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Jarquín-Díaz VH, Dayaram A, Soilemetzidou ES, Desvars-Larrive A, Bohner J, Buuveibaatar B, Kaczensky P, Walzer C, Greenwood AD, Löber U. Unraveling the distinctive gut microbiome of khulans (Equus hemionus hemionus) in comparison to their drinking water and closely related equids. Sci Rep 2025; 15:2767. [PMID: 39843625 PMCID: PMC11754619 DOI: 10.1038/s41598-025-87216-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Accepted: 01/16/2025] [Indexed: 01/24/2025] Open
Abstract
The microbial composition of host-associated microbiomes is influenced by co-evolutionary interactions, host genetics, domestication, and the environment. This study investigates the contribution of environmental microbiota from freshwater bodies to the gastrointestinal microbiomes of wild khulans (Equus hemionus hemionus, n = 21) and compares them with those of captive khulans (n = 12) and other equids-Przewalski's horse (n = 82) and domestic horse (n = 26). Using PacBio technology and the LotuS pipeline for 16S rRNA gene sequencing, we analyze microbial diversity and conduct differential abundance, alpha, and beta diversity analyses. Results indicate limited microbial sharing between wild khulans and their waterhole environments, suggesting minimal environmental influence on their gut microbiomes and low levels of water contamination by khulans. Wild khulans exhibit greater microbial diversity and richness compared to captive ones, likely due to adaptations to the harsh nutritional conditions of the Gobi desert. Conversely, captive khulans show reduced microbial diversity, potentially affected by dietary changes during captivity. These findings highlight the significant impact of environment and lifestyle on the gut microbiomes of equids.
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Affiliation(s)
- Víctor Hugo Jarquín-Díaz
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Alfred- Kowalke Str. 17, 10315, Berlin, Germany
- Experimental and Clinical Research Center, a cooperation between the Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association and the Charité - Universitätsmedizin Berlin, Berlin, Germany
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany
| | - Anisha Dayaram
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany
- Charité - Universitätsmedizin Berlin, AG Rosenmund, Charitéplatz 1, 10117, Berlin, Germany
| | - Eirini S Soilemetzidou
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany
| | - Amelie Desvars-Larrive
- Research Institute of Wildlife Ecology, University of Veterinary Medicine, Vienna, Austria
- Unit of Veterinary Public Health and Epidemiology, Complexity Science Hub, University of Veterinary Medicine, Vienna, Austria
| | - Julia Bohner
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany
| | | | - Petra Kaczensky
- Research Institute of Wildlife Ecology, University of Veterinary Medicine, Vienna, Austria
- Department of Forestry and Wildlife Management, Inland Norway University of Applied Sciences, Stor-Elvdal, Norway
| | - Chris Walzer
- Research Institute of Wildlife Ecology, University of Veterinary Medicine, Vienna, Austria
- Wildlife Conservation Society - Global USA and University of Veterinary Medicine AT, New York, USA
| | - Alex D Greenwood
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany.
- School of Veterinary Medicine, Free University of Berlin, Oertzenweg 19 b, 14163, Berlin, Germany.
| | - Ulrike Löber
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Alfred- Kowalke Str. 17, 10315, Berlin, Germany.
- Experimental and Clinical Research Center, a cooperation between the Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association and the Charité - Universitätsmedizin Berlin, Berlin, Germany.
- Max-Delbrück-Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany.
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Dong H, Dong Z, Wang F, Wang G, Luo X, Lei C, Chen J. Whole Genome Sequencing Provides New Insights Into the Genetic Diversity and Coat Color of Asiatic Wild Ass and Its Hybrids. Front Genet 2022; 13:818420. [PMID: 35646088 PMCID: PMC9135160 DOI: 10.3389/fgene.2022.818420] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2021] [Accepted: 04/25/2022] [Indexed: 11/17/2022] Open
Abstract
The diversity of livestock coat color results from human positive selection and is an indispensable part of breed registration. As an important biodiversity resource, Asiatic wild ass has many special characteristics, including the most visualized feature, its yellowish-brown coat color, and excellent adaptation. To explore the genetic mechanisms of phenotypic characteristics in Asiatic wild ass and its hybrids, we resequenced the whole genome of one Mongolian Kulan (a subspecies of Asiatic wild ass) and 29 Kulan hybrids (Mongolian Kulan ♂×Xinjiang♀), and the ancestor composition indicated the true lineage of the hybrids. XP-EHH (Cross Population Extended Haplotype Homozygosity), θπ-ratio (Nucleotide Diversity Ratio), CLR (Composite Likelihood Ratio) and θπ (Nucleotide Diversity) methods were used to detect the candidate regions of positive selection in Asiatic wild ass and its hybrids. Several immune genes (DEFA1, DEFA5, DEFA7, GIMAP4, GIMAP1, IGLC1, IGLL5, GZMB and HLA) were observed by the CLR and θπ methods. XP-EHH and θπ-ratio revealed that these genes are potentially responsible for coat color (KITLG) and meat quality traits (PDE1B and MYLK2). Furthermore, the heatmap was able to show the clear difference in the haplotype of the KITLG gene between the Kulan hybrids and Asiatic wild ass group and the Guanzhong black donkey group, which is a powerful demonstration of the key role of KITLG in donkey color. Therefore, our study may provide new insights into the genetic basis of coat color, meat quality traits and immunity of Asiatic wild ass and its hybrids.
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Affiliation(s)
- Hong Dong
- College of Animal Science and Technology, SHIHEZI University, Shihezi, China
| | - Zheng Dong
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Fuwen Wang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Gang Wang
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Xiaoyu Luo
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Chuzhao Lei
- Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, China
| | - Jingbo Chen
- College of Animal Science and Technology, SHIHEZI University, Shihezi, China
- *Correspondence: Jingbo Chen,
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Kaczensky P, Salemgareyev A, Linnell JDC, Zuther S, Walzer C, Huber N, Petit T. Post-release Movement Behaviour and Survival of Kulan Reintroduced to the Steppes and Deserts of Central Kazakhstan. FRONTIERS IN CONSERVATION SCIENCE 2021. [DOI: 10.3389/fcosc.2021.703358] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Abstract
Asiatic wild ass, or kulan (Equus hemionus kulan) were once a key species of the Eurasian steppes and deserts. In Kazakhstan they went extinct by the 1930s. Early reintroductions have reestablished the species in two protected areas, but the species has reclaimed <1% of their former range and remained absent from central Kazakhstan. To initiate restoration in this vast region, we captured and transported a first group of nine wild kulan to a large pre-release enclosure in the Torgai region in 2017, and two more in 2019. We used direct observations and post-release movement data of four kulan equipped with GPS-Iridium collars to document their adaptation process in a vast novel habitat without conspecifics. For comparison with movements in the source populations, we additionally equipped two kulan in Altyn Emel National Park and six in Barsa Kelmes State Nature Reserve. The nine transported kulan formed a cohesive group with very high movement correlation in the enclosure. After release, the group initially stayed tightly together but started to break up by mid-May and all kulan travelled independently by mid-August. With 48,680–136,953 km2, the 95% Autocorrelated Kernel Density Estimation ranges of the reintroduced kulan were huge and about 10–100 times larger than those in the source populations. The reintroduced mares never reconnected, there was no evidence of successful reproduction, and two of the four collared mares were killed by poachers and one died of natural causes. At least one stallion survived in the wild, but the fate of the other uncollared animals remains unclear. We speculate that the fission-fusion dynamics and low movement correlation of kulan societies and the need for migratory movements harbours the risk that animals released into a novel environment loose contact with each other. This risk is likely enhanced in steppe habitats where movement constraining factors are absent. Further kulan reintroductions to the steppes and deserts of central Kazakhstan should aim to release larger groups and build up the free-ranging population quickly to reach a critical mass, increasing the chance of kulan encountering conspecifics to successfully breed and increase their chances of survival.
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Payne JC, Buuveibaatar B, Bowler DE, Olson KA, Walzer C, Kaczensky P. Hidden treasure of the Gobi: understanding how water limits range use of khulan in the Mongolian Gobi. Sci Rep 2020; 10:2989. [PMID: 32076090 PMCID: PMC7031417 DOI: 10.1038/s41598-020-59969-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2019] [Accepted: 02/03/2020] [Indexed: 11/08/2022] Open
Abstract
Most large herbivores in arid landscapes need to drink which constrains their movements and makes them vulnerable to disturbance. Asiatic wild ass or khulan (Equus hemionus) were widespread and abundant throughout the arid landscapes of Central Asia and Mongolia, but have undergone dramatic population declines and range constrictions; denying khulan access to water is believed to have played a major role. Mongolia's South Gobi Region now houses the world largest remaining khulan population, but is undergoing rapid land use changes. Khulan water use is poorly understood, largely due to the difficulty of mapping waterpoints used by khulan throughout their exceptionally large ranges, prone to high variations in precipitation. We used the special movement path characteristics of GPS tagged khulan to show us where water is located. We identified 367 waterpoints, 53 of which were of population importance, characterized the seasonal and circadian use, and identified snow cover as the most important variable predicting khulan visits during the non-growing season, and vegetation greenness during the growing season. Our results provide a data layer to help guide a regional khulan conservation strategy, allow predictions for other part of the global khulan range, and illustrates the overall importance of waterpoints for dryland herbivores.
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Affiliation(s)
- John C Payne
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria
- Wildlife Conservation Society (WCS), Ulaanbaatar, Mongolia & New York, USA
| | | | - Diana E Bowler
- Norwegian Institute of Nature Research (NINA), Trondheim, Norway
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leibzig, Germany
- Institute of Biodiversity, Friedrich Schiller University Jena, Jena, Germany
- UFZ - Helmholtz Centre for Environmental Research, Department of Ecosystem Services, Leipzig, Germany
| | - Kirk A Olson
- Wildlife Conservation Society (WCS), Ulaanbaatar, Mongolia & New York, USA
| | - Chris Walzer
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria
- Wildlife Conservation Society (WCS), Ulaanbaatar, Mongolia & New York, USA
| | - Petra Kaczensky
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria.
- Norwegian Institute of Nature Research (NINA), Trondheim, Norway.
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Kaczensky P, Khaliun S, Payne J, Boldgiv B, Buuveibaatar B, Walzer C. Through the eye of a Gobi khulan - Application of camera collars for ecological research of far-ranging species in remote and highly variable ecosystems. PLoS One 2019; 14:e0217772. [PMID: 31163047 PMCID: PMC6548383 DOI: 10.1371/journal.pone.0217772] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Accepted: 05/17/2019] [Indexed: 11/18/2022] Open
Abstract
The Mongolian Gobi-Eastern Steppe Ecosystem is one of the largest remaining natural drylands and home to a unique assemblage of migratory ungulates. Connectivity and integrity of this ecosystem are at risk if increasing human activities are not carefully planned and regulated. The Gobi part supports the largest remaining population of the Asiatic wild ass (Equus hemionus; locally called "khulan"). Individual khulan roam over areas of thousands of square kilometers and the scale of their movements is among the largest described for terrestrial mammals, making them particularly difficult to monitor. Although GPS satellite telemetry makes it possible to track animals in near-real time and remote sensing provides environmental data at the landscape scale, remotely collected data also harbors the risk of missing important abiotic or biotic environmental variables or life history events. We tested the potential of animal born camera systems ("camera collars") to improve our understanding of the drivers and limitations of khulan movements. Deployment of a camera collar on an adult khulan mare resulted in 7,881 images over a one-year period. Over half of the images showed other khulan and 1,630 images showed enough of the collared khulan to classify the behaviour of the animals seen into several main categories. These khulan images provided us with: i) new insights into important life history events and grouping dynamics, ii) allowed us to calculate time budgets for many more animals than the collared khulan alone, and iii) provided us with a training dataset for calibrating data from accelerometer and tilt sensors in the collar. The images also allowed to document khulan behaviour near infrastructure and to obtain a day-time encounter rate between a specific khulan with semi-nomadic herders and their livestock. Lastly, the images allowed us to ground truth the availability of water by: i) confirming waterpoints predicted from other analyses, ii) detecting new waterpoints, and iii) compare precipitation records for rain and snow from landscape scale climate products with those documented by the camera collar. We discuss the added value of deploying camera collars on a subset of animals in remote, highly variable ecosystems for research and conservation.
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Affiliation(s)
- Petra Kaczensky
- Norwegian Institute of Nature Research, Trondheim, Norway
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria
| | - Sanchir Khaliun
- Ecology Group, Department of Biology, National University of Mongolia, Ulaanbaatar, Mongolia
| | - John Payne
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria
- Wildlife Conservation Society, Mongolia Program, Ulaanbaatar, Mongolia
| | - Bazartseren Boldgiv
- Ecology Group, Department of Biology, National University of Mongolia, Ulaanbaatar, Mongolia
| | | | - Chris Walzer
- Research Institute of Wildlife Ecology, University of Veterinary Medicine Vienna, Vienna, Austria
- Wildlife Conservation Society, Mongolia Program, Ulaanbaatar, Mongolia
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A RETROSPECTIVE COMPARISON OF CHEMICAL IMMOBILIZATION WITH THIAFENTANIL, THIAFENTANIL-AZAPERONE, OR ETORPHINE-ACEPROMAZINE IN CAPTIVE PERSIAN FALLOW DEER (DAMA DAMA MESOPOTAMICA). J Zoo Wildl Med 2017; 48:627-635. [DOI: 10.1638/2016-0280.1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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