Počet záznamů: 1  

Fine structure and transcription dynamics of bread wheat ribosomal DNA loci deciphered by a multi-omics approach

  1. 1.
    0558708 - ÚEB 2023 RIV US eng J - Článek v odborném periodiku
    Tulpová, Zuzana - Kovařík, Aleš - Toegelová, Helena - Navrátilová, Pavla - Kapustová, Veronika - Hřibová, Eva - Vrána, Jan - Macas, Jiří - Doležel, Jaroslav - Šimková, Hana
    Fine structure and transcription dynamics of bread wheat ribosomal DNA loci deciphered by a multi-omics approach.
    Plant Genome. Roč. 15, č. 1 (2022), č. článku e20191. E-ISSN 1940-3372
    Grant CEP: GA ČR(CZ) GA17-17564S; GA ČR(CZ) GA19-03442S; GA MŠMT(CZ) EF16_019/0000827; GA MŠMT(CZ) LM2018131
    Institucionální podpora: RVO:61389030 ; RVO:68081707 ; RVO:60077344
    Klíčová slova: RNA GENES * CYTOSINE METHYLATION * GENOME
    Obor OECD: Biochemistry and molecular biology; Genetics and heredity (medical genetics to be 3) (BC-A)
    Impakt faktor: 4.2, rok: 2022
    Způsob publikování: Open access
    http://doi.org/10.1002/tpg2.20191

    Three out of four RNA components of ribosomes are encoded by 45S ribosomal DNA (rDNA) loci, which are organized as long head-to-tail tandem arrays of nearly identical units, spanning several megabases of sequence. Due to this structure, the rDNA loci are the major sources of gaps in genome assemblies, and gene copy number, sequence composition, and expression status of particular arrays remain elusive, especially in complex genomes harboring multiple loci. Here we conducted a multi-omics study to decipher the 45S rDNA loci in hexaploid bread wheat. Coupling chromosomal genomics with optical mapping, we reconstructed individual rDNA arrays, enabling locus-specific analyses of transcription activity and methylation status from RNA- and bisulfite-sequencing data. We estimated a total of 6,650 rDNA units in the bread wheat genome, with approximately 2,321, 3,910, 253, and 50 gene copies located in short arms of chromosomes 1B, 6B, 5D, and 1A, respectively. Only 1B and 6B loci contributed substantially to rRNA transcription at a roughly 2:1 ratio. The ratio varied among five tissues analyzed (embryo, coleoptile, root tip, primary leaf, mature leaf), being the highest (2.64:1) in mature leaf and lowest (1.72:1) in coleoptile. Cytosine methylation was considerably higher in CHG context in the silenced 5D locus as compared with the active 1B and 6B loci. In conclusion, a fine genomic organization and tissue-specific expression of rDNA loci were deciphered, for the first time, in a complex polyploid species. The results are discussed in the context of wheat evolution and transcription regulation.
    Trvalý link: http://hdl.handle.net/11104/0332273

     
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