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Functional Analysis of Arabidopsis ARGONAUTEs in Meiosis and DNA Repair

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Plant Argonaute Proteins

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1640))

Abstract

Plant ARGONAUTE (AGO) proteins regulate a wide range of cellular and developmental functions. Recent findings highlight their role during homologous recombination, a basic mechanism to repair double-strand DNA lesions (in somatic cells) and programmed DNA breaks (in meiocytes). This chapter contains an exhaustive description of procedures applied to analyze meiotic chromosome behavior (cytogenetic techniques) and DNA repair capacity (genotoxicity assays) in AGO-deficient Arabidopsis thaliana mutants.

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References

  1. Borges F, Martienssen RA (2015) The expanding world of small RNAs in plants. Nat Rev Mol Cell Biol 16(12):727–741. doi:10.1038/nrm4085

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  2. Havecker ER, Wallbridge LM, Hardcastle TJ, Bush MS, Kelly KA, Dunn RM, Schwach F, Doonan JH, Baulcombe DC (2010) The Arabidopsis RNA-directed DNA methylation argonautes functionally diverge based on their expression and interaction with target loci. Plant Cell 22(2):321–334. doi:10.1105/tpc.109.072199

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  3. Zhang H, Xia R, Meyers BC, Walbot V (2015) Evolution, functions, and mysteries of plant ARGONAUTE proteins. Curr Opin Plant Biol 27:84–90. doi:10.1016/j.pbi.2015.06.011

    Article  CAS  PubMed  Google Scholar 

  4. Oliver C, Santos JL, Pradillo M (2016) Accurate chromosome segregation at first meiotic division requires AGO4, a protein involved in RNA-dependent DNA methylation in Arabidopsis thaliana. Genetics 204(2):543–553. doi:10.1534/genetics.116.189217

    Article  PubMed  Google Scholar 

  5. Oliver C, Santos JL, Pradillo M (2014) On the role of some ARGONAUTE proteins in meiosis and DNA repair in Arabidopsis thaliana. Front Plant Sci 5:177. doi:10.3389/fpls.2014.00177

    Article  PubMed  PubMed Central  Google Scholar 

  6. Sanchez Moran E, Armstrong SJ, Santos JL, Franklin FC, Jones GH (2001) Chiasma formation in Arabidopsis thaliana accession Wassileskija and in two meiotic mutants. Chromosom Res 9(2):121–128

    Article  CAS  Google Scholar 

  7. Sanchez-Moran E, Armstrong SJ, Santos JL, Franklin FC, Jones GH (2002) Variation in chiasma frequency among eight accessions of Arabidopsis thaliana. Genetics 162(3):1415–1422

    CAS  PubMed  PubMed Central  Google Scholar 

  8. Lopez E, Pradillo M, Oliver C, Romero C, Cunado N, Santos JL (2012) Looking for natural variation in chiasma frequency in Arabidopsis thaliana. J Exp Bot 63(2):887–894. doi:10.1093/jxb/err319

    Article  CAS  PubMed  Google Scholar 

  9. Copenhaver GP, Browne WE, Preuss D (1998) Assaying genome-wide recombination and centromere functions with Arabidopsis tetrads. Proc Natl Acad Sci U S A 95(1):247–252

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  10. Lu P, Han X, Qi J, Yang J, Wijeratne AJ, Li T, Ma H (2012) Analysis of Arabidopsis genome-wide variations before and after meiosis and meiotic recombination by resequencing Landsberg erecta and all four products of a single meiosis. Genome Res 22(3):508–518. doi:10.1101/gr.127522.111

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  11. Drouaud J, Khademian H, Giraut L, Zanni V, Bellalou S, Henderson IR, Falque M, Mezard C (2013) Contrasted patterns of crossover and non-crossover at Arabidopsis thaliana meiotic recombination hotspots. PLoS Genet 9(11):e1003922. doi:10.1371/journal.pgen.1003922

    Article  PubMed  PubMed Central  Google Scholar 

  12. Mathieu O, Picard G, Tourmente S (2002) Methylation of a euchromatin-heterochromatin transition region in Arabidopsis thaliana chromosome 5 left arm. Chromosom Res 10(6):455–466

    Article  CAS  Google Scholar 

  13. Manova V, Gruszka D (2015) DNA damage and repair in plants–from models to crops. Front Plant Sci 6:885. doi:10.3389/fpls.2015.00885

    Article  PubMed  PubMed Central  Google Scholar 

  14. Bonnet S, Knoll A, Hartung F, Puchta H (2013) Different functions for the domains of the Arabidopsis thaliana RMI1 protein in DNA cross-link repair, somatic and meiotic recombination. Nucleic Acids Res 41(20):9349–9360. doi:10.1093/nar/gkt730

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Pradillo M, Knoll A, Oliver C, Varas J, Corredor E, Puchta H, Santos JL (2015) Involvement of the cohesin cofactor PDS5 (SPO76) during meiosis and DNA repair in Arabidopsis thaliana. Front Plant Sci 6:1034. doi:10.3389/fpls.2015.01034

    Article  PubMed  PubMed Central  Google Scholar 

  16. Alonso JM, Stepanova AN, Leisse TJ, Kim CJ, Chen H, Shinn P, Stevenson DK, Zimmerman J, Barajas P, Cheuk R, Gadrinab C, Heller C, Jeske A, Koesema E, Meyers CC, Parker H, Prednis L, Ansari Y, Choy N, Deen H, Geralt M, Hazari N, Hom E, Karnes M, Mulholland C, Ndubaku R, Schmidt I, Guzman P, Aguilar-Henonin L, Schmid M, Weigel D, Carter DE, Marchand T, Risseeuw E, Brogden D, Zeko A, Crosby WL, Berry CC, Ecker JR (2003) Genome-wide insertional mutagenesis of Arabidopsis thaliana. Science 301(5633):653–657. doi:10.1126/science.1086391

    Article  PubMed  Google Scholar 

  17. Gerlach WL, Bedbrook JR (1979) Cloning and characterization of ribosomal RNA genes from wheat and barley. Nucleic Acids Res 7(7):1869–1885

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  18. Campell BR, Song Y, Posch TE, Cullis CA, Town CD (1992) Sequence and organization of 5S ribosomal RNA-encoding genes of Arabidopsis thaliana. Gene 112(2):225–228

    Article  CAS  PubMed  Google Scholar 

  19. Armstrong SJ, Sanchez-Moran E, Franklin FC (2009) Cytological analysis of Arabidopsis thaliana meiotic chromosomes. Methods Mol Biol 558:131–145. doi:10.1007/978-1-60761-103-5_9

    Article  PubMed  Google Scholar 

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Acknowledgments

MMG and MP acknowledge the support of the European Union by the advanced grant Marie Curie Initial Training Network (ITN) “COMREC” (Grant agreement number: 606956). In addition, the work in MP laboratory is supported by a grant from the Ministerio de Economía y Competitividad of Spain (AGL2015–67349–P). The authors thank Juan Luis Santos and Eugenio Sánchez–Morán for helpful discussions about the importance of accurate chiasma quantification in the analysis of meiotic mutants, and Alexander Knoll and Holger Puchta for sharing protocols related to sensitivity assays using genotoxic agents.

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Correspondence to Mónica Pradillo .

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Martinez-Garcia, M., Pradillo, M. (2017). Functional Analysis of Arabidopsis ARGONAUTEs in Meiosis and DNA Repair. In: Carbonell, A. (eds) Plant Argonaute Proteins. Methods in Molecular Biology, vol 1640. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7165-7_10

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  • DOI: https://doi.org/10.1007/978-1-4939-7165-7_10

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7164-0

  • Online ISBN: 978-1-4939-7165-7

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