W chromosome expression responds to female-specific selection

Proceedings of the National Academy of Sciences of the United States of America

Volumn 109, Issue 21, 2012, Pages 8207-8211

  Moghadam, Hooman K ^a   Pointer, Marie A ^a   Wright, Alison E ^a,b   Berlin, Sofia ^c   Mank, Judith E ^b  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY COLLEGE LONDON   (United Kingdom)

^c SWEDISH UNIVERSITY OF AGRICULTURAL SCIENCES   (Sweden)

Author keywords

Experimental evolution; Female heterogamety; Gene expression evolution; Sex chromosomes; Y chromosome

Indexed keywords

ARTICLE; CHICKEN; FEMALE; FEMALE FERTILITY; FOWL; GENE EXPRESSION; GENETIC LINKAGE; MALE; NONHUMAN; PRIORITY JOURNAL; SEX CHROMOSOME; SEX LIMITATION; UPREGULATION;

ANIMAL HUSBANDRY; ANIMALS; CHICK EMBRYO; CHICKENS; EVOLUTION, MOLECULAR; FEMALE; MALE; OVIPOSITION; POLYMORPHISM, GENETIC; SEX CHROMOSOMES; SEX PRESELECTION; SPECIES SPECIFICITY;

EID: 84861434684     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1202721109     Document Type: Article

References (48)

1. Lange J, et al. (2009) Isodicentric Y chromosomes and sex disorders as byproducts of homologous recombination that maintains palindromes. Cell 138:855-869.
2. Lemos B, Araripe LO, Hartl DL (2008) Polymorphic Y chromosomes harbor cryptic variation with manifold functional consequences. Science 319:91-93.
3. Bachtrog D (2008) The temporal dynamics of processes underlying Y chromosome degeneration. Genetics 179:1513-1525.
4. Bachtrog D, Charlesworth B (2002) Reduced adaptation of a non-recombining neo-Y chromosome. Nature 416:323-326. (Pubitemid 34260246)
5. Berlin S, Tomaras D, Charlesworth B (2007) Low mitochondrial variability in birds may indicate Hill-Robertson effects on the W chromosome. Heredity (Edinb) 99:389-396.
6. Charlesworth B, Charlesworth D (2000) The degeneration of Y chromosomes. Philos Trans R Soc Lond B Biol Sci 355:1563-1572.
7. 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: R18.
8. Kaiser VB, Charlesworth B (2010) Muller's ratchet and the degeneration of the Drosophila miranda neo-Y chromosome. Genetics 185:339-348.
9. Hughes JF, et al. (2005) Conservation of Y-linked genes during human evolution revealed by comparative sequencing in chimpanzee. Nature 437:100-103.
10. Koerich LB, Wang X, Clark AG, Carvalho AB (2008) Low conservation of gene content in the Drosophila Y chromosome. Nature 456:949-951.
11. Mank JE (2012) Small but mighty: The evolutionary dynamics of W and Y sex chromosomes. Chromosome Research 20:21-33.
12. Fridolfsson AK, et al. (1998) Evolution of the avian sex chromosomes from an ancestral pair of autosomes. Proc Natl Acad Sci USA 95:8147-8152.
13. Pigozzi MI, Solari AJ (1999) The ZW pairs of two paleognath birds from two orders show transitional stages of sex chromosome differentiation. Chromosome Res 7: 541-551.
14. Mank JE, Ellegren H (2007) Parallel divergence and degradation of the avian W sex chromosome. Trends Ecol Evol 22:389-391. (Pubitemid 47058776)
15. Berlin S, Ellegren H (2006) Fast accumulation of nonsynonymous mutations on the female-specific W chromosome in birds. J Mol Evol 62:66-72.
16. van Tuinen M, Hedges SB (2001) Calibration of avian molecular clocks. Mol Biol Evol 18:206-213.
17. International Chicken Genome Sequencing Consortium (2004) Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432:695-716.
18. Reed KJ, Sinclair AH (2002) FET-1: A novel W-linked, female specific gene up-regulated in the embryonic chicken ovary. Mech Dev 119(Suppl 1):S87-S90. (Pubitemid 39658691)
19. Hori T, Asakawa S, Itoh Y, Shimizu N, Mizuno S (2000) Wpkci, encoding an altered form of PKCI, is conserved widely on the avian W chromosome and expressed in early female embryos: Implication of its role in female sex determination. Mol Biol Cell 11: 3645-3660.
20. Fumihito A, et al. (1996) Monophyletic origin and unique dispersal patterns of domestic fowls. Proc Natl Acad Sci USA 93:6792-6795. (Pubitemid 26230389)
21. Frisby DP, Weiss RA, Roussel M, Stehelin D (1979) The distribution of endogenous chicken retrovirus sequences in the DNA of galliform birds does not coincide with avian phylogenetic relationships. Cell 17:623-634. (Pubitemid 9242339)
22. Kerje S, et al. (2003) The twofold difference in adult size between the red junglefowl and White Leghorn chickens is largely explained by a limited number of QTLs. Anim Genet 34:264-274. (Pubitemid 36946722)
23. Ekarius C (2007) Storey's Illustrated Guide to Poultry Breeds (Walsworth Publishing Company, Marceline, MO).
24. Lewis C (2010) The Illustrated Guide to Chickens: How to Choose Them - How to Keep Them (Scotprint, Oswestry, UK).
25. Rubin CJ, et al. (2010) Whole-genome resequencing reveals loci under selection during chicken domestication. Nature 464:587-591.
26. Wahlberg P, et al. (2007) A high-resolution linkage map for the Z chromosome in chicken reveals hot spots for recombination. Cytogenet Genome Res 117:22-29. (Pubitemid 47202661)
27. Nam K, Ellegren H (2008) The chicken (Gallus gallus) Z chromosome contains at least three nonlinear evolutionary strata. Genetics 180:1131-1136.
28. Berlin S, Ellegren H (2004) Chicken W: A genetically uniform chromosome in a highly variable genome. Proc Natl Acad Sci USA 101:15967-15969. (Pubitemid 39507910)
29. Wong GK, et al.; International Chicken Polymorphism Map Consortium (2004) A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature 432:717-722.
30. Backström N, Ceplitis H, Berlin S, Ellegren H (2005) Gene conversion drives the evolution of HINTW, an ampliconic gene on the female-specific avian W chromosome. Mol Biol Evol 22:1992-1999. (Pubitemid 41298067)
31. Sasaki O, et al. (2004) Genetic mapping of quantitative trait loci affecting body weight, egg character and egg production in F2 intercross chickens. Anim Genet 35: 188-194. (Pubitemid 38751722)
32. Schreiweis MA, Hester PY, Settar P, Moody DE (2006) Identification of quantitative trait loci associated with egg quality, egg production, and body weight in an F2 resource population of chickens. Anim Genet 37:106-112.
33. Lemos B, Branco AT, Hartl DL (2010) Epigenetic effects of polymorphic Y chromosomes modulate chromatin components, immune response, and sexual conflict. Proc Natl Acad Sci USA 107:15826-15831.
34. McDonald JH, Kreitman M (1991) Adaptive protein evolution at the Adh locus in Drosophila. Nature 351:652-654. (Pubitemid 21896661)
35. Ometto L, Shoemaker D, Ross KG, Keller L (2011) Evolution of gene expression in fire ants: The effects of developmental stage, caste, and species. Mol Biol Evol 28: 1381-1392.
36. Blekhman R, Marioni JC, Zumbo P, Stephens M, Gilad Y (2010) Sex-specific and lineage-specific alternative splicing in primates. Genome Res 20:180-189.
37. Kingsolver JG, Diamond SE (2011) Phenotypic selection in natural populations: What limits directional selection? Am Nat 177:346-357.
38. Bachtrog D (2004) Evidence that positive selection drives Y-chromosome degeneration in Drosophila miranda. Nat Genet 36:518-522.
39. Bachtrog D, et al. (2011) Are all sex chromosomes created equal? Trends Genet 27: 350-357.
40. Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10:R25.
41. Trapnell C, Pachter L, Salzberg SL (2009) TopHat: Discovering splice junctions with RNA-Seq. Bioinformatics 25:1105-1111.
42. Trapnell C, et al. (2010) Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol 28:511-515.
43. DePristo MA, et al. (2011) A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat Genet 43:491-498.
44. Rousset F (2008) genepop'007: A complete re-implementation of the genepop software for Windows and Linux. Mol Ecol Resour 8:103-106.
45. Felsenstein J (1989) Phylip (Phylogeny inference package v3.2). Cladistics 5:164-166.
46. de Hoon MJ, Imoto S, Nolan J, Miyano S (2004) Open source clustering software. Bioinformatics 20:1453-1454. (Pubitemid 38931415)
47. Saldanha AJ (2004) Java Treeview - extensible visualization of microarray data. Bioinformatics 20:3246-3248.
48. Suzuki R, Shimodaira H (2006) Pvclust: An R package for assessing the uncertainty in hierarchical clustering. Bioinformatics 22:1540-1542. (Pubitemid 43985330)