메뉴 건너뛰기




Volumn 24, Issue 5, 2007, Pages 1122-1129

Genome scans of variation and adaptive change: Extended analysis of a candidate locus close to the phantom gene region in Drosophila melanogaster

Author keywords

Drosophila melanogaster; Nucleotide polymorphism; Positive selection

Indexed keywords

ARTICLE; DNA FLANKING REGION; DROSOPHILA MELANOGASTER; EUROPE; EVOLUTIONARY ADAPTATION; GENE LOCUS; GENETIC VARIABILITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHANTOM; X CHROMOSOME;

EID: 34548297774     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/msm032     Document Type: Article
Times cited : (15)

References (40)
  • 1
    • 0001263587 scopus 로고
    • Reduced variation in the yellow-achaete-scute region in natural populations of Drosophila melanogaster
    • Aguadé M, Miyashita N, Langley CH. 1989. Reduced variation in the yellow-achaete-scute region in natural populations of Drosophila melanogaster. Genetics. 122:607-615.
    • (1989) Genetics , vol.122 , pp. 607-615
    • Aguadé, M.1    Miyashita, N.2    Langley, C.H.3
  • 2
    • 0026712361 scopus 로고
    • Polymorphism and divergence in the Mst26A male accessory gland gene region in Drosophila
    • Aguadé M, Miyashita N, Langley CH. 1992. Polymorphism and divergence in the Mst26A male accessory gland gene region in Drosophila. Genetics. 132:755-770.
    • (1992) Genetics , vol.132 , pp. 755-770
    • Aguadé, M.1    Miyashita, N.2    Langley, C.H.3
  • 3
    • 34548308501 scopus 로고    scopus 로고
    • Inferring the action of natural selection from DNA sequence comparisons: Data from Drosophila
    • Moya A, Font E, editors, Oxford: Oxford University Press. p
    • Aguadé M, Rozas J, Segarra C. 2004. Inferring the action of natural selection from DNA sequence comparisons: data from Drosophila. In: Moya A, Font E, editors. Evolution: from molecules to ecosystems. Oxford: Oxford University Press. p. 11-19.
    • (2004) Evolution: From molecules to ecosystems , pp. 11-19
    • Aguadé, M.1    Rozas, J.2    Segarra, C.3
  • 4
    • 27144491328 scopus 로고    scopus 로고
    • Adaptive evolution of non-coding DNA in Drosophila
    • Andolfatto P. 2005. Adaptive evolution of non-coding DNA in Drosophila. Nature. 437:1149-1152.
    • (2005) Nature , vol.437 , pp. 1149-1152
    • Andolfatto, P.1
  • 5
    • 0003455528 scopus 로고
    • Cold Spring Harbor NY, Cold Spring Harbor Laboratory Press
    • Ashburner M. 1989. Drosophila: a laboratory handbook. Cold Spring Harbor (NY): Cold Spring Harbor Laboratory Press.
    • (1989) Drosophila: A laboratory handbook
    • Ashburner, M.1
  • 6
    • 31544435449 scopus 로고    scopus 로고
    • Multiple signatures of positive selection downstream of Notch on the X chromosome in Drosophila melanogaster
    • Bauer DuMont V, Aquadro CF. 2005. Multiple signatures of positive selection downstream of Notch on the X chromosome in Drosophila melanogaster. Genetics. 171:639-653.
    • (2005) Genetics , vol.171 , pp. 639-653
    • Bauer DuMont, V.1    Aquadro, C.F.2
  • 7
    • 33644784801 scopus 로고    scopus 로고
    • Evidence for a selective sweep in the wapl region of Drosophila melanogaster
    • Beisswanger S, Stephan W, De Lorenzo D. 2006. Evidence for a selective sweep in the wapl region of Drosophila melanogaster. Genetics. 172:265-274.
    • (2006) Genetics , vol.172 , pp. 265-274
    • Beisswanger, S.1    Stephan, W.2    De Lorenzo, D.3
  • 8
    • 0027305597 scopus 로고
    • The effect of deleterious mutations on neutral molecular variation
    • Charlesworth B, Morgan MT, Charlesworth D. 1993. The effect of deleterious mutations on neutral molecular variation. Genetics. 134:1289-1303.
    • (1993) Genetics , vol.134 , pp. 1289-1303
    • Charlesworth, B.1    Morgan, M.T.2    Charlesworth, D.3
  • 9
    • 0028863202 scopus 로고
    • The pattern of neutral molecular variation under the background selection model
    • Charlesworth D, Charlesworth B, Morgan MT. 1995. The pattern of neutral molecular variation under the background selection model. Genetics. 141:1619-1632.
    • (1995) Genetics , vol.141 , pp. 1619-1632
    • Charlesworth, D.1    Charlesworth, B.2    Morgan, M.T.3
  • 10
    • 0347992013 scopus 로고    scopus 로고
    • Influence of two Wolbachia strains on population structure of East African Drosophila simulans
    • Dean MD, Ballard KJ, Glass A, Ballard JWO. 2003. Influence of two Wolbachia strains on population structure of East African Drosophila simulans. Genetics. 165:1959-1969.
    • (2003) Genetics , vol.165 , pp. 1959-1969
    • Dean, M.D.1    Ballard, K.J.2    Glass, A.3    Ballard, J.W.O.4
  • 11
    • 0033911640 scopus 로고    scopus 로고
    • Hitchhiking under positive Darwinian selection
    • Fay JC, Wu C-I. 2000. Hitchhiking under positive Darwinian selection. Genetics. 155:1405-1413.
    • (2000) Genetics , vol.155 , pp. 1405-1413
    • Fay, J.C.1    Wu, C.-I.2
  • 12
    • 33748772261 scopus 로고    scopus 로고
    • Evidence of gene conversion associated with a selective sweep in Drosophila melanogaster
    • Glinka S, De Lorenzo D, Stephan W. 2006. Evidence of gene conversion associated with a selective sweep in Drosophila melanogaster. Mol Biol Evol. 23:1869-1878.
    • (2006) Mol Biol Evol , vol.23 , pp. 1869-1878
    • Glinka, S.1    De Lorenzo, D.2    Stephan, W.3
  • 13
    • 0347065347 scopus 로고    scopus 로고
    • Demography and natural selection have shaped genetic variation in Drosophila melanogaster: A multi-locus approach
    • Glinka S, Ometto L, Mousset S, Stephan W, De Lorenzo D. 2003. Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach. Genetics. 165:1269-1278.
    • (2003) Genetics , vol.165 , pp. 1269-1278
    • Glinka, S.1    Ometto, L.2    Mousset, S.3    Stephan, W.4    De Lorenzo, D.5
  • 14
    • 22344444998 scopus 로고    scopus 로고
    • Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations
    • Haddrill PR, Thornton KR, Charlesworth B, Andolfatto P. 2005. Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations. Genome Res. 15:790-799.
    • (2005) Genome Res , vol.15 , pp. 790-799
    • Haddrill, P.R.1    Thornton, K.R.2    Charlesworth, B.3    Andolfatto, P.4
  • 15
    • 0036188913 scopus 로고    scopus 로고
    • Interactions between natural selection, recombination and gene density in the genes of Drosophila
    • Hey J, Kliman RM. 2002. Interactions between natural selection, recombination and gene density in the genes of Drosophila. Genetics. 160:595-608.
    • (2002) Genetics , vol.160 , pp. 595-608
    • Hey, J.1    Kliman, R.M.2
  • 16
    • 0036184745 scopus 로고    scopus 로고
    • Generating samples under a Wright-Fisher neutral model of genetic variation
    • Hudson RR. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics. 18:337-338.
    • (2002) Bioinformatics , vol.18 , pp. 337-338
    • Hudson, R.R.1
  • 17
    • 0023339852 scopus 로고
    • A test of neutral molecular evolution based on nucleotide data
    • Hudson RR, Kreitman M, Aguadé M. 1987. A test of neutral molecular evolution based on nucleotide data. Genetics. 116:153-159.
    • (1987) Genetics , vol.116 , pp. 153-159
    • Hudson, R.R.1    Kreitman, M.2    Aguadé, M.3
  • 18
    • 23344438911 scopus 로고    scopus 로고
    • Distinguishing between selective sweeps and demography using DNA polymorphism data
    • Jensen JD, Kim Y, DuMont VB, Aquadro CF, Bustamante CD. 2005. Distinguishing between selective sweeps and demography using DNA polymorphism data. Genetics. 170: 1401-1410.
    • (2005) Genetics , vol.170 , pp. 1401-1410
    • Jensen, J.D.1    Kim, Y.2    DuMont, V.B.3    Aquadro, C.F.4    Bustamante, C.D.5
  • 20
    • 0346991744 scopus 로고    scopus 로고
    • A microsatellite variability screen for positive selection associated with the "out of Africa" habitat expansion of Drosophila melanogaster
    • Kauer MO, Dieringer D, Schlötterer C. 2003. A microsatellite variability screen for positive selection associated with the "out of Africa" habitat expansion of Drosophila melanogaster. Genetics. 165:1137-1148.
    • (2003) Genetics , vol.165 , pp. 1137-1148
    • Kauer, M.O.1    Dieringer, D.2    Schlötterer, C.3
  • 21
    • 0036189827 scopus 로고    scopus 로고
    • Detecting the local signature of genetic hitchhiking along a recombining chromosome
    • Kim Y, Stephan W. 2002. Detecting the local signature of genetic hitchhiking along a recombining chromosome. Genetics. 160:765-777.
    • (2002) Genetics , vol.160 , pp. 765-777
    • Kim, Y.1    Stephan, W.2
  • 22
    • 0025970149 scopus 로고
    • Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence
    • Kreitman M, Hudson RR. 1991. Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence. Genetics. 127:565-582.
    • (1991) Genetics , vol.127 , pp. 565-582
    • Kreitman, M.1    Hudson, R.R.2
  • 23
    • 26444508054 scopus 로고    scopus 로고
    • Maximum-likelihood for detecting recent positive selection and localizing the selected site in the genome
    • Li H, Stephan W. 2005. Maximum-likelihood for detecting recent positive selection and localizing the selected site in the genome. Genetics. 171:377-384.
    • (2005) Genetics , vol.171 , pp. 377-384
    • Li, H.1    Stephan, W.2
  • 24
    • 34548363320 scopus 로고    scopus 로고
    • Maddison WP, Maddison DR. 1992. MacClade: analysis of phylogeny and character evolution. version 3. Sunderland MA, Sinauer Associates
    • Maddison WP, Maddison DR. 1992. MacClade: analysis of phylogeny and character evolution. version 3. Sunderland (MA): Sinauer Associates.
  • 25
    • 0016220238 scopus 로고
    • The hitch-hiking effect of a favourable gene
    • Maynard Smith J, Haigh J. 1974. The hitch-hiking effect of a favourable gene. Genet Res. 23:23-35.
    • (1974) Genet Res , vol.23 , pp. 23-35
    • Maynard Smith, J.1    Haigh, J.2
  • 27
    • 24744465216 scopus 로고    scopus 로고
    • Inferring the effects of demography and selection on Drosophila melanogaster populations from a chromosome-wide scan of DNA variation
    • Ometto L, Glinka S, De Lorenzo D, Stephan W. 2005. Inferring the effects of demography and selection on Drosophila melanogaster populations from a chromosome-wide scan of DNA variation. Mol Biol Evol. 22:2119-2130.
    • (2005) Mol Biol Evol , vol.22 , pp. 2119-2130
    • Ometto, L.1    Glinka, S.2    De Lorenzo, D.3    Stephan, W.4
  • 28
    • 4644285473 scopus 로고    scopus 로고
    • Detecting the footprint of positive selection in a European population of Drosophila melanogaster: Multilocus pattern of variation and distance to coding regions
    • Orengo DJ, Aguadé M. 2004. Detecting the footprint of positive selection in a European population of Drosophila melanogaster: multilocus pattern of variation and distance to coding regions. Genetics. 167:1759-1766.
    • (2004) Genetics , vol.167 , pp. 1759-1766
    • Orengo, D.J.1    Aguadé, M.2
  • 29
    • 33644784825 scopus 로고    scopus 로고
    • A scan of molecular variation leads to the narrow localization of a selective sweep affecting both Afrotropical and cosmopolitan populations of Drosophila melanogaster
    • Pool LE, Bauer DuMont V, Mueller JL, Aquadro CF. 2006. A scan of molecular variation leads to the narrow localization of a selective sweep affecting both Afrotropical and cosmopolitan populations of Drosophila melanogaster. Genetics. 172:1093-1105.
    • (2006) Genetics , vol.172 , pp. 1093-1105
    • Pool, L.E.1    Bauer DuMont, V.2    Mueller, J.L.3    Aquadro, C.F.4
  • 31
    • 0347513220 scopus 로고    scopus 로고
    • DnaSP, DNA polymorphism analysis by the coalescent and other methods
    • Rozas J, Sánchez-DelBarrio JC, Meseguer X, Rozas R. 2003. DnaSP, DNA polymorphism analysis by the coalescent and other methods. Bioinformatics. 19:2496-2497.
    • (2003) Bioinformatics , vol.19 , pp. 2496-2497
    • Rozas, J.1    Sánchez-DelBarrio, J.C.2    Meseguer, X.3    Rozas, R.4
  • 32
    • 0024485843 scopus 로고
    • Molecular genetic variation in the centromeric region of the X chromosome in three Drosophila ananassae populations. I. Contrasts between the vermilion and forked loci
    • Stephan W, Langley, CH. 1989. Molecular genetic variation in the centromeric region of the X chromosome in three Drosophila ananassae populations. I. Contrasts between the vermilion and forked loci. Genetics. 121:89-99.
    • (1989) Genetics , vol.121 , pp. 89-99
    • Stephan, W.1    Langley, C.H.2
  • 33
    • 7344226732 scopus 로고
    • The effect of strongly selected substitutions on neutral polymorphism: Analytical results based on diffusion theory
    • Stephan W, Wiehe T, Lenz MW. 1992. The effect of strongly selected substitutions on neutral polymorphism: analytical results based on diffusion theory. Theor Popul Biol. 41: 237-254.
    • (1992) Theor Popul Biol , vol.41 , pp. 237-254
    • Stephan, W.1    Wiehe, T.2    Lenz, M.W.3
  • 34
    • 0024313579 scopus 로고
    • Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
    • Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123: 585-595.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 35
    • 33744815615 scopus 로고    scopus 로고
    • How reliable are empirical genomic scans for selective sweeps?
    • Teshima KM, Coop G, Przeworski M. 2006. How reliable are empirical genomic scans for selective sweeps? Genome Res. 16:702-712.
    • (2006) Genome Res , vol.16 , pp. 702-712
    • Teshima, K.M.1    Coop, G.2    Przeworski, M.3
  • 36
    • 33644763127 scopus 로고    scopus 로고
    • Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster
    • Thornton K, Andolfatto P. 2006. Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster. Genetics. 172:1607-1619.
    • (2006) Genetics , vol.172 , pp. 1607-1619
    • Thornton, K.1    Andolfatto, P.2
  • 37
    • 34247891656 scopus 로고    scopus 로고
    • Controlling the false positive rate in multilocus genome scans for selection
    • Thornton KR, Jensen JD. 2007. Controlling the false positive rate in multilocus genome scans for selection. Genetics. 175:737-750.
    • (2007) Genetics , vol.175 , pp. 737-750
    • Thornton, K.R.1    Jensen, J.D.2
  • 38
    • 29444451610 scopus 로고    scopus 로고
    • Interrogating multiple aspects of variation in a full resequencing data set to infer human population size changes
    • Voight BF, Adams AM, Frisse LA, Qian Y, Hudson RR, Di Rienzo A. 2005. Interrogating multiple aspects of variation in a full resequencing data set to infer human population size changes. Proc Natl Acad Sci USA. 102:18508-18513.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 18508-18513
    • Voight, B.F.1    Adams, A.M.2    Frisse, L.A.3    Qian, Y.4    Hudson, R.R.5    Di Rienzo, A.6
  • 39
    • 19944373719 scopus 로고    scopus 로고
    • Warren JT, Petryk A, Marques G, et al. (12 co-authors). 2004. Phantom encodes the 25-hydroxylase of Drosophila melanogaster and Bombyx mori: a P450 enzyme critical in ecdysone biosynthesis. Insect Biochem Mol Biol. 34: 991-1010.
    • Warren JT, Petryk A, Marques G, et al. (12 co-authors). 2004. Phantom encodes the 25-hydroxylase of Drosophila melanogaster and Bombyx mori: a P450 enzyme critical in ecdysone biosynthesis. Insect Biochem Mol Biol. 34: 991-1010.
  • 40
    • 33746683848 scopus 로고    scopus 로고
    • Werck-Reichhart D, Feyereisen R. 2000. Cytochromes P450: a success story. Genome Biol. 1:reviews3003.1-reviews 3003.9.
    • Werck-Reichhart D, Feyereisen R. 2000. Cytochromes P450: a success story. Genome Biol. 1:reviews3003.1-reviews 3003.9.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.