Genetic Diversity of Goby Rhinogobius giurinus in the Fragmented Habitat in Nanpan River
DING Xuemei1,2, YAN Yuehui1,2, LI Qiang2, LUO Xu1, TANG Lizhou2
1. Key Laboratory for Conserving Wildlife with Small Populations in Yunnan Province, Southwest Forestry University, Kunming 650224, China; 2. Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing 655011, China
Abstract：Multiple water conservancy facilities and the associated lakes result in fragmented habitats in Nanpan River areas. We investigated the effect of fragmented habitats on the population genetic diversity of goby Rhinogobius giurinus. Since the goby has never been domesticated because of low economic value, this species is suitable for evaluating the effect of fragmented habitats. Mitochondrial COXⅠgene and Cyt b gene were used as molecular markers for the analysis of the genetic diversity and differentiation of goby populations from 13 plateau lakes of the Nanpan River. In the COXⅠgene, Cytb gene and combined mitochondrial DNA sequences, 27, 22, 49 variable sites and 11, 13, 26 haplotypes were observed among 194 individuals belonging to 13 goby populations, with average haplotype diversity of 0.691, 0.813, 0.881 and nucleotide diversity of 0.0053, 0.0060, 0.0056. The phylogenetic trees showed that 13 populations of goby were divided into two branches without obvious phylogeographic pattern. The analysis of molecular variance (AMOVA) showed that the genetic differentiation mainly occurred among populations. Overall, it was found that the goby in the fragmented habitats of Nanpan River had high genetic diversity as well as obvious genetic differentiation. Probably due to strong adaptability and stable effective population size, the goby displayed a high level of genetic diversity. Besides, both weak migration ability and fragmented habitats led to significant genetic differentiation of the goby.
[1]Wilson M C, Chen X Y, Corlett R T, et al. Erratum to: habitat fragmentation and biodiversity conservation: key findings and future challenges [J]. Landscape Ecology,2016,31(2):229-230. [2]Caizergues A, Rätti O, Helle P, et al. Population genetic structure of male black grouse (Tetrao tetrix L.) in fragmented vs. continuous landscapes [J]. Molecular Ecology,2003,12(9):2297-2305. [3]Rivera-Ortiz F A, Aguilar R, Arzmendi M D C, et al. Habitat fragmentation and genetic variability of tetrapod populations [J]. Animal Conservation,2015,18(3):249-258. [4]Khimoun A, Eraud C, Ollivier A, et al. Habitat specialisation predicts genetic response to fragmentation in tropical birds [J]. Molecular Ecology,2016,25(16):3831-3844. [5]Roth S, Jehle R. High genetic diversity of common toad (Bufo bufo) populations under strong natural fragmentation on a Northern archipelago [J]. Ecology and Evolution,2016,6(6):1626-1636. [6]Young A G. Genetics, demography and viability of fragmented populations[M]. Cambridge:Cambridge University Press,2000:36-53. [7]Yumnam B, Jhala Y V, Qureshi Q, et al. Prioritizing tiger conservation through landscape genetics and habitat linkages [J]. PLoS One,2014,9(11):e111207. [8]Laurance W F. Ecological correlates of extinction proneness in Australian tropical rain forest mammals [J]. Conservation Biology,1991,5(1):79-89. [9]Henle K, Davies K F, Kleyer M, et al. Predictors of species sensitivity to fragmentation [J]. Biodiversity & Conservation,2004,13(1):207-251. [10]冯启新. 珠江水系鱼类及其特点的初步研究[J]. 淡水渔业,1985(3):14-22. [11]陈宜瑜,曹文宣,郑慈英. 珠江的鱼类区系及其动物地理区划的讨论[J]. 水生生物学报,1986,10(3):228-236. [12]司从利. 珠江水系鳜鱼的遗传多样性研究[D]. 广州: 暨南大学,2012:43-49. [13]杨子拓. 珠江流域三种鲌亚科鱼类的遗传结构及遗传多样性分析[D]. 广州:华南农业大学,2016:95-107. [14]帅方敏,李新辉,刘乾甫,等. 珠江水系鱼类群落多样性空间分布格局[J]. 生态学报,2017,37(9):3182-3192. [15]陈艳,黄晓霞,王琇瑜. 珠江流域河流生境破碎化对鱼类物种多样性的影响[J]. 云南地理环境研究,2017,29(3):62-68. [16]于国荣. 大坝工程对河流水文水力过程的影响研究[D]. 南京: 河海大学,2007:1-10. [17]王伟营,杨君兴,陈小勇. 云南境内南盘江水系鱼类种质资源现状及保护对策[J]. 水生态学杂志,2011,32(5):19-29. [18]Rutter C. A collection of fishes obtained in Swatow,China,by Miss Adele M. fielde [J].Proceedings of the Academy of Natural Sciences of Philadelphia,1897,49:56-90. [19]郑慈英. 珠江鱼类志[M]. 北京:科学出版社,1989:348-354. [20]伍汉霖,钟俊生. 中国动物志,硬骨鱼纲,鲈形目(五),虾虎鱼亚目[M]. 北京:科学出版社,2008:594-598. [21]Tamada K. Egg and clutch sizes of a goby Rhinogobius giurinus, in the Aizu River, Kii Peninsula, Japan [J]. Ichthyological Research,2005,52(4):392-395. [22]戚文华,郭延蜀,李雪芝,等. 子陵栉鰕虎鱼繁殖特性、胚胎及仔鱼的发育[J]. 动物学杂志,2008,43(5):13-24. [23]曲瑾. 白洋淀子陵吻虾虎鱼生物学特性的研究[D]. 保定:河北大学,2014:20-32. [24]谢凌鹏. 梁子湖子陵吻鰕虎鱼消化道组织学和线粒体基因组研究[D]. 武汉:华中农业大学,2016:14-33. [25]Guo Z Q, Liu J S, Lek S, et al. Age,growth and population dynamics of two congeneric and invasive gobies,Rhinogobius giurinus and R. cliffordpopei (Actinopterygii,Gobiidae) in a plateau lake,southwestern China [J]. Hydrobiologia,2016,763(1):69-79. [26]Xie L P, Yang X F, Ma Z H, et al. Complete mitochondrial genome of Rhinogobius giurinus (Perciformes: Gobiidae: Gobionellinae) [J]. Mitochondrial DNA,2015,26(2):321-322. [27]Chen W T, Ma X H, Shen Y J, et al. The fish diversity in the upper reaches of the Salween River,Nujiang River,revealed by DNA barcoding [J]. Scientific Reports,2015,5:17437. [28]Yamasaki Y Y, Nishida M, Suzuki T, et al. Phylogeny,hybridization,and life history evolution of Rhinogobius gobies in Japan,inferred from multiple nuclear gene sequences [J]. Molecular Phylogenetics and Evolution,2015,90:20-33. [29]Ju Y M, Wu J H, Kuo P H, et al. Mitochondrial genetic diversity of Rhinogobius giurinus,(teleostei: Gobiidae) in East Asia [J]. Biochemical Systematics and Ecology,2016,69:60-66. [30]郑新. 中国子陵吻虾虎鱼和小黄黝鱼的种群结构及遗传多样性分析[D]. 上海:上海海洋大学,2016:1-26. [31]Kyte J, Doolittle R F. A simple method for displaying the hydropathic character of a protein[J]. Journal of Molecular Biology,1982,157(1):105-132. [32]Anson E L, Myers E W. ReAligner: a program for refining DNA sequence multi-alignments [J]. Journal of Computational Biology,1997,4(3):369-383. [33]Tamura K, Stecher G, Peterson D, et al. MEGA 6: molecular evolutionary genetics analysis version 6.0 [J].Molecular Biology and Evolution,2013,30(12):2725-2729. [34]Rozas J, Rozas R. DnaSP, DNA sequence polymorphism: an interactive program for estimating population genetics parameters from DNA sequence data[J]. Biosciences Cabios,1995,11(6):621-625. [35]Nylander J A A. Mrmodeltest v2 Program distributed by the author[R].Uppsala:Uppsala University,Evolutionary Biology Centre,2004. [36]Huelsenbeck J P, Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees[J]. Bioinformatics,2001,17(8):754-755. [37]Weir B S. Statistics in genetics(book reviews: genetic data analysis. methods for discrete population genetic data) [J]. Science,1990,250(4980):575. [38]Cavalli-Sforza L L, Minch E. Forster P, et al. Paleolithic and Neolithic lineages in the European mitochondrial gene pool[J]. American Journal of Human Genetics,1997,61(1):247-254. [39]Excoffier L, Lischer H E L. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows[J]. Molecular Ecology Resources,2010,10(3):564-567. [40]Excoffier L, Smouse P E, Quattro J M. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data [J]. Genetics,1992,131(2):479-491. [41]Bohonak A J. IBD (isolation by distance): a program for analyses of isolation by distance[J]. Journal of Heredity,2002,93(2):153-154. [42]Conrad M. Adaptability: the significance of variability from molecule to ecosystem [M]. New York:Plenum Press,1983. [43]Pertoldi C, Bijlsma R, Loeschcke V. Conservation genetics in a globally changing environment: present problems,paradoxes and future challenges[J]. Biodiversity and Conservation,2007,16(14):4147-4163. [44]赵良杰. 大眼华鳊遗传多样性和亲缘地理学研究[D]. 上海:上海海洋大学,2012:10-23. [45]韩虎峰,代应贵.珠江水系光唇裂腹鱼可渡河种群mtDNA D-loop序列多态性分析[J].中国水产科学,2010,17(1):143-149. [46]Cook W M, Lane K T, Foster B L, et al. Island theory,matrix effects and species richness patterns in habitat fragments [J]. Ecology Letters,2002,5(5):619-623. [47]Faulks L K, Gilligan D M, Beheregaray L B. Evolution and maintenance of divergent lineages in an endangered freshwater fish,Macquaria australasica [J]. Conservation Genetics,2010,11(3):921-934. [48]俞文灏,吴保锋,刘勇波. 生境破碎化对动植物遗传多样性的影响研究进展[J]. 应用与环境生物学报,2019,25(3):743-749. [49]Allentoft M, O'Brien J. Global amphibian declines,loss of genetic diversity and fitness: a review[J]. Diversity,2010,2(1):47-71. [50]严云志,陈毅峰. 抚仙湖子陵吻鰕虎鱼繁殖策略的可塑性研究[J]. 水生生物学报,2007,31(3):414-418. [51]Bijlsma R, Loeschcke V. Genetic erosion impedes adaptive responses to stressful environments[J]. Evolutionary Applications,2012,5(2):117-129. [52]Fraser D J, Debes P V, Bernatchez L, et al. Population size,habitat fragmentation,and the nature of adaptive variation in a stream fish [J].Proceedings of the Royal Society B: Biological Sciences,2014,281(1790):370. [53]刘伟,代应贵,袁振兴,等. 基于线粒体DNA D-loop的都柳江鲇形目两种经济鱼类种群遗传多样性研究[J]. 水产科学,2016,35(4):386-392. [54]方冬冬,顾钱洪,周传江,等. 淮河源区餐鱼群体遗传多样性研究[J]. 水产科学,2018,37(5):665-673. [55]吴旭,严美姣,李钟杰. 长江中下游不同地理种群鳜遗传结构研究[J]. 水生生物学报,2010,34(4):843-850. [56]徐丹丹,黄燕,曾庆,等. 基于mtDNACyt b基因序列的我国不同水系野生鲇种群遗传多样性与种群历史分析[J]. 水产学报,2017,41(10):1489-1499. [57]Coleman R, Gauffre B, Pavlova A, et al. Artificial barriers prevent genetic recovery of small isolated populations of a low-mobility freshwater fish[J]. Heredity,2018,120(6):515-532. [58]Stebbins G L, Wright S. Evolution and the genetics of populations. Volume 3. Experimental results and evolutionary deductions [J]. Systematic Botany,1977,2(4):347. [59]Ward R D, Woodwark M, Skibinski D O F. A comparison of genetic diversity levels in marine,freshwater,and anadromous fishes[J]. Journal of Fish Biology,1994,44(2):213-232. [60]Ma G C, Tsao H S, Lu H, et al. AFLPs congruent with morphological differentiation of Asian common minnow Zacco (Pisces: Cyprinidae) in Taiwan [J]. Zoologica Scripta,2006,35(4):341-351. [61]Wang C Y, Yu X M, Tong J G. Microsatellite diversity and population genetic structure of redfin culter (Culter erythropterus) in fragmented lakes of the Yangtze River[J]. Hydrobiologia,2007,586(1):321-329. [62]Gouskov A, Reyes M, Wirthner-Bitterlin L, et al. Fish population genetic structure shaped by hydroelectric power plants in the upper Rhine catchment[J]. Evolutionary Applications,2016,9(2):394-408. [63]Gouskov A, Vorburger C. River fragmentation and fish population structure: a comparison of three Swiss midland rivers[J]. Freshwater Science,2016,35(2):689-700. [64]吴倩倩,梁宗锁,刘佳佳,等. 中国生境片段化对生物多样性影响研究进展[J]. 生态学杂志,2017,36(9):2605-2614. [65]Frankham R. Genetic rescue of small inbred populations: meta-analysis reveals large and consistent benefits of gene flow[J]. Molecular Ecology,2015,24(11):2610-2618.
2020, Vol. 39 
