#PAGE_PARAMS# #ADS_HEAD_SCRIPTS# #MICRODATA#

Interaction between Conjugative and Retrotransposable Elements in Horizontal Gene Transfer


Mobile genetic elements are segments of DNA that capable of “jumping” within a single DNA molecule, between chromosomes or even between cells. They usually encode the enzymes that mediate their own transfer and integration into new DNA locus. The transfer of mobile genetic elements between cells is known as horizontal gene transfer and it is common in Bacteria. Conjugative plasmids are major means to horizontal gene transfer often carrying a variety of putative virulence factors and antibiotics resistance determinants among and within bacterial species. Thus, conjugative plasmids play a crucial role in the plasticity of the genome, allowing bacteria to adjust readily to new environments. Other mobile elements, such as mobile group II introns, were found to be associated with conjugative plasmids. Here, we demonstrated that mobile group II intron and conjugative plasmid interact promoting gene transfer, and potentially providing a mutual benefit to each other.


Vyšlo v časopise: Interaction between Conjugative and Retrotransposable Elements in Horizontal Gene Transfer. PLoS Genet 10(12): e32767. doi:10.1371/journal.pgen.1004853
Kategorie: Research Article
prolekare.web.journal.doi_sk: https://doi.org/10.1371/journal.pgen.1004853

Souhrn

Mobile genetic elements are segments of DNA that capable of “jumping” within a single DNA molecule, between chromosomes or even between cells. They usually encode the enzymes that mediate their own transfer and integration into new DNA locus. The transfer of mobile genetic elements between cells is known as horizontal gene transfer and it is common in Bacteria. Conjugative plasmids are major means to horizontal gene transfer often carrying a variety of putative virulence factors and antibiotics resistance determinants among and within bacterial species. Thus, conjugative plasmids play a crucial role in the plasticity of the genome, allowing bacteria to adjust readily to new environments. Other mobile elements, such as mobile group II introns, were found to be associated with conjugative plasmids. Here, we demonstrated that mobile group II intron and conjugative plasmid interact promoting gene transfer, and potentially providing a mutual benefit to each other.


Zdroje

1. Pyle A, Lambowitz AM (2006) Group II introns: ribozymes that splice RNA and invade DNA. The RNA World, 3rd Edition 36.

2. LambowitzAM, ZimmerlyS (2011) Group II introns: mobile ribozymes that invade DNA. Cold Spring Harb Perspect Biol 3: a003616.

3. SharpPA (1985) On the origin of RNA splicing and introns. Cell 42: 397–400.

4. CechTR (1986) The generality of self-splicing RNA: relationship to nuclear mRNA splicing. Cell 44: 207–210.

5. SharpPA (1991) “Five easy pieces”. Science 254: 663.

6. BeauregardA, CurcioMJ, BelfortM (2008) The take and give between retrotransposable elements and their hosts. Annu Rev Genet 42: 587–617.

7. LambowitzAM, BelfortM (2014) Mobile bacterial group II introns at the crux of eukaryotic evolution. Mobile DNA III In press.

8. CousineauB, SmithD, Lawrence-CavanaghS, MuellerJE, YangJ, et al. (1998) Retrohoming of a bacterial group II intron: mobility via complete reverse splicing, independent of homologous DNA recombination. Cell 94: 451–462.

9. CousineauB, LawrenceS, SmithD, BelfortM (2000) Retrotransposition of a bacterial group II intron. Nature 404: 1018–1021.

10. KennellJC, MoranJV, PerlmanPS, ButowRA, LambowitzAM (1993) Reverse transcriptase activity associated with maturase-encoding group II introns in yeast mitochondria. Cell 73: 133–146.

11. IchiyanagiK, BeauregardA, LawrenceS, SmithD, CousineauB, et al. (2002) Retrotransposition of the Ll.LtrB group II intron proceeds predominantly via reverse splicing into DNA targets. Mol Microbiol 46: 1259–1272.

12. ZhongJ, LambowitzAM (2003) Group II intron mobility using nascent strands at DNA replication forks to prime reverse transcription. EMBO J 22: 4555–4565.

13. MillsDA, McKayLL, DunnyGM (1996) Splicing of a group II intron involved in the conjugative transfer of pRS01 in lactococci. J Bacteriol 178: 3531–3538.

14. DaiL, ZimmerlyS (2002) Compilation and analysis of group II intron insertions in bacterial genomes: evidence for retroelement behavior. Nucleic Acids Res 30: 1091–1102.

15. GassonMJ, SwindellS, MaedaS, DoddHM (1992) Molecular rearrangement of lactose plasmid DNA associated with high-frequency transfer and cell aggregation in Lactococcus lactis 712. Mol Microbiol 6: 3213–3223.

16. ByrdDR, MatsonSW (1997) Nicking by transesterification: the reaction catalysed by a relaxase. Mol Microbiol 25: 1011–1022.

17. Garcillan-BarciaMP, FranciaMV, de la CruzF (2009) The diversity of conjugative relaxases and its application in plasmid classification. FEMS Microbiol Rev 33: 657–687.

18. ChandlerM, de la CruzF, DydaF, HickmanAB, MoncalianG, et al. (2013) Breaking and joining single-stranded DNA: the HUH endonuclease superfamily. Nat Rev Microbiol 11: 525–538.

19. BelhocineK, PlanteI, CousineauB (2004) Conjugation mediates transfer of the Ll.LtrB group II intron between different bacterial species. Mol Microbiol 51: 1459–1469.

20. BelhocineK, YamKK, CousineauB (2005) Conjugative transfer of the Lactococcus lactis chromosomal sex factor promotes dissemination of the Ll.LtrB group II intron. J Bacteriol 187: 930–939.

21. LujanSA, GuogasLM, RagoneseH, MatsonSW, RedinboMR (2007) Disrupting antibiotic resistance propagation by inhibiting the conjugative DNA relaxase. Proc Natl Acad Sci U S A 104: 12282–12287.

22. IchiyanagiK, BeauregardA, BelfortM (2003) A bacterial group II intron favors retrotransposition into plasmid targets. Proc Natl Acad Sci U S A 100: 15742–15747.

23. PerutkaJ, WangW, GoerlitzD, LambowitzAM (2004) Use of computer-designed group II introns to disrupt Escherichia coli DExH/D-box protein and DNA helicase genes. J Mol Biol 336: 421–439.

24. CorosCJ, LandthalerM, PiazzaCL, BeauregardA, EspositoD, et al. (2005) Retrotransposition strategies of the Lactococcus lactis Ll.LtrB group II intron are dictated by host identity and cellular environment. Mol Microbiol 56: 509–524.

25. BolotinA, WinckerP, MaugerS, JaillonO, MalarmeK, et al. (2001) The complete genome sequence of the lactic acid bacterium Lactococcus lactis ssp. lactis IL1403. Genome Res 11: 731–753.

26. ZhaoJ, LambowitzAM (2005) A bacterial group II intron-encoded reverse transcriptase localizes to cellular poles. Proc Natl Acad Sci U S A 102: 16133–16140.

27. BeauregardA, ChalamcharlaVR, PiazzaCL, BelfortM, CorosCJ (2006) Bipolar localization of the group II intron Ll.LtrB is maintained in Escherichia coli deficient in nucleoid condensation, chromosome partitioning and DNA replication. Mol Microbiol 62: 709–722.

28. MeyerR (2009) The r1162 mob proteins can promote conjugative transfer from cryptic origins in the bacterial chromosome. J Bacteriol 191: 1574–1580.

29. ChenY, StaddonJH, DunnyGM (2007) Specificity determinants of conjugative DNA processing in the Enterococcus faecalis plasmid pCF10 and the Lactococcus lactis plasmid pRS01. Mol Microbiol 63: 1549–1564.

30. PetersJE, CraigNL (2000) Tn7 transposes proximal to DNA double-strand breaks and into regions where chromosomal DNA replication terminates. Mol Cell 6: 573–582.

31. ShiQ, ParksAR, PotterBD, SafirIJ, LuoY, et al. (2008) DNA damage differentially activates regional chromosomal loci for Tn7 transposition in Escherichia coli. Genetics 179: 1237–1250.

32. McVeighRR, YasbinRE (1996) Phenotypic differentiation of “smart” versus “naive” bacteriophages of Bacillus subtilis. J Bacteriol 178: 3399–3401.

33. KuzminovA (1995) Instability of inhibited replication forks in E. coli. Bioessays 17: 733–741.

34. MichelB, EhrlichSD, UzestM (1997) DNA double-strand breaks caused by replication arrest. EMBO J 16: 430–438.

35. ChenY, KleinJR, McKayLL, DunnyGM (2005) Quantitative analysis of group II intron expression and splicing in Lactococcus lactis. Appl Environ Microbiol 71: 2576–2586.

36. SinghRN, SaldanhaRJ, D'SouzaLM, LambowitzAM (2002) Binding of a group II intron-encoded reverse transcriptase/maturase to its high affinity intron RNA binding site involves sequence-specific recognition and autoregulates translation. J Mol Biol 318: 287–303.

37. CorosCJ, PiazzaCL, ChalamcharlaVR, SmithD, BelfortM (2009) Global regulators orchestrate group II intron retromobility. Mol Cell 34: 250–256.

38. AuchtungJM, LeeCA, MonsonRE, LehmanAP, GrossmanAD (2005) Regulation of a Bacillus subtilis mobile genetic element by intercellular signaling and the global DNA damage response. Proc Natl Acad Sci USA 102: 12554–12559.

39. FrostLS, KoraimannG (2010) Regulation of bacterial conjugation: balancing opportunity with adversity. Future Microbiol 5: 1057–1071.

40. MillsDA, ChoiCK, DunnyGM, McKayL (1994) Genetic analysis of regions of the Lactococcus lactis subsp. lactis plasmid pRS01 involved in conjugative transfer. Appl Environ Microbiol 60: 4413–4420.

41. KristichCJ, ManiasDA, DunnyGM (2005) Development of a method for markerless genetic exchange in Enterococcus faecalis and its use in construction of a srtA mutant. Appl Environ Microbiol 71: 5837–5849.

42. GoecksJ, NekrutenkoA, TaylorJ, GalaxyT (2010) Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol 11: R86.

43. LangmeadB, TrapnellC, PopM, SalzbergSL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.

44. CockPJ, FieldsCJ, GotoN, HeuerML, RicePM (2010) The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Res 38: 1767–1771.

45. LiH, HandsakerB, WysokerA, FennellT, RuanJ, et al. (2009) The Sequence Alignment/Map format and SAMtools. Bioinformatics 25: 2078–2079.

46. DiazA, ParkK, LimDA, SongJS (2012) Normalization, bias correction, and peak calling for ChIP-seq. Stat Appl Genet Mol Biol 11: Article 9.

47. QuinlanAR, HallIM (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26: 841–842.

48. OkonechnikovK, GolosovaO, FursovM (2012) team U (2012) Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics 28: 1166–1167.

49. CrooksGE, HonG, ChandoniaJM, BrennerSE (2004) WebLogo: a sequence logo generator. Genome Res 14: 1188–1190.

50. GuzmanLM, BelinD, CarsonMJ, BeckwithJ (1995) Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J Bacteriol 177: 4121–4130.

51. LaemmliUK (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227: 680–685.

52. LlosaM, BollandS, de la CruzF (1991) Structural and functional analysis of the origin of conjugal transfer of the broad-host-range IncW plasmid R388 and comparison with the related IncN plasmid R46. Mol Gen Genet 226: 473–483.

53. BolotinA, MaugerS, MalarmeK, EhrlichSD, SorokinA (1999) Low-redundancy sequencing of the entire Lactococcus lactis IL1403 genome. Antonie Van Leeuwenhoek 76: 27–76.

54. ZhouL, ManiasDA, DunnyGM (2000) Regulation of intron function: efficient splicing in vivo of a bacterial group II intron requires a functional promoter within the intron. Mol Microbiol 37: 639–651.

Štítky
Genetika Reprodukčná medicína

Článok vyšiel v časopise

PLOS Genetics


2014 Číslo 12
Najčítanejšie tento týždeň
Najčítanejšie v tomto čísle
Kurzy

Zvýšte si kvalifikáciu online z pohodlia domova

Aktuální možnosti diagnostiky a léčby litiáz
nový kurz
Autori: MUDr. Tomáš Ürge, PhD.

Všetky kurzy
Prihlásenie
Zabudnuté heslo

Zadajte e-mailovú adresu, s ktorou ste vytvárali účet. Budú Vám na ňu zasielané informácie k nastaveniu nového hesla.

Prihlásenie

Nemáte účet?  Registrujte sa

#ADS_BOTTOM_SCRIPTS#