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Volumn 6, Issue , 2015, Pages

Arabidopsis MSH1 mutation alters the epigenome and produces heritable changes in plant growth

Author keywords

[No Author keywords available]

Indexed keywords

AZACITIDINE; PROTEIN; PROTEIN MSH1; UNCLASSIFIED DRUG; ARABIDOPSIS PROTEIN; MSH1 PROTEIN, ARABIDOPSIS; PRIMER DNA; PROTEIN MUTS;

EID: 84924072832     PISSN: None     EISSN: 20411723     Source Type: Journal    
DOI: 10.1038/ncomms7386     Document Type: Article
Times cited : (90)

References (44)
  • 1
    • 84861843772 scopus 로고    scopus 로고
    • The chloroplast triggers developmental reprogramming when MUTS HOMOLOG1 is suppressed in plants
    • Xu, Y.-Z. et al. The chloroplast triggers developmental reprogramming when MUTS HOMOLOG1 is suppressed in plants. Plant Physiol. 159, 710-720 (2012).
    • (2012) Plant Physiol , vol.159 , pp. 710-720
    • Xu, Y.-Z.1
  • 2
    • 78049402859 scopus 로고    scopus 로고
    • Molecular signals of epigenetic states
    • Bonasio, R., Tu, S. & Reinberg, D. Molecular signals of epigenetic states. Science 330, 612-616 (2010).
    • (2010) Science , vol.330 , pp. 612-616
    • Bonasio, R.1    Tu, S.2    Reinberg, D.3
  • 3
    • 79957679448 scopus 로고    scopus 로고
    • Epigenetic contribution to stress adaptation in plants
    • Mirouze, M. & Paszkowski, J. Epigenetic contribution to stress adaptation in plants. Curr. Opin. Plant Biol. 14, 267-274 (2011).
    • (2011) Curr. Opin. Plant Biol , vol.14 , pp. 267-274
    • Mirouze, M.1    Paszkowski, J.2
  • 4
    • 84864679478 scopus 로고    scopus 로고
    • Widespread dynamic DNA methylation in response to biotic stress
    • Dowen, R. H. et al. Widespread dynamic DNA methylation in response to biotic stress. Proc. Natl Acad. Sci. USA 109, E2183-E2191 (2012).
    • (2012) Proc. Natl Acad. Sci. USA , vol.109 , pp. E2183-E2191
    • Dowen, R.H.1
  • 6
    • 79955086529 scopus 로고    scopus 로고
    • Selected aspects of transgenerational epigenetic inheritance and resetting in plants
    • Paszkowski, J. & Grossniklaus, U. Selected aspects of transgenerational epigenetic inheritance and resetting in plants. Curr. Opin. Plant Biol. 14, 195-203 (2011).
    • (2011) Curr. Opin. Plant Biol , vol.14 , pp. 195-203
    • Paszkowski, J.1    Grossniklaus, U.2
  • 7
    • 65249186659 scopus 로고    scopus 로고
    • Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes
    • Reinders, J. et al. Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes. Genes Dev. 23, 939-950 (2009).
    • (2009) Genes Dev , vol.23 , pp. 939-950
    • Reinders, J.1
  • 8
    • 84896689071 scopus 로고    scopus 로고
    • Mapping the epigenetic basis of complex traits
    • Cortijo, S. et al. Mapping the epigenetic basis of complex traits. Science 343, 1145-1148 (2014).
    • (2014) Science , vol.343 , pp. 1145-1148
    • Cortijo, S.1
  • 9
    • 80051565958 scopus 로고    scopus 로고
    • Genome-wide epigenetic perturbation jump-starts patterns of heritable variation found in nature
    • Roux, F. et al. Genome-wide epigenetic perturbation jump-starts patterns of heritable variation found in nature. Genetics 188, 1015-1017 (2011).
    • (2011) Genetics , vol.188 , pp. 1015-1017
    • Roux, F.1
  • 10
    • 0038612979 scopus 로고    scopus 로고
    • Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS
    • Abdelnoor, R. V. et al. Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS. Proc. Natl Acad. Sci. USA 100, 5968-5973 (2003).
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 5968-5973
    • Abdelnoor, R.V.1
  • 11
    • 80054969644 scopus 로고    scopus 로고
    • MutS HOMOLOG1 is a nucleoid protein that alters mitochondrial and plastid properties and plant response to high light
    • Xu, Y.-Z. et al. MutS HOMOLOG1 is a nucleoid protein that alters mitochondrial and plastid properties and plant response to high light. Plant Cell 23, 3428-3441 (2011).
    • (2011) Plant Cell , vol.23 , pp. 3428-3441
    • Xu, Y.-Z.1
  • 12
    • 84920816651 scopus 로고    scopus 로고
    • MSH1-induced non-genetic variation provides a source of phenotypic diversity in Sorghum bicolor
    • Santamaria, R. et al. MSH1-induced non-genetic variation provides a source of phenotypic diversity in Sorghum bicolor. PLoS ONE 9, e108407 (2014).
    • (2014) PLoS ONE , vol.9
    • Santamaria, R.1
  • 13
    • 84872614860 scopus 로고    scopus 로고
    • Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome
    • Stroud, H. et al. Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome. Cell 152, 352-364 (2013).
    • (2013) Cell , vol.152 , pp. 352-364
    • Stroud, H.1
  • 14
    • 80054718602 scopus 로고    scopus 로고
    • Spontaneous epigenetic variation in the Arabidopsis thaliana methylome
    • Becker, C. et al. Spontaneous epigenetic variation in the Arabidopsis thaliana methylome. Nature 480, 245-249 (2011).
    • (2011) Nature , vol.480 , pp. 245-249
    • Becker, C.1
  • 15
    • 80054837794 scopus 로고    scopus 로고
    • Transgenerational epigenetic instability is a source of novel methylation variants
    • Schmitz, R. J. et al. Transgenerational epigenetic instability is a source of novel methylation variants. Science 334, 369-373 (2011).
    • (2011) Science , vol.334 , pp. 369-373
    • Schmitz, R.J.1
  • 16
    • 84899142501 scopus 로고    scopus 로고
    • Transgenerational phenotypic and epigenetic changes in response to heat stress in Arabidopsis thaliana
    • Migicovsky, Z., Yao, Y. & Kovalchuk, I. Transgenerational phenotypic and epigenetic changes in response to heat stress in Arabidopsis thaliana. Plant Signal. Behav. 9, e27971 (2014).
    • (2014) Plant Signal. Behav , vol.9
    • Migicovsky, Z.1    Yao, Y.2    Kovalchuk, I.3
  • 17
    • 84901645644 scopus 로고    scopus 로고
    • Conceptual and empirical challenges of ascribing functions to transposable elements
    • Elliott, T. A., Linquist, S. & Gregory, T. R. Conceptual and empirical challenges of ascribing functions to transposable elements. Am. Nat. 184, 14-24 (2014).
    • (2014) Am. Nat , vol.184 , pp. 14-24
    • Elliott, T.A.1    Linquist, S.2    Gregory, T.R.3
  • 18
    • 34250657287 scopus 로고    scopus 로고
    • Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs
    • Shedge, V., Arrieta-Montiel, M. P., Christensen, A. C. & Mackenzie, S. A. Plant mitochondrial recombination surveillance requires unusual RecA and MutS homologs. Plant Cell 19, 1251-1264 (2007).
    • (2007) Plant Cell , vol.19 , pp. 1251-1264
    • Shedge, V.1    Arrieta-Montiel, M.P.2    Christensen, A.C.3    Mackenzie, S.A.4
  • 19
    • 77950533883 scopus 로고    scopus 로고
    • Extensive rearrangement of the Arabidopsis mitochondrial genome elicits cellular conditions for thermotolerance
    • Shedge, V., Davila, J., Arrieta-Montiel, M. P., Mohammed, S. & Mackenzie, S. A. Extensive rearrangement of the Arabidopsis mitochondrial genome elicits cellular conditions for thermotolerance. Plant Physiol. 152, 1960-1970 (2010).
    • (2010) Plant Physiol , vol.152 , pp. 1960-1970
    • Shedge, V.1    Davila, J.2    Arrieta-Montiel, M.P.3    Mohammed, S.4    Mackenzie, S.A.5
  • 20
    • 38549105441 scopus 로고    scopus 로고
    • Variation and constraint in plant evolution and development
    • Kalisz, S. & Kramer, E. M. Variation and constraint in plant evolution and development. Heredity (Edinb) 100, 171-177 (2008).
    • (2008) Heredity (Edinb) , vol.100 , pp. 171-177
    • Kalisz, S.1    Kramer, E.M.2
  • 22
    • 84857189983 scopus 로고    scopus 로고
    • Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs
    • Shivaprasad, P. V., Dunn, R. M., Santos, B. A., Bassett, A. & Baulcombe, D. C. Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs. EMBO J. 31, 257-266 (2012).
    • (2012) EMBO J , vol.31 , pp. 257-266
    • Shivaprasad, P.V.1    Dunn, R.M.2    Santos, B.A.3    Bassett, A.4    Baulcombe, D.C.5
  • 23
    • 84890972951 scopus 로고    scopus 로고
    • Small RNAs big impact: Small RNA pathways in transposon control and their effect on the host stress response
    • Wheeler, B. S. Small RNAs, big impact: small RNA pathways in transposon control and their effect on the host stress response. Chromosome Res. 21, 587-600 (2013).
    • (2013) Chromosome Res , vol.21 , pp. 587-600
    • Wheeler, B.S.1
  • 24
    • 84877892296 scopus 로고    scopus 로고
    • Small RNAs and regulation of transposons in plants
    • Ito, H. Small RNAs and regulation of transposons in plants. Genes Genet. Syst. 88, 3-7 (2013).
    • (2013) Genes Genet. Syst , vol.88 , pp. 3-7
    • Ito, H.1
  • 25
    • 84859142792 scopus 로고    scopus 로고
    • RPL1: A gene involved in epigenetic processes regulates phenotypic plasticity in rice
    • Zhang, C. C., Yuan, W.-Y. & Zhang, Q.-F. RPL1: a gene involved in epigenetic processes regulates phenotypic plasticity in rice. Mol. Plant 5, 482-493 (2012).
    • (2012) Mol. Plant , vol.5 , pp. 482-493
    • Zhang, C.C.1    Yuan, W.-Y.2    Zhang, Q.-F.3
  • 26
    • 0000628960 scopus 로고
    • Extra-chromosomal mutability determined by a nuclear gene locus in Arabidopsis
    • Redei, G. P. Extra-chromosomal mutability determined by a nuclear gene locus in Arabidopsis. Mutat. Res. 18, 149-162 (1973).
    • (1973) Mutat. Res , vol.18 , pp. 149-162
    • Redei, G.P.1
  • 27
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead, B. & Salzberg, S. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357-359 (2012).
    • (2012) Nat. Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.2
  • 28
    • 80255127234 scopus 로고    scopus 로고
    • Cutadapt removes adapter sequences from high-throughput sequencing reads
    • Martin, M. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J. 17, 1 (2011).
    • (2011) EMBnet J , vol.17 , pp. 1
    • Martin, M.1
  • 29
    • 84856468953 scopus 로고    scopus 로고
    • NGS QC Toolkit: A toolkit for quality control of next generation sequencing data
    • Patel, R. K. & Jain, M. NGS QC Toolkit: a toolkit for quality control of next generation sequencing data. PLoS ONE 7, e30619 (2012).
    • (2012) PLoS ONE , vol.7
    • Patel, R.K.1    Jain, M.2
  • 30
    • 84874604550 scopus 로고    scopus 로고
    • Hannon Lab. FASTX-Toolkit. Available at http://hannonlab.cshl.edu/ fastx-toolkit/.
    • FASTX-Toolkit
  • 31
    • 77949511368 scopus 로고    scopus 로고
    • Pebble and Rock Band: Heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler
    • Zerbino, D. R., McEwen, G. K., Margulies, E. H. & Birney, E. Pebble and Rock Band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler. PLoS ONE 4, e8407 (2009).
    • (2009) PLoS ONE , vol.4 , pp. e8407
    • Zerbino, D.R.1    McEwen, G.K.2    Margulies, E.H.3    Birney, E.4
  • 32
    • 74049108922 scopus 로고    scopus 로고
    • BLAST+: Architecture and applications
    • Camacho, C. et al. BLAST+: architecture and applications. BMC Bioinformatics 10, 421 (2009).
    • (2009) BMC Bioinformatics , vol.10 , pp. 421
    • Camacho, C.1
  • 33
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence alignment/map (SAM) format and SAMtools
    • Li, H. et al. The Sequence alignment/map (SAM) format and SAMtools. Bioinformatics 25, 2078-2079 (2009).
    • (2009) Bioinformatics , vol.25 , pp. 2078-2079
    • Li, H.1
  • 34
    • 84863229351 scopus 로고    scopus 로고
    • 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
    • Lu, P. et al. 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, 508-518 (2012).
    • (2012) Genome Res , vol.22 , pp. 508-518
    • Lu, P.1
  • 35
    • 79957868920 scopus 로고    scopus 로고
    • Bismark: A flexible aligner and methylation caller for bisulfite-seq applications
    • Krueger, F. & Andrews, S. R. Bismark: a flexible aligner and methylation caller for bisulfite-seq applications. Bioinformatics 27, 1571-1572 (2011).
    • (2011) Bioinformatics , vol.27 , pp. 1571-1572
    • Krueger, F.1    Andrews, S.R.2
  • 36
    • 0042424602 scopus 로고    scopus 로고
    • Statistical significance for genome-wide studies
    • Storey, J. D. & Tibshirani, R. Statistical significance for genome-wide studies. Proc. Natl Acad. Sci. USA 100, 9440-9445 (2003).
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 9440-9445
    • Storey, J.D.1    Tibshirani, R.2
  • 37
    • 84879895082 scopus 로고    scopus 로고
    • Detection of significantly differentially methylated regions in targeted bisulfite sequencing data
    • Hebestreit, K., Dugas, M. & Klein, H.-U. Detection of significantly differentially methylated regions in targeted bisulfite sequencing data. Bioinformatics 29, 1647-1653 (2013).
    • (2013) Bioinformatics , vol.29 , pp. 1647-1653
    • Hebestreit, K.1    Dugas, M.2    Klein, H.-U.3
  • 38
    • 80054949793 scopus 로고    scopus 로고
    • Adegenet 1.3-1: New tools for the analysis of genomewide SNP data
    • Jombart, T. & Ahmed, I. adegenet 1.3-1: new tools for the analysis of genomewide SNP data. Bioinformatics 27, 3070-3071 (2011).
    • (2011) Bioinformatics , vol.27 , pp. 3070-3071
    • Jombart, T.1    Ahmed, I.2
  • 39
    • 44349095887 scopus 로고    scopus 로고
    • Adegenet: A R package for the multivariate analysis of genetic markers
    • Jombart, T. adegenet: a R package for the multivariate analysis of genetic markers. Bioinformatics 24, 1403-1405 (2008).
    • (2008) Bioinformatics , vol.24 , pp. 1403-1405
    • Jombart, T.1
  • 41
    • 84944178665 scopus 로고
    • Hierarchical grouping to optimize an objective function
    • Joe, H. & Ward, J. Hierarchical grouping to optimize an objective function. J. Am. Stat. Assoc. 58, 236-244 (1963).
    • (1963) J. Am. Stat. Assoc , vol.58 , pp. 236-244
    • Joe, H.1    Ward, J.2
  • 42
    • 84866860221 scopus 로고    scopus 로고
    • MethylKit: A comprehensive R package for the analysis of genome-wide DNA methylation profiles
    • Akalin, A. et al. methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles. Genome Biol. 13, R87 (2012).
    • (2012) Genome Biol , vol.13 , pp. R87
    • Akalin, A.1
  • 44
    • 77949864217 scopus 로고    scopus 로고
    • Transgenerational adaptation of Arabidopsis to stress requires DNA methylation and the function of Dicer-like proteins
    • Boyko, A. et al. Transgenerational adaptation of Arabidopsis to stress requires DNA methylation and the function of Dicer-like proteins. PLoS ONE 5, e95149 (2010).
    • (2010) PLoS ONE , vol.5
    • Boyko, A.1


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