Empirical landscape genetic comparison of single nucleotide polymorphisms and microsatellites in three arid‐zone mammals with high dispersal capacity

Skey, Ebony D.; Ottewell, Kym; Spencer, Peter B. S.; Shaw, Robyn E.

doi:10.1002/ece3.10037

Cited by 5 publications

(2 citation statements)

References 110 publications

(128 reference statements)

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“…In the case of P. hermannsburgensis, a lack of genetic structure seems to be the result of a continental-wide recent expansion from the LGM to present (Figure 5), in response to more humid, interglacial conditions and the stabilization of sandy dunefields through the arid zone (Pepper & Keogh, 2021). This is consistent with a lack of structure in Pilbara populations of P. hermannsburgensis in previous studies (Levy et al, 2019;Skey et al, 2023). Evidence for population expansion is supported by an excess of low-frequency alleles in our data-complete analysis, as indicated by a significantly negative Tajima's D (Table S2).…”

Section: Recent Expansion In the Arid Biomesupporting

confidence: 89%

Speciation across biomes: Rapid diversification with reproductive isolation in the Australian delicate mice

Roycroft,

Ford,

Ramm

et al. 2024

Molecular Ecology

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Phylogeographic studies of continental clades, especially when combined with palaeoclimate modelling, provide powerful insight into how environment drives speciation across climatic contexts. Australia, a continent characterized by disparate modern biomes and dynamic climate change, provides diverse opportunity to reconstruct the impact of past and present environments on diversification. Here, we use genomic‐scale data (1310 exons and whole mitogenomes from 111 samples) to investigate Pleistocene diversification, cryptic diversity, and secondary contact in the Australian delicate mice (Hydromyini: Pseudomys), a recent radiation spanning almost all Australian environments. Across northern Australia, we find no evidence for introgression between cryptic lineages within Pseudomys delicatulus sensu lato, with palaeoclimate models supporting contraction and expansion of suitable habitat since the last glacial maximum. Despite multiple contact zones, we also find little evidence of introgression at a continental scale, with the exception of a potential hybrid zone in the mesic biome. In the arid zone, combined insights from genetic data and palaeomodels support a recent expansion in the arid specialist P. hermannsburgensis and contraction in the semi‐arid P. bolami. In the face of repeated secondary contact, differences in sperm morphology and chromosomal rearrangements are potential mechanisms that maintain species boundaries in these recently diverged species. Additionally, we describe the western delicate mouse as a new species and recommend taxonomic reinstatement of the eastern delicate mouse. Overall, we show that speciation in an evolutionarily young and widespread clade has been driven by environmental change, and potentially maintained by divergence in reproductive morphology and chromosome rearrangements.

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Section: Recent Expansion In the Arid Biomesupporting

confidence: 89%

Speciation across biomes: Rapid diversification with reproductive isolation in the Australian delicate mice

Roycroft,

Ford,

Ramm

et al. 2024

Molecular Ecology

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“…Rising salinity along riverine vegetation and widening of roads threatens habitat corridors in this region. A landscape genetic approach (e.g Skey et al, 2023). is needed to determine which habitat variables are of highest priority for protection, including reserve size, distance between reserves, density of small patches and corridors, vegetation type, effect of waterways, roads, and extent of cleared agricultural land.…”

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confidence: 99%

Remnant wild kenngoor (Marsupialia: Dasyuridae: Phascogale calura) populations retain genetic connectivity and genetic diversity in a highly fragmented landscape

de Visser,

Hall,

Ottewell

et al. 2023

Preprint

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Kenngoor (Phascogale calura) persist in < 1% of their original distribution, occupying highly fragmented remnant habitat in south-west Western Australia, with very little known of the genetic health of remaining wild populations. Recently, the species has been translocated to managed reserves to improve its conservation. Understanding genetic structure and patterns of genetic diversity is crucial to inform conservation translocations for species recovery. This study aims to 1) assess genetic structure and genetic diversity across remaining wild populations, 2) assess long-term genetic outcomes of a mixed-source wild-to-wild translocation, and 3) estimate global effective population size. We sequenced 209 samples from 13 fragmented wild populations were sequenced using reduced representation sequencing. An isolation by distance model best explained genetic structure across the wild populations, with evidence of fine scale divergence of two northern populations. Allelic richness and autosomal heterozygosity measures indicated that diversity is spread uniformly across populations, and no populations showed signs of inbreeding or strong genetic drift. The mixed-source translocation has retained the diversity of the wider species ten years post-translocation. Overall, our results suggest that connectivity between wild populations has largely been maintained and that no population is in poorer genetic health, despite the highly fragmented nature of remnant kenngoor habitat. Future translocations should aim to represent a mixture of genetically divergent populations to maintain the diversity present at the species level. Ongoing conservation management will be required to ensure the long-term viability of the species in this fragmented landscape.

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Remnant kenngoor (Phascogale calura) retain genetic connectivity and genetic diversity in a highly fragmented landscape

de Visser,

Hall,

Ottewell

et al. 2024

Conserv Genet

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Kenngoor (Phascogale calura) persist in < 1% of their original distribution, occupying highly fragmented remnant habitat in south-west Western Australia, with very little known of the genetic diversity of the remaining wild populations. Recently, the species has been translocated to managed reserves to improve its conservation. Understanding genetic structure and patterns of genetic diversity is crucial to inform conservation translocations for species recovery. This study aims to (1) assess genetic structure and genetic diversity across remaining wild locations, (2) assess long-term genetic outcomes of a mixed-source wild-to-wild translocation, and (3) estimate global effective population size. We genotyped 209 samples from 13 locations of fragmented remnant habitat using reduced representation sequencing. An isolation by distance model best explained genetic structure across the survey areas, with evidence of fine scale divergence of two northern locations. Allelic richness and autosomal heterozygosity measures indicated that diversity is spread uniformly across locations, and no locations showed signs of inbreeding or strong genetic drift. The mixed-source translocation has retained the diversity of the wider species ten years post-translocation. Overall, our results suggest that connectivity between survey areas has largely been maintained and that no location has substantially lower genetic diversity, despite the highly fragmented nature of remnant kenngoor habitat. Future translocations should aim to represent a mixture of genetically divergent locations to maintain the diversity present at the species level. Ongoing conservation management will be required to ensure the long-term viability of the species in this fragmented landscape.

show abstract

Empirical landscape genetic comparison of single nucleotide polymorphisms and microsatellites in three arid‐zone mammals with high dispersal capacity

Cited by 5 publications

References 110 publications

Speciation across biomes: Rapid diversification with reproductive isolation in the Australian delicate mice

Speciation across biomes: Rapid diversification with reproductive isolation in the Australian delicate mice

Remnant wild kenngoor (Marsupialia: Dasyuridae: Phascogale calura) populations retain genetic connectivity and genetic diversity in a highly fragmented landscape

Remnant kenngoor (Phascogale calura) retain genetic connectivity and genetic diversity in a highly fragmented landscape

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