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Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility

Evelien Waegneer, Stephane Rombauts (UGent) , Joost Baert, Nicolas Dauchot, Annick De Keyser (UGent) , Tom Eeckhaut, Annelies Haegeman (UGent) , Chang Liu, Olivier Maudoux, Christine Notté, et al.
(2023) FRONTIERS IN PLANT SCIENCE. 14.
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Abstract
Industrial chicory (Cichorium intybus var. sativum) is a biannual crop mostly cultivated for extraction of inulin, a fructose polymer used as a dietary fiber. F1 hybrid breeding is a promising breeding strategy in chicory but relies on stable male sterile lines to prevent self-pollination. Here, we report the assembly and annotation of a new industrial chicory reference genome. Additionally, we performed RNA-Seq on subsequent stages of flower bud development of a fertile line and two cytoplasmic male sterile (CMS) clones. Comparison of fertile and CMS flower bud transcriptomes combined with morphological microscopic analysis of anthers, provided a molecular understanding of anther development and identified key genes in a range of underlying processes, including tapetum development, sink establishment, pollen wall development and anther dehiscence. We also described the role of phytohormones in the regulation of these processes under normal fertile flower bud development. In parallel, we evaluated which processes are disturbed in CMS clones and could contribute to the male sterile phenotype. Taken together, this study provides a state-of-the-art industrial chicory reference genome, an annotated and curated candidate gene set related to anther development and male sterility as well as a detailed molecular timetable of flower bud development in fertile and CMS lines.
Keywords
anther development, cytoplasmic male sterility (CMS), genome assembly and annotation, industrial chicory, pollen development, regulatory pathway, transcriptome profiling (RNA-seq), CYTOPLASMIC MALE-STERILITY, CARBON-STARVED-ANTHER, POLLEN, DEHISCENCE, GENES, MITOCHONDRIAL, BIOSYNTHESIS, EXPRESSION, ENCODES, PROTEIN

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MLA
Waegneer, Evelien, et al. “Industrial Chicory Genome Gives Insights into the Molecular Timetable of Anther Development and Male Sterility.” FRONTIERS IN PLANT SCIENCE, vol. 14, 2023, doi:10.3389/fpls.2023.1181529.
APA
Waegneer, E., Rombauts, S., Baert, J., Dauchot, N., De Keyser, A., Eeckhaut, T., … Ruttink, T. (2023). Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility. FRONTIERS IN PLANT SCIENCE, 14. https://doi.org/10.3389/fpls.2023.1181529
Chicago author-date
Waegneer, Evelien, Stephane Rombauts, Joost Baert, Nicolas Dauchot, Annick De Keyser, Tom Eeckhaut, Annelies Haegeman, et al. 2023. “Industrial Chicory Genome Gives Insights into the Molecular Timetable of Anther Development and Male Sterility.” FRONTIERS IN PLANT SCIENCE 14. https://doi.org/10.3389/fpls.2023.1181529.
Chicago author-date (all authors)
Waegneer, Evelien, Stephane Rombauts, Joost Baert, Nicolas Dauchot, Annick De Keyser, Tom Eeckhaut, Annelies Haegeman, Chang Liu, Olivier Maudoux, Christine Notté, Ariane Staelens, Jeroen Van der Veken, Katrijn Van Laere, and Tom Ruttink. 2023. “Industrial Chicory Genome Gives Insights into the Molecular Timetable of Anther Development and Male Sterility.” FRONTIERS IN PLANT SCIENCE 14. doi:10.3389/fpls.2023.1181529.
Vancouver
1.
Waegneer E, Rombauts S, Baert J, Dauchot N, De Keyser A, Eeckhaut T, et al. Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility. FRONTIERS IN PLANT SCIENCE. 2023;14.
IEEE
[1]
E. Waegneer et al., “Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility,” FRONTIERS IN PLANT SCIENCE, vol. 14, 2023.
@article{01H5VKG6894JA7BM3QCMQSW70D,
  abstract     = {{Industrial chicory (Cichorium intybus var. sativum) is a biannual crop mostly cultivated for extraction of inulin, a fructose polymer used as a dietary fiber. F1 hybrid breeding is a promising breeding strategy in chicory but relies on stable male sterile lines to prevent self-pollination. Here, we report the assembly and annotation of a new industrial chicory reference genome. Additionally, we performed RNA-Seq on subsequent stages of flower bud development of a fertile line and two cytoplasmic male sterile (CMS) clones. Comparison of fertile and CMS flower bud transcriptomes combined with morphological microscopic analysis of anthers, provided a molecular understanding of anther development and identified key genes in a range of underlying processes, including tapetum development, sink establishment, pollen wall development and anther dehiscence. We also described the role of phytohormones in the regulation of these processes under normal fertile flower bud development. In parallel, we evaluated which processes are disturbed in CMS clones and could contribute to the male sterile phenotype. Taken together, this study provides a state-of-the-art industrial chicory reference genome, an annotated and curated candidate gene set related to anther development and male sterility as well as a detailed molecular timetable of flower bud development in fertile and CMS lines.}},
  articleno    = {{1181529}},
  author       = {{Waegneer, Evelien and Rombauts, Stephane and Baert, Joost and Dauchot, Nicolas and De Keyser, Annick and Eeckhaut, Tom and Haegeman, Annelies and Liu, Chang and Maudoux, Olivier and Notté, Christine and Staelens, Ariane and Van der Veken, Jeroen and Van Laere, Katrijn and Ruttink, Tom}},
  issn         = {{1664-462X}},
  journal      = {{FRONTIERS IN PLANT SCIENCE}},
  keywords     = {{anther development,cytoplasmic male sterility (CMS),genome assembly and annotation,industrial chicory,pollen development,regulatory pathway,transcriptome profiling (RNA-seq),CYTOPLASMIC MALE-STERILITY,CARBON-STARVED-ANTHER,POLLEN,DEHISCENCE,GENES,MITOCHONDRIAL,BIOSYNTHESIS,EXPRESSION,ENCODES,PROTEIN}},
  language     = {{eng}},
  pages        = {{19}},
  title        = {{Industrial chicory genome gives insights into the molecular timetable of anther development and male sterility}},
  url          = {{http://doi.org/10.3389/fpls.2023.1181529}},
  volume       = {{14}},
  year         = {{2023}},
}
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