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The extent to which response to environmental change is mediated by species-specific ecology is an important aspect of the population histories of tropical taxa. During the Pleistocene glacial cycles and associated sea level fluctuations, the Sunda region in Southeast Asia experienced concurrent changes in landmass area and the ratio of forest to open habitat, providing an ideal setting to test the expectation that habitat associations played an important role in determining species' response to the opportunity for geographic expansion. We used mitochondrial control region sequences and six microsatellite loci to compare the phylogeographic structure and demographic histories of four broadly sympatric species of Old World fruit bats in the genus, Cynopterus. Two forest-associated species and two open-habitat generalists were sampled along a latitudinal transect in Singapore, peninsular Malaysia, and southern Thailand. Contrary to expectations based on habitat associations, the geographic scale of population structure was not concordant across ecologically similar species. We found evidence for long and relatively stable demographic history in one forest and one open-habitat species, and inferred non-coincident demographic expansions in the second forest and open-habitat species. Thus, while these results indicate that Pleistocene climate change did not have a single effect on population structure across species, a correlation between habitat association and response to environmental change was supported in only two of four species. We conclude that interactions between multiple factors, including historical and contemporary environmental change, species-specific ecology and interspecific interactions, have shaped the recent evolutionary histories of Cynopterus fruit bats in Southeast Asia.

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Although the use of modified roosts has been reported in more than 20 species of bats in the tropics, comparative studies of the roosting ecology of congeneric tent‐roosting species are notably lacking. In the Paleotropics, this unique behavior has been described in two species belonging to the genus, Cynopterus: C. sphinx and C. brachyotis. However, it is not known whether tent roosting is an essential component of their roosting ecology, or whether the behavior is found in other members of the genus. In this study we characterize the roosting ecology of four sympatric species of Cynopterus in peninsular Malaysia and use these data to address two main questions. (1) Do all four species use modified roosts and, in those that do, is tent‐roosting obligate or opportunistic? (2) Do species pairs overlap in roost preferences and roosting habitat and, if so, is there evidence for interspecific interactions in relation to these resources? We radio‐tracked bats at two floristically distinct sites and located a total of 249 roosts. Interspecific roost niche overlap was minimal at both sites and we found no evidence for interspecific competition for roost resources at the local level. Species differences in roosting ecology were defined primarily by spatial separation of roosting habitats and secondarily by within‐habitat differences in roost selection. Importantly, we found that although periodic use of modified roosts was a characteristic shared by all four species, most roosts were unmodified, indicating that tent roosting is a facultative behavior in Malaysian Cynopterus.

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