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Low diversity,little genetic structure but no inbreeding in a high-density island endemic pit-viper Gloydius shedaoensis

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Current Zoology 2022年第5期68卷 526-534页

作者： Guannan Wen Long Jin Yayong Wu Xiaoping Wang Jinzhong Fu Yin Qi Chengdu Institute of Biology Chinese Academy of SciencesChengdu 610041 China Key Laboratory of Southwest China Wildlife Resources Conservation(Ministry of Education) China West Normal UniversityNanchong 637009 China College of Life Sciences and Food Engineering Yibin UniversityYibin 644007 China Nature Conservation of Snake Island and Laotieshan Mountain Dalian 116041 China Department of Integrative Biology University of GuelphGuelphOntario N1G 2W1Canada

Island species and their ecosystems play an important role in global biodiversity preservation,and many vulnerable island species are conservation priorities.Although insular habitat likely facilitates the species diversification process,it may also aggravate the fragility of these species with high risk of inbreeding.The Shedao pit-viper Gloydius shedaoensis is an island endemic species with an extremely high population density,which has been categorized as vulnerable in the IUCN(International Union for the Conservation of Nature and Natural Resources)Red List.We collected 13,148 SNP(Single Nucleotide Polymorphism)from across its genome and examined its genetic diversity and demographic history.The Shedao pit-viper has a low genetic diversity but shows no sign of inbreeding.Furthermore,population genetic structure analysis,including the neighbor-joining tree,principal coordinate analysis,clustering,and spatial autocorrelation,revealed a general lack of spatial structure.Only the isolation by distance residues suggested a weak patchiness.Overall,the population is nearly panmictic and gene flow is evenly distributed across the island.A large number of individuals,small size of the island,and the lack of population structure likely all contribute to the lack of inbreeding in this species.We also detected signs of male-biased dispersal,which likely is another inbreeding avoidance strategy.historical demographic analysis suggested that the historical population size and distribution of the species are much larger than their current ones.The multiple transgressive–regressive events since the Late Pleistocene are likely the main cause of the population size changes.Taken together,our results provide a basic scientific foundation for the conservation of this interesting and important species.

关键词： genetic diversity and structure Gloydius shedaoensis historical demography inbreeding insular species

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Shaken not stirred: A molecular contribution to the systematics of genus Mugil (Teleostei, Mugilidae)

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Integrative Zoology 2016年第4期11卷 263-281页

作者： Sandra HERAS Ferruccio MALTAGLIATI Maria Victoria FERNÁNDEZ María Inés ROLDÁN Laboratory of Genetic Ichthyology University of GironaGironaSpain Department of Biology University of PisaPisaItaly

With this work we addressed some molecular systematic issues within the Mugil cephalus species complex.Particular attention was paid to the debated situations of:(i)Mugil liza,occurring in partial sympatry with Mugil cephalus in the northwestern Atlantic,and(ii)Mugil platanus,considered by some authors a synonymy of the former species and distributed in the southwestern Atlantic.We sequenced 79 individuals of a 465-bp portion of the mitochondrial control region(CR)from 8 western Atlantic and 2 Mediterranean localities.In addition,all CR sequences available from GenBank for the studied taxa were added to our dataset,for a total of 323 individuals.Overall,229 haplotypes corresponding to 8 divergent monophyletic lineages were detected.Results of phylogenetic analyses were consistent with the occurrence of past speciation events producing the observed lineages.Of these lineages,7 correspond to cryptic species and one is constituted by M.liza and M.platanus.As a matter of fact,these 2 taxa constitute a single lineage within the M.cephalus species complex.However,individuals of M.liza/M.platanus lineage analyzed by means of the 18 mitochondrial markers available in GenBank exhibited a degree of genetic diversity consistent with highly divergent populations.Of the 8 lineages detected,the Mediterraean one(type locality)corresponds to M.cephalus;the lineage M.liza/M.platanus should be named M.liza,under the priority principle,and the left 6 lineages need formal description.

关键词： cryptic species historical demography molecular phylogeny Mugil systematics

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Population Dynamics Following the Last Glacial Maximum in Two Sympatric Lizards in Northern China

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Asian Herpetological Research 2014年第4期5卷 213-227页

作者： Yanfu QU Qun ZHAO Hongliang LU Xiang JI Jiangsu Key Laboratory for Biodiversity and Biotechnology College of Life Sciences Nanjing Normal University Hangzhou Key Laboratory for Animal Adaptation and Evolution School of Life Sciences Hangzhou Normal University

Phylogeographic studies of Eremias lizards （Lacertidae） in East Asia have been limited, and the impact of major climatic events on their population dynamics remains poorly known. This study aimed to investigate population histories and refugia during the Last Glacial Maximum of two sympatric Eremias lizards （E. argus and E. brenchleyi） inhabiting northern China. We sequenced partial mitochondrial DNA from the ND4 gene for 128 individuals of E. argus from nine localities, and 46 individuals of E. brenchleyi from five localities. Forty-four ND4 haplotypes were determined from E. argus samples, and 33 from E. brenchleyi samples. Population expansion events began about 0.0044 Ma in E. argus, and 0.031 Ma in E. brenchleyi. The demographic history of E. brenchleyi indicates a long-lasting population decline since the most recent common ancestor, while that of E. argus indicates a continuous population growth. Among-population structure was significant in both species, and there were multiple refugia across their range. Intermittent gene flow occurred among expanded populations across multiple refugia during warmer phases of the glacial period, and this may explain why the effective population size has remained relatively stable in E. brenchleyi and grown in E. argus.

关键词： Lacertidae Eremias lizards mitochondrial DNA historical demography multiple refugia Last GlacialMaximum

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Mitogenomic Conservation Genetics of the Critically Endangered Liaoning Clawed Salamander

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Asian Herpetological Research 2021年第4期12卷 337-344页

作者： Yu ZHOU Boyang YU Jichuan ZHAO Fang WANG Zhenwei WANG Bingjun DONG Baotian YANG College of Life Sciences Shenyang Normal UniversityShenyang 110000LiaoningChina Liaoning Academy of Forest Science Shenyang 110000LiaoningChina Pest Control and Quarantine Station Forestry and Grassland Administration of Liaoyang CityLiaoyang 110000LiaoningChina Natural Resources Service Center of Anshan City Anshan 114000LiaoningChina

The Liaoning clawed salamander(Onychodactylus zhaoermii)is an endemic and critically endangered amphibian species of China.To study the population genetics of natural populations of this species,32 samples were collected from six different locations,and the mitochondrial genome was sequenced.Population genetic analyses showed that the Liaoning clawed salamander is composed of only one radialized cluster with ultralow nucleotide diversity.Late Pleistocene climate cooling(-100 to-30 kya)may have reduced the effective population size of the Liaoning clawed salamander,and the subsequent temperature increase(~25 kya to present)provided the opportunity for population expansion.Because of heat sensitivity,the maximum temperature of the prebreeding period,especially from March to May,is very important for the surface environment living in the Liaoning clawed salamander.Three suitable regions were predicted by the MaxEnt model,and the largest suitable region(approximately 899 km2)was at the four-county boundary area and was larger than the present’Natural Conservation Community of the Liaoning Clawed Salamander’.To ensure more effective protection of all Liaoning clawed salamanders,we suggest extending the current’Natural Conservation Community of the Liaoning Clawed Salamander’to include the four-county boundary area.

关键词： Onychodactylus zhaoermii population genetics high-throughput sequencing historical demography maxent model

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Origins,population histories and multiple refugia of two Eremias lizards in China,with comments on the evolutionary origin of viviparity within Eremias

Origins,population histories and multiple refugia of two Ere...

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第七届全国野生动物生态与资源保护学术研讨会

作者： Qun Zhao~(1,2,3),Chang-Li Liu~3,Xiang Ji~1 (1.Jiangsu Key Laboratory for Biodiversity and Biotechnology,College of Life Sciences, Nanjing Normal University,Nanjing 210046,Jiangsu,China 2.Hangzhou Key Laboratory for Animal Adaptation and Evolution,School of Life Sciences,Hangzhou Normal University, Hangzhou 310036,Zhejiang,China 3.College of Biotechnology and Pharmaceutical Engineering,West Anhui University,Lu’an 237012,Anhui,China)

We sequenced partial mitochondrial DNA from ND4 gene for 128 individuals of E.argus from nine localities,and for 46 individuals of E.brenchleyi from five localities,in central and northern parts of China,to assess pop... 详细信息

关键词： Eremias lizards Mitochondrial DNA Vicariance Origin Colonization historical demography Multiple refugia

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Phylogeography of the South China field mouse(Apodemus draco)on the southeastern margin of the Tibetan Plateau reveals high genetic diversity and two glacial refugia

Phylogeography of the South China field mouse(Apodemus draco...

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2012年中国西部动物学首届学术研讨会

作者：范振鑫刘少英刘洋张修月岳碧松四川大学生命科学学院四川省林业科学研究院

The southeastern margin of the Tibetan Plateau(SEMTP)is a particularly interesting region due to its topographic complexity and unique geologic history,but phylogeographic studies that focus on this region are rare.In this study,we investigated the phylogeography of the South China field mouse,Apodemus draco,in order to assess the role of geologic and climatic events on the Tibetan Plateau in shaping its genetic structure.We sequenced mitochondrial cytochrome b(cyt b)sequences in 103 individuals from 47 sampling sites.In addition,23 cyt b sequences were collected from GenBank for analyses.Phylogenetic,demographic and landscape genetic methods were conducted.Seventy-six cyt b haplotypes were found and the genetic diversity was extremely high(π=0.0368;h=0.989).Five major evolutionary clades,based on geographic locations,were identified.Demographic analyses implied subclade 1A and subclade 1B experienced population expansions at about 0.052-0.013 Mya and 0.014-0.004 Mya,respectively.The divergence time analysis showed that the split between clade 1 and clade 2 occurred 0.26 Mya,which fell into the extensive glacial period(EGP,0.5-0.17 Mya).The divergence times of other main clades(2.20-0.55 Mya)were congruent with the periods of the Qingzang Movement(3.6-1.7 Mya)and the Kun-Huang Movement(1.2-0.6 Mya),which were known as the most intense uplift events in the Tibetan Plateau.Our study supported the hypothesis that the SEMTP was a large late Pleistocene refugium,and further inferred that the Gongga Mountain Region and Hongya County were glacial refugia for A.draco in clade 1.We hypothesize that the evolutionary history of A.draco in the SEMTP primarily occurred in two stages.First,an initial divergence would have been shaped by uplift events of the Tibetan Plateau.Then,major glaciations in the Pleistocene added complexity to its demographic history and genetic structure.

关键词： Tibetan Plateau Gongga Mountain genetic diversity historical demography geologic events glacial refugia

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