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Parkin T, Donnellan SC, Parkin B, Shea GM, Rowley JJL. Phylogeography, hybrid zones and contemporary species boundaries in the south-eastern Australian smooth frogs (Anura: Myobatrachidae: Geocrinia). Mol Phylogenet Evol 2023; 189:107934. [PMID: 37769826 DOI: 10.1016/j.ympev.2023.107934] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2023] [Accepted: 09/25/2023] [Indexed: 10/03/2023]
Abstract
Paleo-climatic fluctuations have driven episodic changes in species distributions, providing opportunities for populations to diverge in isolation and hybridise following secondary contact. Studies of phylogeographic diversity and patterns of gene flow across hybrid zones can provide insight into contemporary species boundaries and help to inform taxonomic and conservation inferences. Here we explore geographic diversity within the acoustically divergent yet morphologically conserved south-eastern Australian smooth frog complex and assess gene flow across a narrow hybrid zone using mitochondrial nucleotide sequences and nuclear genome-wide single nucleotide polymorphisms. Our analyses reveal the presence of an evolutionarily distinct taxon restricted to the Otway Plains and Ranges, Victoria, which forms a narrow (9-30 km wide), spatiotemporally stable (>50 years) hybrid zone with Geocrinia laevis, which we describe herein as a new species.
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Affiliation(s)
- Thomas Parkin
- Australian Museum Research Institute, Sydney NSW 2010, Australia.
| | | | - Benjamin Parkin
- Australian Museum Research Institute, Sydney NSW 2010, Australia
| | - Glenn M Shea
- Australian Museum Research Institute, Sydney NSW 2010, Australia; Sydney School of Veterinary Science B01, University of Sydney, NSW 2006, Australia
| | - Jodi J L Rowley
- Australian Museum Research Institute, Sydney NSW 2010, Australia; University of New South Wales, Sydney NSW 2052, Australia
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Morii K, Takakura KI. Reproductive behavior of endangered spined loach Cobitis magnostriata in the field. J ETHOL 2022. [DOI: 10.1007/s10164-022-00746-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Howard-McCombe J, Ward D, Kitchener AC, Lawson D, Senn HV, Beaumont M. On the use of genome-wide data to model and date the time of anthropogenic hybridisation: An example from the Scottish wildcat. Mol Ecol 2021; 30:3688-3702. [PMID: 34042240 DOI: 10.1111/mec.16000] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 05/06/2021] [Accepted: 05/07/2021] [Indexed: 11/28/2022]
Abstract
While hybridisation has long been recognised as an important natural phenomenon in evolution, the conservation of taxa subject to introgressive hybridisation from domesticated forms is a subject of intense debate. Hybridisation of Scottish wildcats and domestic cats is a good example in this regard. Here, we developed a modelling framework to determine the timescale of introgression using approximate Bayesian computation (ABC). Applying the model to ddRAD-seq data from 129 individuals, genotyped at 6546 loci, we show that a population of wildcats genetically distant from domestic cats is still present in Scotland. These individuals were found almost exclusively within the captive breeding programme. Most wild-living cats sampled were introgressed to some extent. The demographic model predicts high levels of gene-flow between domestic cats and Scottish wildcats (13% migrants per generation) over a short timeframe, the posterior mean for the onset of hybridisation (T1 ) was 3.3 generations (~10 years) before present. Although the model had limited power to detect signals of ancient admixture, we found evidence that significant recent hybridisation may have occurred subsequent to the founding of the captive breeding population (T2 ). The model consistently predicts T1 after T2 , estimated here to be 19.3 generations (~60 years) ago, highlighting the importance of this population as a resource for conservation management. Additionally, we evaluate the effectiveness of current methods to classify hybrids. We show that an optimised 35 SNP panel is a better predictor of the ddRAD-based hybrid score in comparison with a morphological method.
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Affiliation(s)
| | - Daniel Ward
- School of Mathematics, University of Bristol, Bristol, UK
| | - Andrew C Kitchener
- Department of Natural Sciences, National Museums Scotland, Edinburgh, UK
| | - Daniel Lawson
- School of Mathematics, University of Bristol, Bristol, UK
| | - Helen V Senn
- RZSS WildGenes Laboratory, Royal Zoological Society of Scotland, Edinburgh, UK
| | - Mark Beaumont
- School of Biological Sciences, University of Bristol, Bristol, UK
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Vilela P, Jácome G, Kim SY, Nam K, Yoo C. Population response modeling and habitat suitability of Cobitis choii fish species in South Korea for climate change adaptation. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 189:109949. [PMID: 31757512 DOI: 10.1016/j.ecoenv.2019.109949] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2019] [Revised: 08/06/2019] [Accepted: 11/11/2019] [Indexed: 06/10/2023]
Abstract
Endangered species ecosystems require appropriate monitoring for assessing population growth related to the emerging pollutants in their habitat conditions. The response of population growth of Cobitis choii, an endangered fish species, under the exposure to emerging pollutants present in the Geum River Basin of South Korea was studied. Toxicity models of concentration addition (CA), independent action (IA), and concentration addition-independent action (CAIA) were implemented utilizing the concentration of a set of 25 chemicals recorded in the study area. Thus, a population-level response analysis was developed based on the abundance of Cobitis choii for period 2011-2015. The results were compared showing that the CA and IA models were the most conservative approaches for the prediction of growth rate. Further, a standard abnormality index (SAI) and habitat suitability (HS) indicators based on the climate, habitat, and abundance data were presented to completely analyze the population growth of the species. Suitability of the species growth was most probable for year 2015 for the variables of air temperature and land surface temperature. A spatial analysis was complementarily presented to visualize the correlation of variables for the best suitability of the species growth. This study presents a methodology for the analysis of the ecosystem's suitability for Cobitis choii growth and its assessment of the chemicals present in Geum River stream.
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Affiliation(s)
- Paulina Vilela
- Dept. of Environmental Science and Engineering, College of Engineering, Center for Environmental Studies, Kyung Hee University, Seocheon-dong 1, Giheung-gu, Yongin-Si, Gyeonggi-Do, 446-701, Republic of Korea
| | - Gabriel Jácome
- Escuela de Recursos Naturales Renovables, Facultad de Ingeniería en Ciencias Agropecuarias y Ambientales, Universidad Técnica del Norte (UTN), Avenida 17 de Julio 5-21, y Gral José María Cordova, EC100150, Ibarra, Imbabura, Ecuador
| | - Sang Youn Kim
- Dept. of Environmental Science and Engineering, College of Engineering, Center for Environmental Studies, Kyung Hee University, Seocheon-dong 1, Giheung-gu, Yongin-Si, Gyeonggi-Do, 446-701, Republic of Korea
| | - KiJeon Nam
- Dept. of Environmental Science and Engineering, College of Engineering, Center for Environmental Studies, Kyung Hee University, Seocheon-dong 1, Giheung-gu, Yongin-Si, Gyeonggi-Do, 446-701, Republic of Korea
| | - ChangKyoo Yoo
- Dept. of Environmental Science and Engineering, College of Engineering, Center for Environmental Studies, Kyung Hee University, Seocheon-dong 1, Giheung-gu, Yongin-Si, Gyeonggi-Do, 446-701, Republic of Korea.
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Bae HG, Nightingale C, Jeoung DH, Cha S, Jeon HB, Lim H, Suk HY. Genetic diversity and population structure of Kichulchoia multifasciata in South Korea. CONSERV GENET 2019. [DOI: 10.1007/s10592-019-01147-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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McFarlane SE, Pemberton JM. Detecting the True Extent of Introgression during Anthropogenic Hybridization. Trends Ecol Evol 2019; 34:315-326. [DOI: 10.1016/j.tree.2018.12.013] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2018] [Revised: 12/10/2018] [Accepted: 12/18/2018] [Indexed: 10/27/2022]
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Kwan YS, Kim D, Ko MH, Lee WO, Won YJ. Multi-locus phylogenetic analyses support the monophyly and the Miocene diversification of Iksookimia (Teleostei: Cypriniformes: Cobitidae). SYST BIODIVERS 2017. [DOI: 10.1080/14772000.2017.1340912] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Ye-Seul Kwan
- Graduate Degree Program, Division of EcoScience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, South Korea
- Present Address: Nakdonggang National Institute of Biological Resources, Sangju-si, Gyeongsangbuk-do, 37242, South Korea
| | - Daemin Kim
- Division of EcoScience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, South Korea
- Present Address: Graduate Degree Program, Department of Ecology and Evolutionary Biology, Yale University, P.O.Box 208106, New Haven, Connecticut, 06520-8106, USA
| | - Myeong-Hun Ko
- Division of EcoScience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, South Korea
| | - Wan-Ok Lee
- Inland Fisheries Research Institute, National Fisheries Research and Development Institute, 65 Gangbyeon-ro, Gapyeong-gun, Gyeonggi-do, 12453, South Korea
| | - Yong-Jin Won
- Division of EcoScience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, South Korea
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Ko MH, Kwan YS, Lee WK, Won YJ. Impact of human activities on changes of ichthyofauna in Dongjin River of Korea in the past 30 years. Anim Cells Syst (Seoul) 2017; 21:207-216. [PMID: 30460071 PMCID: PMC6138316 DOI: 10.1080/19768354.2017.1330223] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2016] [Revised: 04/25/2017] [Accepted: 05/03/2017] [Indexed: 11/19/2022] Open
Abstract
Ichthyofauna and fish community were investigated at 17 representative stations of the Dongjin River drainage system from spring to fall in 2014. The survey resulted in a list of 53 species belonging to 14 families structured into 4 distinctive parts along the river: uppermost-stream, upper-stream, mid-stream, and lower-stream. Comparison of species lists with 30-year interval exhibited significant decreases in peripheral freshwater fishes, Acheilognathinae, endemic, and indigeneity species, but increases in exotic, epipelagic, and lentic species. Moreover, in the estuary of the Dongjin River drainage system, peripheral freshwater fish species were replaced by pure freshwater fish species due to the Saemangeum sea-wall project. In the upper region of the river, introduced eight alien species from Seomjin River via water diversion tunnels. In the mid-lower region, the construction of floodgates and numerous small weirs caused expansion of lentic water areas, facilitating the spread of problematic exotic species such as Micropterus salmoides, Lepomis macrochirus, and Carassius cuvieri. Also, water deterioration in this region resulted in an increase of tolerant species and a decrease of sensitive and endemic species. Our results suggest that a recovery strategy for a healthy ecosystem in the Dongjin River drainage system should reflect this compartmentalized cause and effect on the changes of icthyofauna.
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Affiliation(s)
- Myeong-Hun Ko
- Division of EcoScience, Ewha Womans University, Seoul, South Korea
| | - Ye-Seul Kwan
- Division of EcoScience, Ewha Womans University, Seoul, South Korea.,Nakdonggang National Institute of Biological Resources, Sangju, South Korea
| | - Won-Kyung Lee
- Division of EcoScience, Ewha Womans University, Seoul, South Korea
| | - Yong-Jin Won
- Division of EcoScience, Ewha Womans University, Seoul, South Korea.,Department of Life Science, Ewha Womans University, Seoul, South Korea
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