title: Transcriptome-Wide Mapping of RNA 5-Methylcytosine in Arabidopsis mRNAs and Noncoding RNAs.
abstract: Posttranscriptional methylation of RNA cytosine residues to 5-methylcytosine (m5C) is an important modification with diverse roles, such as regulating stress responses, stem cell proliferation, and RNA metabolism. Here, we used RNA bisulfite sequencing for transcriptome-wide quantitative mapping of m5C in the model plantArabidopsis thalianaWe discovered more than a thousand m5C sites in Arabidopsis mRNAs, long noncoding RNAs, and other noncoding RNAs across three tissue types (siliques, seedling shoots, and roots) and validated a number of these sites. Quantitative differences in methylated sites between these three tissues suggest tissue-specific regulation of m5C. Perturbing the RNA m5C methyltransferase TRM4B resulted in the loss of m5C sites on mRNAs and noncoding RNAs and reduced the stability of tRNAAsp(GTC)We also demonstrate the importance of m5C in plant development, astrm4bmutants have shorter primary roots than the wild type due to reduced cell division in the root apical meristem. In addition,trm4bmutants show increased sensitivity to oxidative stress. Finally, we provide insights into the targeting mechanism of TRM4B by demonstrating that a 50-nucleotide sequence flanking m5C C3349 inMAIGO5mRNA is sufficient to confer methylation of a transgene reporter inNicotiana benthamiana.
authors.affiliation: School of Biological Sciences, The University of Adelaide, The University of Adelaide and Shanghai Jiao Tong University Joint International Centre for Agriculture and Health, Adelaide, South Australia 5005, Australia.
authors.forename: Rakesh
authors.identifier: http://orcid.org/0000-0002-3306-7581
authors.initials: R
authors.lastname: David
authors.affiliation: School of Biological Sciences, The University of Adelaide, The University of Adelaide and Shanghai Jiao Tong University Joint International Centre for Agriculture and Health, Adelaide, South Australia 5005, Australia.
authors.forename: Alice
authors.identifier: http://orcid.org/0000-0002-3713-0808
authors.initials: A
authors.lastname: Burgess
authors.affiliation: Department of Biology, New York University, New York, New York 1003-6688.|EMBL-Australia Collaborating Group, Department of Genome Sciences, The John Curtin School of Medical Research, The Australian National University, Canberra, Australian Capital Territory 2601, Australia.
authors.forename: Brian
authors.initials: B
authors.lastname: Parker
authors.affiliation: School of Biological Sciences, The University of Adelaide, The University of Adelaide and Shanghai Jiao Tong University Joint International Centre for Agriculture and Health, Adelaide, South Australia 5005, Australia.
authors.forename: Jun
authors.initials: J
authors.lastname: Li
authors.affiliation: School of Biological Sciences, The University of Adelaide, The University of Adelaide and Shanghai Jiao Tong University Joint International Centre for Agriculture and Health, Adelaide, South Australia 5005, Australia.
authors.forename: Kalinya
authors.initials: K
authors.lastname: Pulsford
authors.affiliation: EMBL-Australia Collaborating Group, Department of Genome Sciences, The John Curtin School of Medical Research, The Australian National University, Canberra, Australian Capital Territory 2601, Australia.
authors.forename: Tennille
authors.initials: T
authors.lastname: Sibbritt
authors.affiliation: EMBL-Australia Collaborating Group, Department of Genome Sciences, The John Curtin School of Medical Research, The Australian National University, Canberra, Australian Capital Territory 2601, Australia.|Victor Chang Cardiac Research Institute, Sydney, New South Wales 2010, Australia.
authors.forename: Thomas
authors.identifier: http://orcid.org/0000-0001-6273-784X
authors.initials: T
authors.lastname: Preiss
authors.affiliation: School of Biological Sciences, The University of Adelaide, The University of Adelaide and Shanghai Jiao Tong University Joint International Centre for Agriculture and Health, Adelaide, South Australia 5005, Australia iain.searle@adelaide.edu.au.
authors.forename: Iain Robert
authors.identifier: http://orcid.org/0000-0003-4306-9756
authors.initials: IR
authors.lastname: Searle
mesh_terms: D044503:5-Methylcytosine / Q000378:metabolism*; D017360:Arabidopsis / Q000235:genetics / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism; D018506:Gene Expression Regulation, Plant / Q000235:genetics / Q000502:physiology; D018384:Oxidative Stress / Q000235:genetics / Q000502:physiology; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism*; D018749:RNA, Plant / Q000235:genetics / Q000378:metabolism*; D022661:RNA, Untranslated / Q000235:genetics / Q000378:metabolism*; D014026:Nicotiana / Q000235:genetics / Q000378:metabolism; D059467:Transcriptome / Q000235:genetics*
chemical_list: D029681:Arabidopsis Proteins; D010940:Plant Proteins; D012333:RNA, Messenger; D018749:RNA, Plant; D022661:RNA, Untranslated; D044503:5-Methylcytosine