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The Features and Regulation of co-transcriptional Splicing in Arabidopsis

Molecular Plant 2020年第2期13卷 278-294页

作者： Danling Zhu Fei Mao Yuanchun Tian Xiaoya Lin Lianfeng Gu Hongya Gu Li-jia Qu Yufeng Wu Zhe Wu SUSTech-PKU Institute of Plant and Food Science Department of BiologySouthern University of Science and TechnologyShenzhen 518055China State Key Laboratory for Crop Genetics and Germplasm Enhancement Bioinformatics CenterNanjing Agriculture UniversityNanjingJiangsu 210095China State Key Laboratory of Protein and Plant Gene Research Peking-Tsinghua Center for Life SciencesCollege of Life SciencesPeking UniversityBeijing 100871China Basic Forestry and Proteomics Research Center College of ForestryFujian Agriculture and Forestry UniversityFuzhou 350002China Present address:School of Life Sciences Guangzhou UniversityGuangzhou 510006China

Precursor mRNA(pre-mRNA)splicing is essential for gene expression in most eukaryotic *** studies from mammals,Drosophila,and yeast show that the majority of splicing events occurs *** plants,however,the features of co-transcriptional splicing(CTS)and its regulation still remain largely ***,we used chromatin-bound RNA sequencing to study CTS in Arabidopsis *** found that CTS is widespread in Arabidopsis seedlings,with a large proportion of alternative splicing events determined *** efficiency correlated with gene expression level,the chromatin landscape and,most surprisingly,the number of introns and exons of individual genes,but is independent of gene *** combination with enhanced crosslinking and immunoprecipitation sequencing analysis,we further showed that the hnRNP-like proteins RZ-1B and RZ-1C promote efficient CTS globally through direct binding,frequently to exonic ***,this general effect of RZ-1B/1C on splicing promotion is mainly observed at the chromatin level,not at the mRNA ***-1C promotes CTS of multiple-exon genes in association with its binding to regions both proximal and distal to the regulated *** propose that RZ-1C promotes efficient CTS of genes with multiple exons through cooperative interactions with many exons,introns,and splicing *** work thus reveals important features of CTS in plants and provides methodologies for the investigation of CTS and RNA-binding proteins in plants.

关键词： co-transcriptional splicing CB-RNA-seq eClip-seq RNA binding protein chromatin transcription

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Global co-transcriptional Splicing in Arabidopsis and the correlation with Splicing Regulation in Mature RNAs

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Molecular Plant 2020年第2期13卷 266-277页

作者： Shaofang Li Yuan Wang Yonghui Zhao Xinjie Zhao Xuemei Chen Zhizhong Gong State Key Laboratory of Plant Physiology and Biochemistry College of Biological SciencesChina Agricultural UniversityBeijing 100193China Joint Laboratory for International cooperation in Crop Molecular Breeding China Agricultural UniversityBeijing 100193China Department of Botany and Plant Sciences Institute of Integrative Genome BiologyUniversity of CaliforniaRiversideCA 92521USA Gua ngdong Provincial Key Laboratory for Plant Epige netics Longhua Institute of Innovative Biotech no logyCollege of Life Sciences and OceanographyShenzhe n UniversityShenzhen 518060China Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province College of Optoelectronic EngineeringShenzhen UniversityShenzhen 518060China Plant Phenomics Research Center Nanjing Agricultural UniversityNanjing 21001&China

RNA splicing and spliceosome assembly in eukaryotes occur mainly during ***,co-transcriptional splicing has not yet been explored in ***,we built transcriptomes of nascent chromatin RNAs in Arabidopsis thaliana and showed that nearly all introns undergo co-transcriptional splicing,which occurs with higher efficiency for introns in protein-coding genes than for those in noncoding *** intron number and intron position are two predominant features that correlate with co-transcriptional splicing efficiency,and introns with alternative 5′or 3′splice sites are less efficiently ***,we found that mutations in genes encoding trans-acting proteins lead to more introns with increased splicing defects in nascent RNAs than in mature RNAs,and that introns with increased splicing defects in mature RNAs are inefficiently spliced at the co-transcriptional ***,our results not only uncovered widespread co-transcriptional splicing in Arabidopsis but also identified features that may affect or be affected by co-transcriptional splicing efficiency.

关键词： chromatin co-transcriptional splicing frans-acting proteins Arabidopsis

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