Genetic variation of copia suppression in Drosophila melanogaster

Heredity

Volumn 106, Issue 2, 2011, Pages 207-217

  Vu, W ^a   Nuzhdin, S ^b  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Drosophila melanogaster; plasmid DNA; QTL mapping; Retrotransposon copia; transcription; transposition

Indexed keywords

DEAD BOX PROTEIN; DROSOPHILA PROTEIN; MESSENGER RNA; SMALL INTERFERING RNA; VAS PROTEIN, DROSOPHILA;

DNA; FLY; GENE EXPRESSION; GENETIC VARIATION; GENOMICS; PLASMID; POPULATION DYNAMICS; QUANTITATIVE ANALYSIS; RECOMBINATION; REPRODUCTIVE BEHAVIOR;

ANIMAL; ARTICLE; CHEMISTRY; CHROMOSOME MAP; COPY NUMBER VARIATION; DROSOPHILA MELANOGASTER; FEMALE; GENETIC VARIABILITY; GENETICS; MALE; METABOLISM; PLASMID; QUANTITATIVE TRAIT LOCUS; RETROPOSON; RNA INTERFERENCE; SPERMATID; SPERMATOGENESIS; ULTRASTRUCTURE;

ANIMALS; CHROMOSOME MAPPING; DEAD-BOX RNA HELICASES; DNA COPY NUMBER VARIATIONS; DROSOPHILA MELANOGASTER; DROSOPHILA PROTEINS; FEMALE; GENETIC VARIATION; MALE; PLASMIDS; QUANTITATIVE TRAIT LOCI; RETROELEMENTS; RNA INTERFERENCE; RNA, MESSENGER; RNA, SMALL INTERFERING; SPERMATIDS; SPERMATOGENESIS;

DROSOPHILA MELANOGASTER;

EID: 78751648738     PISSN: 0018067X     EISSN: 13652540     Source Type: Journal    
DOI: 10.1038/hdy.2010.41     Document Type: Article

References (63)

1. Aravin AA, Hannon GJ, Brennecke J (2007). The Piwi-piRNA pathway provides an adaptive defense in the transposon arm race. Science 318: 761-764
2. Aravin AA, Klenov MS, Vagin VV, Bantignes F, Cavalli G, Gvozdev VA (2004). Dissection of a natural RNA silencing process in the Drosophila melanogaster germ line. Mol Cell Biol 24: 6742-6750.
3. Basten C, Weir BS, Zeng ZB (1997). QTL Cartographer: A Reference Manual and Tutorial for QTL Mapping. Department of Statistics, North Carolina State University: Raleigh, NC (http://statgen.ncsu.edu/qtlcart/).
4. Biémont C (1994). Dynamic equilibrium between insertion and excision of P elements in highly inbred lines from an M' strain of Drosophila melanogaster. J Mol Evol 39: 466-472.
5. Boeke JD, Chapman KB (1991). Retrotransposition mechanisms. Curr Opin Cell Biol 3: 502-508.
6. Brookfield JF, Badge RM (1997). Population genetics models of transposable elements. Genetica 100: 281-294.
7. Brookfield JF, Montgomery E, Langley CH (1984). Apparent absence of transposable elements related to the P elements D. melanogaster in other species of Drosophila. Nature 310: 330-332.
8. Blumenstiel JP, Hartl DL (2005). Evidence for maternally transmitted small interfering RNA in the repression of transposition in Drosophila virilis. PNAS 102: 15965-15970.
9. Brennecke J, Aravin AA, Stark A, Dus M, Kellis M, Sachidanandam R et al. (2007). Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. Cell 128: 1089-1103.
10. Bucheton A (1995). The relationship between the flamenco gene and gypsy in Drosophila: how to tame a retrovirus. Trends Genet 11: 349-353.
11. Buchon N, Vaury C (2006). RNAi: a defensive RNA-silencing against viruses and transposable elements. Heredity 96: 195-202.
12. Charlesworth B, Langley CH (1989). The population genetics of Drosophila transposable elements. Annu Rev Genet 23: 251-287.
13. Charlesworth B, Sniegowski P, Stephan W (1994). The evolutionary dynamics of repetitive DNA in eukaryotes. Nature 371: 215-220.
14. Csink AK, McDonald JF (1995). Analysis of copia sequence variation within andbetween Drosophila species. Mol Biol Evol 12: 83-93.
15. Eggleston WB, Johnson-Schlitz DM, Engels WR (1988). P-M hybrid dysgenesis does not mobilize other transposable element families in Drosophila melanogaster. Nature 331: 368-370.
16. Finnegan DJ (1978). Repeated gene families in Drosophila melanogaster. Cold Spring Harb Symp Quant Biol 42: 1053-1063.
17. Flavell AJ (1984). Role of reverse transcription in the generation of extrachromosomal copia mobile genetic elements. Nature 310: 514-516.
18. Flavell AJ, Ishorowicz D (1981). Extrachromosomal circular copies of the eukaryotic transposable element copia in cultured Drosophila cells. Nature 292: 591-595.
19. Flavell AJ, Ish-Horowicz D (1983). The origin of extrachromosomal circular copia elements. Cell 34: 415-419.
20. Grivna ST, Beyret E, Wang Z, Lin H (2006). A novel class of small RNAs in mouse spermatogenic cells. Genes Dev 20: 1709-1714.
21. Haoudi A, Kim MH, Champion S, Best-Balpomme M, Maisonhaute C (1995). The gag polypeptides of the Drosophila 1731 retrotransposon are associated to virus-like particles and to nuclei. FEBS Lett 377: 67-72.
22. Harada K, Yukuhiro K, Mukai T (1990). Transposition rates of movable genetic elements in Drosophila melanogaster. Proc Natl Acad Sci USA 87: 3248-3252.
23. Houle D, Nuzhdin SV (2004). Mutation accumulation and the effect of copia insertions in Drosophila melanogaster. Genet Res 83: 7-18.
24. Hutvágner G, Zamore PD (2002). A microRNA in a multipleturnover RNAi enzyme complex. Science 297: 2056-2060.
25. Klattenhoff C, Theurkauf W (2008). Biogenesis and germline functions of piRNAs. Development 135: 3-9.
26. Klenov MS, Lavrov SA, Stolyarenko AD, Ryazansky SS, Aravin AA, Tuschl T et al. (2007). Repeat-associated siRNAs cause chromatin silencing of retrotransposons in the Drosophila melanogaster germline. Nucleic Acids Res 35: 5430-5438.
27. Kotaja N, Sassone-Corsi P (2007). The chromatoid body: a germcell-specific RNA-processing center. Nat Rev 8: 85-90.
28. Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J et al. (2001). Initial sequencing and analysis of the human genome. Nature 409: 860-921.
29. Lefevre G (1976). A photographic representation and interpretation of the polytene chromosomes of Drosophila melanogaster salivary glands. In: The Genetics and Biology of Drosophila. Academic Press: London, pp 31-66.
30. Lim AK, Kai T (2007). Unique germ-line organelle nuage, functions to repress selfish genetic elements in Drosophila melanogaster. Proc Natl Acad Sci USA 104: 6714-6719.
31. Lohe AR, Hartl DL (1996). Germline transformation of Drosophila Virillus with the transposable element mariner. Genetics 143: 365-374.
32. Mackay TFC, Lyman RF, Jackson MS (1992). Effects of P element insertions on quantitative traits in Drosophila melanogaster. Genetics 130: 315-332.
33. Marzo M, Puig M, Ruiz A (2008). The foldback-like element Galileo belongs to the P superfamily of DNA transposons and is widespread within the Drosophila genus. Proc Natl Acad Sci USA 105: 2957-2962.
34. Mevel-Ninio M, Pelisson A, Kinder J, Campos AR, Bucheton A (2007). The flamenco locus controls the gypsy and ZAM retroviruses and is required for Drosophila oogenesis. Genetics 175: 1615-1624.
35. Nuzhdin SV (1999). Sure facts, speculations, and open questions about the evolution of transposable element copy number. Genetica 107: 129-137.
36. Nuzhdin SV, Mackay TFC (1994). Direct determination of retrotransposon transposition rates in Drosophila melanogaster. Genet Res 63: 139-144.
37. Nuzhdin SV, Mackay TFC (1995). The genomic rate of transposable element movement in Drosophila melanogaster. Mol Biol Evol 12: 180-181.
38. Nuzhdin SV, Pasyukova EG (1991). New approach to polygene mapping: Location of genes controlling fitness level in related Drosophila melanogaster stocks. Genetika (Russ) 27: 849-859.
39. Nuzhdin SV, Pasyukova EG, Mackay TFC (1996). Positive association between copia transposition rate and copy number in Drosophila melanogaster. Proc Roy Soc Lond B 263: 823-831.
40. Nuzhdin SV, Pasyukova EG, Mackay TFC (1997). Accumulation of transposable elements in laboratory lines of Drosophila melanogaster. Genetica 100: 167-175.
41. Nuzhdin SV, Pasyukova EG, Morozova EA, Flavell AJ (1998). Quantitative genetic analysis of copia retrotransposon activity in inbred Drosophila melanogaster lines. Genetics 150: 755-766.
42. O'Donnell DA, Boeke JD (2007). Mighty piwis defend the germline against genome intruders. Cell 129: 37-44.
43. Pasyukova E, Nuzhdin SV, Li W, Flavell AJ (1997). Germ line transposition of the copia retrotransposon in Drosophila melanogaster is restricted to males by tissue-specific control of copia RNA levels. Mol Gen Genet 255: 115-124.
44. Pasyukova EG, Nuzhdin S (1993). Doc and copia instability in an isogenic Drosophila melanogaster stock. Mol Gen Genet 240: 302-306.
45. Pasyukova EG, Nuzhdin SV, Filatov DA (1998). The relationship between the rate of transposition and transposable element copy number for copia and Doc retrotransposons of Drosophila melanogaster. Gen Res 72: 1-11.
46. Parvinen M (2005). The chromatoid body in spermatogenesis. Int J Androl 28: 189-201.
47. Pelisson A, Sarot E, Payen-Groschene G, Bucheton A (2007). A novel repeat-associated small interfering RNA-mediated silencing pathway down regulates complementary-sense gypsy transcripts in somatic cells of the Drosophila ovary. J Virol 81: 1951-1960.
48. Pelisson A, Teysset L, Chalvet F, Kim A, Prud'homme N, Terzian C et al. (1997). About the origin of retroviruses and the coevolution of the gypsy retrovirus with the Drosophila flamenco host gene. Genetica 100: 29-37.
49. Perdue S, Nuzhdin SV (2000). Master copy is not responsible for the high rate of copia transposition in drosophila. Mol Biol Evol 17: 984-986.
50. Peters L, Meister G (2007). Argonaute proteins: mediators of RNA silencing. Mol Cell 26: 611-623.
51. Peterson-Burch BD, Voytas DF (2002). Genes of the pseudoviridae (Ty1/copia) retrotransposons. Mol Biol Evol 19: 1832-1845.
52. Prud'homme N, Gans M, Masson M, Terzian C, Butehton A (1995). Flamenco, a gene controlling the gypsy retrovirus of Drosophila melanogaster. Genetics 139: 697-711.
53. Rachidi M, Lopes C, Benichou JC, Hellio R, Maisonhaute C (2005). Virus-like particle formation in Drosophila melanogaster germ cells suggests a complex translational regulation of the retrotransposon cycle and new mechanisms inhibiting transposition. Cyto Gen Res 111: 88-95.
54. SAS/STAT user's guide, version 6, 4th edn, Vol. 2. Cary, N.C.: SAS Institute, 1989, pp 1027-1069.
55. Seto AG, Kingston RE, Lau NC (2007). The coming of age for piwi proteins molecular. Cell 26: 611-623.
56. Shrimpton A, Montgomery EA, Langley CH (1986). OM mutations in drosophila ananasae are linked to insertions of transposable elements. Genetics 114: 125-135.
57. Simmons MJ, Ryzek DF, Lamour C, Goodman JW, Kummer NE, Merriman PJ (2007). Cytotype regulation by telomeric P elements in Drosophila melanogaster: evidence for involvement of an RNA interference gene. Genetics 176: 1945-1955.
58. Shpiz S, Kwon D, Uneva A, Kim M, Klenove M, Rozovsky Y et al. (2007). Characterization of Drosophila telomeric retroelement TAHRE: transcription, transpositions, and RNAi-based regulation of expression. Mol Biol Evol 24: 2535-2545.
59. Styhler S, Nakamura A, Swan A, Suter B, Lasko P (1998). vasa is required for GURKEN accumulation in the oocyte, and is involved in oocyte differentiation and germline cyst development. Development 125: 1569-1578.
60. Xing JC, Witherspoon DJ, Ray DA, Batzer MA, Jorde LB (2007). Mobile DNA elements in primates and human evolution. Am J Phys Anthro 134: 2-19.
61. Yoshioka K, Fujita A, Kondo S, Miyake T, Sakaki Y, Shiba T (1992). Production of a unique multi-lamella structure in the nuclei of yeast expressing Drosophila copia gag precursor. FEBS Lett 302: 5-7.
62. Yoshioka K, Honma H, Zushi M, Kondo S, Togashi S, Miyake T et al. (1990). Virus-like particle formation of Drosophila copia through autocatalytic processing. EMBO J 9: 535-541.
63. Zeng ZB (1994). Precision mapping of quantitative trait loci. Genetics 136: 1457-1468.