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Chetri, M., Odden, M., Sharma, K., Flagstad, O., Wegge, P. (2019). Estimating snow leopard density using fecal DNA in a large landscape in north-central Nepal. Global Ecology and Conservation, (17), 1–8.
Abstract: Although abundance estimates have a strong bearing on the conservation status of a
species, less than 2% of the global snow leopard distribution range has been sampled
systematically, mostly in small survey areas. In order to estimate snow leopard density
across a large landscape, we collected 347 putative snow leopard scats from 246 transects
(490 km) in twenty-six 5 5km sized sampling grid cells within 4393 km2 in Annapurna-
Manaslu, Nepal. From 182 confirmed snow leopard scats, 81 were identified as belonging
to 34 individuals; the remaining were discarded for their low (<0.625) quality index. Using
maximum likelihood based spatial capture recapture analysis, we developed candidate
model sets to test effects of various covariates on density and detection of scats on transects.
The best models described the variation in density as a quadratic function of
elevation and detection as a linear function of topography. The average density estimate of
snow leopards for the area of interest within Nepal was 0.95 (SE 0.19) animals per 100 km2
(0.66e1.41 95% CL) with predicted densities varying between 0.1 and 1.9 in different parts,
thus highlighting the heterogeneity in densities as a function of habitat types. Our density
estimate was low compared to previous estimates from smaller study areas. Probably,
estimates from some of these areas were inflated due to locally high abundances in overlap
zones (hotspots) of neighboring individuals, whose territories probably range far beyond
study area borders. Our results highlight the need for a large-scale approach in snow
leopard monitoring, and we recommend that methodological problems related to spatial
scale are taken into account in future snow leopard research.
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Hacker, C., Atzeni, L., Munkhtsog, B., Munkhtsog, B., Galsandorj, N., Zhang, Y., Liu, Y., Buyanaa, C., Bayandonoi, G., Ochirjav, M., Farrington, J. D., Jevit, M., Zhang, Y., Wu, L. Cong, W., Li, D., Gavette, C., Jackson, R., Janecka, J. E. (2022). Genetic diversity and spatial structures of snow leopards (Panthera uncia) reveal proxies of connectivity across Mongolia and northwestern China. Landscape Ecology, , 1–19.
Abstract: Understanding landscape connectivity and population genetic parameters is imperative for threatened species management. However, such information is lacking for the snow leopard (Panthera uncia). This study sought to explore hierarchical snow leopard gene flow patterns and drivers of genetic structure in Mongolia and China. A total of 97 individuals from across Mongolia and from the north-eastern edge of the Qinghai-Tibetan Plateau in Gansu Province to the middle of Qinghai Province in China were genotyped across 24 microsatellite loci. Distance-based frameworks were used to determine a landscape scenario best explaining observed genetic structure. Spatial and non-spatial methods were used to investigate fine-scale autocorrelation and similarity patterns as well as genetic structure and admixture. A genetic macro-division between populations in China and Mongolia was observed, suggesting that the Gobi Desert is a substantial barrier to gene flow. However, admixture and support for a resistance-based mode of isolation suggests connective routes that could facilitate movement. Populations in Mongolia had greater connectivity, indicative of more continuous habitat. Drivers of genetic structure in China were difficult to discern, and fine-scale sampling is needed. This study elucidates snow leopard landscape connectivity and helps to prioritize conservation areas. Although contact zones may have existed and occasional crossings can occur, establishing corridors to connect these areas should not be a priority. Focus should be placed on maintaining the relatively high connectivity for snow leopard populations within Mongolia and increasing research efforts in China.
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Janecka, J.E., Jackson, R., Yuquang, Z., Diqiang, L., Munkhtsog, B., et al. (2008). Population monitoring of snow leopards using noninvasive collection of scat samples: a pilot study (Vol. 11).
Abstract: The endangered snow leopard Panthera uncia occurs in rugged, high-altitude regions of Central Asia. However, information on the status of this felid is limited in many areas. We conducted a pilot study to optimize molecular markers for the analysis of snow leopard scat samples and to examine the feasibility of using noninvasive genetic methods for monitoring this felid. We designed snow leopard-specific primers for seven microsatellite loci that amplified shorter segments and avoided flanking sequences shared with repetitive elements. By redesigning primers we maximized genotyping success and minimized genotyping errors. In addition, we tested a Y chromosome-marker for sex identification and designed a panel of mitochondrial DNA primers for examining genetic diversity of snow leopards using scat samples. We collected scats believed to be from snow leopards in three separate geographic regions including north-western India, central China and southern Mongolia. We observed snow leopard scats in all three sites despite only brief 2-day surveys in each area. There was a high rate of species misidentification in the field with up to 54% of snow leopard scats misidentified as red fox. The high rate of field misidentification suggests sign surveys incorporating scat likely overestimate snow leopard abundance. The highest ratio of snow leopard scats was observed in Ladakh (India) and South Gobi (Mongolia), where four and five snow leopards were detected, respectively. Our findings describe a species-specific molecular panel for analysis of snow leopard scats, and highlight the efficacy of noninvasive genetic surveys for monitoring snow leopards. These methods enable large-scale noninvasive studies that will provide information critical for conservation of snow leopards.
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Janecka, J. E., Jackson, R., Munkhtsog, B., Murphy, W. J. (2014). Characterization of 9 microsatellites and primers in snow leopards and a species-specific PCR assay for identifying noninvasive samples. Conservation Genetic Resource, 6(2), 369:373.
Abstract: Molecular markers that can effectively identify noninvasively collected samples and provide genetic
information are critical for understanding the distribution, status, and ecology of snow leopards (Panthera uncia). However, the low DNA quantity and quality in many
noninvasive samples such as scats makes PCR amplification and genotyping challenging. We therefore designed primers for 9 microsatellites loci previously isolated in the
domestic cat (Felis catus) specifically for snow leopard studies using noninvasive samples. The loci showed moderate levels of variation in two Mongolian snow leopard
populations. Combined with seven other loci that we previously described, they have sufficient variation (He = 0.504, An = 3.6) for individual identification and
population structure analysis. We designed a species species specific PCR assay using cytochrome b for identification of unknown snow leopard samples. These molecular markers
facilitate in depth studies to assess distribution, abundance, population structure, and landscape connectivity of this endangered species.
endangered species
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Janecka, J. E., Jackson, R., Munkhtsog, B., Murphy, W. J. (2014). Characterization of 9 microsatellites and primers in snow leopards and a species-specific PCR assay for identifying noninvasive samples. Conservation Genetic Resource, 6(2), 369:373.
Abstract: Molecular markers that can effectively identify noninvasively collected samples and provide genetic
information are critical for understanding the distribution, status, and ecology of snow leopards (Panthera uncia). However, the low DNA quantity and quality in many
noninvasive samples such as scats makes PCR amplification and genotyping challenging. We therefore designed primers for 9 microsatellites loci previously isolated in the
domestic cat (Felis catus) specifically for snow leopard studies using noninvasive samples. The loci showed moderate levels of variation in two Mongolian snow leopard
populations. Combined with seven other loci that we previously described, they have sufficient variation (He = 0.504, An = 3.6) for individual identification and
population structure analysis. We designed a species species specific PCR assay using cytochrome b for identification of unknown snow leopard samples. These molecular markers
facilitate in depth studies to assess distribution, abundance, population structure, and landscape connectivity of this endangered species.
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Korablev, M. P., Poyarkov, A. D., Karnaukhov, A. S., Zvychaynaya, E. Y., Kuksin, A. N., Malykh, S. V., Istomov, S. V., Spitsyn, S. V., Aleksandrov, D. Y., Hernandez-Blanco, J. A., Munkhtsog, B., Munkhtogtokh, O., Putintsev, N. I., Vereshchagin, A. S., Becmurody, A., Afzunov, S., Rozhnov, V. V. (2021). Large-scale and fine-grain population structure and genetic diversity of snow leopards (Panthera uncia Schreber, 1776) from the northern and western parts of the range with an emphasis on the Russian population. Conservation Genetics, .
Abstract: The snow leopard (Panthera uncia Schreber, 1776) population in Russia and Mongolia is situated at the northern edge of the range, where instability of ecological conditions and of prey availability may serve as prerequisites for demographic instability and, consequently, for reducing the genetic diversity. Moreover, this northern area of the species distribution is connected with the western and central parts by only a few small fragments of potential habitats in the Tian-Shan spurs in China and Kazakhstan. Given this structure of the range, the restriction of gene flow between the northern and other regions of snow leopard distribution can be expected. Under these conditions, data on population genetics would be extremely important for assessment of genetic diversity, population structure and gene flow both at regional and large-scale level. To investigate large-scale and fine-grain population structure and levels of genetic diversity we analyzed 108 snow leopards identified from noninvasively collected scat samples from Russia and Mongolia (the northern part of the range) as well as from Kyrgyzstan and Tajikistan (the western part of the range) using panel of eight polymorphic microsatellites. We found low to moderate levels of genetic diversity in the studied populations. Among local habitats, the highest heterozygosity and allelic richness were recorded in Kyrgyzstan (He = 0.66 ± 0.03, Ho = 0.70 ± 0.04, Ar = 3.17) whereas the lowest diversity was found in a periphery subpopulation in Buryatia Republic of Russia (He = 0.41 ± 0.12, Ho = 0.29 ± 0.05, Ar = 2.33). In general, snow leopards from the western range exhibit greater genetic diversity (He = 0.68 ± 0.04, Ho = 0.66 ± 0.03, Ar = 4.95) compared to those from the northern range (He = 0.60 ± 0.06, Ho = 0.49 ± 0.02, Ar = 4.45). In addition, we have identified signs of fragmentation in the northern habitat, which have led to significant genetic divergence between subpopulations in Russia. Multiple analyses of genetic structure support considerable genetic differentiation between the northern and western range parts, which may testify to subspecies subdivision of snow leopards from these regions. The observed patterns of genetic structure are evidence for delineation of several management units within the studied populations, requiring individual approaches for conservation initiatives, particularly related to translocation events. The causes for the revealed patterns of genetic structure and levels of genetic diversity are discussed.
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Rode, J., Cabanat, A., Pelletier, A., Kaerle, C., Pirog, A., Dufaure de Citres, C., Queney, G., Chaix, B., Vereshagin, A., Casane, D. (2024). Monitoring of snow leopards in the Sarychat- Ertash State Reserve (Kyrgyzstan), between 2011 and 2019, through scat genotyping. SL Reports, 3, 21–36.
Abstract: Snow leopards (Panthera uncia) are a keystone species of Asia’s high mountain ecosystem. The species is assessed as Vulnerable by the IUCN Red List of Threatened Species and is elusive, limiting accurate population assessments that could inform conservation actions. Non-invasive genetic monitoring conducted by citizen scientists offers avenues to provide key data on this species. From 2011 to 2019, OSI-Panthera citizen science expeditions tracked signs of presence of snow leopards and collected scat samples along transects in the main valleys and crests of the Sarychat-Ertash State Reserve (Kyrgyzstan). Scat samples were genotyped at twenty autosomal microsatellite loci and at a X/Y locus (sex identification), allowing an estimation of a minimum of 17 individuals. The genetic recapture of 12 of them provided indications of individuals’ habitat use throughout the reserve. We found putative family relationships between several individuals; however, further research is needed to validate these findings. Our results demonstrate the potential of a citizen science program to collect meaningful data that can inform the conservation management of snow leopards.
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Rode, J., Pelletier, A., Fumey, J., Rode, S., Cabanat, A. L., Ouvrard, A., Chaix, B., White, B., Harnden, M., Xuan, N. T., Vereshagin, A., Casane, D. (2020). Diachronic monitoring of snow leopards at Sarychat-Ertash State Reserve (Kyrgyzstan) through scat genotyping: a pilot study. bioRxiv, , 1–21.
Abstract: Snow leopards (Panthera uncia) are a keystone species of Central Asia’s high mountain ecosystem. The species is listed as vulnerable and is elusive, preventing accurate population assessments that could inform conservation actions. Non-invasive genetic monitoring conducted by citizen scientists offers avenues to provide key data on this species that would otherwise be inaccessible. From 2011 to 2015, OSI-Panthera citizen science expeditions tracked signs of presence of snow leopards along transects in the main valleys and crests of the Sarychat-Ertash State Reserve (Kyrgyzstan). Scat samples were genotyped at seven autosomal microsatellite loci and at a X/Y locus for sex identification, which allowed estimating a minimum of 11 individuals present in the reserve from 2011 to 2015. The genetic recapture of 7 of these individuals enabled diachronic monitoring, providing indications of individuals’ movements throughout the reserve. We found putative family relationships between several individuals. Our results demonstrate the potential of this citizen science program to get a precise description of a snow leopard population through time.
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Waits, L. P., Buckley-Beason, V. A., Johnson, W. E., Onorato, D., & McCarthy, T. (2006). A select panel of polymorphic microsatellite loci for individual identification of snow leopards (Panthera uncia)
(Vol. 7).
Abstract: Snow leopards (Panthera uncia) are elusive endangered carnivores found in remote mountain regions of Central Asia. New methods for identifying and counting snow leopards are needed for conservation and management efforts. To develop molecular genetic tools for individual identification of hair and faecal samples, we screened 50 microsatellite loci developed for the domestic cat (Felis catus) in 19 captive snow leopards. Forty-eight loci were polymorphic with numbers of alleles per locus ranging from two to 11. The probability of observing matching genotypes for unrelated individuals (2.1 x10-11) and siblings (7.5x10-5) using the 10 most polymorphic loci was low, suggesting that this panel would easily discriminate among individuals in the wild.
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