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2016
R. X. Wu, Zhang, H. R., Niu, S. F., Zhai, Y., Liu, X. F., Wu, R. X., Zhang, H. R., Niu, S. F., Zhai, Y., and Liu, X. F., Development of polymorphic microsatellites for Sillago sihama based on next-generation sequencing and transferability to Sillago japonica, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS Research financially supported by the Special Fund for Agro-Scientific Research in the Public Interest of China (#201403008), the Fund of Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture, China (#FREU2015-05), the Project for Outstanding Young Teachers in Higher Education of Guangdong, China (#Yq2013093), and the National Natural Science Foundation of China (#31372532). REFERENCES Abdelkrim J, Robertson B, Stanton JA, Gemmell N, et al (2009). Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. Biotechniques 46: 185-192. http://dx.doi.org/10.2144/000113084 Addamo AM, García-Jiménez R, Taviani M, Machordom A, et al (2015). Development of microsatellite markers in the deep-sea cup coral Desmophyllum dianthus by 454 sequencing and cross-species amplifications in scleractinia order. J. Hered. 106: 322-330. http://dx.doi.org/10.1093/jhered/esv010 Allentoft M, Schuster SC, Holdaway R, Hale M, et al (2009). Identification of microsatellites from an extinct moa species using high-throughput (454) sequence data. Biotechniques 46: 195-200. http://dx.doi.org/10.2144/000113086 Benson G, et al (1999). Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 27: 573-580. http://dx.doi.org/10.1093/nar/27.2.573 Botstein D, White RL, Skolnick M, Davis RW, et al (1980). Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am. J. Hum. Genet. 32: 314-331. Boutin-Ganache I, Raposo M, Raymond M, Deschepper CF, et al (2001). M13-tailed primers improve the readability and usability of microsatellite analyses performed with two different allele-sizing methods. Biotechniques 31: 24-26, 28. Dakin EE, Avise JC, et al (2004). Microsatellite null alleles in parentage analysis. Heredity (Edinb) 93: 504-509. http://dx.doi.org/10.1038/sj.hdy.6800545 DeWoody JA, Avise JC, et al (2000). Microsatellite variation in marine, freshwater and anadromous fishes compared with other animals. J. Fish Biol. 56: 461-473. http://dx.doi.org/10.1111/j.1095-8649.2000.tb00748.x Duan CX, Li DD, Sun SL, Wang XM, et al (2014). Rapid development of microsatellite markers for Callosobruchus chinensis using Illumina paired-end sequencing. PLoS One 9: e95458. http://dx.doi.org/10.1371/journal.pone.0095458 Gao TX, Ji DP, Xiao YS, Xue TQ, et al (2011). Description and DNA barcoding of a new Sillago species, Sillago sinica (Perciformes: Sillaginidae), from coastal waters of china. Zool. Stud. 50: 254-263. Goudet J (2001). FSTAT: a program to estimate and test gene diversities and fixation indices (Version 2.9.3). Available at [http://www.unil.ch/izea/softwares/fstat.html]. Grover A, Sharma PC, et al (2016). Development and use of molecular markers: past and present. Crit. Rev. Biotechnol. 36: 290-302. http://dx.doi.org/10.3109/07388551.2014.959891 Guo YS, Wang ZD, Yan CZ, Zhang YL, et al (2012). Isolation and characterization of microsatellite DNA loci from Sillago sihama. J. Genet. 91: e32-e36. Huang Y, Du T, Huang HL, et al (2013). A study on artificial breeding of Sillago sihama Forskál. J. Guangdong Ocean Univ. 33: 15-21. Kalinowski ST, Taper ML, Marshall TC, et al (2007). Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol. 16: 1099-1106. http://dx.doi.org/10.1111/j.1365-294X.2007.03089.x Li R, Zhu H, Ruan J, Qian W, et al (2010). De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20: 265-272. http://dx.doi.org/10.1101/gr.097261.109 Lin L, Zhu L, Liu SF, Tang QS, et al (2012). Polymorphic microsatellite loci for Japanese Spanish mackerel (Scomberomorus niphonius). Genet. Mol. Res. 11: 1205-1208. http://dx.doi.org/10.4238/2012.May.8.2 Liu D, Guo Y, Wang Z, Liu C, et al (2012). Phylogenetics inferred from mitogenome and control region of Silver Sillago, Sillago sihama. Mitochondrial DNA 23: 255-263. http://dx.doi.org/10.3109/19401736.2012.674118 Liu JD, Zhu LX, Lu HS, Zhu JX, et al. (2010). Estimation of growth and mortality parameters of the silver sillago (Sillago sihama) in Beibu Gulf. J. Zhejiang Ocean Univ. (Nat. Sci.). 29: 64-69. (In Chinese with English abstract) Lu ZB, Chen X, Du JG, et al (2008). The population dynamics and parameter of growth and mortality of Sillago sihama in the Minnan-Taiwan fishing grounds. Mar. Fish. Res. 29: 47-53. Ma H, Cui H, Ma C, Ma L, et al (2012). High genetic diversity and low differentiation in mud crab (Scylla paramamosain) along the southeastern coast of China revealed by microsatellite markers. J. Exp. Biol. 215: 3120-3125. http://dx.doi.org/10.1242/jeb.071654 Niu S, Wu R, Liu Y, Wang X, et al (2016). The High-throughput sequencing of Sillago japonica mitochondrial genome reveals the phylogenetic position within the genus Sillago. Mitochondrial DNA A DNA Mapp Seq Anal 27: 3815-3816. Page RB, Sankamethawee W, Pierce AJ, Sterling KA, et al (2014). High throughput sequencing enables discovery of microsatellites from the puff-throated bulbul (Alophoixus pallidus) and assessment of genetic diversity in Khao Yai National Park, Thailand. Biochem. Syst. Ecol. 55: 176-183. http://dx.doi.org/10.1016/j.bse.2014.03.032 Restrepo A, Páez VP, Vásquez A, Daza JM, et al (2015). Rapid microsatellite marker development in the endangered neotropical freshwater turtle Podocnemis lewyana, (Testudines: Podocnemididae) using 454 sequencing. Biochem. Syst. Ecol. 59: 220-225. http://dx.doi.org/10.1016/j.bse.2015.01.017 Rice WR, et al (1989). Analyzing tables of statistical tests. Evolution 43: 223-225. http://dx.doi.org/10.2307/2409177 Rousset F, et al (2008). genepop’007: a complete re-implementation of the genepop software for Windows and Linux. Mol. Ecol. Resour. 8: 103-106. http://dx.doi.org/10.1111/j.1471-8286.2007.01931.x Sambrook J and Russell DW (1989). Molecular cloning: A laboratory manual. 3rd edn. Cold Spring Harbor Laboratory Press, New York. Schuelke M, et al (2000). An economic method for the fluorescent labeling of PCR fragments. Nat. Biotechnol. 18: 233-234. http://dx.doi.org/10.1038/72708 Schuster SC, et al (2008). Next-generation sequencing transforms today’s biology. Nat. Methods 5: 16-18. http://dx.doi.org/10.1038/nmeth1156 Shao KT (2016). Taiwan Fish Database. Available at [http://fishdb.sinica.edu.tw]. Ueno K, Watanabe M, Ahmad-Syazni K, Koike M, et al (2013). Eleven novel microsatellite loci for Japanese whiting (Sillago japonica) and cross amplification in the endangered small-scale sillago (Sillago parvisquamis). Conserv. Genet. Resour. 5: 659-662. http://dx.doi.org/10.1007/s12686-013-9876-x Umino T, Ueno K, Mihara T, Koike M, et al (2013). Isolation of eleven polymorphic microsatellite loci for the endangered sillago parvisquamis and cross-species amplification with Sillago japonica. Conserv. Genet. Resour. 5: 771-773. http://dx.doi.org/10.1007/s12686-013-9904-x Van Oosterhout C, Hutchinson WF, Wills DP, Shipley P, et al (2004). MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol. Ecol. Notes 4: 535-538. http://dx.doi.org/10.1111/j.1471-8286.2004.00684.x Villanova GV, Vera M, Díaz J, Martinez P, et al (2015). Isolation and characterization of 20 polymorphic microsatellite loci in the migratory freshwater fish Leporinus obtusidens (Characiformes: Anostomidae) using 454 shotgun pyrosequencing. J. Fish Biol. 86: 1209-1217. http://dx.doi.org/10.1111/jfb.12632 Wang L, Song N, Gao T, et al (2014). Isolation and characterization of 24 polymorphic microsatellite loci in Japanese sillago (Sillago japonica). Conserv. Genet. Resour. 6: 581-584. http://dx.doi.org/10.1007/s12686-014-0145-4 Yang T, Fang L, Zhang X, Hu J, et al (2015). High-throughput development of SSR markers from pea (Pisum sativum L.) based on next generation sequencing of a purified Chinese commercial variety. PLoS One 10: e0139775. http://dx.doi.org/10.1371/journal.pone.0139775 Yu HT, Lee YJ, Huang SW, Chiu TS, et al (2002). Genetic analysis of the populations of Japanese anchovy (Engraulidae: Engraulis japonicus) using microsatellite DNA. Mar. Biotechnol. (NY) 4: 471-479. http://dx.doi.org/10.1007/s10126-002-0035-8 Zhang HR, Niu SF, Wu RX, Zhai Y, et al (2016). Development and characterization of 26 polymorphic microsatellite markers in Lateolabrax maculatus and cross-species amplification for the phylogenetically related taxa. Biochem. Syst. Ecol. 66: 326-330. http://dx.doi.org/10.1016/j.bse.2016.05.008
R. X. Wu, Zhang, H. R., Niu, S. F., Zhai, Y., Liu, X. F., Wu, R. X., Zhang, H. R., Niu, S. F., Zhai, Y., and Liu, X. F., Development of polymorphic microsatellites for Sillago sihama based on next-generation sequencing and transferability to Sillago japonica, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS Research financially supported by the Special Fund for Agro-Scientific Research in the Public Interest of China (#201403008), the Fund of Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture, China (#FREU2015-05), the Project for Outstanding Young Teachers in Higher Education of Guangdong, China (#Yq2013093), and the National Natural Science Foundation of China (#31372532). REFERENCES Abdelkrim J, Robertson B, Stanton JA, Gemmell N, et al (2009). Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. Biotechniques 46: 185-192. http://dx.doi.org/10.2144/000113084 Addamo AM, García-Jiménez R, Taviani M, Machordom A, et al (2015). Development of microsatellite markers in the deep-sea cup coral Desmophyllum dianthus by 454 sequencing and cross-species amplifications in scleractinia order. J. Hered. 106: 322-330. http://dx.doi.org/10.1093/jhered/esv010 Allentoft M, Schuster SC, Holdaway R, Hale M, et al (2009). Identification of microsatellites from an extinct moa species using high-throughput (454) sequence data. Biotechniques 46: 195-200. http://dx.doi.org/10.2144/000113086 Benson G, et al (1999). Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 27: 573-580. http://dx.doi.org/10.1093/nar/27.2.573 Botstein D, White RL, Skolnick M, Davis RW, et al (1980). Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am. J. Hum. Genet. 32: 314-331. Boutin-Ganache I, Raposo M, Raymond M, Deschepper CF, et al (2001). M13-tailed primers improve the readability and usability of microsatellite analyses performed with two different allele-sizing methods. Biotechniques 31: 24-26, 28. Dakin EE, Avise JC, et al (2004). Microsatellite null alleles in parentage analysis. Heredity (Edinb) 93: 504-509. http://dx.doi.org/10.1038/sj.hdy.6800545 DeWoody JA, Avise JC, et al (2000). Microsatellite variation in marine, freshwater and anadromous fishes compared with other animals. J. Fish Biol. 56: 461-473. http://dx.doi.org/10.1111/j.1095-8649.2000.tb00748.x Duan CX, Li DD, Sun SL, Wang XM, et al (2014). Rapid development of microsatellite markers for Callosobruchus chinensis using Illumina paired-end sequencing. PLoS One 9: e95458. http://dx.doi.org/10.1371/journal.pone.0095458 Gao TX, Ji DP, Xiao YS, Xue TQ, et al (2011). Description and DNA barcoding of a new Sillago species, Sillago sinica (Perciformes: Sillaginidae), from coastal waters of china. Zool. Stud. 50: 254-263. Goudet J (2001). FSTAT: a program to estimate and test gene diversities and fixation indices (Version 2.9.3). Available at [http://www.unil.ch/izea/softwares/fstat.html]. Grover A, Sharma PC, et al (2016). Development and use of molecular markers: past and present. Crit. Rev. Biotechnol. 36: 290-302. http://dx.doi.org/10.3109/07388551.2014.959891 Guo YS, Wang ZD, Yan CZ, Zhang YL, et al (2012). Isolation and characterization of microsatellite DNA loci from Sillago sihama. J. Genet. 91: e32-e36. Huang Y, Du T, Huang HL, et al (2013). A study on artificial breeding of Sillago sihama Forskál. J. Guangdong Ocean Univ. 33: 15-21. Kalinowski ST, Taper ML, Marshall TC, et al (2007). Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol. Ecol. 16: 1099-1106. http://dx.doi.org/10.1111/j.1365-294X.2007.03089.x Li R, Zhu H, Ruan J, Qian W, et al (2010). De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20: 265-272. http://dx.doi.org/10.1101/gr.097261.109 Lin L, Zhu L, Liu SF, Tang QS, et al (2012). Polymorphic microsatellite loci for Japanese Spanish mackerel (Scomberomorus niphonius). Genet. Mol. Res. 11: 1205-1208. http://dx.doi.org/10.4238/2012.May.8.2 Liu D, Guo Y, Wang Z, Liu C, et al (2012). Phylogenetics inferred from mitogenome and control region of Silver Sillago, Sillago sihama. Mitochondrial DNA 23: 255-263. http://dx.doi.org/10.3109/19401736.2012.674118 Liu JD, Zhu LX, Lu HS, Zhu JX, et al. (2010). Estimation of growth and mortality parameters of the silver sillago (Sillago sihama) in Beibu Gulf. J. Zhejiang Ocean Univ. (Nat. Sci.). 29: 64-69. (In Chinese with English abstract) Lu ZB, Chen X, Du JG, et al (2008). The population dynamics and parameter of growth and mortality of Sillago sihama in the Minnan-Taiwan fishing grounds. Mar. Fish. Res. 29: 47-53. Ma H, Cui H, Ma C, Ma L, et al (2012). High genetic diversity and low differentiation in mud crab (Scylla paramamosain) along the southeastern coast of China revealed by microsatellite markers. J. Exp. Biol. 215: 3120-3125. http://dx.doi.org/10.1242/jeb.071654 Niu S, Wu R, Liu Y, Wang X, et al (2016). The High-throughput sequencing of Sillago japonica mitochondrial genome reveals the phylogenetic position within the genus Sillago. Mitochondrial DNA A DNA Mapp Seq Anal 27: 3815-3816. Page RB, Sankamethawee W, Pierce AJ, Sterling KA, et al (2014). High throughput sequencing enables discovery of microsatellites from the puff-throated bulbul (Alophoixus pallidus) and assessment of genetic diversity in Khao Yai National Park, Thailand. Biochem. Syst. Ecol. 55: 176-183. http://dx.doi.org/10.1016/j.bse.2014.03.032 Restrepo A, Páez VP, Vásquez A, Daza JM, et al (2015). Rapid microsatellite marker development in the endangered neotropical freshwater turtle Podocnemis lewyana, (Testudines: Podocnemididae) using 454 sequencing. Biochem. Syst. Ecol. 59: 220-225. http://dx.doi.org/10.1016/j.bse.2015.01.017 Rice WR, et al (1989). Analyzing tables of statistical tests. Evolution 43: 223-225. http://dx.doi.org/10.2307/2409177 Rousset F, et al (2008). genepop’007: a complete re-implementation of the genepop software for Windows and Linux. Mol. Ecol. Resour. 8: 103-106. http://dx.doi.org/10.1111/j.1471-8286.2007.01931.x Sambrook J and Russell DW (1989). Molecular cloning: A laboratory manual. 3rd edn. Cold Spring Harbor Laboratory Press, New York. Schuelke M, et al (2000). An economic method for the fluorescent labeling of PCR fragments. Nat. Biotechnol. 18: 233-234. http://dx.doi.org/10.1038/72708 Schuster SC, et al (2008). Next-generation sequencing transforms today’s biology. Nat. Methods 5: 16-18. http://dx.doi.org/10.1038/nmeth1156 Shao KT (2016). Taiwan Fish Database. Available at [http://fishdb.sinica.edu.tw]. Ueno K, Watanabe M, Ahmad-Syazni K, Koike M, et al (2013). Eleven novel microsatellite loci for Japanese whiting (Sillago japonica) and cross amplification in the endangered small-scale sillago (Sillago parvisquamis). Conserv. Genet. Resour. 5: 659-662. http://dx.doi.org/10.1007/s12686-013-9876-x Umino T, Ueno K, Mihara T, Koike M, et al (2013). Isolation of eleven polymorphic microsatellite loci for the endangered sillago parvisquamis and cross-species amplification with Sillago japonica. Conserv. Genet. Resour. 5: 771-773. http://dx.doi.org/10.1007/s12686-013-9904-x Van Oosterhout C, Hutchinson WF, Wills DP, Shipley P, et al (2004). MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol. Ecol. Notes 4: 535-538. http://dx.doi.org/10.1111/j.1471-8286.2004.00684.x Villanova GV, Vera M, Díaz J, Martinez P, et al (2015). Isolation and characterization of 20 polymorphic microsatellite loci in the migratory freshwater fish Leporinus obtusidens (Characiformes: Anostomidae) using 454 shotgun pyrosequencing. J. Fish Biol. 86: 1209-1217. http://dx.doi.org/10.1111/jfb.12632 Wang L, Song N, Gao T, et al (2014). Isolation and characterization of 24 polymorphic microsatellite loci in Japanese sillago (Sillago japonica). Conserv. Genet. Resour. 6: 581-584. http://dx.doi.org/10.1007/s12686-014-0145-4 Yang T, Fang L, Zhang X, Hu J, et al (2015). High-throughput development of SSR markers from pea (Pisum sativum L.) based on next generation sequencing of a purified Chinese commercial variety. PLoS One 10: e0139775. http://dx.doi.org/10.1371/journal.pone.0139775 Yu HT, Lee YJ, Huang SW, Chiu TS, et al (2002). Genetic analysis of the populations of Japanese anchovy (Engraulidae: Engraulis japonicus) using microsatellite DNA. Mar. Biotechnol. (NY) 4: 471-479. http://dx.doi.org/10.1007/s10126-002-0035-8 Zhang HR, Niu SF, Wu RX, Zhai Y, et al (2016). Development and characterization of 26 polymorphic microsatellite markers in Lateolabrax maculatus and cross-species amplification for the phylogenetically related taxa. Biochem. Syst. Ecol. 66: 326-330. http://dx.doi.org/10.1016/j.bse.2016.05.008
X. W. Li, Wang, Y., Yan, F., Li, J. W., Zhao, Y., Zhao, X., Zhai, Y., Wang, Q. Y., Li, X. W., Wang, Y., Yan, F., Li, J. W., Zhao, Y., Zhao, X., Zhai, Y., and Wang, Q. Y., Overexpression of soybean R2R3-MYB transcription factor, GmMYB12B2, and tolerance to UV radiation and salt stress in transgenic Arabidopsis, vol. 15, p. -, 2016.
X. W. Li, Wang, Y., Yan, F., Li, J. W., Zhao, Y., Zhao, X., Zhai, Y., Wang, Q. Y., Li, X. W., Wang, Y., Yan, F., Li, J. W., Zhao, Y., Zhao, X., Zhai, Y., and Wang, Q. Y., Overexpression of soybean R2R3-MYB transcription factor, GmMYB12B2, and tolerance to UV radiation and salt stress in transgenic Arabidopsis, vol. 15, p. -, 2016.