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2016
X. R. Song, Tang, S. H., Tang, Z. Q., Yang, X. M., Wang, X. W., Wang, X. F., Xu, P. J., Ren, G. W., Song, X. R., Tang, S. H., Tang, Z. Q., Yang, X. M., Wang, X. W., Wang, X. F., Xu, P. J., and Ren, G. W., Genetic variability of Myzus persicae nicotianae densovirus based on partial NS and VP gene sequences, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS Research supported by Shanghai Tobacco Co., Ltd (#SZBCW2015-00876), the Science Foundation for Young Scholars of Institute of Tobacco Research of CAAS (#2015B03) and the Agricultural Science and Technology Innovation Program (#ASTIP-TRIC04). REFERENCES Allendorf FW (1983). Isolation, gene flow and genetic differentiation among populations. In: Genetics and conservation (Schonewald-Cox CM, Chambers SM, MacBryde B and Thomas L, eds.). Benjamin-Cummings, London, 51-65. Bass C, Zimmer CT, Riveron JM, Wilding CS, et al (2013). Gene amplification and microsatellite polymorphism underlie a recent insect host shift. Proc. Natl. Acad. Sci. USA 110: 19460-19465. http://dx.doi.org/10.1073/pnas.1314122110 Berns KI, Bergoin M, Bloom M, Lederman M, et al. (1995). The family Parvoviridae. In: Virus taxonomy: classification and nomenclature of viruses. Sixth report of the International Committee on Taxonomy of Viruses (Murphy FA, Fauquet CM, Bishop DHL, Ghabrial SA, et al., eds.). Springer-Verlag, Vienna, 169-178. Blackman RL and Eastop VF (1984). Aphids on the world’s crops: an identification and information guide. John Wiley & Sons, Hoboken. Cotmore SF, Agbandje-McKenna M, Chiorini JA, Mukha DV, et al (2014). The family Parvoviridae. Arch. Virol. 159: 1239-1247. http://dx.doi.org/10.1007/s00705-013-1914-1 Evans N, Paulay G, et al (2012). DNA barcoding methods for invertebrates. Methods Mol. Biol. 858: 47-77. http://dx.doi.org/10.1007/978-1-61779-591-6_4 Excoffier L, Lischer HE, et al (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. http://dx.doi.org/10.1111/j.1755-0998.2010.02847.x Fédière G, et al (2000). Epidemiology and pathology of Densovirinae. Contrib. Microbiol. 4: 1-11. http://dx.doi.org/10.1159/000060332 Flint-Garcia SA, Thornsberry JM, BucklerES4thet al (2003). Structure of linkage disequilibrium in plants. Annu. Rev. Plant Biol. 54: 357-374. http://dx.doi.org/10.1146/annurev.arplant.54.031902.134907 Gao F, Jin J, Zou W, Liao F, et al (2016). Geographically driven adaptation of chilli veinal mottle virus revealed by genetic diversity analysis of the coat protein gene. Arch. Virol. 161: 1329-1333. http://dx.doi.org/10.1007/s00705-016-2761-7 Harpending HC, Batzer MA, Gurven M, Jorde LB, et al (1998). Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA 95: 1961-1967. http://dx.doi.org/10.1073/pnas.95.4.1961 Hebert PD, Gregory TR, et al (2005). The promise of DNA barcoding for taxonomy. Syst. Biol. 54: 852-859. http://dx.doi.org/10.1080/10635150500354886 Li JB, Ren ZM, et al (2009). Genetic diversity among Schlechtendalia chinensis individuals revealed by Cyt b sequences. J. Fudan Univ. Nat. Sci. 48: 680-686. Librado P, Rozas J, et al (2009). DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452. http://dx.doi.org/10.1093/bioinformatics/btp187 Llewellyn KS, Loxdale HD, Harrington R, Brookes CP, et al (2003). Migration and genetic structure of the grain aphid (Sitobion avenae) in Britain related to climate and clonal fluctuation as revealed using microsatellites. Mol. Ecol. 12: 21-34. http://dx.doi.org/10.1046/j.1365-294X.2003.01703.x Loxdale HD, Hardie J, Halbert S, Foottit R, et al (1993). The relative importance of short- and long-range movement of flying aphids. Biol. Rev. Camb. Philos. Soc. 68: 291-311. http://dx.doi.org/10.1111/j.1469-185X.1993.tb00998.x Meynadier G, Vago C, Plantevin G, Atger P, et al (1964). Virose d’un type inhabituel chez le lépidoptère Galleria mellonella L. Revue de Zool. Agric. et Appliquée 63: 207-208. Mutuel D, Ravallec M, Chabi B, Multeau C, et al (2010). Pathogenesis of Junonia coenia densovirus in Spodoptera frugiperda: a route of infection that leads to hypoxia. Virology 403: 137-144. http://dx.doi.org/10.1016/j.virol.2010.04.003 Nohara K, Takeuchi H, Tsuzaki T, Suzuki N, et al (2010). Genetic variability and stock structure of red tilefish Branchiostegus japonicus inferred from mtDNA sequence analysis. Fish. Sci. 76: 75-81. http://dx.doi.org/10.1007/s12562-009-0188-8 Ryabov EV, Keane G, Naish N, Evered C, et al (2009). Densovirus induces winged morphs in asexual clones of the rosy apple aphid, Dysaphis plantaginea. Proc. Natl. Acad. Sci. USA 106: 8465-8470. http://dx.doi.org/10.1073/pnas.0901389106 Tajima F, et al (1989). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595. Tamura K, Stecher G, Peterson D, Filipski A, et al (2013). MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 30: 2725-2729. http://dx.doi.org/10.1093/molbev/mst197 Tang S, Song X, Xue L, Wang X, et al (2016). Characterization and distribution analysis of a densovirus infecting Myzus persicae nicotianae (Hemiptera: Aphididae). J. Econ. Entomol. 109: 580-587. http://dx.doi.org/10.1093/jee/tov399 Taylor HR, Harris WE, et al (2012). An emergent science on the brink of irrelevance: a review of the past 8 years of DNA barcoding. Mol. Ecol. Resour. 12: 377-388. http://dx.doi.org/10.1111/j.1755-0998.2012.03119.x Thompson JD, Higgins DG, Gibson TJ, et al (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680. http://dx.doi.org/10.1093/nar/22.22.4673 Wang XY, Xu GQ, et al (2014). Genetic differentiation and gene flow among geographic populations of Spodoptera exigua (Lepidoptera: Noctuidae) in China. Acta Entomol. Sin. 57: 1061-1074. Wright S (1984). Evolution and the genetics of populations, volume 3: experimental results and evolutionary deductions. University of Chicago Press, Chicago. Xu P, Cheng P, Liu Z, Li Y, et al (2012). Complete genome sequence of a monosense densovirus infecting the cotton bollworm, Helicoverpa armigera. J. Virol. 86: 10909. http://dx.doi.org/10.1128/JVI.01912-12 Xu P, Liu Y, Graham RI, Wilson K, et al (2014). Densovirus is a mutualistic symbiont of a global crop pest (Helicoverpa armigera) and protects against a baculovirus and Bt biopesticide. PLoS Pathog. 10: e1004490. http://dx.doi.org/10.1371/journal.ppat.1004490 Zhang B, Ma C, Edwards O, Fuller S, et al (2014). The mitochondrial genome of the Russian wheat aphid Diuraphis noxia: large repetitive sequences between trnE and trnF in aphids. Gene 533: 253-260. http://dx.doi.org/10.1016/j.gene.2013.09.064 Zhao C, Yang XM, Tang SH, Xu PJ, et al (2015a). Population genetic structure of Myzus persicae nicotianae (Hemiptera: Aphididae) in China by microsatellite analysis. Genet. Mol. Res. 14: 17159-17169. http://dx.doi.org/10.4238/2015.December.16.16 Zhao CL, Chen H, Song J, Cui BK, et al (2015b). Phylogeny and taxonomy of the genus Abundisporus (Polyporales, Basidiomycota). Mycol. Prog. 14: 38. http://dx.doi.org/10.1007/s11557-015-1062-y
X. R. Song, Tang, S. H., Tang, Z. Q., Yang, X. M., Wang, X. W., Wang, X. F., Xu, P. J., Ren, G. W., Song, X. R., Tang, S. H., Tang, Z. Q., Yang, X. M., Wang, X. W., Wang, X. F., Xu, P. J., and Ren, G. W., Genetic variability of Myzus persicae nicotianae densovirus based on partial NS and VP gene sequences, vol. 15, no. 4, p. -, 2016.
Conflicts of interest The authors declare no conflict of interest. ACKNOWLEDGMENTS Research supported by Shanghai Tobacco Co., Ltd (#SZBCW2015-00876), the Science Foundation for Young Scholars of Institute of Tobacco Research of CAAS (#2015B03) and the Agricultural Science and Technology Innovation Program (#ASTIP-TRIC04). REFERENCES Allendorf FW (1983). Isolation, gene flow and genetic differentiation among populations. In: Genetics and conservation (Schonewald-Cox CM, Chambers SM, MacBryde B and Thomas L, eds.). Benjamin-Cummings, London, 51-65. Bass C, Zimmer CT, Riveron JM, Wilding CS, et al (2013). Gene amplification and microsatellite polymorphism underlie a recent insect host shift. Proc. Natl. Acad. Sci. USA 110: 19460-19465. http://dx.doi.org/10.1073/pnas.1314122110 Berns KI, Bergoin M, Bloom M, Lederman M, et al. (1995). The family Parvoviridae. In: Virus taxonomy: classification and nomenclature of viruses. Sixth report of the International Committee on Taxonomy of Viruses (Murphy FA, Fauquet CM, Bishop DHL, Ghabrial SA, et al., eds.). Springer-Verlag, Vienna, 169-178. Blackman RL and Eastop VF (1984). Aphids on the world’s crops: an identification and information guide. John Wiley & Sons, Hoboken. Cotmore SF, Agbandje-McKenna M, Chiorini JA, Mukha DV, et al (2014). The family Parvoviridae. Arch. Virol. 159: 1239-1247. http://dx.doi.org/10.1007/s00705-013-1914-1 Evans N, Paulay G, et al (2012). DNA barcoding methods for invertebrates. Methods Mol. Biol. 858: 47-77. http://dx.doi.org/10.1007/978-1-61779-591-6_4 Excoffier L, Lischer HE, et al (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. http://dx.doi.org/10.1111/j.1755-0998.2010.02847.x Fédière G, et al (2000). Epidemiology and pathology of Densovirinae. Contrib. Microbiol. 4: 1-11. http://dx.doi.org/10.1159/000060332 Flint-Garcia SA, Thornsberry JM, BucklerES4thet al (2003). Structure of linkage disequilibrium in plants. Annu. Rev. Plant Biol. 54: 357-374. http://dx.doi.org/10.1146/annurev.arplant.54.031902.134907 Gao F, Jin J, Zou W, Liao F, et al (2016). Geographically driven adaptation of chilli veinal mottle virus revealed by genetic diversity analysis of the coat protein gene. Arch. Virol. 161: 1329-1333. http://dx.doi.org/10.1007/s00705-016-2761-7 Harpending HC, Batzer MA, Gurven M, Jorde LB, et al (1998). Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA 95: 1961-1967. http://dx.doi.org/10.1073/pnas.95.4.1961 Hebert PD, Gregory TR, et al (2005). The promise of DNA barcoding for taxonomy. Syst. Biol. 54: 852-859. http://dx.doi.org/10.1080/10635150500354886 Li JB, Ren ZM, et al (2009). Genetic diversity among Schlechtendalia chinensis individuals revealed by Cyt b sequences. J. Fudan Univ. Nat. Sci. 48: 680-686. Librado P, Rozas J, et al (2009). DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452. http://dx.doi.org/10.1093/bioinformatics/btp187 Llewellyn KS, Loxdale HD, Harrington R, Brookes CP, et al (2003). Migration and genetic structure of the grain aphid (Sitobion avenae) in Britain related to climate and clonal fluctuation as revealed using microsatellites. Mol. Ecol. 12: 21-34. http://dx.doi.org/10.1046/j.1365-294X.2003.01703.x Loxdale HD, Hardie J, Halbert S, Foottit R, et al (1993). The relative importance of short- and long-range movement of flying aphids. Biol. Rev. Camb. Philos. Soc. 68: 291-311. http://dx.doi.org/10.1111/j.1469-185X.1993.tb00998.x Meynadier G, Vago C, Plantevin G, Atger P, et al (1964). Virose d’un type inhabituel chez le lépidoptère Galleria mellonella L. Revue de Zool. Agric. et Appliquée 63: 207-208. Mutuel D, Ravallec M, Chabi B, Multeau C, et al (2010). Pathogenesis of Junonia coenia densovirus in Spodoptera frugiperda: a route of infection that leads to hypoxia. Virology 403: 137-144. http://dx.doi.org/10.1016/j.virol.2010.04.003 Nohara K, Takeuchi H, Tsuzaki T, Suzuki N, et al (2010). Genetic variability and stock structure of red tilefish Branchiostegus japonicus inferred from mtDNA sequence analysis. Fish. Sci. 76: 75-81. http://dx.doi.org/10.1007/s12562-009-0188-8 Ryabov EV, Keane G, Naish N, Evered C, et al (2009). Densovirus induces winged morphs in asexual clones of the rosy apple aphid, Dysaphis plantaginea. Proc. Natl. Acad. Sci. USA 106: 8465-8470. http://dx.doi.org/10.1073/pnas.0901389106 Tajima F, et al (1989). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595. Tamura K, Stecher G, Peterson D, Filipski A, et al (2013). MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 30: 2725-2729. http://dx.doi.org/10.1093/molbev/mst197 Tang S, Song X, Xue L, Wang X, et al (2016). Characterization and distribution analysis of a densovirus infecting Myzus persicae nicotianae (Hemiptera: Aphididae). J. Econ. Entomol. 109: 580-587. http://dx.doi.org/10.1093/jee/tov399 Taylor HR, Harris WE, et al (2012). An emergent science on the brink of irrelevance: a review of the past 8 years of DNA barcoding. Mol. Ecol. Resour. 12: 377-388. http://dx.doi.org/10.1111/j.1755-0998.2012.03119.x Thompson JD, Higgins DG, Gibson TJ, et al (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680. http://dx.doi.org/10.1093/nar/22.22.4673 Wang XY, Xu GQ, et al (2014). Genetic differentiation and gene flow among geographic populations of Spodoptera exigua (Lepidoptera: Noctuidae) in China. Acta Entomol. Sin. 57: 1061-1074. Wright S (1984). Evolution and the genetics of populations, volume 3: experimental results and evolutionary deductions. University of Chicago Press, Chicago. Xu P, Cheng P, Liu Z, Li Y, et al (2012). Complete genome sequence of a monosense densovirus infecting the cotton bollworm, Helicoverpa armigera. J. Virol. 86: 10909. http://dx.doi.org/10.1128/JVI.01912-12 Xu P, Liu Y, Graham RI, Wilson K, et al (2014). Densovirus is a mutualistic symbiont of a global crop pest (Helicoverpa armigera) and protects against a baculovirus and Bt biopesticide. PLoS Pathog. 10: e1004490. http://dx.doi.org/10.1371/journal.ppat.1004490 Zhang B, Ma C, Edwards O, Fuller S, et al (2014). The mitochondrial genome of the Russian wheat aphid Diuraphis noxia: large repetitive sequences between trnE and trnF in aphids. Gene 533: 253-260. http://dx.doi.org/10.1016/j.gene.2013.09.064 Zhao C, Yang XM, Tang SH, Xu PJ, et al (2015a). Population genetic structure of Myzus persicae nicotianae (Hemiptera: Aphididae) in China by microsatellite analysis. Genet. Mol. Res. 14: 17159-17169. http://dx.doi.org/10.4238/2015.December.16.16 Zhao CL, Chen H, Song J, Cui BK, et al (2015b). Phylogeny and taxonomy of the genus Abundisporus (Polyporales, Basidiomycota). Mycol. Prog. 14: 38. http://dx.doi.org/10.1007/s11557-015-1062-y
2012
S. Z. Wang, Hu, X. X., Wang, Z. P., Li, X. C., Wang, Q. G., Wang, Y. X., Tang, Z. Q., and Li, H., Quantitative trait loci associated with body weight and abdominal fat traits on chicken chromosomes 3, 5 and 7, vol. 11, pp. 956-965, 2012.
Abasht B, Dekkers JC and Lamont SJ (2006). Review of quantitative trait loci identified in the chicken. Poult. Sci. 85: 2079-2096. PMid:17135661 Ambo M, Moura AS, Ledur MC, Pinto LF, et al. (2009). Quantitative trait loci for performance traits in a broiler x layer cross. Anim. Genet. 40: 200-208. http://dx.doi.org/10.1111/j.1365-2052.2008.01824.x PMid:19170675 Andersson L and Georges M (2004). Domestic-animal genomics: deciphering the genetics of complex traits. Nat. Rev. Genet. 5: 202-212. http://dx.doi.org/10.1038/nrg1294 PMid:14970822 Ankra-Badu GA, Le Bihan-Duval E, Mignon-Grasteau S, Pitel F, et al. (2010). Mapping QTL for growth and shank traits in chickens divergently selected for high or low body weight. Anim. Genet. 41: 400-405. PMid:20096032 Atzmon G, Blum S, Feldman M, Lavi U, et al. (2007). Detection of agriculturally important QTLs in chickens and analysis of the factors affecting genotyping strategy. Cytogenet. Genome Res. 117: 327-337. http://dx.doi.org/10.1159/000103195 PMid:17675875 Atzmon G, Blum S, Feldman M, Cahaner A, et al. (2008). QTLs detected in a multigenerational resource chicken population. J. Hered. 99: 528-538. http://dx.doi.org/10.1093/jhered/esn030 PMid:18492652 Brockmann GA, Haley CS, Renne U, Knott SA, et al. (1998). Quantitative trait loci affecting body weight and fatness from a mouse line selected for extreme high growth. Genetics 150: 369-381. PMid:9725853    PMCid:1460298 Campos RL, Nones K, Ledur MC, Moura AS, et al. (2009). Quantitative trait loci associated with fatness in a broiler-layer cross. Anim. Genet. 40: 729-736. http://dx.doi.org/10.1111/j.1365-2052.2009.01910.x PMid:19466938 Carlborg O, Kerje S, Schutz K, Jacobsson L, et al. (2003). A global search reveals epistatic interaction between QTL for early growth in the chicken. 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Multiple marker mapping of quantitative trait loci in a cross between outbred wild boar and large white pigs. Genetics 149: 1069-1080. PMid:9611214    PMCid:1460207 Lagarrigue S, Pitel F, Carre W, Abasht B, et al. (2006). Mapping quantitative trait loci affecting fatness and breast muscle weight in meat-type chicken lines divergently selected on abdominal fatness. Genet. Sel. Evol. 38: 85-97. http://dx.doi.org/10.1186/1297-9686-38-1-85 PMCid:2689300 Le Bihan-Duval E, Millet N and Remignon H (1999). Broiler meat quality: effect of selection for increased carcass quality and estimates of genetic parameters. Poult. Sci. 78: 822-826. PMid:10438124 Le Mignon G, Pitel F, Gilbert H, Le Bihan-Duval E, et al. (2009). A comprehensive analysis of QTL for abdominal fat and breast muscle weights on chicken chromosome 5 using a multivariate approach. Anim. Genet. 40: 157-164. http://dx.doi.org/10.1111/j.1365-2052.2008.01817.x PMid:19243366 Liu X, Li H, Wang S, Hu X, et al. (2007). 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Identification of chromosomal regions associated with growth and carcass traits in an F(3) full sib intercross line originating from a cross of chicken lines divergently selected on body weight. Anim. Genet. 40: 743-748. http://dx.doi.org/10.1111/j.1365-2052.2009.01917.x PMid:19466935 Wahlberg P, Carlborg O, Foglio M, Tordoir X, et al. (2009). Genetic analysis of an F2 intercross between two chicken lines divergently selected for body-weight. BMC Genomics 10: 248. http://dx.doi.org/10.1186/1471-2164-10-248 PMid:19473501    PMCid:2695486 Wang Q, Li H, Li N, Leng L, et al. (2006). Identification of single nucleotide polymorphism of adipocyte fatty acid-binding protein gene and its association with fatness traits in the chicken. Poult. Sci. 85: 429-434. PMid:16553271 Zhang S, Li H and Shi H (2006). Single marker and haplotype analysis of the chicken apolipoprotein B gene T123G and D9500D9-polymorphism reveals association with body growth and obesity. Poult. Sci. 85: 178-184. PMid:16523611 Zhou H, Deeb N, Evock-Clover CM, Ashwell CM, et al. (2006a). Genome-wide linkage analysis to identify chromosomal regions affecting phenotypic traits in the chicken. I. Growth and average daily gain. Poult. Sci 85: 1700-1711. PMid:17012159 Zhou H, Deeb N, Evock-Clover CM, Ashwell CM, et al. (2006b). Genome-wide linkage analysis to identify chromosomal regions affecting phenotypic traits in the chicken. II. Body composition. Poult. Sci. 85: 1712-1721. PMid:17012160