The Evolutionary Tempo of Sex Chromosome Degradation in Carica papaya

详细信息    查看全文

• 作者：Meng Wu ; Richard C. Moore
• 关键词：Plant sex chromosomes ; Molecular evolution ; Y degradation ; Hill–Robertson effect
• 刊名：Journal of Molecular Evolution
• 出版年：2015
• 出版时间：June 2015
• 年：2015
• 卷：80
• 期：5-6
• 页码：265-277
• 全文大小：678 KB
• 参考文献：Arguello JR, Zhang Y, Kado T, Fan C, Zhao R, Innan H, Wang W, Long M (2010) Recombination yet inefficient selection along the Drosophila melanogaster subgroup’s fourth chromosome. Mol Biol Evol 27:848-61PubMed Central PubMed View Article
  Bachtrog D (2004) Evidence that positive selection drives Y-chromosome degeneration in Drosophila miranda. Nat Genet 36:518-22PubMed View Article
  Bachtrog D (2008) The temporal dynamics of processes underlying Y chromosome degeneration. Genetics 179:1513-525PubMed Central PubMed View Article
  Bachtrog D (2011) Plant sex chromosomes: a non-degenerated Y? Curr Biol 21:R685–R688PubMed View Article
  Bachtrog D (2013) Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration. Nat Rev Genet 14:113-24PubMed Central PubMed View Article
  Bachtrog D, Charlesworth B (2002) Reduced adaptation of a non-recombining neo-Y chromosome. Nature 416:323-26PubMed View Article
  Bachtrog D, Hom E, Wong KM, Maside X, de Jong P (2008) Genomic degradation of a young Y chromosome in Drosophila miranda. Genome Biol 9:R30PubMed Central PubMed View Article
  Bachtrog D, Kirkpatrick M, Mank JE, McDaniel SF, Pires JC, Rice WR, Valenzuela N (2011) Are all sex chromosomes created equal? Trends Genet 27:350-57PubMed View Article
  Bergero R, Charlesworth D (2009) The evolution of restricted recombination in sex chromosomes. Trends Ecol Evol 24:94-02PubMed View Article
  Bergero R, Charlesworth D (2011) Preservation of the Y transcriptome in a 10-million-year-old plant sex chromosome system. Curr Biol 21:1470-474PubMed View Article
  Betancourt AJ, Welch JJ, Charlesworth B (2009) Reduced effectiveness of selection caused by a lack of recombination. Curr Biol 19:655-60PubMed View Article
  Birky CW Jr, Walsh JB (1988) Effects of linkage on rates of molecular evolution. Proc Natl Acad Sci USA 85:6414-418PubMed Central PubMed View Article
  Brown JE, Bauman JM, Lawrie JF, Rocha OJ, Moore RC (2012) The structure of morphological and genetic diversity in natural populations of Carica papaya (Caricaceae) in Costa Rica. Biotropica 44:179-88View Article
  Charlesworth B (1996) The evolution of chromosomal sex determination and dosage compensation. Curr Biol 6:149-62PubMed View Article
  Charlesworth B (2012) The effects of deleterious mutations on evolution at linked sites. Genetics 190:5-2PubMed Central PubMed View Article
  Charlesworth D (2013) Plant sex chromosome evolution. J Exp Bot 64:405-20PubMed View Article
  Charlesworth D, Mank JE (2010) The birds and the bees and the flowers and the trees: lessons from genetic mapping of sex determination in plants and animals. Genetics 186:9-1PubMed Central PubMed View Article
  Charlesworth D, Charlesworth B, Marais G (2005) Steps in the evolution of heteromorphic sex chromosomes. Heredity 95:118-28PubMed View Article
  Charlesworth B, Betancourt AJ, Kaiser VB, Gordo I (2009) Genetic recombination and molecular evolution. Cold Spring Harb Symp Quant Biol 74:177-86PubMed View Article
  Chen CX, Yu QY, Hou SB, Li YJ, Eustice M, Skelton RL, Veatch O, Herdes RE, Diebold L, Saw J, Feng Y, Qian WB, Bynum L, Wang L, Moore PH, Paull RE, Alam M, Ming R (2007) Construction of a sequence-tagged high-density genetic map of papaya for comparative structural and evolutionary genomics in brassicales. Genetics 177:2481-491PubMed Central PubMed View Article
  Chibalina MV, Filatov DA (2011) Plant Y chromosome degeneration is retarded by haploid purifying selection. Curr Biol 21:1475-479PubMed View Article
  Choo KHA (1998) Why is the centromere so cold? Genome Res 8:81-2PubMed
  Fay JC, Wu CI (2000) Hitchhiking under positive Darwinian selection. Genetics 155:1405-413PubMed Central PubMed
  Gschwend AR, Weingartner LA, Moore RC, Ming R (2012a) The sex-specific region of sex chromosomes in animals and plants. Chromosome Res 20:57-9PubMed View Article
  Gschwend AR, Yu QY, Tong EJ, Zeng FC, Han J, VanBuren R, Aryal R, Charlesworth D, Moore PH, Paterson AH, Ming R (2012b) Rapid divergence and expansion of the X chromosome in papaya. Proc Natl Acad Sci USA 109:13716-3721PubMed Central PubMed View Article
  Haddrill PR, Halligan DL, Tomaras D, Charlesworth B (2007) Reduced efficacy of selection in regions of the Drosophila genome that lack crossing over. Genome Biol 8:R18PubMed Central PubMed View Article
  Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program from Windows 95/98/NT. Nucl Acids Symp Ser 41:95-8
  Handel MA, Park C, Kot M (1994) Genetic control of sex-chromosome inactivation during male meiosis. Cytogenet Cell Genet 66:83-8PubMed View Article
  Hartfield M, Otto SP (2011) Recombination and hitchhiking of deleterious alleles. Evolution 65:2421-434PubMed View Article
  Hill WG, Robertson A (1966) The effect of linkage on limits to artificial selection. Genet Res 8:269-94PubMed View Article
  Honys D, Twell D (2004
• 作者单位：Meng Wu (1) (2)
  Richard C. Moore (1)
  
  1. Botany Graduate Program, Department of Biology, Miami University, Oxford, OH, 45056, USA
  2. Evolution, Ecology & Behavior Graduate Program, Department of Biology, Indiana University, Bloomington, IN, 47405, USA
  
• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Cell Biology
  Microbiology
  Plant Sciences
  
• 出版者：Springer New York
• ISSN：1432-1432

文摘

Genes on non-recombining heterogametic sex chromosomes may degrade over time through the irreversible accumulation of deleterious mutations. In papaya, the non-recombining male-specific region of the Y (MSY) consists of two evolutionary strata corresponding to chromosomal inversions occurring approximately 7.0 and 1.9 MYA. The step-wise recombination suppression between the papaya X and Y allows for a temporal examination of the degeneration progress of the young Y chromosome. Comparative evolutionary analyses of 55 X/Y gene pairs showed that Y-linked genes have more unfavorable substitutions than X-linked genes. However, this asymmetric evolutionary pattern is confined to the oldest stratum, and is only observed when recently evolved pseudogenes are included in the analysis, indicating a slow degeneration tempo of the papaya Y chromosome. Population genetic analyses of coding sequence variation of six Y-linked focal loci in the oldest evolutionary stratum detected an excess of nonsynonymous polymorphism and reduced codon bias relative to autosomal loci. However, this pattern was also observed for corresponding X-linked loci. Both the MSY and its corresponding X-specific region are pericentromeric where recombination has been shown to be greatly reduced. Like the MSY region, overall selective efficacy on the X-specific region may be reduced due to the interference of selective forces between highly linked loci, or the Hill–Robertson effect, that is accentuated in regions of low or suppressed recombination. Thus, a pattern of gene decay on the X-specific region may be explained by relaxed purifying selection and widespread genetic hitchhiking due to its pericentromeric location.