The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana

Katarzyna Dorota Raczynska, Agata Stepien, Daniel Kierzkowski, Malgorzata Kalak, Mateusz Bajczyk, Jim McNicol, Craig G. Simpson, Zofia Szweykowska-Kulinska, John W. S. Brown, Artur Jarmolowski

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    Abstract

    How alternative splicing (AS) is regulated in plants has not yet been elucidated. Previously, we have shown that the nuclear cap-binding protein complex (AtCBC) is involved in AS in Arabidopsis thaliana. Here we show that both subunits of AtCBC (AtCBP20 and AtCBP80) interact with SERRATE (AtSE), a protein involved in the microRNA biogenesis pathway. Moreover, using a high-resolution reverse transcriptase-polymerase chain reaction AS system we have found that AtSE influences AS in a similar way to the cap-binding complex (CBC), preferentially affecting selection of 5' splice site of first introns. The AtSE protein acts in cooperation with AtCBC: many changes observed in the mutant lacking the correct SERRATE activity were common to those observed in the cbp mutants. Interestingly, significant changes in AS of some genes were also observed in other mutants of plant microRNA biogenesis pathway, hyl1-2 and dcl1-7, but a majority of them did not correspond to the changes observed in the se-1 mutant. Thus, the role of SERRATE in AS regulation is distinct from that of HYL1 and DCL1, and is similar to the regulation of AS in which CBC is involved.
    Original languageEnglish
    Pages (from-to)1224-1244
    Number of pages21
    JournalNucleic Acids Research
    Volume42
    Issue number2
    DOIs
    Publication statusPublished - 2014

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    Alternative Splicing
    Arabidopsis
    Proteins
    Nuclear Cap-Binding Protein Complex
    MicroRNAs
    RNA Splice Sites
    Reverse Transcriptase Polymerase Chain Reaction
    Introns
    Genes

    Cite this

    Raczynska, K. D., Stepien, A., Kierzkowski, D., Kalak, M., Bajczyk, M., McNicol, J., ... Jarmolowski, A. (2014). The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana. Nucleic Acids Research, 42(2), 1224-1244. https://doi.org/10.1093/nar/gkt894
    Raczynska, Katarzyna Dorota ; Stepien, Agata ; Kierzkowski, Daniel ; Kalak, Malgorzata ; Bajczyk, Mateusz ; McNicol, Jim ; Simpson, Craig G. ; Szweykowska-Kulinska, Zofia ; Brown, John W. S. ; Jarmolowski, Artur. / The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana. In: Nucleic Acids Research. 2014 ; Vol. 42, No. 2. pp. 1224-1244.
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    abstract = "How alternative splicing (AS) is regulated in plants has not yet been elucidated. Previously, we have shown that the nuclear cap-binding protein complex (AtCBC) is involved in AS in Arabidopsis thaliana. Here we show that both subunits of AtCBC (AtCBP20 and AtCBP80) interact with SERRATE (AtSE), a protein involved in the microRNA biogenesis pathway. Moreover, using a high-resolution reverse transcriptase-polymerase chain reaction AS system we have found that AtSE influences AS in a similar way to the cap-binding complex (CBC), preferentially affecting selection of 5' splice site of first introns. The AtSE protein acts in cooperation with AtCBC: many changes observed in the mutant lacking the correct SERRATE activity were common to those observed in the cbp mutants. Interestingly, significant changes in AS of some genes were also observed in other mutants of plant microRNA biogenesis pathway, hyl1-2 and dcl1-7, but a majority of them did not correspond to the changes observed in the se-1 mutant. Thus, the role of SERRATE in AS regulation is distinct from that of HYL1 and DCL1, and is similar to the regulation of AS in which CBC is involved.",
    author = "Raczynska, {Katarzyna Dorota} and Agata Stepien and Daniel Kierzkowski and Malgorzata Kalak and Mateusz Bajczyk and Jim McNicol and Simpson, {Craig G.} and Zofia Szweykowska-Kulinska and Brown, {John W. S.} and Artur Jarmolowski",
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    Raczynska, KD, Stepien, A, Kierzkowski, D, Kalak, M, Bajczyk, M, McNicol, J, Simpson, CG, Szweykowska-Kulinska, Z, Brown, JWS & Jarmolowski, A 2014, 'The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana', Nucleic Acids Research, vol. 42, no. 2, pp. 1224-1244. https://doi.org/10.1093/nar/gkt894

    The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana. / Raczynska, Katarzyna Dorota; Stepien, Agata; Kierzkowski, Daniel; Kalak, Malgorzata; Bajczyk, Mateusz; McNicol, Jim; Simpson, Craig G.; Szweykowska-Kulinska, Zofia; Brown, John W. S.; Jarmolowski, Artur.

    In: Nucleic Acids Research, Vol. 42, No. 2, 2014, p. 1224-1244.

    Research output: Contribution to journalArticle

    TY - JOUR

    T1 - The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana

    AU - Raczynska, Katarzyna Dorota

    AU - Stepien, Agata

    AU - Kierzkowski, Daniel

    AU - Kalak, Malgorzata

    AU - Bajczyk, Mateusz

    AU - McNicol, Jim

    AU - Simpson, Craig G.

    AU - Szweykowska-Kulinska, Zofia

    AU - Brown, John W. S.

    AU - Jarmolowski, Artur

    PY - 2014

    Y1 - 2014

    N2 - How alternative splicing (AS) is regulated in plants has not yet been elucidated. Previously, we have shown that the nuclear cap-binding protein complex (AtCBC) is involved in AS in Arabidopsis thaliana. Here we show that both subunits of AtCBC (AtCBP20 and AtCBP80) interact with SERRATE (AtSE), a protein involved in the microRNA biogenesis pathway. Moreover, using a high-resolution reverse transcriptase-polymerase chain reaction AS system we have found that AtSE influences AS in a similar way to the cap-binding complex (CBC), preferentially affecting selection of 5' splice site of first introns. The AtSE protein acts in cooperation with AtCBC: many changes observed in the mutant lacking the correct SERRATE activity were common to those observed in the cbp mutants. Interestingly, significant changes in AS of some genes were also observed in other mutants of plant microRNA biogenesis pathway, hyl1-2 and dcl1-7, but a majority of them did not correspond to the changes observed in the se-1 mutant. Thus, the role of SERRATE in AS regulation is distinct from that of HYL1 and DCL1, and is similar to the regulation of AS in which CBC is involved.

    AB - How alternative splicing (AS) is regulated in plants has not yet been elucidated. Previously, we have shown that the nuclear cap-binding protein complex (AtCBC) is involved in AS in Arabidopsis thaliana. Here we show that both subunits of AtCBC (AtCBP20 and AtCBP80) interact with SERRATE (AtSE), a protein involved in the microRNA biogenesis pathway. Moreover, using a high-resolution reverse transcriptase-polymerase chain reaction AS system we have found that AtSE influences AS in a similar way to the cap-binding complex (CBC), preferentially affecting selection of 5' splice site of first introns. The AtSE protein acts in cooperation with AtCBC: many changes observed in the mutant lacking the correct SERRATE activity were common to those observed in the cbp mutants. Interestingly, significant changes in AS of some genes were also observed in other mutants of plant microRNA biogenesis pathway, hyl1-2 and dcl1-7, but a majority of them did not correspond to the changes observed in the se-1 mutant. Thus, the role of SERRATE in AS regulation is distinct from that of HYL1 and DCL1, and is similar to the regulation of AS in which CBC is involved.

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    DO - 10.1093/nar/gkt894

    M3 - Article

    VL - 42

    SP - 1224

    EP - 1244

    JO - Nucleic Acids Research

    JF - Nucleic Acids Research

    SN - 0305-1048

    IS - 2

    ER -

    Raczynska KD, Stepien A, Kierzkowski D, Kalak M, Bajczyk M, McNicol J et al. The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana. Nucleic Acids Research. 2014;42(2):1224-1244. https://doi.org/10.1093/nar/gkt894