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Kang B, Hsu KC, Wu JH, Chiu YW, Lin HD, Ju YM. Population genetic diversity and structure of Rhinogobius candidianus (Gobiidae) in Taiwan: Translocation and release. Ecol Evol 2022; 12:e9154. [PMID: 35979520 PMCID: PMC9366559 DOI: 10.1002/ece3.9154] [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: 10/16/2021] [Revised: 06/17/2022] [Accepted: 07/08/2022] [Indexed: 11/12/2022] Open
Abstract
Rhinogobius candidianus is a freshwater goby distributed in north, northwest, west, and south Taiwan, but this species has been introduced to east Taiwan and became dominant. To investigate its native population genetic diversity and structure and evaluate the sources and diversity of translocated populations, the mitochondrial DNA control region and cytochrome b gene (1981 bp) from 220 specimens were analyzed. These results indicated that (1) the east populations originated from two sources in west Taiwan; (2) translocated populations exist in east Taiwan and south Taiwan; (3) many populations have likely been moved secondarily by human intervention; (4) the effective size of the populations had declined greatly; (5) within the native populations, the ancestral populations colonized Taiwan during the land bridge phase in the Pleistocene through north Taiwan; (6) the landform changes in Taiwan shaped the population structure; and (7) the landforms of the coastline during glaciation also shaped the native range. The low-level genetic diversity, high population differentiation, and population decline greatly suggest the need for resource management and conservation interventions. Four clades (α-δ) should be managed as four distinct evolutionarily significant units, while the translocated populations should be managed as separate management units. Moreover, the translocated populations in east Taiwan should be evaluated and monitored carefully.
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Affiliation(s)
- Bin Kang
- The Key Laboratory of Mariculture (Ocean University of China) Ministry of Education Qingdao China
| | - Kui-Ching Hsu
- College of Fisheries Guangdong Ocean University Zhanjiang China
| | - Jui-Hsien Wu
- Eastern Marine Biology Research Center of Fisheries Research Institute Council of Agriculture Taitung Taiwan
| | - Yuh-Wen Chiu
- Department of Biological Resources National Chiayi University Chiayi Taiwan
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School Tainan Taiwan
| | - Yu-Min Ju
- National Museum of Marine Biology and Aquarium Pingtung Taiwan.,Department of Marine Biotechnology and Resources National Sun Yat-sen University Kaohsiung Taiwan
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2
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Lin H, Dai C, Yu H, Tu J, Yu J, He J, Jiang H. Historical connectivity and environmental filtering jointly determine the freshwater fish assemblages on Taiwan and Hainan Islands of China. Curr Zool 2022; 69:12-20. [PMID: 36974143 PMCID: PMC10039183 DOI: 10.1093/cz/zoac015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 02/28/2022] [Indexed: 11/13/2022] Open
Abstract
Abstract
The biotas of Taiwan and Hainan Islands are of continental origin, but the manner with which historical and ecological factors shaped these insular species is still unclear. Here, we used freshwater fish as a model to fill this gap by quantifying the phylogenetic structure of the insular faunas and disentangling the relative contribution of potential drivers. Firstly, we used clustering and ordination analyses to identify regional species pools. To test whether the insular freshwater fish faunas were phylogenetically clustered or overdispersed, we calculated the net relatedness index (NRI) and the nearest taxon index (NTI). Finally, we implemented logistic regressions to disentangle the relative importance of species attributes (i.e. maximum body length, climatic niche dissimilarity, and diversification) and historical connectivity in explaining the insular faunas. Our results showed that the most possible species pools of Taiwan are Zhejiang and Fujian provinces, and those of Hainan are Guangdong and Guangxi provinces. These insular faunas showed random phylogenetic structures in terms of NRI values. According to the NTI values, however, the Taiwanese fauna displayed more phylogenetic clustering, while the Hainanese one was more overdispersed. Both the standard and phylogenetic logistic regressions identified historical connectivity and climatic niche dissimilarity as the two top explanatory variables for species assemblages on these islands. Our reconstruction of the paleo-connected drainage basins provides insight into how historical processes and ecological factors interact to shape the freshwater fish fauna of the East Asian islands.
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Affiliation(s)
- Haoxian Lin
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Chao Dai
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Hongyin Yu
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Jiahao Tu
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Jiehua Yu
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Jiekun He
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
| | - Haisheng Jiang
- Spatial Ecology Laboraty, School of Life Sciences, South China Normal University, Guangzhou 510631, China
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3
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Ju YM, Wu JH, Hsu KC, Chiu YW, Wang WK, Chen CW, Lin HD. Genetic diversity of Rhinogobius delicatus (Perciformes: Gobiidae): origins of the freshwater fish in East Taiwan. Mitochondrial DNA A DNA Mapp Seq Anal 2020; 32:12-19. [PMID: 33170048 DOI: 10.1080/24701394.2020.1844678] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Mitochondrial DNA cytochrome b and d-loop sequences (1,984 bp) from 92 specimens of the freshwater goby Rhinogobius delicatus from seven drainages in East Taiwan were identified as two major lineages exhibiting a southern or northern distribution. The existence of low genetic diversity, a pattern of population decline and high population differentiation (F ST=0.711) support the need for the development of management strategies for the conservation of localized populations. The results of a statistical dispersal-vicariance analysis suggested that the ancestral populations of R. delicatus were widely distributed in East Taiwan. Compared with the phylogeographic patterns of the other endemic eastern Taiwan freshwater fishes, Onychostoma alticorpus, Aphyocypris kikuckii and Hemimyzon taitungensis, our study suggests that the freshwater fishes colonized East Taiwan through northeastern and southwestern Taiwan, although the ancestral populations colonized the island before it reached its present shape.
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Affiliation(s)
- Yu-Min Ju
- National Museum of Marine Biology and Aquarium, Pingtung, Taiwan.,Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung, Taiwan
| | - Jui-Hsien Wu
- Council of Agriculture, Eastern Marine Biology Research Center of Fisheries Research Institute, Taitung, Taiwan
| | - Kui-Ching Hsu
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Yu-Wen Chiu
- Department of Biological Resources, National Chiayi University, Chiayi, Taiwan
| | - Wei-Kuang Wang
- Department of Environmental Engineering and Science, Feng Chia University, Taichung, Taiwan
| | - Chih-Wei Chen
- Department of Life Science, National Taiwan Normal University, Taipei, Taiwan
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan, Taiwan
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Ye Z, Chen D, Yuan J, Zheng C, Yang X, Wang W, Zhang Y, Wang S, Jiang K, Bu W. Are population isolations and declines a threat to island endemic water striders? A lesson from demographic and niche modelling of Metrocoris esakii (Hemiptera: Gerridae). Mol Ecol 2020; 29:4573-4587. [PMID: 33006793 DOI: 10.1111/mec.15669] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Revised: 09/10/2020] [Accepted: 09/21/2020] [Indexed: 12/14/2022]
Abstract
Genetic stochasticity and bottlenecking in the course of Pleistocene glaciations have been identified as threatening the survival of local endemics. However, the mechanisms by which local endemic species balance the influences of these two events remain poorly understood. Here, we generated a double-digest restriction site-associated DNA sequencing (ddRAD-seq) data set, mined mitochondrial sequences and constructed ecological niche models for the island endemic water strider Metrocoris esakii (Hemiptera: Gerridae). We found that M. esakii comprised three divergent lineages (i.e., north, central and south) isolated by geographical barriers and generally experienced population declines with the constriction of suitable areas during the Last Glacial Maximum (LGM). Further demographic model testing and stairway plots revealed a history of recent gene flow among the neighbouring lineages and rapid recovery at the end of the LGM, indicating that M. esakii at least had the potential for an adaptive response to population fragmentation and bottlenecking. The northern lineage did not show genetic bottlenecking during the LGM, which was probably due to its large effective population size (Ne ) from migration, which improved its adaptive potential. Relative to the ddRAD-seq data set, the demographic results based on mitochondrial sequences were less conclusive, showing weak differentiation and oversimplified demographic trajectories for the three genetic lineages. Overall, this study provides some degree of optimism for the survival of island endemic water striders from a demographic perspective, but further evaluation of their extinction risk under the impacts of human activities is required.
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Affiliation(s)
- Zhen Ye
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Danyang Chen
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Juanjuan Yuan
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Chenguang Zheng
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Xin Yang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Wenwu Wang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Yaoyao Zhang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Siqi Wang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Kun Jiang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Wenjun Bu
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
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5
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Yu GH, Du LN, Wang JS, Rao DQ, Wu ZJ, Yang JX. From mainland to islands: colonization history in the tree frog Kurixalus (Anura: Rhacophoridae). Curr Zool 2020; 66:667-675. [PMID: 33391366 PMCID: PMC7769580 DOI: 10.1093/cz/zoaa023] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2019] [Accepted: 05/09/2020] [Indexed: 11/13/2022] Open
Abstract
The origin and colonization history of Kurixalus, a genus of small arboreal tree frogs breeding exclusively in shallow swamps, is under disputed. On the basis of comprehensive sampling program, the evolutionary history of Kurixalus is investigated based on 3 mitochondrial genes. Our results indicate that the genus Kurixalus originated in the Asian mainland and subsequently arrived at its current distribution in Borneo, Taiwan, Ryukyu, and Hainan islands by a series of dispersal events. Moreover, the colonization of Taiwan from mainland Asia has occurred 2 times. The initial colonization of Taiwan occurred at 3.46–8.68 Mya (95% highest posterior density), which rejects the hypothesis that Kurixalus probably originated from Taiwan during the early Oligocene and favors the model of Neogene-origin rather than the model of Quaternary-origin for Taiwanese Kurixalus. Kurixalus eiffingeri has dispersed from Taiwan to the Ryukyus once or 2 times pending more data. Both transoceanic dispersal and landbridge dispersal have played a role in the colonization process; the former resulted in the colonization of Taiwan and the Ryukyus and the latter led to the colonization of Borneo and Hainan.
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Affiliation(s)
- Guo-Hua Yu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, 541004, China.,Guangxi Key Laboratory of Rare and Endangered Animal Ecology, College of Life Science, Guangxi Normal University, Guilin, 541004, China
| | - Li-Na Du
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, 541004, China.,Guangxi Key Laboratory of Rare and Endangered Animal Ecology, College of Life Science, Guangxi Normal University, Guilin, 541004, China
| | - Ji-Shan Wang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, 650223, China
| | - Ding-Qi Rao
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, 650223, China
| | - Zheng-Jun Wu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, 541004, China.,Guangxi Key Laboratory of Rare and Endangered Animal Ecology, College of Life Science, Guangxi Normal University, Guilin, 541004, China
| | - Jun-Xing Yang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, 650223, China
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6
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Han CC, Hsu KC, Fang LS, Cheng IM, Lin HD. Geographical and temporal origins of Neocaridina species (Decapoda: Caridea: Atyidae) in Taiwan. BMC Genet 2019; 20:86. [PMID: 31752677 PMCID: PMC6868699 DOI: 10.1186/s12863-019-0788-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2019] [Accepted: 10/31/2019] [Indexed: 11/13/2022] Open
Abstract
BACKGROUND The freshwater species on Taiwan Island have been documented to have originated from mainland China and the Japanese islands from multiple events and by multiple colonization routes. Moreover, the sequences from the mitochondrial DNA cytochrome c oxidase subunit I (COI) have been used for DNA barcoding to identify the species. This study used the COI sequences to identify Neocaridina species in Taiwan and to examine their geographical and temporal origins. RESULTS In total, 479 specimens were collected from 35 localities, which covered almost all rivers in Taiwan. In addition, some sequences were downloaded from GenBank. The maximum likelihood (ML) tree displayed that all sequences were sorted into 13 taxa (clades), and all sequences in Taiwan were sorted into four clades. The Bayesian skyline plots revealed that these four Neocaridina species have declined recently in Taiwan. CONCLUSIONS All results support that (1) there are four Neocaridina species in Taiwan, which are N. davidi, N. saccam, N. ketagalan and an undescribed Neocaridina species (N. sp.); (2) these four species colonized Taiwan Island in four colonization events; (3) N. sp. colonized Taiwan first; (4) after the island reached its shape, N. ketagalan and N. saccam colonized Taiwan from the Japanese islands and mainland China, respectively; (5) N. davidi colonized northern Taiwan last; and (6) the cyclic glacial and landform changes in East Asia shaped the colonization events and population structures of the Neocaridina species.
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Affiliation(s)
- Chiao-Chuan Han
- National Museum of Marine Biology and Aquarium, Pingtung, 944 Taiwan
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung, 944 Taiwan
| | - Kui-Ching Hsu
- College of Fisheries, Guangdong Ocean University, Zhanjiang, 524088 China
| | - Lee-Shing Fang
- Center for Environmental Toxin and Emerging-Contaminant Research,Cheng Shiu University, Kaohsiung, 83347 Taiwan
- Department of Leisure and Sport Management, Cheng Shiu University, Kaohsiung, 83347 Taiwan
| | - I-Ming Cheng
- Department of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, 80424 Taiwan
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan, 701 Taiwan
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7
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Huang XX, Hsu KC, Kang B, Kuo PH, Tsai WH, Liang CM, Lin HD, Wang WK. Population structure of Aphyocypris normalis: phylogeography and systematics. Zookeys 2019; 872:77-90. [PMID: 31528116 PMCID: PMC6718371 DOI: 10.3897/zookeys.872.33105] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2019] [Accepted: 05/23/2019] [Indexed: 11/30/2022] Open
Abstract
Aphyocyprisnormalis (Teleostei: Cyprinidae) is an endemic species in South China, but little is known about its genetic structure. This study examined the population structure of A.normalis using sequences of the mitochondrial DNA control region and cytochrome b gene (2,086 bp). In total, 107 specimens were collected from nine populations. All 105 mtDNA haplotypes were identified as belonging to two allopatric phylogroups. The results of a statistical dispersal-vicariance analysis (S-DIVA) suggested that the ancestral populations of A.normalis were distributed widely on Hainan Island and east of the Leizhou Peninsula. A comparison of the fixation indices NST (0.532) and GST (0.004) revealed that the phylogeny and geography had a significant relationship. Our study found that (1) the Wuzhishan and Yinggeling Mountain Range was an important barrier limiting gene exchange between populations on both sides; (2) cyclic climate changes may have shaped migrations and population differentiations; and (3) different colonization times caused different population diversities between codistributed species. In addition, the inter- and intraspecific diversities of the genus Aphyocypris were estimated.
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Affiliation(s)
- Xiao-Xia Huang
- Key laboratory of atmospheric environment and processes in the boundary layer over the low-latitude plateau region, Yunnan University, Kunming, 650091, China Yunnan University Kunming China
| | - Kui-Ching Hsu
- College of Fisheries, Guangdong Ocean University, Zhanjiang 524088, China Guangdong Ocean University Zhanjiang China
| | - Bin Kang
- College of Fisheries, Ocean University of China, Qingdao 266003, China Ocean University of China Qingdao China
| | - Po-Hsun Kuo
- Department of Industrial Management, National Taiwan University of Science and Technology, Taipei 106, Taiwan National Taiwan University of Science and Technology Taipei Taiwan
| | - Wan-Hsin Tsai
- Department of Environmental Engineering and Science, Feng Chia University, Taichung 407, Taiwan Feng Chia University Taichung Taiwan
| | - Chih-Ming Liang
- Department of Environmental Engineering and Science, Feng Chia University, Taichung 407, Taiwan Feng Chia University Taichung Taiwan
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan 701, Taiwan The Affiliated School of National Tainan First Senior High School Tainan Taiwan
| | - Wei-Kuang Wang
- Department of Environmental Engineering and Science, Feng Chia University, Taichung 407, Taiwan Feng Chia University Taichung Taiwan
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Ju YM, Hsu KC, Yang JQ, Wu JH, Li S, Wang WK, Ding F, Li J, Lin HD. Mitochondrial diversity and phylogeography of Acrossocheilus paradoxus (Teleostei: Cyprinidae). Mitochondrial DNA A DNA Mapp Seq Anal 2018; 29:1194-1202. [DOI: 10.1080/24701394.2018.1431227] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Yu-Min Ju
- National Museum of Marine Biology and Aquarium, Pingtung, Taiwan
- Graduate Institute of Marine Biology, National Dong Hwa University, Pingtung, Taiwan
| | - Kui-Ching Hsu
- College of Fisheries, Guangdong Ocean University, Zhanjiang, China
| | - Jin-Quan Yang
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai, China
| | - Jui-Hsien Wu
- Eastern Marine Biology Research Center of Fisheries Research Institute, Council of Agriculture, Taitung, Taiwan
| | - Shan Li
- Branch of Shanghai Science & Technology, Shanghai Natural History Museum, Shanghai, China
| | - Wei-Kuang Wang
- Department of Environmental Engineering and Science, Feng Chia University, Taichung, Taiwan
| | - Fang Ding
- Department of Veterinary Medicine, College of Veterinary Medicine, National Chung Hsing University, Taichung, Taiwan
| | - Jun Li
- Fisheries College, Jimei University, Xiamen, China
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan, Taiwan
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Han CC, Fang LS, Chang IM, Lin HD. Genetic variation of the land-locked freshwater shrimp Caridina pseudodenticulata (Decapoda: Atyidae: Caridina) in Taiwan. Mitochondrial DNA A DNA Mapp Seq Anal 2017; 29:687-694. [PMID: 28712317 DOI: 10.1080/24701394.2017.1350948] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Caridina pseudodenticulata is a land-locked freshwater shrimp, which is endemic to North and West Taiwan. It is listed as Vulnerable under criteria A1ce in the IUCN Red List. Our study used mitochondrial DNA fragment sequences of the cytochrome oxidase subunit I (COI) gene to examine its genetic structure. In total, 204 sequences were analyzed from 22 populations, and all 39 haplotypes were identified. Our study (1) found that the genetic diversity within population of this species was similar to that of other land-locked freshwater prawn in Taiwan; (2) displayed that during glaciation, the Taiwan Strait was largely above water, an event which created opportunities for colonization Taiwan and dispersal widely; (3) showed that although the phylogenetic analysis showed the lack of a population genetic structure, the AMOVA and haplotypes distribution pattern revealed geographically divided; (4) indicated that C. pseudodenticulata could across to neighbor rivers through the mouths of rivers, which confluent with each other during floods.
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Affiliation(s)
- Chiao-Chuan Han
- a National Museum of Marine Biology and Aquarium , Checheng , Pingtung , Taiwan.,b Graduate Institute of Marine Biology , National Dong Hwa University , Checheng , Pingtung , Taiwan
| | - Lee-Shing Fang
- c Department of Leisure and Sport Management , Cheng Shiu University , Kaohsiung , Taiwan
| | - I-Ming Chang
- d General Education Center, Wenzao Ursuline University of Languages , Kaohsiung , Taiwan
| | - Hung-Du Lin
- e The Affiliated School of National Tainan First Senior High School , Tainan , Taiwan
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Chen PC, Shih CH, Chu TJ, Lee YC, Tzeng TD. Phylogeography and genetic structure of the oriental river prawn Macrobrachium nipponense (Crustacea: Decapoda: Palaemonidae) in East Asia. PLoS One 2017; 12:e0173490. [PMID: 28267807 PMCID: PMC5340376 DOI: 10.1371/journal.pone.0173490] [Citation(s) in RCA: 7] [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: 08/31/2016] [Accepted: 02/21/2017] [Indexed: 11/25/2022] Open
Abstract
The oriental river prawn (Macrobrachium nipponense) is mainly distributed in East Asia. The phylogeography, population genetic structure and historical demography of this species in the East Asia were examined by using partial sequences of the cytochrome oxidase subunit I (COI) and 16S rRNA in mitochondrial DNA. Ten populations that included 239 individuals were collected from Taiwan (Shihmen Reservoir, SMR, Mingte Reservoir, MTR and Chengching Lake Reservoir, CLR), mainland China (Taihu Lake, TLC, Min River, MRC, Jiulong River, JRC and Shenzhen Reservoir, SRC), Japan (Biwa Lake, BLJ and Kasumigaura Lake, KLJ) and Korea (Han River, HRK). The nucleotide diversity (π) of all individuals was 0.01134, with values ranging from 0.0089 (BLJ, Japan) to 0.01425 (MTR, Taiwan). A total of 83 haplotypes were obtained, and the haplotypes were divided into 2 main lineages: lineage A included the specimens from BLJ, KLJ, CLR, MTR, TLC, MRC and JRC, and lineage B comprised the ones from HRK, SRC, SMR, MTR, TLC, MRC and JRC. Lineage A could be further divided two sub-lineages (A1 and A2). Individuals of lineage A2 were only from TLC. Demographic expansion was observed in each lineage, starting within the second-to-latest interglacial period for lineage A and within the last glacial period for lineage B. All FST values among the ten populations were significantly different, except for the values between MRC and JRC, and SMR and SRC. The phylogeography and genetic structure of M. nipponense in East Asia might be influenced by Pleistocene glacial cycles, lake isolation and human introduction. The possible dispersal routes of M. nipponense in the East Asia were also discussed.
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Affiliation(s)
- Po-Cheng Chen
- Institute of Fisheries Science, College of Life Science, National Taiwan University, Taipei, Taiwan
| | - Chun-Han Shih
- Department of Leisure Management, Tungnan University, New Taipei City, Taiwan
| | - Ta-Jen Chu
- Department of Leisure and Recreation Management, Chung Hua University, Hsin Chu, Taiwan
| | - Ying-Chou Lee
- Institute of Fisheries Science, College of Life Science, National Taiwan University, Taipei, Taiwan
- * E-mail: (TDT); (YCL)
| | - Tzong-Der Tzeng
- Department of Leisure, Recreation and Tourism Management, Shu-Te University, Kaohsiung, Taiwan
- * E-mail: (TDT); (YCL)
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11
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Chiang TY, Chen YY, Lee TW, Hsu KC, Lin FJ, Wang WK, Lin HD. Comparative phylogeography of two codistributed endemic cyprinids in southeastern Taiwan. BIOCHEM SYST ECOL 2017. [DOI: 10.1016/j.bse.2016.12.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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12
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Ju YM, Wu JH, Kuo PH, Hsu KC, Wang WK, Lin FJ, Lin HD. Mitochondrial genetic diversity of Rhinogobius giurinus (Teleostei: Gobiidae) in East Asia. BIOCHEM SYST ECOL 2016. [DOI: 10.1016/j.bse.2016.08.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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13
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Zhou TQ, Lin HD, Hsu KC, Kuo PH, Wang WK, Tang WQ, Liu D, Yang JQ. Spatial genetic structure of the cyprinid fish Onychostoma lepturum on Hainan Island. Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:901-908. [DOI: 10.1080/24701394.2016.1209193] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Tian-Qi Zhou
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, Lingang New City, Shanghai, P.R. China
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan, Taiwan
| | - Kui-Ching Hsu
- Department of Industrial Management, National Taiwan University of Science and Technology, Taipei, Taiwan
| | - Po-Hsun Kuo
- Department of Industrial Management, National Taiwan University of Science and Technology, Taipei, Taiwan
| | - Wei-Kuang Wang
- Department of Environmental Engineering and Science, Feng Chia University, Taichung, Taiwan
| | - Wen-Qiao Tang
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, Lingang New City, Shanghai, P.R. China
| | - Dong Liu
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, Lingang New City, Shanghai, P.R. China
| | - Jin-Quan Yang
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, Lingang New City, Shanghai, P.R. China
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Yang JQ, Hsu KC, Liu ZZ, Su LW, Kuo PH, Tang WQ, Zhou ZC, Liu D, Bao BL, Lin HD. The population history of Garra orientalis (Teleostei: Cyprinidae) using mitochondrial DNA and microsatellite data with approximate Bayesian computation. BMC Evol Biol 2016; 16:73. [PMID: 27068356 PMCID: PMC4827224 DOI: 10.1186/s12862-016-0645-9] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2015] [Accepted: 03/27/2016] [Indexed: 02/07/2023] Open
Abstract
Background The South China landmass has been characterized by a complex geological history, including mountain lifting, climate changes, and river capture/reversal events. To determine how this complexity has influenced the landmass’s phylogeography, our study examined the phylogeography of Garra orientalis, a cyprinid widely distributed in South China, using sequences from the mitochondrial DNA control region and cytochrome b gene (1887 bp) and polymorphisms of thirteen microsatellite loci. Results In total, 157 specimens were collected from eight populations. All 88 mtDNA haplotypes were identified as belonging to three major lineages, and these lineages were almost allopatric in their distributions. The results of a statistical dispersal-vicariance analysis suggested that the ancestral populations of G. orientalis were distributed south of the Yunkai Mountains, including on Hainan Island. The mtDNA data revealed a strong relationship between phylogeny and geography. In the microsatellite analysis, a total of 339 alleles with an average of 26 alleles per locus were observed across thirteen microsatellite loci. A clustering algorithm for microsatellite data revealed an admixture-like genetic structure. Although the mtDNA and microsatellite data sets displayed a discordant population structure, the results of an approximate Bayesian computation approach showed that these two markers revealed congruent historical signals. The population history of G. orientalis reflects vicariance events and dispersal related to the complex geological history of South China. Conclusion Our results (i) found that the discordances between mtDNA and microsatellite markers were accounted for by admixtures; (ii) showed that the Wuzhishan and Yinggeling mountain ranges and Qiongzhou Strait were important barriers limiting gene exchange between populations on both sides; (iii) indicated that during glaciation and inter-glacial periods, the strait and continental shelves were exposed and sank, which contributed with the dispersion and differentiation of populations; and (iv) displayed that the admixtures between lineages took place in coastal populations and then colonized the tributaries of the Pearl River.
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Affiliation(s)
- Jin-Quan Yang
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Kui-Ching Hsu
- Department of Industrial Management, National Taiwan University of Science and Technology, 43 Keelung Road, Section 4, Taipei, 106, Taiwan
| | - Zhi-Zhi Liu
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Li-Wei Su
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Po-Hsun Kuo
- Department of Industrial Management, National Taiwan University of Science and Technology, 43 Keelung Road, Section 4, Taipei, 106, Taiwan
| | - Wen-Qiao Tang
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Zhuo-Cheng Zhou
- College of Animal Sciences, Zhejiang University, Hangzhou, 310029, China
| | - Dong Liu
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Bao-Long Bao
- Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Ministry of Education, 999 Huchenghuan Road, Lingang New City, Shanghai, 201306, China
| | - Hung-Du Lin
- The Affiliated School of National Tainan First Senior High School, Tainan, 701, Taiwan.
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Chang HY, Wang WK, Chen KN, Su JK, Hsin CY, Li J, Wang YK, Lin HD. Phylogeography and genetic structure of the endemic cyprinid fish Microphysogobio brevirostris in northern Taiwan. BIOCHEM SYST ECOL 2016. [DOI: 10.1016/j.bse.2016.02.020] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Chiu YW, Bor H, Kuo PH, Hsu KC, Tan MS, Wang WK, Lin HD. Origins of Semisulcospira libertina (gastropoda: semisulcospiridae) in Taiwan. Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:518-525. [PMID: 27159703 DOI: 10.3109/24701394.2016.1149823] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The most accepted hypothesis has suggested that the fauna in Taiwan Island originated from South China, but some studies supported the Japan, Ryukyu Archipelago, and Taiwan Islands as a unique biogeographical district. This study examines whether the populations of freshwater snail Semisulcospira libertina in Taiwan are closer to those in Japan based on the mitochondrial cytochrome c oxidase subunit I (COI) gene sequences. Our study shows the populations in North Taiwan originated from Japan and the cyclic glacial caused the migrations among islands and continent repeatedly; the populations in South Taiwan might originate from South China or South Asia. Our results will not only affect the conclusions in phylogeography of freshwater species in Taiwan but also change the sampling plans in the future studies about evolutionary of freshwater species in East Asia.
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Affiliation(s)
- Yuh-Wen Chiu
- a Department of Science Education, National Museum of Marine Biology and Aquarium , Pingtung , Taiwan.,b Graduate Institute of Marine Biodiversity and Evolutionary Biology, National Dong Hwa University , Pingtung , Taiwan
| | - Hor Bor
- c Department of Biomedical Science and Environmental Biology , Kaohsiung Medical University , Kaohsiung , Taiwan
| | - Po-Hsun Kuo
- d Department of Industrial Management , National Taiwan University of Science and Technology , Taipei , Taiwan
| | - Kui-Ching Hsu
- d Department of Industrial Management , National Taiwan University of Science and Technology , Taipei , Taiwan
| | - Mian-Shin Tan
- c Department of Biomedical Science and Environmental Biology , Kaohsiung Medical University , Kaohsiung , Taiwan
| | - Wei-Kuang Wang
- e Department of Environmental Engineering and Science , Feng Chia University , Taichung , Taiwan
| | - Hung-Du Lin
- f Department of Biology, The Affiliated School of National Tainan First Senior High School , Tainan , Taiwan
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Weng YM, Yang MM, Yeh WB. A comparative phylogeographic study reveals discordant evolutionary histories of alpine ground beetles (Coleoptera, Carabidae). Ecol Evol 2016; 6:2061-73. [PMID: 27066226 PMCID: PMC4768753 DOI: 10.1002/ece3.2006] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 01/03/2016] [Accepted: 01/18/2016] [Indexed: 11/10/2022] Open
Abstract
Taiwan, an island with three major mountain ranges, provides an ideal topography to study mountain-island effect on organisms that would be diversified in the isolation areas. Glaciations, however, might drive these organisms to lower elevations, causing gene flow among previously isolated populations. Two hypotheses have been proposed to depict the possible refugia for alpine organisms during glaciations. Nunatak hypothesis suggests that alpine species might have stayed in situ in high mountain areas during glaciations. Massif de refuge, on the other hand, proposes that alpine species might have migrated to lower ice-free areas. By sampling five sympatric carabid species of Nebria and Leistus, and using two mitochondrial genes and two nuclear genes, we evaluated the mountain-island effect on alpine carabids and tested the two proposed hypotheses with comparative phylogeographic method. Results from the phylogenetic relationships, network analysis, lineage calibration, and genetic structure indicate that the deep divergence among populations in all L. smetanai, N. formosana, and N. niitakana was subjected to long-term isolation, a phenomenon in agreement with the nunatak hypothesis. However, genetic admixture among populations of N. uenoiana and some populations of L. nokoensis complex suggests that gene flow occurred during glaciations, as a massif de refuge depicts. The speciation event in N. niitakana is estimated to have occurred before 1.89 million years ago (Mya), while differentiation among isolated populations in N. niitakana, N. formosana, L. smetanai, and L. nokoensis complex might have taken place during 0.65-1.65 Mya. While each of the alpine carabids arriving in Taiwan during different glaciation events acquired its evolutionary history, all of them had confronted the existing mountain ranges.
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Affiliation(s)
- Yi-Ming Weng
- Department of Entomology National Chung Hsing University 250 Kuo-Kuang Rd South District Taichung Taiwan 40227
| | - Man-Miao Yang
- Department of Entomology National Chung Hsing University 250 Kuo-Kuang Rd South District Taichung Taiwan 40227
| | - Wen-Bin Yeh
- Department of Entomology National Chung Hsing University 250 Kuo-Kuang Rd South District Taichung Taiwan 40227
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18
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Perdices A, Bohlen J, Šlechtová V, Doadrio I. Molecular Evidence for Multiple Origins of the European Spined Loaches (Teleostei, Cobitidae). PLoS One 2016; 11:e0144628. [PMID: 26727121 PMCID: PMC4699775 DOI: 10.1371/journal.pone.0144628] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2015] [Accepted: 11/21/2015] [Indexed: 11/19/2022] Open
Abstract
We present a phylogenetic investigation of the Northern Clade, the major monophyletic clade within the freshwater fish family Cobitidae, one of the most prominent families of freshwater fishes found in Asian and European waters. Phylogenetic reconstructions based on the cytochrome b and RAG-1 genes show the genera Microcobitis, Sabanejewia, Koreocobitis and Kichulchoia as monophyletic groups. These reconstructions also show a Cobitis sensu lato and a Misgurnus sensu lato group. The Cobitis sensu lato group includes all species of Cobitis, Iksookimia, Niwaella and Kichulchoia, while the Misgurnus sensu lato group includes Misgurnus, Paramisgurnus and Koreocobitis. Although the monophyly of both the Cobitis sensu lato and Misgurnus sensu lato groups is supported, relationships within the groups are incongruent with current generic definitions. The absence of monophyly of most genera included in the Cobitis sensu lato group (Cobitis, Iksookimia and Niwaella) or their low genetic differentiation (Kichuchoia) supports their consideration as synonyms of Cobitis. Molecular phylogenies indicate that the Asian species of Misgurnus experienced a mitochondrial introgression from a lineage of Cobitis. We also find two nuclear haplotypes in the same Cobitis species from the Adriatic area that, in the absence of morphological differentiation, may indicate molecular introgression. Most lineages within the Northern Clade consist of species found in East Asia. However, some lineages also contain species from Europe and Asia Minor. The phylogenetic relationships presented here are consistent with previous studies suggesting an East Asian origin of the Northern Clade. According to the current distributions and phylogenetic relationships of the Misgurnus sensu lato and Cobitis clade lineages, particularly of M. fossilis and C. melanoleuca, the range expansion of East Asian species into Europe was most likely via Siberia into Northern and Central Europe. Phylogenetic analyses also show that the Cobitis sensu lato group consists of two clear subgroups (I and II), each presenting geographical differences. Subgroup I is distributed exclusively in East Asian drainages with an Eastern European offshoot (C. melanoleuca), whereas Subgroup II includes species widespread throughout Europe (including the Mediterranean), Asia Minor, the Black Sea and the Caucasus, with some lineages related to species restricted to East Asia.
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Affiliation(s)
- Anabel Perdices
- Department of Biodiversity and Evolutionary Biology, Museo Nacional Ciencias Naturales, CSIC, Madrid, Spain
- * E-mail:
| | - Joerg Bohlen
- Laboratory of Fish Genetics Institute of Animal Physiology and Genetics, Libechov, Czech Republic
| | - Vendula Šlechtová
- Laboratory of Fish Genetics Institute of Animal Physiology and Genetics, Libechov, Czech Republic
| | - Ignacio Doadrio
- Department of Biodiversity and Evolutionary Biology, Museo Nacional Ciencias Naturales, CSIC, Madrid, Spain
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19
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Chen PC, Shih CH, Chu TJ, Wang D, Lee YC, Tzeng TD. Population Structure and Historical Demography of the Oriental River Prawn (Macrobrachium nipponense) in Taiwan. PLoS One 2015; 10:e0145927. [PMID: 26716687 PMCID: PMC4696665 DOI: 10.1371/journal.pone.0145927] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2015] [Accepted: 12/10/2015] [Indexed: 12/05/2022] Open
Abstract
The oriental river prawn (Macrobrachium nipponense) is a non-obligatory amphidromous prawn, and it has a wide distribution covering almost the entire Taiwan. Mitochondrial DNA fragment sequences of the cytochrome oxidase subunit I (COI) and 16S rRNA were combined and used to elucidate the population structure and historical demography of oriental river prawn in Taiwan. A total of 202 individuals from six reservoirs and three estuaries were separately collected. Nucleotide diversity (π) of all populations was 0.01217, with values ranging from 0.00188 (Shihmen Reservoir, SMR, northern Taiwan) to 0.01425 (Mingte Reservoir, MTR, west-central Taiwan). All 76 haplotypes were divided into 2 lineages: lineage A included individuals from all sampling areas except SMR, and lineage B included specimens from all sampling locations except Chengching Lake Reservoir (CLR) and Liyu Lake Reservoir (LLR). All FST values among nine populations were significantly different except the one between Jhonggang River Estuary (JGE, west-central Taiwan) and Kaoping River Estuary (KPE, southern Taiwan). UPGMA tree of nine populations showed two main groups: the first group included the SMR and Tamsui River Estuary (TSE) (both located northern Taiwan), and the second one included the other seven populations (west-central, southern and eastern Taiwan). Demographic analyses implied a population expansion occurred during the recent history of the species. The dispersal route of this species might be from China to west-central and west-southern Taiwan, and then the part individuals belonging to lineage A and B dispersed southerly and northerly, respectively. And then part individuals in west-central Taiwan fell back to and stay at estuaries as the sea level rose about 18,000 years ago.
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Affiliation(s)
- Po-Cheng Chen
- Institute of Fisheries Science, College of Life Science, National Taiwan University, Taipei, 106, Taiwan
| | - Chun-Han Shih
- Department of Leisure Management, Tungnan University, New Taipei City, 222, Taiwan
| | - Ta-Jen Chu
- Department of Leisure and Recreation Management, Chung Hua University, Hsin Chu, 300, Taiwan
| | - Daryi Wang
- Biodiversity Research Center, Academia Sinica, Taipei, 115, Taiwan
| | - Ying-Chou Lee
- Institute of Fisheries Science, College of Life Science, National Taiwan University, Taipei, 106, Taiwan
- * E-mail: (YCL); (TDT)
| | - Tzong-Der Tzeng
- Department of Leisure, Recreation and Tourism Management, Shu-Te University, Kaohsiung, 824, Taiwan
- * E-mail: (YCL); (TDT)
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20
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Population genetic structure in wild and hatchery populations of white cloud mountain minnow (Tanichthys albonubes): Recommendations for conservation. BIOCHEM SYST ECOL 2015. [DOI: 10.1016/j.bse.2015.08.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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21
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Jean CT, Wu CY, Tsai KC, Wang WK, Hsu YY, Chang YM, Lin HD. Population genetic structure in the endemic cyprinid fish Microphysogobio alticorpus in Taiwan: Evidence for a new phylogeographical area. BIOCHEM SYST ECOL 2014. [DOI: 10.1016/j.bse.2014.07.019] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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22
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Differentiation in stag beetles, Neolucanus swinhoei complex (Coleoptera: Lucanidae): four major lineages caused by periodical Pleistocene glaciations and separation by a mountain range. Mol Phylogenet Evol 2014; 78:245-59. [PMID: 24837623 DOI: 10.1016/j.ympev.2014.05.004] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2013] [Revised: 04/24/2014] [Accepted: 05/03/2014] [Indexed: 11/20/2022]
Abstract
Taxonomic debates on Neolucanus swinhoei complex consisting of N. swinhoei, N. doro doro, N. doro horaguchii, and N. euganiae, distributed exclusively in Taiwan, have been ongoing for several decades because of their overlapping morphological characters. To clarify their taxonomic status and phylogeographical history, we analyzed nine morphological characteristics and four molecular amplicons. Phylogenetic inferences based on COI+16S rDNA+wingless showed one eastern and three western lineages, with the latter consisting of one low-hill and two montane lineages. Intermingled DNA sequences from different populations within each lineage, many low FST values, and a high variance component between lineages indicate the possibility of gene flow among populations. However, positive relationships were observed between the genetic divergences of 16S rDNA and its FST values with geographic distance. A divergence estimation based on COI+16S revealed that these beetles might have originated from Asian mainland and differentiated into western and eastern lineages ca. 1Mya, with the differentiation of the western lineages occurring approximately 0.50-0.75Mya. Isolation by mountain ranges and limited flying capability of these beetles as well as populations retreat to and expansion from refugia in response to glaciation cycles have resulted in the current distribution of N. swinhoei complex. Although most morphological characters are variable and undistinguishable, multi-dimensional scaling analysis based on measurable characteristics could recognize hill N. swinhoei as a cluster distinct from the others. However, based on the realities of genetic admixture, shared phylogeographical history and overlapping characteristics, all of these stag beetles should be regarded as Neolucanus swinhoei Bates, 1866.
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Koizumi Y, Ota H, Hikida T. Phylogeography of the Two Smooth Skinks, Scincella boettgeri and S. formosensis (Squamata: Scincidae) in the Southern Ryukyus and Taiwan, as Inferred from Variation in Mitochondrial Cytochrome b Sequences. Zoolog Sci 2014; 31:228-36. [DOI: 10.2108/zs130180] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- Yuki Koizumi
- Department of Zoology, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, Japan
| | - Hidetoshi Ota
- Institute of Natural and Environmental Sciences, University of Hyogo, Yayoigaoka 6, Sanada, Hyogo 669–1546, Japan
| | - Tsutomu Hikida
- Department of Zoology, Graduate School of Science, Kyoto University, Sakyo, Kyoto 606-8502, JAPAN
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Mitochondrial DNA phylogeography of Semisulcospira libertina (Gastropoda: Cerithioidea: Pleuroceridae): implications the history of landform changes in Taiwan. Mol Biol Rep 2014; 41:3733-43. [DOI: 10.1007/s11033-014-3238-y] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2013] [Accepted: 02/06/2014] [Indexed: 10/25/2022]
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25
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Chiang TY, Lin HD, Zhao J, Kuo PH, Lee TW, Hsu KC. Diverse processes shape deep phylogeographical divergence in Cobitis sinensis
(Teleostei: Cobitidae) in East Asia. J ZOOL SYST EVOL RES 2013. [DOI: 10.1111/jzs.12030] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Tzen-Yuh Chiang
- Department of Life Sciences; Cheng Kung University; Tainan Taiwan
| | - Hung-Du Lin
- Department of Life Sciences; Cheng Kung University; Tainan Taiwan
| | - Jun Zhao
- Guangdong Provincial Key Laboratory for Healthy and Safe Aquaculture; Key Laboratory of Ecology and Environment Science in Guangdong Higher Education; College of Life Science; South China Normal University; Guangzhou China
| | - Po-Hsun Kuo
- Department of Industrial Management; Taiwan University of Science and Technology; Taipei Taiwan
| | - Teh-Wang Lee
- Endemic Species Research Institute; Nantou Taiwan
| | - Kui-Ching Hsu
- Department of Industrial Management; Taiwan University of Science and Technology; Taipei Taiwan
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Phylogeographical analysis on Squalidus argentatus recapitulates historical landscapes and drainage evolution on the island of Taiwan and mainland China. Int J Mol Sci 2012; 13:1405-1425. [PMID: 22408398 PMCID: PMC3291967 DOI: 10.3390/ijms13021405] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2011] [Revised: 01/04/2012] [Accepted: 01/05/2012] [Indexed: 11/26/2022] Open
Abstract
Phylogeographical analyses on Squalidus argentatus samples from thirteen localities within mainland China and Taiwan were conducted for biogeographic studies, as their dispersal strictly depends on geological evolution of the landmasses. A total of 95 haplotypes were genotyped for mtDNA cyt b gene in 160 specimens from nine river systems. Relatively high levels of haplotype diversity (h = 0.984) and low levels of nucleotide diversity (π = 0.020) were detected in S. argentatus. Two major phylogenetic haplotype groups, A and B, were revealed via phylogenetic analysis. The degree of intergroup divergence (3.96%) indicates that these groups diverged about 4.55 myr (million years) ago. Haplotype network and population analyses indicated significant genetic structure (FST = 0.775), largely concordant with the geographical location of the populations. According to SAMOVA analysis, we divided these populations into four units: Yangtze-Pearl, Qiantang-Minjiang, Jiulong-Beijiang and Taiwan groups. Mismatch distribution analysis, neutrality tests and Bayesian skyline plots indicated a significant population expansion for lineage A and B, approximately dated 0.35 and 0.04 myr ago, respectively. We found strong geographical organization of the haplotype clades across different geographic scales that can be explained by episodes of dispersal and population expansion followed by population fragmentation and restricted gene flow.
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Lin HD, Chen YR, Lin SM. Strict consistency between genetic and topographic landscapes of the brown tree frog (Buergeria robusta) in Taiwan. Mol Phylogenet Evol 2012; 62:251-62. [DOI: 10.1016/j.ympev.2011.09.022] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2011] [Revised: 09/24/2011] [Accepted: 09/28/2011] [Indexed: 11/30/2022]
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28
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Chiang TY, Lee TW, Hsu KC, Kuo CH, Lin DY, Lin HD. Population Structure in the Endangered Cyprinid FishPararasbora moltrechtiin Taiwan, Based on Mitochondrial and Microsatellite DNAs. Zoolog Sci 2011; 28:642-51. [DOI: 10.2108/zsj.28.642] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Huang JP, Lin CP. Lineage-specific late pleistocene expansion of an endemic subtropical gossamer-wing damselfly, Euphaea formosa, in Taiwan. BMC Evol Biol 2011; 11:94. [PMID: 21486452 PMCID: PMC3094233 DOI: 10.1186/1471-2148-11-94] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2010] [Accepted: 04/12/2011] [Indexed: 11/24/2022] Open
Abstract
BACKGROUND Pleistocene glacial oscillations have significantly affected the historical population dynamics of temperate taxa. However, the general effects of recent climatic changes on the evolutionary history and genetic structure of extant subtropical species remain poorly understood. In the present study, phylogeographic and historical demographic analyses based on mitochondrial and nuclear DNA sequences were used. The aim was to investigate whether Pleistocene climatic cycles, paleo-drainages or mountain vicariance of Taiwan shaped the evolutionary diversification of a subtropical gossamer-wing damselfly, Euphaea formosa. RESULTS E. formosa populations originated in the middle Pleistocene period (0.3 Mya) and consisted of two evolutionarily independent lineages. It is likely that they derived from the Pleistocene paleo-drainages of northern and southern Minjiang, or alternatively by divergence within Taiwan. The ancestral North-central lineage colonized northwestern Taiwan first and maintained a slowly growing population throughout much of the early to middle Pleistocene period. The ancestral widespread lineage reached central-southern Taiwan and experienced a spatial and demographic expansion into eastern Taiwan. This expansion began approximately 30,000 years ago in the Holocene interglacial period. The ancestral southern expansion into eastern Taiwan indicates that the central mountain range (CMR) formed a barrier to east-west expansion. However, E. formosa populations in the three major biogeographic regions (East, South, and North-Central) exhibit no significant genetic partitions, suggesting that river drainages and mountains did not form strong geographical barriers against gene flow among extant populations. CONCLUSIONS The present study implies that the antiquity of E. formosa's colonization is associated with its high dispersal ability and larval tolerance to the late Pleistocene dry grasslands. The effect of late Pleistocene climatic changes on the subtropical damselfly's historical demography is lineage-specific, depending predominantly on its colonization history and geography. It is proposed that the Riss and Würm glaciations in the late Pleistocene period had a greater impact on the evolutionary diversification of subtropical insular species than the last glacial maximum (LGM).
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Affiliation(s)
- Jen-Pan Huang
- Department of Life Science & Center for Tropical Ecology and Biodiversity, Tunghai University, Taichung, Taiwan 40704
- Museum of Zoology, University of Michigan, 1109 Geddes Avenue, Ann Arbor, MI 48109, USA
| | - Chung-Ping Lin
- Department of Life Science & Center for Tropical Ecology and Biodiversity, Tunghai University, Taichung, Taiwan 40704
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