Cell-type-specific alternative splicing in the Arabidopsis germline

Detalhes bibliográficos
Autor(a) principal: Misra, Chandra Shekhar
Data de Publicação: 2023
Outros Autores: Sousa, António G.G., Barros, Pedro M., Kermanov, Anton, Becker, Jörg D.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10362/158539
Resumo: Funding Information: This work was supported by FCT—Fundação para a Ciência e a Tecnologia, I.P., through projects PTDC/BIA-FBT/28484/2017 and PTDC-ASP-PLA-2007-2020, and through GREEN-IT— Bioresources for Sustainability R&D Unit (UIDB/04551/2020, UIDP/04551/2020) and LS4FUTURE Associated Laboratory (LA/ P/0087/2020). C.S.M. acknowledges a doctoral fellowship from FCT (PD/BD/114362/2016) under the Plants for Life PhD Program. P.M.B. acknowledges a post-doc fellowship from FCT (SFRH/BPD/86742/2012), and A.K. acknowledges a doctoral fellowship from FCT (PD/BD/128434/2017) under the Integrative Biology and Biomedicine PhD program. J.D.B. received salary support from FCT through an “Investigador FCT” position, and CEEC grant (CEECIND/03345/2018). The IGC’s Genomics Unit is partially supported by projects LISBOA-01-0246-FEDER-000037 (Single cell HUB) and LISBOA-01-0145-FEDER-016417 (ONEIDA) co-funded by Programa Operacional Regional Lisboa 2020. Publisher Copyright: © The Author(s) 2022. Published by Oxford University Press on behalf of American Society of Plant Biologists.
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spelling Cell-type-specific alternative splicing in the Arabidopsis germlinePhysiologyGeneticsPlant ScienceFunding Information: This work was supported by FCT—Fundação para a Ciência e a Tecnologia, I.P., through projects PTDC/BIA-FBT/28484/2017 and PTDC-ASP-PLA-2007-2020, and through GREEN-IT— Bioresources for Sustainability R&D Unit (UIDB/04551/2020, UIDP/04551/2020) and LS4FUTURE Associated Laboratory (LA/ P/0087/2020). C.S.M. acknowledges a doctoral fellowship from FCT (PD/BD/114362/2016) under the Plants for Life PhD Program. P.M.B. acknowledges a post-doc fellowship from FCT (SFRH/BPD/86742/2012), and A.K. acknowledges a doctoral fellowship from FCT (PD/BD/128434/2017) under the Integrative Biology and Biomedicine PhD program. J.D.B. received salary support from FCT through an “Investigador FCT” position, and CEEC grant (CEECIND/03345/2018). The IGC’s Genomics Unit is partially supported by projects LISBOA-01-0246-FEDER-000037 (Single cell HUB) and LISBOA-01-0145-FEDER-016417 (ONEIDA) co-funded by Programa Operacional Regional Lisboa 2020. Publisher Copyright: © The Author(s) 2022. Published by Oxford University Press on behalf of American Society of Plant Biologists.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.Instituto de Tecnologia Química e Biológica António Xavier (ITQB)RUNMisra, Chandra ShekharSousa, António G.G.Barros, Pedro M.Kermanov, AntonBecker, Jörg D.2023-09-30T22:21:15Z2023-052023-05-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article17application/pdfhttp://hdl.handle.net/10362/158539eng0032-0889PURE: 72621937https://doi.org/10.1093/plphys/kiac574info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-11T05:41:05Zoai:run.unl.pt:10362/158539Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:57:12.017938Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Cell-type-specific alternative splicing in the Arabidopsis germline
title Cell-type-specific alternative splicing in the Arabidopsis germline
spellingShingle Cell-type-specific alternative splicing in the Arabidopsis germline
Misra, Chandra Shekhar
Physiology
Genetics
Plant Science
title_short 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_sort Cell-type-specific alternative splicing in the Arabidopsis germline
author Misra, Chandra Shekhar
author_facet Misra, Chandra Shekhar
Sousa, António G.G.
Barros, Pedro M.
Kermanov, Anton
Becker, Jörg D.
author_role author
author2 Sousa, António G.G.
Barros, Pedro M.
Kermanov, Anton
Becker, Jörg D.
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Instituto de Tecnologia Química e Biológica António Xavier (ITQB)
RUN
dc.contributor.author.fl_str_mv Misra, Chandra Shekhar
Sousa, António G.G.
Barros, Pedro M.
Kermanov, Anton
Becker, Jörg D.
dc.subject.por.fl_str_mv Physiology
Genetics
Plant Science
topic Physiology
Genetics
Plant Science
description Funding Information: This work was supported by FCT—Fundação para a Ciência e a Tecnologia, I.P., through projects PTDC/BIA-FBT/28484/2017 and PTDC-ASP-PLA-2007-2020, and through GREEN-IT— Bioresources for Sustainability R&D Unit (UIDB/04551/2020, UIDP/04551/2020) and LS4FUTURE Associated Laboratory (LA/ P/0087/2020). C.S.M. acknowledges a doctoral fellowship from FCT (PD/BD/114362/2016) under the Plants for Life PhD Program. P.M.B. acknowledges a post-doc fellowship from FCT (SFRH/BPD/86742/2012), and A.K. acknowledges a doctoral fellowship from FCT (PD/BD/128434/2017) under the Integrative Biology and Biomedicine PhD program. J.D.B. received salary support from FCT through an “Investigador FCT” position, and CEEC grant (CEECIND/03345/2018). The IGC’s Genomics Unit is partially supported by projects LISBOA-01-0246-FEDER-000037 (Single cell HUB) and LISBOA-01-0145-FEDER-016417 (ONEIDA) co-funded by Programa Operacional Regional Lisboa 2020. Publisher Copyright: © The Author(s) 2022. Published by Oxford University Press on behalf of American Society of Plant Biologists.
publishDate 2023
dc.date.none.fl_str_mv 2023-09-30T22:21:15Z
2023-05
2023-05-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10362/158539
url http://hdl.handle.net/10362/158539
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 0032-0889
PURE: 72621937
https://doi.org/10.1093/plphys/kiac574
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
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application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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