α3, a transposable element that promotes host sexual reproduction

Genes and Development

Volumn 24, Issue 1, 2010, Pages 33-44

  Barsoum, Emad ^a   Martinez, Paula ^a,b   Åström, Stefan U ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

^b Centro Nacional de Investigaciones Oncológicas   (Spain)

Author keywords

DNA double strand break; Gene conversion; Mating type switch; Sexual reproduction; Transposable element

Indexed keywords

DNA BINDING PROTEIN; PROTEIN ALPHA3; TRANSPOSASE; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; CONTROLLED STUDY; DNA FLANKING REGION; DOUBLE STRANDED DNA BREAK; GENE; GENE CONVERSION; GENE EXPRESSION; GENE REPRESSION; GENE SILENCING; KLUYVEROMYCES; MATA GENE; MATALPHA GENE; MATING TYPE; MTS1 GENE; MUTATIONAL ANALYSIS; NONHUMAN; PRIORITY JOURNAL; REPRODUCTION; TRANSPOSON; ENZYMOLOGY; FUNGAL GENE; FUNGAL GENOME; GENE DELETION; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PROTEIN BINDING;

KLUYVEROMYCES LACTIS;

BASE SEQUENCE; BINDING SITES; DNA TRANSPOSABLE ELEMENTS; GENE DELETION; GENE EXPRESSION REGULATION, FUNGAL; GENE SILENCING; GENES, MATING TYPE, FUNGAL; GENOME, FUNGAL; KLUYVEROMYCES; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; REPRODUCTION; TRANSPOSASES;

EID: 73549103607     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.557310     Document Type: Article

References (51)

1. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. 1997. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
2. Åström SU, Kegel A, Sjöstrand JO, Rine J. 2000. Kluyveromyces lactis Sir2p regulates cation sensitivity and maintains a specialized chromatin structure at the cryptic α-locus. Genetics 156: 81-91.
3. Ausubel FM. 1999. Short protocols in molecular biology: A compendium of methods from current protocols in molecular biology. Wiley, New York.
4. Babu MM, Iyer LM, Balaji S, Aravind L. 2006. The natural history of the WRKY-GCM1 zinc fingers and the relationship between transcription factors and transposons. Nucleic Acids Res 34: 6505-6520.
5. Bahler J, Wu JQ, Longtine MS, Shah NG, McKenzie A III, Steever AB, Wach A, Philippsen P, Pringle JR. 1998. Heterologous modules for efficient and versatile PCR-based gene targeting in Schizosaccharomyces pombe. Yeast 14: 943-951.
6. Burke D, Dawson D, Stearns T. 2000. Methods in yeast genetics: A Cold Spring Harbor Laboratory course manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
7. Butler G, Kenny C, Fagan A, Kurischko C, Gaillardin C, Wolfe KH. 2004. Evolution of the MAT locus and its Ho endonuclease in yeast species. Proc Natl Acad Sci 101: 1632-1637.
8. Byrne KP, Wolfe KH. 2005. The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res 15: 1456-1461.
9. Curcio MJ, Derbyshire KM. 2003. The outs and ins of transposition: From mu to kangaroo. Nat Rev Mol Cell Biol 4: 865-877.
10. Doolittle WF, Sapienza C. 1980. Selfish genes, the phenotype paradigm and genome evolution. Nature 284: 601-603.
11. Fabre E, Muller H, Therizols P, Lafontaine I, Dujon B, Fairhead C. 2005. Comparative genomics in hemiascomycete yeasts: Evolution of sex, silencing, and subtelomeres. Mol Biol Evol 22: 856-873.
12. Feschotte C, Pritham EJ. 2007. DNA transposons and the evolution of eukaryotic genomes. Annu Rev Genet 41: 331-368.
13. Fraser JA, Diezmann S, Subaran RL, Allen A, Lengeler KB, Dietrich FS, Heitman J. 2004. Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms. PLoS Biol 2: e384. doi: 10.1371/journal. pbio.0020384.
14. Goldstein AL, McCusker JH. 1999. Three new dominant drug resistance cassettes for gene disruption in Saccharomyces cerevisiae. Yeast 15: 1541-1553.
15. Haber JE. 1998. Matin type gene switching in Saccharomyces cerevisiae. Annu Rev Genet 32: 561-599.
16. Haren L, Ton-Hoang B, Chandler M. 1999. Integrating DNA: Transposases and retroviral integrases. Annu Rev Microbiol 53: 245-281.
17. Herman A, Roman H. 1966. Allele specific determinants of homothallism in Saccharomyces lactis. Genetics 53: 727-740.
18. Herskowitz I. 1988. Life cycle of the budding yeast Saccharomyces cerevisiae. Microbiol Rev 52: 536-553.
19. Herskowitz I, Rine J, Strathern JN. 1992. Mating type determination and matin type interconversion in Saccharomyces cerevisiae. In The molecular and cellular biology of the yeast Saccharomyces (ed. EW Jones et al.), pp. 583-656. Cold Spring Harbor Laboratory Press, New York, NY.
20. Hickey DA. 1982. Selfish DNA: A sexually-transmitted nuclear parasite. Genetics 101: 519-531.
21. Hull CM, Johnson AD. 1999. Identification of a mating type-like locus in the asexual pathogenic yeast Candida albicans. Science 285: 1271-1275.
22. Jones JM, Gellert M. 2004. The taming of a transposon: V(D)J recombination and the immune system. Immunol Rev 200: 233-248.
23. Juretic N, Hoen DR, Huynh ML, Harrison PM, Bureau TE. 2005. The evolutionary fate of MULE-mediated duplications of host gene fragments in rice. Genome Res 15: 1292-1297.
24. Kapitonov VV, Jurka J. 2005. RAG1 core and V(D)J recombination signal sequences were derived from Transib transposons. PLoS Biol 3: e181. doi: 10.1371/journal.pbio.0030181.
25. Kegel A, Martinez P, Carter SD, Åström SU. 2006. Genome wide distribution of illegitimate recombination events in Kluyveromyces lactis. Nucleic Acids Res 34: 1633-1645.
26. Kulkosky J, Jones KS, Katz RA, Mack JP, Skalka AM. 1992. Residues critical for retroviral integrative recombination in a region that is highly conserved among retroviral/retrotransposon integrases and bacterial insertion sequence transposases. Mol Cell Biol 12: 2331-2338.
27. Kurtzman CP. 2003. Phylogenetic circumscription of Saccharomyces, Kluyveromyces and other members of the Saccharomycetaceae, and the proposal of the new genera Lachancea, Nakaseomyces, Naumovia, Vanderwaltozyma and Zygotorulaspora. FEMS Yeast Res 4: 233-245.
28. Lachance MA. 2007. Current status of Kluyveromyces systematics. FEMS Yeast Res 7: 642-645.
29. Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, et al. 2001. Initial sequencing and analysis of the human genome. Nature 409: 860-921.
30. Lengeler KB, Fox DS, Fraser JA, Allen A, Forrester K, Dietrich FS, Heitman J. 2002. Matin type locus of Cryptococcus neoformans: A step in the evolution of sex chromosomes. Eukaryot Cell 1: 704-718.
31. Lengsfeld BM, Rattray AJ, Bhaskara V, Ghirlando R, Paull TT. 2007. Sae2 is an endonuclease that processes hairpin DNA cooperatively with the Mre11/Rad50/Xrs2 complex. Mol Cell 28: 638-651.
32. Lewis LK, Storici F, Van Komen S, Calero S, Sung P, Resnick MA. 2004. Role of the nuclease activity of Saccharomyces cerevisiae Mre11 in repair of DNA double-strand breaks in mitotic cells. Genetics 166: 1701-1713.
33. Lin R, Ding L, Casola C, Ripoll DR, Feschotte C, Wang H. 2007. Transposase-derived transcription factors regulate light signaling in Arabidopsis. Science 318: 1302-1305.
34. Lobachev KS, Gordenin DA, Resnick MA. 2002. The Mre11 complex is required for repair of hairpin-capped double-strand breaks and prevention of chromosome rearrangements. Cell 108: 183-193.
35. Malone RE, Esposito RE. 1980. The RAD52 gene is required for homothallic interconversion of mating types and spontaneous mitotic recombination in yeast. Proc Natl Acad Sci 77: 503-507.
36. McBlane JF, van Gent DC, Ramsden DA, Romeo C, Cuomo CA, Gellert M, Oettinger MA. 1995. Cleavage at a V(D)J recombination signal requires only RAG1 and RAG2 proteins and occurs in two steps. Cell 83: 387-395.
37. Orr-Weaver TL, Szostak JW, Rothstein RJ. 1981. Yeast transformation: A model system for the study of recombination. Proc Natl Acad Sci 78: 6354-6358.
38. Paull TT, Gellert M. 1998. The 3' to 5' exonuclease activity of Mre 11 facilitates repair of DNA double-strand breaks. Mol Cell 1: 969-979.
39. Polard P, Chandler M. 1995. An in vivo transposase-catalyzed single-stranded DNA circularization reaction. Genes & Dev 9: 2846-2858.
40. Puig O, Caspary F, Rigaut G, Rutz B, Bouveret E, Bragado-Nilsson E, Wilm M, Seraphin B. 2001. The tandem affinity purification (TAP) method: A general procedure of protein complex purification. Methods 24: 218-229.
41. Ramsden DA, Gellert M. 1995. Formation and resolution of double-strand break intermediates in V(D)J rearrangement. Genes & Dev 9: 2409-2420.
42. Roth DB, Menetski JP, Nakajima PB, Bosma MJ, Gellert M. 1992. V(D)J recombination: Broken DNA molecules with covalently sealed (hairpin) coding ends in scid mouse thymocytes. Cell 70: 983-991.
43. Sambrook J, Russell DW. 2001. Molecular cloning: A laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
44. Schiestl RH, Gietz RD. 1989. High efficiency transformation of intact yeast cells using single stranded nucleic acids as a carrier. Curr Genet 16: 339-346.
45. Shimizu M, Li W, Covitz PA, Hara M, Shindo H, Mitchell AP. 1998. Genomic footprinting of the yeast zinc finger protein Rme1p and its roles in repression of the meiotic activator IME1. Nucleic Acids Res 26: 2329-2336.
46. Sjöstrand JO, Kegel A, Åström SU. 2002. Functional diversity of silencers in budding yeasts. Eukaryot Cell 1: 548-557.
47. Sundaresan V, Freeling M. 1987. An extrachromosomal form of the Mu transposons of maize. Proc Natl Acad Sci 84: 4924-4928.
48. Trujillo KM, Sung P. 2001. DNA structure-specific nuclease activities in the Saccharomyces cerevisiae Rad50*Mre11 complex. J Biol Chem 276: 35458-35464.
49. Tsong AE, Tuch BB, Li H, Johnson AD. 2006. Evolution of alternative transcriptional circuits with identical logic. Nature 443: 415-420.
50. Wright S, Finnegan D. 2001. Genome evolution: Sex and the transposable element. Curr Biol 11: R296-R299. doi: 10.1016/ S0960-9822(01)00168-3.
51. Zhou L, Mitra R, Atkinson PW, Hickman AB, Dyda F, Craig NL. 2004. Transposition of hAT elements links transposable elements and V(D)J recombination. Nature 432: 995-1001.