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Cell-type-specific alternative splicing in the Arabidopsis germline
During sexual reproduction in flowering plants, the two haploid sperm cells (SCs) embedded within the cytoplasm of a growing pollen tube are carried to the embryo sac for double fertilization. Pollen development in flowering plants is a dynamic process that encompasses changes at transcriptome and e...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10152659/ https://www.ncbi.nlm.nih.gov/pubmed/36515615 http://dx.doi.org/10.1093/plphys/kiac574 |
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author | Misra, Chandra Shekhar Sousa, António G G Barros, Pedro M Kermanov, Anton Becker, Jörg D |
author_facet | Misra, Chandra Shekhar Sousa, António G G Barros, Pedro M Kermanov, Anton Becker, Jörg D |
author_sort | Misra, Chandra Shekhar |
collection | PubMed |
description | During sexual reproduction in flowering plants, the two haploid sperm cells (SCs) embedded within the cytoplasm of a growing pollen tube are carried to the embryo sac for double fertilization. Pollen development in flowering plants is a dynamic process that encompasses changes at transcriptome and epigenome levels. While the transcriptome of pollen and SCs in Arabidopsis (Arabidopsis thaliana) is well documented, previous analyses have mostly been based on gene-level expression. In-depth transcriptome analysis, particularly the extent of alternative splicing (AS) at the resolution of SC and vegetative nucleus (VN), is still lacking. Therefore, we performed RNA-seq analysis to generate a spliceome map of Arabidopsis SCs and VN isolated from mature pollen grains. Based on our de novo transcriptome assembly, we identified 58,039 transcripts, including 9,681 novel transcripts, of which 2,091 were expressed in SCs and 3,600 in VN. Four hundred and sixty-eight genes were regulated both at gene and splicing levels, with many having functions in mRNA splicing, chromatin modification, and protein localization. Moreover, a comparison with egg cell RNA-seq data uncovered sex-specific regulation of transcription and splicing factors. Our study provides insights into a gamete-specific AS landscape at unprecedented resolution. |
format | Online Article Text |
id | pubmed-10152659 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-101526592023-05-03 Cell-type-specific alternative splicing in the Arabidopsis germline Misra, Chandra Shekhar Sousa, António G G Barros, Pedro M Kermanov, Anton Becker, Jörg D Plant Physiol Research Article During sexual reproduction in flowering plants, the two haploid sperm cells (SCs) embedded within the cytoplasm of a growing pollen tube are carried to the embryo sac for double fertilization. Pollen development in flowering plants is a dynamic process that encompasses changes at transcriptome and epigenome levels. While the transcriptome of pollen and SCs in Arabidopsis (Arabidopsis thaliana) is well documented, previous analyses have mostly been based on gene-level expression. In-depth transcriptome analysis, particularly the extent of alternative splicing (AS) at the resolution of SC and vegetative nucleus (VN), is still lacking. Therefore, we performed RNA-seq analysis to generate a spliceome map of Arabidopsis SCs and VN isolated from mature pollen grains. Based on our de novo transcriptome assembly, we identified 58,039 transcripts, including 9,681 novel transcripts, of which 2,091 were expressed in SCs and 3,600 in VN. Four hundred and sixty-eight genes were regulated both at gene and splicing levels, with many having functions in mRNA splicing, chromatin modification, and protein localization. Moreover, a comparison with egg cell RNA-seq data uncovered sex-specific regulation of transcription and splicing factors. Our study provides insights into a gamete-specific AS landscape at unprecedented resolution. Oxford University Press 2022-12-14 /pmc/articles/PMC10152659/ /pubmed/36515615 http://dx.doi.org/10.1093/plphys/kiac574 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of American Society of Plant Biologists. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Misra, Chandra Shekhar Sousa, António G G Barros, Pedro M Kermanov, Anton Becker, Jörg D Cell-type-specific alternative splicing in the Arabidopsis germline |
title | Cell-type-specific alternative splicing in the Arabidopsis germline |
title_full | Cell-type-specific alternative splicing in the Arabidopsis germline |
title_fullStr | Cell-type-specific alternative splicing in the Arabidopsis germline |
title_full_unstemmed | Cell-type-specific alternative splicing in the Arabidopsis germline |
title_short | Cell-type-specific alternative splicing in the Arabidopsis germline |
title_sort | cell-type-specific alternative splicing in the arabidopsis germline |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10152659/ https://www.ncbi.nlm.nih.gov/pubmed/36515615 http://dx.doi.org/10.1093/plphys/kiac574 |
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