Andrew P. Jennings

Molecular phylogeny of the Herpestidae (Mammalia, Carnivora) with a special emphasis on the Asian Herpestes

Until now, phylogenetic studies of the mongooses (Carnivora, Herpestidae) have not included an exhaustive sampling of the Asian members of this family. In this study, we used mitochondrial (Cytochrome b and ND2), nuclear (beta-fibrinogen intron 7 and Transthyretin intron 1) sequences from almost all of the recognized mongoose species to produce a well-resolved phylogeny of the Herpestidae. We also performed molecular dating analyses to infer divergence dates of the different lineages within the Herpestidae. Our results confirmed the paraphyly of the Herpestes genus and other phylogenetic relationships, which previously had only been moderately supported. The Asian herpestid species were found to form a monophyletic group within the Herpestidae. Within the Asian species, a cyto-nuclear conflict was discovered between the small Indian mongoose (Herpestes auropunctatus), the Indian gray mongoose (Herpestes edwardsii) and the Javan mongoose (Herpestes javanicus), which may have occurred through interspecific hybridization. This study inferred an Early Miocene origin for the Herpestidae and a Middle Miocene origin for the Asian mongooses.

Systematic status and biogeography of the Javan and small Indian mongooses (Herpestidae, Carnivora)

The Javan and small Indian mongooses, ranging from the Middle East to South‐east Asia, are considered as two species or as a single species, varying in size and colour from west to east. In order to clarify their systematic status and to define the limits of their ranges, Cytochrome b sequences were obtained from 27 specimens, and localities of 392 specimens from museum collections were determined. The phylogenetic analyses revealed that the Javan and Small Indian mongooses grouped in two separate clades with their range limits located in Myanmar. The Javan mongoose is in fact closer to the grey mongoose than to the small Indian mongoose.

Phylogenetic relationships of the Asian palm civets (Hemigalinae & Paradoxurinae, Viverridae, Carnivora)

The Viverridae (Mammalia, Carnivora), one of the least studied groups of carnivorans, include two subfamilies of Asian palm civets: Hemigalinae and Paradoxurinae. The relationships between and within these two subfamilies have never been thoroughly tested using an extensive molecular sample set. In this study, we gathered sequences of four genes (two mitochondrial: Cytochrome b and ND2 and two nuclear: beta-fibrinogen intron 7 and IRBP exon 1) for eight of the eleven extant species representing these two subfamilies. The results showed that: (1) the Asian palm civets (Hemigalinae and Paradoxurinae) have a single origin and form the sister-group of the (Genettinae+Viverrinae) clade, (2) the Hemigalinae (including the otter civet Cynogale bennettii) are monophyletic, (3) the Paradoxurinae are monophyletic and (4) the small-toothed palm civet (Arctogalidia trivirgata) is an early offshoot within the Paradoxurinae. Using a relaxed molecular clock analysis, the differentiation of the (Hemigalinae+Paradoxurinae) was inferred to occur in the Late Oligocene/Early Miocene.

Predicted distributions and ecological niches of 8 civet and mongoose species in Southeast Asia

Abstract Although Southeast Asia has a high diversity of small carnivore species, little is known about their distributions and ecology, and several species are now threatened with extinction. We predicted the distributions of 8 civet and mongoose species within Southeast Asia using ecological niche modeling, determined their habitat/elevation niche preferences, examined the interspecific differences in these 2 niche parameters, and investigated possible factors that could have affected these distribution and niche patterns. We found a tendency for each civet and mongoose species to separate spatially from related species on geographical, habitat, and elevation gradients, and that 3 pairs of civet and mongoose species showed similar distribution patterns and habitat/elevation preferences. The large Indian civet (Viverra zibetha) and crab-eating mongoose (Herpestes urva) have similar distributions throughout mainland Southeast Asia, are found over a broad range of elevations, and occur primarily in evergreen forest. The large-spotted civet (Viverra megaspila) occurs in lowland areas across northern Southeast Asia and is found most frequently in deciduous forest (and less frequently in evergreen forest). The Malay civet (Viverra tangalunga) and short-tailed mongoose (Herpestes brachyurus) both occur south of the Thai–Malaysian border in Malaysia, Indonesia, and the Philippines and are found primarily in lowlands and evergreen forest. The small Indian civet (Viverricula indica) and Javan mongoose (Herpestes javanicus) are found on mainland Southeast Asia and parts of Indonesia, occur mainly at lower elevations, and appear to have no preference for forest type. The collared mongoose (Herpestes semitorquatus) is found on Borneo (and possibly Sumatra) and might occur more frequently at higher elevations and in disturbed evergreen forests. Interspecific competition, biogeography, and human interference are discussed as possible factors to explain these distribution and niche patterns.

Diversity and occupancy of small carnivores within oil palm plantations in central Sumatra, Indonesia

In Southeast Asia, the conversion of native forests to oil palm plantations threatens tropical biodiversity, but very little is known about the impacts of oil palm cultivation on small carnivore species. To determine the diversity and occupancy of small carnivores within oil palm plantations and to investigate possible factors that might affect their presence within oil palm, we used camera-traps within two oil palm plantations in central Sumatra, analysed the data using occupancy modelling and tested whether two covariates (distance to the edge of the oil palm habitat and distance from extensive areas of lowland forest) affected the model parameters for each small carnivore species. From 3164 camera-trap days, we detected only three small carnivores: leopard cat (Prionailurus bengalensis), common palm civet (Paradoxurus hermaphroditus) and Malay civet (Viverra tangalunga), which indicates that there was a low diversity of small carnivores within the oil palm plantations. Both the leopard cat and common palm civet were found deep within the oil palm, whereas the Malay civet was only detected near the edge in one of the plantations. The leopard cat and common palm civet had very high occupancy values, whereas the Malay civet had low values for both occupancy and detection probability. Neither covariate affected occupancy of the leopard cat and common palm civet, but distance from the edge of the oil palm habitat did influence their detection probabilities. Malay civet occupancy decreased with distance from the oil palm edge, and detection probability was affected by distance from extensive areas of lowland forest. Forests and rest/den site availability are suggested to be important features for small carnivores with oil palm-dominated landscapes.

Predicted distributions and conservation status of two threatened Southeast Asian small carnivores: the banded civet and Hose’s civet

Abstract Knowledge of the distribution and habitat preferences of a species is of paramount importance when assessing its conservation status. We used accurately recorded occurrence records and ecological niche modelling to predict the distribution of two threatened and poorly known small carnivore species that occur in Southeast Asia, the banded civet (Hemigalus derbyanus) and Hose’s civet (Diplogale hosei), and analysed their spatial niche differentiation for habitat and elevation. We then identified possible anthropogenic threats, and used our modelling predictions to recommend surveying priorities. The predicted distribution of the banded civet was principally in lowland evergreen forest in southern Myanmar/Thailand, Peninsular Malaysia, Sumatra, Borneo and three Mentawai Islands (Siberut, Sipora and South Pagai), and for Hose’s civet in evergreen forest across the higher elevation regions of Borneo. Our niche analyses suggested that there is a tendency for these two species to separate spatially along an elevation gradient: the banded civet is mainly found in lowland areas, whereas Hose’s civet primarily occurs at higher elevations. Our study strongly indicated that these two viverrids are forest-dependent species that may be threatened by forest loss, degradation and fragmentation. Field surveys should be prioritised in areas where each species is predicted to occur and no records currently exist.