Abstract
Knowledge of population genetic structure plays an important role in fisheries management. In this research, Inter-Simple-Sequence-Repeat (ISSR) markers were employed to evaluate the genetic structure of Japanese sardinella (Sardinella zunasi) populations in the Northwest Pacific. Eighty seven individuals from 5 locations were screened using 4 highly polymorphic primers. A total of 173 polymorphic loci were detected out of 191 loci amplified. Small but significant genetic differentiation was detected between the Chinese and Japanese populations by both AMOVA and pairwise F ST analyses, which was further supported by cluster analysis. We consider that climate change during glaciations should be responsible for the genetic differentiation. Isolation by geographic distance among populations was observed, indicating that the distance might also lead to the genetic differentiation. However, no genetic structure was found within the populations off both the Chinese and Japanese coasts, indicating a high-level along-coast gene flow, which might result from ocean current transport and common ground for over-wintering.
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Avise, J. C., Helfman, G. S., Saunders, N. C., and Hales, L. S., 1986. Mitochondrial DNA differentiation in North Atlantic eels: population genetic consequences of an unusual life history pattern. Proceedings of the National Academy of Sciences of the United States of America, 83: 4350–4354.
Avise, J. C., 2000. Phylogeography: the history and formation of species. Harvard University Press, Cambridge, USA, 135–211.
Birky, C. W. Jr., Maruyama, T., and Fuerst, P., 1983. An approach to population and evolutionary genetic theory for genes in mitochondria and chloroplasts and some results. Genetics, 103: 513–527.
Bornet, B., Muller, C., Paulus, F., and Branchard, M., 2002. Highly informative nature of inter simple sequence repeat (ISSR) sequences amplified using tri- and tetra-nucleotide primers from DNA of cauliflower (Brassica oleracea var. botrytis L.). Genome, 45: 890–896.
Bowen, B. W., Meylan, A. B., Ross, J. P., Limpus, C. J., Balazs, G. H., and Avise, J. C., 1992. Global population structure and natural history of the green turtle (Chelonia mydas) in terms of matriarchal phylogeny. Evolution, 46: 865–881.
Chen, D. G., 1991. Fisheries Ecology of Yellow Sea and Bohai Bay. Marine Press, Beijing, China, 171–175 (in Chinese).
Chen, Y., Liggins, G., Graham, K., and Kenelley, S., 1997. Modelling length-dependent offshore distribution of redfish, Centroberyx affinis. Fisheries Research, 29: 39–54.
Dou, C. Y., Ye, Z. J., Gao, T. X., Zhang, X. M., Ren, Y. P., and Lou, D., 2002. Study on reproduction biology of Sardinella zunasi Bleeker in the coastal waters of Qingdao. Transactions of Oceanology and Limnology, 2: 24–32 (in Chinese with English abstract).
Dynesius, M. and Jansson, R., 2000. Evolutionary consequences of changes in species’ geographical distributions driven by Milankovitch climate oscillations. Proceedings of the National Academy of Sciences of the United States of America, 97: 9115–9120.
Excoffier, L., Laval, G., and Schneider, S., 2005. Arlequin (version 3.0): An integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1: 47–50.
Gao, T. X., 1993. Age, growth and mortality of scaled sardine (Harengula zunasi) in the coastal waters of Qingdao. Transactions of Oceanology and Limnology, 4: 86–92 (in Chinese with English abstract).
Gao, T. X. and Yang, T. Y., 2008. Comparison of morphologi cal characteristics of Japanese sardinella Sardinella zunasi in China and Japan. Periodical of Ocean University of China, 38 (2): 201–206 (in Chinese with English abstract).
Han, Z. Q., Gao, T. X., Yanagimoto, T., and Sakurai, Y., 2008. Deep phylogeographic break among white croaker Pennahia argentata (Sciaenidae, Perciformes) populations in the Northwestern Pacific. Fisheries Sciences, 74: 770–780.
Hewitt, G. M., 2000. The genetic legacy of the Quaternary ice ages. Nature, 405: 907–913.
Hutchings, J. A. and Myers, R. A., 1994. What can be learned from the collapse of a renewable resource? Atlantic cod, Gadus morhua, of Newfoundland and Labrador. Canadian Journal of Fisheries and Aquatic Sciences, 51: 2126–2146.
Hutchings, J., 1996. Spatial and temporal variation in the density of northern cod and a review of hypotheses for the stock’s collapse. Canadian Journal of Fisheries and Aquatic Sciences, 53: 943–962.
Hutchings, J., 2000. Collapse and recovery of marine fishes. Nature, 406: 882–885.
Kenchington, E., 2003. The effects of fishing on species and genetic diversity. In: Responsible Fisheries and in the Marine Ecosystem. Sinclair, M. and Valdimarsson, G., eds., Food and Agriculture Organization of the United Nations, CABI Publishing, Rome, Italy, 235–253.
Konate, I., Berraho, E. B., and Filali-Maltouf, A., 2009. Inter-simple sequence repeat markers variation among natural accessions of Moroccan carob tree (Ceratonia siliqua). International Journal of Agriculture and Biology, 11: 168–172.
Kong, L. B., Sun, J. R., Yang, D. L., and Liu, C. A., 1996. Comparison research on eggs and larvae of Harengula zunasi Bleeker and Clupanodon punctatus (Temminck and Schlegel) in Bohai Bay. Oceanologia et Limnologia Sinica, 27(2): 169–178 (in Chinese with English abstract).
Langella, O., 2007. Populations 1.2.30: population genetic soft-ware (individuals or populations distances, phylogenetic trees). http://bioinformatics.org/~tryphon/populations/.
Li, N. S., Zhao, S. L., and Wasiliev, B., 2000. Geology of Marginal Sea in the Northwest Pacific. Heilongjiang Education Press, Harbin, China, 1–555 (in Chinese).
Liu, J. Z. and Cordes, J. F., 2004. DNA marker technologies and their applications in aquaculture genetic. Aquaculture, 238: 1–37.
Liu, J. X., Gao, T. X., Zhuang, Z. M., Jin, X. S, Yokogawa, K., and Zhang, Y. P., 2006a. Late Pleistocene divergence and subsequent population expansion of two closely related fish species, Japanese anchovy (Engraulis japonicus) and Australian anchovy (Engraulis australis). Molecular Phylogenetics and Evolution, 40: 712–723.
Liu, J. X., Gao, T. X., Yokogawa, K., and Zhang, Y. P., 2006b. Differential population structuring and demographic history of two closely related fish species, Japanese sea bass (Latolabrax japonicus) and spotted sea bass (Lateolabrax maculatus) in Northwestern Pacific. Molecular Phylogenetics and Evolution, 39: 799–811.
Liu, J. X., Gao, T. X., Wu, S. F., and Zhang, Y. P., 2007. Pleistocene isolation in the Northwestern Pacific marginal seas and limited dispersal in a marine fish, Chelon haematocheilus (Temminck and Schlegel, 1845). Molecular Ecology, 16: 275–288.
Liu, Y. G., Yu, Z. G., Bao, B. L., Sun, X. Q., Shi, Q. L., and Liu, L. X., 2009. Population genetics studies of half-smooth tongue sole Cynoglossus semilaevis using ISSR markers. Biochemical Systematics and Ecology, 36: 821–827.
Merril, C. R., Switzer, R. C., and Van Keuren, M. L., 1979. Trace polypeptides in cellular extracts and human body fluid detected by two-dimensional electrophoresis and a highly sensitive silver stain. Proceedings of the National Academy of Sciences of the United States of America, 76: 4335–4339.
Mossman, C. A. and Waser, P. M., 1999. Genetic detection of sex-biased dispersal. Molecular Ecology, 8: 1063–1067.
Nei, M., 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 89: 583–590.
Nei, M. and Li, W. H., 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proceedings of the National Academy of Sciences of the United States of America. 76: 5269–5273.
Nkongolo, K. K., Michael, P., and Demers, T., 2005. Application of ISSR, RAPD, and cytological markers to the certification of Picea mariana, P. glauca, and P. engelmannii trees, and their putative hybrids. Genome, 48: 302–311.
Pazza, R., Kavalco, K. F., Prioli, S. M. A. P., Prioli, A. J., and Bertollo, L. A. C., 2007. Chromosome polymorphism in Astyanax fasciatus (Teleostei, Characidae), Part 3: Analysis of the RAPD and ISSR molecular markers. Biochemical Systematics and Ecology, 35(12): 843–851.
Peakall, R. and Smouse, P. E., 2006. GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6: 288–295.
Saito, T., Washio, S., Dairiki, K., Shimojo, M., Itoi, S., and Sugita, H., 2008. High gene flow in Girella punctata (Perciformes, Kyphosidae) among the Japanese Islands inferred from partial sequence of the control region in mitochondrial DNA. Journal of Fish Biology, 73(8): 1937–1945.
Slatkin, M., 1993. Isolation by distance in equilibrium and non-equilibrium populations. Evolution, 47: 264–279.
Tudela, S., Garca-Marn, J. L., and Pla, C., 1999. Genetic structure of the European anchovy, Engraulis encrasicolus, in the north-west Mediterranean. Journal of Experimental Marine Biology and Ecology, 234: 95–109.
Tzeng, T. D., Yeh, S. Y., and Hui, C. F., 2004. Population genetic structure of the Kurume prawn (Penaeus japonicus) in East Asia inferred from mitochondrial DNA sequences. ICES Journal of Marine Science, 61: 913–920.
Utter, F. M., 1991. Biochemical genetics and fishery management: an historical perspective. Journal of Fish Biology, 39: 1–20.
Wagner, C. V. and Baker, A. J., 1990. Association between mitochondrial DNA and morphological evolution in Canada geese. Journal of Molecular Evolution, 31: 373–382.
Walters, C. J., 1998. Evaluation of quota management policies for developing fisheries. Canadian Journal of Fisheries and Aquatic Sciences, 55(12): 2691–2705.
Wang, P. X., 1999. Response of Western Pacific marginal seas to glacial cycles: paleoceanographic and sedimentological features. Marine Geology, 156: 5–39.
Wang, M. L., Zhang, X. M., Yang, T. Y., Han, Z. Q., Yanagimoto, T., and Gao, T. X., 2008. Genetic diversity in the mtDNA control region and population structure in the Sardinella zunasi Bleeker. African Journal of Biotechnology, 7(24): 4384–4392.
Wenink, P. W., Baker, A. J., and Tilanus, M. G. J., 1994. Hypervariablecontrol-region-sequences reveal global population structuring in a long-distance migrant shorebird, the Dunlin (Calidris alpina). Proceedings of the National Academy of Sciences of the United States of America, 90: 94–98.
Whitehead, P. J. P., 1985. FAO Species Catalogue, Vol.7, Clupeoid fishes of the world (suborder Clupeioidei), an annotated and illustrated catalogue of the herrings, sardines, pilchards, sprats, shads, anchovies and wolf-herrings. Part 1 — Chirocentridae, Clupeidae and Pristigasteridae. FAO Fisheries Synopsis, Rome, 125(7/1): 1–303.
Yamada, U., Tokimura, M., Horikawa, H., and Nakabo, T., 2007. Fishes of the East China Sea and Yellow Sea. Tokai University Press, Hatano, Japan (in Japanese).
Yang, T. Y., Guan, J. Y., and Chen, H. X., 2008. Genetic diversity of three geographical populations of Squaliobarbus curriculus revealed by ISSR analysis. Acta Hydrobiologyca Sinica., 23(4): 529–533 (in Chinese with English abstract).
Yeh, F. C., Yang, R. C., and Boyle, T., 1999. POPGENE VERSION 1.31: Microsoft Window-based free Software for Population Genetic Analysis. ftp://ftp.microsoft.com/Softlib/HPG-L.EXE.
Zardi, G. I., McQuaid, C. D., Teske, P. R., and Barker, N. P., 2007. Unexpected genetic structure of mussel populations in South Africa: indigenous Perna perna and invasive Mytilus galloprovincialis. Marine Ecology Progress Series, 337: 135–144.
Zietkiewicz, E., Rafalski, A., and Labuda, D., 1994. Genome fingerprinting by simple sequence repeat (SSR) — anchored polymerase chain reaction amplification. Genomics, 20: 176–183.
Zhang, S. Y., 2001. Fauna Sinica, Osteichthyes, Acipenseriformes Elopiformes Clupeiformes Gonorhychiformes. Science Press, Beijing, China, 78–80 (in Chinese).
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Ying, Y., Gao, T. & Miao, Z. Genetic differentiation of Japanese sardinella (Sardinella zunasi) populations in the Northwest Pacific revealed by ISSR analysis. J. Ocean Univ. China 10, 417–424 (2011). https://doi.org/10.1007/s11802-011-1830-5
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DOI: https://doi.org/10.1007/s11802-011-1830-5