s10592-010-0097-5

Cited by 18 publications

(11 citation statements)

References 62 publications

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“…violaceus clade B781,0022.8–4.80.004785263470.968698−1.981110.003Nicholls and Austin (2005) M. melanocephalus clade A a 144672.8–4.80.00061180830.274725−1.480740.138Lee and Edwards (2008) M. melanocephalus clade B a 154672.8–4.80.00632201570.838095−0.4906020.379Lee and Edwards (2008) Biziura lobata clade A a 1637313–170.00302419430.5750.7083230.783Guay et al (2010) Bi. lobata clade B a 13537313–170.00224870380.413709−1.417810.047Guay et al (2010) C. nigrogularis clade A a 558672.8–4.80.001648162200.642424−2.423270Kearns et al (2010) Chalcites minutillus clade A a 481,4972.0–4.00.004713327270.953014−1.10275...…”

Section: Methodsmentioning

confidence: 99%

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation

Chan

Schanzenbach

Hickerson

2014

Molecular Biology and Evolution

112

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Methods that integrate population-level sampling from multiple taxa into a single community-level analysis are an essential addition to the comparative phylogeographic toolkit. Detecting how species within communities have demographically tracked each other in space and time is important for understanding the effects of future climate and landscape changes and the resulting acceleration of extinctions, biological invasions, and potential surges in adaptive evolution. Here, we present a statistical framework for such an analysis based on hierarchical approximate Bayesian computation (hABC) with the goal of detecting concerted demographic histories across an ecological assemblage. Our method combines population genetic data sets from multiple taxa into a single analysis to estimate: 1) the proportion of a community sample that demographically expanded in a temporally clustered pulse and 2) when the pulse occurred. To validate the accuracy and utility of this new approach, we use simulation cross-validation experiments and subsequently analyze an empirical data set of 32 avian populations from Australia that are hypothesized to have expanded from smaller refugia populations in the late Pleistocene. The method can accommodate data set heterogeneity such as variability in effective population size, mutation rates, and sample sizes across species and exploits the statistical strength from the simultaneous analysis of multiple species. This hABC framework used in a multitaxa demographic context can increase our understanding of the impact of historical climate change by determining what proportion of the community responded in concert or independently and can be used with a wide variety of comparative phylogeographic data sets as biota-wide DNA barcoding data sets accumulate.

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Section: Methodsmentioning

confidence: 99%

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation

Chan

Schanzenbach

Hickerson

2014

Molecular Biology and Evolution

112

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“…Finally, several other animal taxa for which molecular data are available show little evidence of significant phylogeographic subdivision throughout their ranges in SWWA, including the mammals Cercartetus concinnus (Pestell et al , ), Setonix brachyurus (Sinclair, ), Smithopsis crassicaudata (Cooper, Adams & Labrindis, ) and Tarsipes rostratus (Clancy, ); the birds Barnardius zonarius (Joseph & Wilke, ), Biziura lobata (Guay et al , ), Gavicalis virescens (Joseph & Wilke, ) and Malurus splendens (Kearns et al , ); and the spiders Raveniella cirrata and R. peckorum (Rix et al , ). These taxa are significant in that they provide a useful point of comparison against those species with more pronounced phylogeographic structuring, and further highlight key characteristics (e.g.…”

Section: Origins and Diversity Of The Terrestrial Faunamentioning

confidence: 99%

“…Onychophora clade (Murienne et al, 2013); 15 Petrogale lateralis (Potter et al, 2012); 16 Pseudomys shortridgei (Salinas et al, 2009); 17 Phascogale tapoatafa (Spencer et al, 2001); 18 Gymnorhina tibicen (Toon et al, 2007); 19 Anas gracilis/A. castanea-1 ; 20 Biziura lobata (Guay et al, 2010); 21 Amytornis textilis (Austin et al, 2013); 22 Stipiturus malachurus ); 23 various bird species (Dolman & Joseph, 2012); 24 Anas gracilis/A. castanea-2 (Dhami et al, 2013); 25 Pezoporus (Murphy et al, 2011); 26 Acanthorhynchus 27 Malurus (McLean et al, 2012); 28 Calyptorhynchus (White et al, 2011);29 Melithreptus (Toon et al, 2010); 30 Lerista (L. viduata/L.…”

Section: (A) Ancient Cladesmentioning

confidence: 99%

Biogeography and speciation of terrestrial fauna in the south‐western Australian biodiversity hotspot

et al. 2014

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The south-western land division of Western Australia (SWWA), bordering the temperate Southern and Indian Oceans, is the only global biodiversity hotspot recognised in Australia. Renowned for its extraordinary diversity of endemic plants, and for some of the largest and most botanically significant temperate heathlands and woodlands on Earth, SWWA has long fascinated biogeographers. Its flat, highly weathered topography and the apparent absence of major geographic factors usually implicated in biotic diversification have challenged attempts to explain patterns of biogeography and mechanisms of speciation in the region. Botanical studies have always been central to understanding the biodiversity values of SWWA, although surprisingly few quantitative botanical analyses have allowed for an understanding of historical biogeographic processes in both space and time. Faunistic studies, by contrast, have played little or no role in defining hotspot concepts, despite several decades of accumulating quantitative research on the phylogeny and phylogeography of multiple lineages. In this review we critically analyse datasets with explicit supporting phylogenetic data and estimates of the time since divergence for all available elements of the terrestrial fauna, and compare these datasets to those available for plants. In situ speciation has played more of a role in shaping the south-western Australian fauna than has long been supposed, and has occurred in numerous endemic lineages of freshwater fish, frogs, reptiles, snails and less-vagile arthropods. By contrast, relatively low levels of endemism are found in birds, mammals and highly dispersive insects, and in situ speciation has played a negligible role in generating local endemism in birds and mammals. Quantitative studies provide evidence for at least four mechanisms driving patterns of endemism in south-western Australian animals, including: (i) relictualism of ancient Gondwanan or Pangaean taxa in the High Rainfall Province; (ii) vicariant isolation of lineages west of the Nullarbor divide; (iii) in situ speciation; and (iv) recent population subdivision. From dated quantitative studies we derive four testable models of historical biogeography for animal taxa in SWWA, each explicit in providing a spatial, temporal and topological perspective on patterns of speciation or divergence. For each model we also propose candidate lineages that may be worthy of further study, given what we know of their taxonomy, distributions or relationships. These models formalise four of the strongest patterns seen in many animal taxa from SWWA, although other models are clearly required to explain particular, idiosyncratic patterns. Generating numerous new datasets for suites of co-occurring lineages in SWWA will help refine our understanding of the historical biogeography of the region, highlight gaps in our knowledge, and allow us to derive general postulates from quantitative (rather than qualitative) results. For animals, this process has now begun in earnest, as has the process of ta...

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“…Murchison, Eyrean and Mallee), the Nullarbor Plain (and its fringing xeric woodlands) was an important barrier to dispersal and gene flow in birds, and other vertebrates, during the Pleistocene (Ford 1987). Several studies support east-west population splits here and at other barriers that date to this time period (reviewed by Byrne et al 2008, also see Donnellan et al 2009, Guay et al 2010, Toon et al 2010, Murphy et al 2011. Our multilocus data suggest that eastern and western populations of chestnut teal diverged during the late Pleistocene, specifically around 210 000 yr ago (95% HPD  80 000-1 700 000 yr ago).…”

Section: Coalescent Analyses Of Nudnamentioning

confidence: 80%

“…This composite barrier, coupled with the Great Australian Bight, divides the distributions of many species into disjunct eastern and western populations (Crisp and Cook 2007, Byrne et al 2008). For example, most sedentary bird species of southern Australian mesic habitats such as the musk duck Bizura lobata, scarlet robin Petroica boodang , and various Melithreptus honeyeaters are genetically differentiated across eastern and western Australia (Guay et al 2010, Toon et al 2010, Dolman and Joseph 2012). However, other birds of more xeric habitats (e.g.…”

mentioning

confidence: 99%

Multilocus phylogeography of Australian teals (Anas spp.): a case study of the relationship between vagility and genetic structure

Dhami¹,

Joseph²,

Roshier³

et al. 2012

Journal of Avian Biology

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Biogeographic barriers potentially restrict gene flow but variation in dispersal or vagility can influence the effectiveness of these barriers among different species and produce characteristic patterns of population genetic structure. The objective of this study was to investigate interspecific and intraspecific genetic structure in two closely related species that differ in several life‐history characteristics. The grey teal Anas gracilis is geographically widespread throughout Australia with a distribution that crosses several recognized biogeographic barriers. This species has high vagility as its extensive movements track broad‐scale patterns in rainfall. In contrast, the closely related chestnut teal A. castanea is endemic to the mesic southeastern and southwestern regions of Australia and is more sedentary. We hypothesized that these differences in life‐history characteristics would result in more pronounced population structuring in the chestnut teal. We sequenced five nuclear loci (nuDNA) for 49 grey teal and 23 chestnut teal and compared results to published mitochondrial DNA (mtDNA) sequences. We used analysis of molecular variance to examine population structure, and applied coalescent based approaches to estimate demographic parameters. As predicted, chestnut teal were more strongly structured at both mtDNA and nuDNA (ΦST= 0.163 and 0.054, respectively) than were grey teal (ΦST < 0.0001 for both sets of loci). Surprisingly, a greater proportion of the total genetic variation was partitioned among populations within species (ΦSC= 0.014 and 0.047 for nuDNA and mtDNA, respectively) than between the two species (ΦCT < 0.0001 for both loci). The ‘Isolation with Migration’ coalescent model suggested a late Pleistocene divergence between the taxa, but remarkably, a deeper divergence between the southeastern and southwestern populations of chestnut teal. We conclude that dispersal potential played a prominent role in the structuring of populations within these species and that divergent selection associated with ecology and life history traits likely contributed to rapid and recent speciation in this pair.

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East–west genetic differentiation in Musk Ducks (Biziura lobata) of Australia suggests late Pleistocene divergence at the Nullarbor Plain

Abstract: 35

Cited by 18 publications

References 62 publications

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation

Biogeography and speciation of terrestrial fauna in the south‐western Australian biodiversity hotspot

Multilocus phylogeography of Australian teals (Anas spp.): a case study of the relationship between vagility and genetic structure

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