High genetic diversity and low-population differentiation in the Patagonian sprat (Sprattus fuegensis) based on mitochondrial DNA

References

• Aranis A, Meléndez R, Germán P, Cerna TF. 2007. Sprattus fuegensis en aguas interiores de Chiloé, Chile (Osteichthyes: Clupeiformes:Clupeidae). Gayana (Concepc.). 71:102–113.
   Google Scholar
• Atarhouch T, Rüber L, Gonzalez EG, Albert EM, Rami M, Dakkak A, Zardoya R. 2006. Signature of an early genetic bottleneck in a population of Moroccan sardines (Sardina pilchardus). Mol Phylogenet Evol. 39:373–383.
   PubMed Web of Science ®Google Scholar
• Avise JC. 2000. Phylogeography: the history and formation of species. Cambridge: Harvard University Press.
   Google Scholar
• Bernatchez L, Guyomard R, Bonhomme F. 1992. DNA sequence variation of the mitochondrial control region among geographically and morphologically remote European brown trout Salmo trutta populations. Mol Ecol. 1:161–173.
   PubMed Web of Science ®Google Scholar
• Bustos CA, Landaeta MF, Balbontín F. 2008. Efectos ambientales sobre la variabilidad espacial del ictioplancton de Chile austral durante noviembre de 2005. Rev Chilena Hist Natural. 81:205–219.
   Google Scholar
• Canales-Aguirre CB, Ferrada-Fuentes S, Galleguillos R, Hernández CE. 2016. Genetic structure in a small pelagic fish coincides with a marine protected area: seascape genetics in Patagonian fjords. PLoS One. 11:1–23.
   Web of Science ®Google Scholar
• Canales-Aguirre CB, Ferrada S, Hernández CE, Galleguillos R. 2010. Population structure and demographic history of Genypterus blacodes using microsatellite loci. Fish Res. 106:102–106.
   Web of Science ®Google Scholar
• Cárdenas L, Silva AX, Magoulas A, Cabezas J, Poulin E, Ojeda FP. 2009. Genetic population structure in the Chilean jack mackerel, Trachurus murphyi (Nichols) across the South-eastern Pacific Ocean. Fish Res. 100:109–115.
   Web of Science ®Google Scholar
• Ceballos SG, Lessa EP, Victorio MF, Fernández DA. 2012. Phylogeography of the sub-Antarctic notothenioid fish Eleginops maclovinus: evidence of population expansion. Mar Biol. 159:499–505.
   Web of Science ®Google Scholar
• Clark PU, Dyke AS, Shakun JD, Carlson AE, Clark J, Wohlfarth B, Mitrovica JX, Hostetler SW, McCabe AM. 2009. The Last Glacial Maximum. Science. 325:710–714.
   PubMed Web of Science ®Google Scholar
• Cousseau MB. 1982. Revisión taxonómica y análisis de los caracteres morfométricos y:merísticos de la sardina f ueguina, Sprattus fuegensis (Jenyns, 1842) (Pisces, Clupeidae). Rev Invest Desarrollo Pesquero. 3:77–94.
   Google Scholar
• Darriba D, Taboada GL, Doallo R, Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 9:772.
   PubMed Web of Science ®Google Scholar
• DaSilva JL, Anderson JB, Stravers J. 1997. Seismic facies changes along a nearly continuous 24° latitudinal transect: the fjords of Chile and the northern Antarctic Peninsula. Mar Geol. 143:103–123.
   Web of Science ®Google Scholar
• Debes PV, Zachos FE, Hanel R. 2008. Mitochondrial phylogeography of the European sprat (Sprattus sprattus L., Clupeidae) reveals isolated climatically vulnerable populations in the Mediterranean Sea and range expansion in the northeast Atlantic. Mol Ecol. 17:3873–3888.
   PubMed Web of Science ®Google Scholar
• Donaldson KA, Wilson RR. 1999. Amphi-panamic geminates of snook (Percoidei: Centropomidae) provide a calibration of the divergence rate in the mitochondrial DNA control region of fishes. Mol Phylogenet Evol. 13:208–213.
   PubMed Web of Science ®Google Scholar
• Drummond AJ, Ho SYW, Phillips MJ, Rambaut A. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4:e88.
   PubMed Web of Science ®Google Scholar
• Drummond AJ, Suchard MA, Xie D, Rambaut A. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol. 29:1969–1973.
   PubMed Web of Science ®Google Scholar
• Evans KL, Gaston KJ. 2005. Can the evolutionary-rates hypothesis explain species-energy relationships? Funct Ecol. 19:899–915.
   Web of Science ®Google Scholar
• Excoffier L, Lischer HEL. 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour. 10:564–567.
   PubMed Web of Science ®Google Scholar
• Ferrada S, Hernández K, Montoya R, Galleguillos R. 2002. Estudio poblacional del recurso anchoveta (Engraulis ringens Jenyns 1842) (Clupeiformes, Engraulidae), mediante análisis de ADN. Gayana (Concepc.). 66:243–248.
   Google Scholar
• Fréon P, Cury P, Shannon L, Roy C. 2005. Sustainable exploitation of small pelagic fish stocks challenged by environmental and ecosystem changes: a review. Bull Mar Sci. 76:385–462.
   Web of Science ®Google Scholar
• Fu YX. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics. 147:915–925.
   PubMed Web of Science ®Google Scholar
• Galleguillos R, Canales-Aguirre CB, Ferrada S. 2012a. Genetic variability in jack mackerel (Trachurus murphyi): new SSRs loci and application. Gayana. 76:58–62.
   Web of Science ®Google Scholar
• Galleguillos R, Ferrada-Fuentes S, Canales-Aguirre CB, Hernández CE, Oliva ME, González MT, Cubillos L, Niklitschek E, Toledo P, Jordán CC. 2012b. Determinación de unidades poblacionales de sardina austral entre la X y XII regiones de Chile. Final Report FIP No 2010-17.
   Google Scholar
• Galleguillos R, Troncoso L, Monsalves J, Oyarzun C. 1997. Diferenciación poblacional en la sardina chilena Strangomera bentincki (Pisces: Clupeidae) análisis genético de variabilidad proteínica. Rev Chilena Hist Natural. 70:351–361.
   Google Scholar
• Goodman SN. 1999. Toward evidence-based medical statistics. 2: the Bayes factor. Ann Intern Med. 130:1005–1013.
   PubMed Web of Science ®Google Scholar
• Grant WAS, Bowen BW. 1998. Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J Hered. 89:415–426.
   Web of Science ®Google Scholar
• Grant WS, Liu M, Gao T, Yanagimoto T. 2012. Limits of Bayesian skyline plot analysis of mtDNA sequences to infer historical demographies in Pacific herring (and other species). Mol Phylogenet Evol. 65:203–212.
   PubMed Web of Science ®Google Scholar
• Hansen JE. 1999. Estimación de parámetros poblacionales del efectivo de sardina fueguina (Sprattus fuegensis) de la costa continental Argentina. INIDEP InformeTécnico 27, Mar del Plata, Argentina.
   Google Scholar
• Hewitt G. 2000. The genetic legacy of the Quaternary ice ages. Nature. 405:907–913.
   PubMed Web of Science ®Google Scholar
• Hollin JT, Schilling DH. 1981. Late Wisconsin–Weichselian mountain glaciers and small ice caps. In: Denton GH, Hughes TJ, editors. The last great ice sheets. New York: Wiley; p. 179–220.
   Google Scholar
• Hulton NRJ, Purves RS, McCulloch RD, Sugden DE, Bentley MJ. 2002. The last glacial maximum and deglaciation in southern South America. Quat Sci Rev. 21:233–241.
   Web of Science ®Google Scholar
• Lambeck K, Esat TM, Potter E-K. 2002. Links between climate and sea levels for the past three million years. Nature. 419:199–206.
   PubMed Web of Science ®Google Scholar
• Lamy F, Kaiser J. 2009. Glacial to Holocene paleoceanographic and continental paleoclimate reconstructions based on ODP Site 1233/GeoB 3313 off southern Chile. In: Vimeux F, Sylvestre F, Khodri M, editors. Past climate variability in South America and surrounding regions developments in paleoenvironmental research. Dordrecht: Springer Netherlands; p. 129–156.
   Google Scholar
• Lamy F, Kaiser J, Ninnemann U, Hebbeln D, Arz HW, Stoner J. 2004. Antarctic timing of surface water changes off Chile and Patagonian ice sheet response. Science. 304:1959–1962.
   PubMed Web of Science ®Google Scholar
• Landaeta MF, Bustos CA, Palacios-Fuentes P, Rojas P, Balbontín F. 2011. Distribución del ictioplancton en la Patagonia austral de Chile: potenciales efectos del deshielo de Campos de Hielo Sur. Lat Am J Aquat Res. 39:236–249.
   Web of Science ®Google Scholar
• Landaeta MF, López G, Suárez-Donoso N, Bustos CA, Balbontín F. 2012. Larval fish distribution, growth and feeding in Patagonian fjords: potential effects of freshwater discharge. Environ Biol Fishes. 93:73–87.
   Web of Science ®Google Scholar
• Leal E, Canales TM, Aranis A, Gonzáles M. 2011. Actividad reproductiva y longitud de madurez de sardina austral Sprattus fuegensis en el mar interior de Chiloé, Chile. Rev Biol Marina Oceanografía. 46:43–51.
   Google Scholar
• Lee W-J, Conroy J, Howell WH, Kocher TD. 1995. Structure and evolution of teleost mitochondrial control regions. J Mol Evol. 41:54–66.
   PubMed Web of Science ®Google Scholar
• Lemey P, Rambaut A, Welch JJ, Suchard MA. 2010. Phylogeography takes a relaxed random walk in continuous space and time. Mol Biol Evol. 27:1877–1885.
   PubMed Web of Science ®Google Scholar
• Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 25:1451–1452.
   PubMed Web of Science ®Google Scholar
• Liu J-X, Gao T-X, Zhuang Z-M, Jin X-S, Yokogawa K, Zhang Y-P. 2006. Late Pleistocene divergence and subsequent population expansion of two closely related fish species, Japanese anchovy (Engraulis japonicus) and Australian anchovy (Engraulis australis). Mol Phylogenet Evol. 40:712–723.
   PubMed Web of Science ®Google Scholar
• Liu J-X, Tatarenkov A, Beacham TD, Gorbachev V, Wildes S, Avise JC. 2011. Effects of Pleistocene climatic fluctuations on the phylogeographic and demographic histories of Pacific herring (Clupea pallasii). Mol Ecol. 20:3879–3893.
   PubMed Web of Science ®Google Scholar
• Martin AP, Palumbi SR. 1993. Body size, metabolic rate, generation time, and the molecular clock. Proc Natl Acad Sci U S A. 90:4087–4091.
   PubMed Web of Science ®Google Scholar
• McCulloch RD, Bentley MJ, Purves RS, Hulton NRJ, Sugden DE, Clapperton CM. 2000. Climatic inferences from glacial and palaeoecological evidence at the last glacial termination, southern South America. J Quat Sci. 15:409–417.
   Web of Science ®Google Scholar
• McMillan WO, Palumbi SR. 1997. Rapid rate of control-region evolution in Pacific butterflyfishes (Chaetodontidae). J Mol Evol. 45:473–484.
   PubMed Web of Science ®Google Scholar
• Meskendahl L, Herrmann J-P, Temming A. 2010. Effects of temperature and body mass on metabolic rates of sprat, Sprattus sprattus L. Mar Biol. 157:1917–1927.
   Web of Science ®Google Scholar
• Minin VN, Bloomquist EW, Suchard MA. 2008. Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics. Mol Biol Evol. 25:1459–1471.
   PubMed Web of Science ®Google Scholar
• Niklitschek E, Toledo P, Herna´ndez E, Nelson J, Soule M, Herranz C, Murillo C, Valenzuela X. 2009. Evaluación hidroacústica de pequeños pelágicos en aguas interiores de la X y XI regiones, año 2007. Final Report FIP No 2007-05.
   Google Scholar
• Ñiquen M, Bouchon M. 2004. Impact of El Niño events on pelagic fisheries in Peruvian waters. Deep Sea Res Part II: Top Stud Oceanogr. 51:563–574.
   Web of Science ®Google Scholar
• Ortlieb L, Escribano R, Follegati R, Zuñiga O, Kong I, Rodriguez L, Valdes J, Guzman N, Iratchet P. 2000. Recording of ocean-climate changes the last 2,000 years in a hypoxic marine environment off northern Chile (23oS). Rev Chilena Hist Natural. 73:221–242.
   Web of Science ®Google Scholar
• Pagel M, Meade A. 2004. A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data. Syst Biol. 53:571–581.
   PubMed Web of Science ®Google Scholar
• Pagel M, Meade A. 2005. Mixture models in phylogenetic inference. In: Gascuel O, editor. Mathematics of evolution and phylogeny. Oxford: Oxford University Press; p. 121–142.
   Google Scholar
• Pahnke K, Sachs JP. 2006. Sea surface temperatures of southern midlatitudes 0–160 kyr B. Paleoceanography 21:n/a. P. PA2003.
   Web of Science ®Google Scholar
• Palumbi SR. 1996. PCR and molecular systematics. In: Hillis D, Moritz C, Mable B, editors. Molecular systematics. Sunderland (MA): Sinauer Press.
   Google Scholar
• Porobić J, Canales-Aguirre CB, Ernst B, Galleguillos R, Hernández CE. 2013. Biogeography and historical demography of the Juan Fernández Rock Lobster, Jasus frontalis (Milne Edwards, 1837). J Hered. 104:223–233.
   PubMed Web of Science ®Google Scholar
• Rand DM. 1994. Thermal habit, metabolic rate and the evolution of mitochondrial DNA. Trends Ecol Evol. 9:125–131.
   PubMed Web of Science ®Google Scholar
• Rice WR. 1989. Analyzing tables of statistical TESTS. Evolution. 43:223–225.
   PubMed Web of Science ®Google Scholar
• Sánchez RP, Remeslo A, Madirolas A, de Ciechomski JD. 1995. Distribution and abundance of post-larvae and juveniles of the Patagonian sprat, Sprattus fuegensis, and related hydrographic conditions. Fish Res. 23:47–81.
   Web of Science ®Google Scholar
• Sernapesca. 2012. Anuario estadístico de pesca. Ministerio de Economía Fomento y Reconstruccioń. Santiago, Chile.
   Google Scholar
• Shirakova EN. 1978a. Contribution to the biology of Tierra del Fuego sprat Sprattus fuegensis (Jenyns, 1842). Biol Sea. 3:78–84.
   Google Scholar
• Shirakova EN. 1978b. Some biological features of Tierra del Fuego sprat. Soviet J Mar Biol. 4:697–702.
   Google Scholar
• Sugden DE, Bentley MJ, Fogwill CJ, Hulton NRj, Mcculloch RD, Purves RS. 2005. Late-Glacial glacier events in southernmost South America: a blend of “northern” and “southern” hemispheric climatic signals? Geogr Ann. 87:273–288.
   Google Scholar
• Valdés J, Ortlieb L, Gutierrez D, Marinovic L, Vargas G, Sifeddine A. 2008. 250 years of sardine and anchovy scale deposition record in Mejillones Bay, northern Chile. Prog Oceanogr. 79:198–207.
   Web of Science ®Google Scholar
• Vimeux F, Sylvestre F, Khodri M, editors. 2009. Past climate variability in South America and surrounding regions. Dordrecht: Springer Netherlands.
   Google Scholar
• Whitehead PJP. 1985. FAO species catalogue. Vol.7. Clupeoid fishes of the world. An annotated and illustrated catalogue of the herrings, sardines, pilchards, sprats, anchovies and wolf-herrings. Part 1 – Chirocentridae, Clupeidae and Pristigasteridae. FAO Fisheries Synopsis. 125:1–303.
   Google Scholar