Nuclear chromosome dynamics in the drosophila male germ line contribute to the nonrandom genomic distribution of retrogenes

Molecular Biology and Evolution

Volumn 29, Issue 9, 2012, Pages 2105-2108

  Díaz Castillo, Carlos ^a   Ranz, José M ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Drosophila; evolution of genome organization; nuclear chromosome dynamics; retrogenes

Indexed keywords

ARTICLE; AUTOSOME; CHROMOSOME ANALYSIS; CONTROLLED STUDY; DROSOPHILA; DUPLICATE GENE; FEMALE; GENE INSERTION; GERM LINE; INSECT GENOME; MALE; NONHUMAN; SOMATIC CELL; TESTIS FUNCTION; X CHROMOSOME;

ANIMALS; CHROMOSOMES, INSECT; DROSOPHILA; FEMALE; GENES, INSECT; GENOME, INSECT; GERM CELLS; MALE; SPERMATOGENESIS; X CHROMOSOME;

DROSOPHILA MELANOGASTER;

EID: 84861900818     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/mss096     Document Type: Article

References (23)

1. Bai Y, Casola C, Betran E. 2008. Evolutionary origin of regulatory regions of retrogenes in Drosophila. BMC Genomics 9:241.
2. Bai Y, Casola C, Feschotte C, Betran E. 2007. Comparative genomics reveals a constant rate of origination and convergent acquisition of functional retrogenes in Drosophila. Genome Biol. 8:R11.
3. Betran E, Thornton K, Long M. 2002. Retroposed new genes out of the X in Drosophila. Genome Res. 12:1854-1859. (Pubitemid 35469934)
4. Chintapalli VR, Wang J, Dow JA. 2007. Using FlyAtlas to identify better Drosophila melanogaster models of human disease. Nat Genet. 39:715-720. (Pubitemid 46848596)
5. Connallon T, Clark AG. 2011. The resolution of sexual antagonism by gene duplication. Genetics 187:919-937.
6. Fontanillas P, Hartl DL, Reuter M. 2007. Genome organization and gene expression shape the transposable element distribution in the Drosophila melanogaster euchromatin. PLoS Genet. 3:e210.
7. Hense W, Baines JF, Parsch J. 2007. X chromosome inactivation during Drosophila spermatogenesis. PLoS Biol. 5:e273.
8. Kaessmann H, Vinckenbosch N, Long M. 2009. RNA-based gene duplication: mechanistic and evolutionary insights. Nat Rev Genet. 10:19-31.
9. Lyne R, Smith R, Rutherford K, et al. (20 co-authors). 2007. FlyMine: an integrated database for Drosophila and Anopheles genomics. Genome Biol. 8:R129.
10. Metta M, Schlotterer C. 2010. Non-random genomic integration-an intrinsic property of retrogenes in Drosophila. BMC Evol Biol. 10:114.
11. Parisi M, Nuttall R, Naiman D, Bouffard G, Malley J, Andrews J, Eastman S, Oliver B. 2003. Paucity of genes on the Drosophila X chromosome showing male-biased expression. Science 299:697-700. (Pubitemid 36159482)
12. Preston CR, Flores CC, Engels WR. 2006. Differential usage of alternative pathways of double-strand break repair in Drosophila. Genetics 172:1055-1068. (Pubitemid 43345438)
13. Ranz JM, Castillo-Davis CI, Meiklejohn CD, Hartl DL. 2003. Sexdependent gene expression and evolution of the Drosophila transcriptome. Science 300:1742-1745. (Pubitemid 36712569)
14. Ranz JM, Diaz-Castillo C, Petersen R. 2012. Conserved gene order at the nuclear periphery in Drosophila. Mol Biol Evol. 29:13-16.
15. Rathke C, Baarends WM, Jayaramaiah-Raja S, Bartkuhn M, Renkawitz R, Renkawitz-Pohl R. 2007. Transition from a nucleosome-based to a protamine-based chromatin configuration during spermiogenesis in Drosophila. J Cell Sci. 120:1689-1700. (Pubitemid 46831799)
16. Shevelyov YY, Lavrov SA, Mikhaylova LM, Nurminsky ID, Kulathinal RJ, Egorova KS, Rozovsky YM, Nurminsky DI. 2009. The B-type lamin is required for somatic repression of testisspecific gene clusters. Proc Natl Acad Sci USA. 106:3282-3287.
17. Suzuki J, Yamaguchi K, Kajikawa M, Ichiyanagi K, Adachi N, Koyama H, Takeda S, Okada N. 2009. Genetic evidence that the non-homologous end-joining repair pathway is involved in LINE retrotransposition. PLoS Genet. 5:e1000461.
18. Tweedie S, Ashburner M, Falls K, et al. 2009. FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res. 37:D555-D559.
19. Vibranovski MD, Lopes HF, Karr TL, Long M. 2009. Stage-specific expression profiling of Drosophila spermatogenesis suggests that meiotic sex chromosome inactivation drives genomic relocation of testis-expressed genes. PLoS Genet. 5:e1000731.
20. von Grotthuss M, Ashburner M, Ranz JM. 2010. Fragile regions and not functional constraints predominate in shaping gene organization in the genus Drosophila. Genome Res. 20:1084-1096.
21. Wu CI, Xu EY. 2003. Sexual antagonism and X inactivation-the SAXI hypothesis. Trends Genet. 19:243-247. (Pubitemid 36507004)
22. Yanai I, Korbel JO, Boue S, McWeeney SK, Bork P, Lercher MJ. 2006. Similar gene expression profiles do not imply similar tissue functions. Trends Genet. 22:132-138. (Pubitemid 43290017)
23. Zhang Y, Sturgill D, Parisi M, Kumar S, Oliver B. 2007. Constraint and turnover in sex-biased gene expression in the genus Drosophila. Nature 450:233-237. (Pubitemid 350100545)