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Zhang MY, Cao RD, Chen Y, Ma JC, Shi CM, Zhang YF, Zhang JX, Zhang YH. Genomic and Phenotypic Adaptations of Rattus tanezumi to Cold Limit Its Further Northward Expansion and Range Overlap with R. norvegicus. Mol Biol Evol 2024; 41:msae106. [PMID: 38829799 PMCID: PMC11184353 DOI: 10.1093/molbev/msae106] [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: 05/23/2023] [Revised: 05/19/2024] [Accepted: 05/28/2024] [Indexed: 06/05/2024] Open
Abstract
Global climate change has led to shifts in the distribution ranges of many terrestrial species, promoting their migration from lower altitudes or latitudes to higher ones. Meanwhile, successful invaders have developed genetic adaptations enabling the colonization of new environments. Over the past 40 years, Rattus tanezumi (RT) has expanded into northern China (Northwest and North China) from its southern origins. We studied the cold adaptation of RT and its potential for northward expansion by comparing it with sympatric Rattus norvegicus (RN), which is well adapted to cold regions. Through population genomic analysis, we revealed that the invading RT rats have split into three distinct populations: the North, Northwest, and Tibetan populations. The first two populations exhibited high genetic diversity, while the latter population showed remarkably low genetic diversity. These rats have developed various genetic adaptations to cold, arid, hypoxic, and high-UV conditions. Cold acclimation tests revealed divergent thermoregulation between RT and RN. Specifically, RT exhibited higher brown adipose tissue activity and metabolic rates than did RN. Transcriptome analysis highlighted changes in genes regulating triglyceride catabolic processes in RT, including Apoa1 and Apoa4, which were upregulated, under selection and associated with local adaptation. In contrast, RN showed changes in carbohydrate metabolism genes. Despite the cold adaptation of RT, we observed genotypic and phenotypic constraints that may limit its ability to cope with severe low temperatures farther north. Consequently, it is less likely that RT rats will invade and overlap with RN rats in farther northern regions.
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Affiliation(s)
- Ming-Yu Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Rui-Dong Cao
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yi Chen
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jian-Cang Ma
- Zhangye Maize Stock Production Base, Zhangye 734024, Gansu, China
| | - Cheng-Min Shi
- College of Plant Protection, Hebei Agricultural University, Baoding 071001, Hebei, China
| | - Yun-Feng Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
| | - Jian-Xu Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yao-Hua Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
- School of Resources and Environmental Engineering, Anhui University, Hefei 230601, Anhui, China
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Ngarega BK, Chaibva P, Masocha VF, Saina JK, Khine PK, Schneider H. Application of MaxEnt modeling to evaluate the climate change effects on the geographic distribution of Lippia javanica (Burm.f.) Spreng in Africa. ENVIRONMENTAL MONITORING AND ASSESSMENT 2023; 196:62. [PMID: 38112854 DOI: 10.1007/s10661-023-12232-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2023] [Accepted: 12/07/2023] [Indexed: 12/21/2023]
Abstract
Lippia javanica is a typical indigenous plant species mostly found in the higher elevation or mountainous regions in southern, central, and eastern Africa. The ongoing utilization of the species for ethnobotanical applications and traditional uses, coupled with the changing climate, increases the risk of a potential reduction in its geographic distribution range in the region. Herein, we utilized the MaxEnt species distribution modelling to build the L. javanica distribution models in tropical and subtropical African regions for current and future climates. The MaxEnt models were calibrated and fitted using 286 occurrence records and six environmental variables. Temperatures, including temperature seasonality [Bio 4] and the maximum temperature of the warmest month [Bio 5], were observed to be the most significant determinants of L. javanica's distribution. The current projected range for L. javanica was estimated to be 2,118,457 km2. Future model predictions indicated that L. javanica may increase its geographic distribution in western areas of the continent and regions around the equator; however, much of the geographic range in southern Africa may shift southwards, causing the species to lose portions of the northern limits of the habitat range. These current findings can help increase the conservation of L. javanica and other species and combat localized species loss induced by climate change and human pressure. We also emphasize the importance of more investigations and enhanced surveillance of traditionally used plant species in regions that are acutely susceptible to climate change.
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Affiliation(s)
- Boniface K Ngarega
- Centre for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
- Sino-Africa Joint Research Centre, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Paul Chaibva
- Department of Agronomy and Horticulture, Midlands State University, Bag 9055, Gweru, Zimbabwe
| | - Valerie F Masocha
- Centre for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China.
| | - Josphat K Saina
- Centre for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China
| | - Phyo K Khine
- Centre for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China
| | - Harald Schneider
- Centre for Integrative Conservation, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China
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Zhang YH, Zhao L, Zhang MY, Cao RD, Hou GM, Teng HJ, Zhang JX. Fatty acid metabolism decreased while sexual selection increased in brown rats spreading south. iScience 2023; 26:107742. [PMID: 37731619 PMCID: PMC10507208 DOI: 10.1016/j.isci.2023.107742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Revised: 06/27/2023] [Accepted: 08/24/2023] [Indexed: 09/22/2023] Open
Abstract
For mammals that originate in the cold north, adapting to warmer environments is crucial for southwards invasion. The brown rat (Rattus norvegicus) originated in Northeast China and has become a global pest. R. n. humiliatus (RNH) spread from the northeast, where R. n. caraco (RNC) lives, to North China and diverged to form a subspecies. Genomic analyses revealed that subspecies differentiation was promoted by temperature but impeded by gene flow and that genes related to fatty acid metabolism were under the strongest selection. Transcriptome analyses revealed downregulated hepatic genes related to fatty acid metabolism and upregulated those related to pheromones in RNH vs. RNC. Similar patterns were observed in relation to cold/warm acclimation. RNH preferred mates with stronger pheromone signals intra-populationally and more genetic divergence inter-populationally. We concluded that RNH experienced reduced fat utilization and increased pheromone-mediated sexual selection during its invasion from the cold north to warm south.
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Affiliation(s)
- Yao-Hua Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
| | - Lei Zhao
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Ming-Yu Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Rui-Dong Cao
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guan-Mei Hou
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hua-Jing Teng
- Key Laboratory of Carcinogenesis and Translational Research (Ministry of Education/Beijing), Department of Radiation Oncology, Peking University Cancer Hospital & Institute, Beijing 100142, China
| | - Jian-Xu Zhang
- State Key Laboratory of Integrated Management of Pest Insects and Rodents in Agriculture, Institute of Zoology, Chinese Academy of Sciences, Beichen West Road 1-5, Chaoyang District, Beijing 100101, China
- CAS Center for Excellence in Biotic Interactions, University of Chinese Academy of Sciences, Beijing 100049, China
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Haq SM, Waheed M, Ahmad R, Bussmann RW, Arshad F, Khan AM, Casini R, Alataway A, Dewidar AZ, Elansary HO. Climate Change and Human Activities, the Significant Dynamic Drivers of Himalayan Goral Distribution ( Naemorhedus goral). BIOLOGY 2023; 12:biology12040610. [PMID: 37106810 PMCID: PMC10135808 DOI: 10.3390/biology12040610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2023] [Revised: 04/14/2023] [Accepted: 04/15/2023] [Indexed: 04/29/2023]
Abstract
The distribution of large ungulates is more often negatively impacted by the changing climate, especially global warming and species with limited distributional zones. While developing conservation action plans for the threatened species such as the Himalayan goral (Naemorhedus goral Hardwicke 1825; a mountain goat that mostly inhabits rocky cliffs), it is imperative to comprehend how future distributions might vary based on predicted climate change. In this work, MaxEnt modeling was employed to assess the habitat suitability of the target species under varying climate scenarios. Such studies have provided highly useful information but to date no such research work has been conducted that considers this endemic animal species of the Himalayas. A total of 81 species presence points, 19 bioclimatic and 3 topographic variables were employed in the species distribution modeling (SDM), and MaxEnt calibration and optimization were performed to select the best candidate model. For predicted climate scenarios, the future data is drawn from SSPs 245 and SSPs 585 of the 2050s and 2070s. Out of total 20 variables, annual precipitation, elevation, precipitation of driest month, slope aspect, minimum temperature of coldest month, slope, precipitation of warmest quarter, and temperature annual range (in order) were detected as the most influential drivers. A high accuracy value (AUC-ROC > 0.9) was observed for all the predicted scenarios. The habitat suitability of the targeted species might expand (about 3.7 to 13%) under all the future climate change scenarios. The same is evident according to local residents as species which are locally considered extinct in most of the area, might be shifting northwards along the elevation gradient away from human settlements. This study recommends additional research is conducted to prevent potential population collapses, and to identify other possible causes of local extinction events. Our findings will aid in formulating conservation plans for the Himalayan goral in a changing climate and serve as a basis for future monitoring of the species.
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Affiliation(s)
- Shiekh Marifatul Haq
- Department of Ethnobotany, Institute of Botany, Ilia State University, 0162 Tbilisi, Georgia
| | - Muhammad Waheed
- Department of Botany, University of Okara, Okara 56300, Pakistan
| | - Riyaz Ahmad
- National Center for Wildlife, Riyadh 11575, Saudi Arabia
| | - Rainer W Bussmann
- Department of Ethnobotany, Institute of Botany, Ilia State University, 0162 Tbilisi, Georgia
- Department of Botany, Institute of Life Sciences, State Museum of Natural History, 76133 Karlsruhe, Germany
| | - Fahim Arshad
- Department of Botany, University of Okara, Okara 56300, Pakistan
| | - Arshad Mahmood Khan
- Department of Botany, Government Hashmat Ali Islamia Associate College Rawalpindi, Rawalpindi 46300, Pakistan
- Department of Botany, Pir Mehr Ali Shah Arid Agriculture University Rawalpindi, Rawalpindi 46300, Pakistan
| | - Ryan Casini
- School of Public Health, University of California, Berkeley, 2121 Berkeley Way, Berkeley, CA 94704, USA
| | - Abed Alataway
- Prince Sultan Bin Abdulaziz International Prize for Water Chair, Prince Sultan Institute for Environmental, Water and Desert Research, King Saud University, Riyadh 11451, Saudi Arabia
| | - Ahmed Z Dewidar
- Prince Sultan Bin Abdulaziz International Prize for Water Chair, Prince Sultan Institute for Environmental, Water and Desert Research, King Saud University, Riyadh 11451, Saudi Arabia
- Department of Agricultural Engineering, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - Hosam O Elansary
- Prince Sultan Bin Abdulaziz International Prize for Water Chair, Prince Sultan Institute for Environmental, Water and Desert Research, King Saud University, Riyadh 11451, Saudi Arabia
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
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Visscher DR, Wood JR. Decadal trends in a population of urban white-tailed jackrabbits at the northern edge of its range. MAMMAL RES 2022. [DOI: 10.1007/s13364-022-00641-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Study on Taiwania cryptomerioides under climate change: MaxEnt modeling for predicting the potential geographical distribution. Glob Ecol Conserv 2020. [DOI: 10.1016/j.gecco.2020.e01313] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
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