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Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)

Rice black-streaked dwarf virus (RBSDV) causes maize rough dwarf disease (MRDD), which is a viral disease that significantly affects maize yields worldwide. Plants tolerate stress through transcriptional reprogramming at the alternative splicing (AS), transcriptional, and fusion gene (FG) levels. Ho...

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Autores principales: Zhou, Yu, Lu, Qing, Zhang, Jiayue, Zhang, Simeng, Weng, Jianfeng, Di, Hong, Zhang, Lin, Li, Xin, Liang, Yuhang, Dong, Ling, Zeng, Xing, Liu, Xianjun, Guo, Pei, Zhang, Huilan, Li, Xinhai, Wang, Zhenhua
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8955601/
https://www.ncbi.nlm.nih.gov/pubmed/35328010
http://dx.doi.org/10.3390/genes13030456
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author Zhou, Yu
Lu, Qing
Zhang, Jiayue
Zhang, Simeng
Weng, Jianfeng
Di, Hong
Zhang, Lin
Li, Xin
Liang, Yuhang
Dong, Ling
Zeng, Xing
Liu, Xianjun
Guo, Pei
Zhang, Huilan
Li, Xinhai
Wang, Zhenhua
author_facet Zhou, Yu
Lu, Qing
Zhang, Jiayue
Zhang, Simeng
Weng, Jianfeng
Di, Hong
Zhang, Lin
Li, Xin
Liang, Yuhang
Dong, Ling
Zeng, Xing
Liu, Xianjun
Guo, Pei
Zhang, Huilan
Li, Xinhai
Wang, Zhenhua
author_sort Zhou, Yu
collection PubMed
description Rice black-streaked dwarf virus (RBSDV) causes maize rough dwarf disease (MRDD), which is a viral disease that significantly affects maize yields worldwide. Plants tolerate stress through transcriptional reprogramming at the alternative splicing (AS), transcriptional, and fusion gene (FG) levels. However, it is unclear whether and how AS and FG interfere with transcriptional reprogramming in MRDD. In this study, we performed global profiling of AS and FG on maize response to RBSDV and compared it with transcriptional changes. There are approximately 1.43 to 2.25 AS events per gene in maize infected with RBSDV. GRMZM2G438622 was only detected in four AS modes (A3SS, A5SS, RI, and SE), whereas GRMZM2G059392 showed downregulated expression and four AS events. A total of 106 and 176 FGs were detected at two time points, respectively, including six differentially expressed genes and five differentially spliced genes. The gene GRMZM2G076798 was the only FG that occurred at two time points and was involved in two FG events. Among these, 104 GOs were enriched, indicating that nodulin-, disease resistance-, and chloroplastic-related genes respond to RBSDV stress in maize. These results provide new insights into the mechanisms underlying post-transcriptional and transcriptional regulation of maize response to RBSDV stress.
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spelling pubmed-89556012022-03-26 Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.) Zhou, Yu Lu, Qing Zhang, Jiayue Zhang, Simeng Weng, Jianfeng Di, Hong Zhang, Lin Li, Xin Liang, Yuhang Dong, Ling Zeng, Xing Liu, Xianjun Guo, Pei Zhang, Huilan Li, Xinhai Wang, Zhenhua Genes (Basel) Article Rice black-streaked dwarf virus (RBSDV) causes maize rough dwarf disease (MRDD), which is a viral disease that significantly affects maize yields worldwide. Plants tolerate stress through transcriptional reprogramming at the alternative splicing (AS), transcriptional, and fusion gene (FG) levels. However, it is unclear whether and how AS and FG interfere with transcriptional reprogramming in MRDD. In this study, we performed global profiling of AS and FG on maize response to RBSDV and compared it with transcriptional changes. There are approximately 1.43 to 2.25 AS events per gene in maize infected with RBSDV. GRMZM2G438622 was only detected in four AS modes (A3SS, A5SS, RI, and SE), whereas GRMZM2G059392 showed downregulated expression and four AS events. A total of 106 and 176 FGs were detected at two time points, respectively, including six differentially expressed genes and five differentially spliced genes. The gene GRMZM2G076798 was the only FG that occurred at two time points and was involved in two FG events. Among these, 104 GOs were enriched, indicating that nodulin-, disease resistance-, and chloroplastic-related genes respond to RBSDV stress in maize. These results provide new insights into the mechanisms underlying post-transcriptional and transcriptional regulation of maize response to RBSDV stress. MDPI 2022-03-02 /pmc/articles/PMC8955601/ /pubmed/35328010 http://dx.doi.org/10.3390/genes13030456 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Zhou, Yu
Lu, Qing
Zhang, Jiayue
Zhang, Simeng
Weng, Jianfeng
Di, Hong
Zhang, Lin
Li, Xin
Liang, Yuhang
Dong, Ling
Zeng, Xing
Liu, Xianjun
Guo, Pei
Zhang, Huilan
Li, Xinhai
Wang, Zhenhua
Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title_full Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title_fullStr Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title_full_unstemmed Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title_short Genome-Wide Profiling of Alternative Splicing and Gene Fusion during Rice Black-Streaked Dwarf Virus Stress in Maize (Zea mays L.)
title_sort genome-wide profiling of alternative splicing and gene fusion during rice black-streaked dwarf virus stress in maize (zea mays l.)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8955601/
https://www.ncbi.nlm.nih.gov/pubmed/35328010
http://dx.doi.org/10.3390/genes13030456
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