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Cell-type-specific alternative splicing in the Arabidopsis germline

2023-05Artigo científico Acesso aberto
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dc.contributor.authorMisra, Chandra Shekhar
dc.contributor.authorSousa, António G.G.
dc.contributor.authorBarros, Pedro M.
dc.contributor.authorKermanov, Anton
dc.contributor.authorBecker, Jörg D.
dc.contributor.institutionInstituto de Tecnologia Química e Biológica António Xavier (ITQB)
dc.contributor.pblAmerican Society of Plant Biologists
dc.date.accessioned2023-09-30T22:21:15Z
dc.date.available2023-09-30T22:21:15Z
dc.date.issued2023-05
dc.descriptionFunding 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.
dc.description.abstractDuring 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.en
dc.description.versionpublishersversion
dc.description.versionpublished
dc.format.extent17
dc.format.extent1483648
dc.identifier.doi10.1093/plphys/kiac574
dc.identifier.issn0032-0889
dc.identifier.otherPURE: 72621937
dc.identifier.otherPURE UUID: 2c6340b1-3152-4951-bfe2-e3f47f4870c4
dc.identifier.otherScopus: 85158821523
dc.identifier.otherPubMed: 36515615
dc.identifier.otherORCID: /0000-0001-5626-0619/work/151365564
dc.identifier.urihttp://hdl.handle.net/10362/158539
dc.identifier.urlhttps://www.scopus.com/pages/publications/85158821523
dc.language.isoeng
dc.peerreviewedyes
dc.subjectPhysiology
dc.subjectGenetics
dc.subjectPlant Science
dc.titleCell-type-specific alternative splicing in the Arabidopsis germlineen
dc.typejournal article
degois.publication.firstPage85
degois.publication.issue1
degois.publication.lastPage101
degois.publication.titlePlant Physiology
degois.publication.volume192
dspace.entity.typePublication
rcaap.rightsopenAccess

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