Integrated transcriptome and proteome analysis provides insight into chilling-induced dormancy breaking in Chimonanthus praecox

Li, Zhineng; Liu, Ning; Zhang, Wei; Wu, C. F.; Jiang, Yunbin; Ma, Jing; Li, Mingyang; Sui, Shunzhao

doi:10.1038/s41438-020-00421-x

Cited by 32 publications

(28 citation statements)

References 102 publications

(150 reference statements)

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“…The flowering pathway of woody plants shows differences from those of Arabidopsis and rice in some respects. VERNALIZATION INSENSITIVE (VIN) and SHORT VEGETATIVE PHASE (SVP) transcriptionally inhibit the expression of FT in Arabidopsis, while they combined with SOC1 to induce FT expression in Chimonanthus praecox [ 8 ]. Fruit trees require chilling, which can promote flowering in Ziziphus jujuba [ 9 ], but is not a necessary condition for flowering.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis and identification of genes associated with floral transition and fruit development in rabbiteye blueberry (Vaccinium ashei)

et al. 2021

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Flowering and fruit set are important traits affecting fruit quality and yield in rabbiteye blueberry (Vaccinium ashei). Intense efforts have been made to elucidate the influence of vernalization and phytohormones on flowering, but the molecular mechanisms of flowering and fruit set remain unclear. To unravel these mechanisms, we performed transcriptome analysis to explore blueberry transcripts from flowering to early fruit stage. We divided flowering and fruit set into flower bud (S2), initial flower (S3), bloom flower (S4), pad fruit (S5), and cup fruit (S6) based on phenotype and identified 1,344, 69, 658, and 189 unique differentially expressed genes (DEGs) in comparisons of S3/S2, S4/S3, S5/S4, and S6/S5, respectively. There were obviously more DEGs in S3/S2 and S5/S4 than in S4/S3, and S6/S5, suggesting that S3/S2 and S5/S4 represent major transitions from buds to fruit in blueberry. GO and KEGG enrichment analysis indicated these DEGs were mostly enriched in phytohormone biosynthesis and signaling, transporter proteins, photosynthesis, anthocyanins biosynthesis, disease resistance protein and transcription factor categories, in addition, transcript levels of phytohormones and transporters changed greatly throughout the flowering and fruit set process. Gibberellic acid and jasmonic acid mainly acted on the early stage of flowering development like expression of the florigen gene FT, while the expression of auxin response factor genes increased almost throughout the process from bud to fruit development. Transporter proteins were mainly associated with minerals during the early flowering development stage and sugars during the early fruit stage. At the early fruit stage, anthocyanins started to accumulate, and the fruit was susceptible to diseases such as fungal infection. Expression of the transcription factor MYB86 was up-regulated during initial fruit development, which may promote anthocyanin accumulation. These results will aid future studies exploring the molecular mechanism underlying flowering and fruit set of rabbiteye blueberry.

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Section: Introductionmentioning

confidence: 99%

Transcriptome analysis and identification of genes associated with floral transition and fruit development in rabbiteye blueberry (Vaccinium ashei)

et al. 2021

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“…In general, ABA levels increase with the establishment of dormancy (PD to ED) and decrease during dormancy release (ED to ECD) while GA 3 exhibits opposite trends during dormancy transition. For example, in wintersweet, the content of ABA increases with the chilling accumulation from PD to ED and then decreases after dormancy release, and that of GA 3 decreases with the length of dormancy ( Li et al, 2020 ). Similar results have been observed in many other perennial species such as pear ( P. pyrifolia ) ( Tuan et al, 2017 ; Ito et al, 2021 ), peach ( Prunus persica ) ( Wang et al, 2016 ), grape ( V. vinifera ) ( Zheng et al, 2015 ), and leafy spurge ( Euphorbia esula ) ( Chao et al, 2017 ).…”

Section: Discussionmentioning

confidence: 99%

“…In addition, a homeostatic network of various hormones is thought to be at the centre of dormancy transition ( Shu et al, 2013 ; Zhang et al, 2018 ). In C. praecox , the ratio of ABA/GA 3 increases with dormancy breaking (induced by chilling) and decreases during dormancy release in P. mume ( Wen et al, 2016 ; Li et al, 2020 ). Thus, these results are consistent with those of other studies.…”

Section: Discussionmentioning

confidence: 99%

“…Bud dormancy is an important biological process that helps plants survive cold temperature in winter. RNA sequencing (RNA-seq) has been recently used to study bud dormancy in many species such as pear ( P. pyrifolia ) ( Bai et al, 2013 ), tea ( Camellia sinensis ) ( Hao et al, 2017 ), sweet cherry ( Prunus avium L.) ( Vimont et al, 2019 ), and wintersweet ( Chimonanthus praecox ) ( Li et al, 2020 ). In this study, using RNA-seq, we aimed to explore: (i) the cycle period between ED and ECD and the effects of different meteorological factors on dormancy release of M. wufengensis , (ii) which key genes and pathways were involved in regulation of different dormancy phases, (iii) the role that hormones, especially ABA, play in endodormancy maintenance, and (iv) the relationship between cold tolerance and different phases of dormancy.…”

Section: Introductionmentioning

confidence: 99%

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Transcriptomic Analysis Reveals the Positive Role of Abscisic Acid in Endodormancy Maintenance of Leaf Buds of Magnolia wufengensis

Duan

Zhu

et al. 2021

Front. Plant Sci.

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Magnolia wufengensis (Magnoliaceae) is a deciduous landscape species, known for its ornamental value with uniquely shaped and coloured tepals. The species has been introduced to many cities in south China, but low temperatures limit the expansion of this species in cold regions. Bud dormancy is critical for plants to survive in cold environments during the winter. In this study, we performed transcriptomic analysis of leaf buds using RNA sequencing and compared their gene expression during endodormancy, endodormancy release, and ecodormancy. A total of 187,406 unigenes were generated with an average length of 621.82 bp (N50 = 895 bp). In the transcriptomic analysis, differentially expressed genes involved in metabolism and signal transduction of hormones especially abscisic acid (ABA) were substantially annotated during dormancy transition. Our results showed that ABA at a concentration of 100 μM promoted dormancy maintenance in buds of M. wufengensis. Furthermore, the expression of genes related to ABA biosynthesis, catabolism, and signalling pathway was analysed by qPCR. We found that the expression of MwCYP707A-1-2 was consistent with ABA content and the dormancy transition phase, indicating that MwCYP707A-1-2 played a role in endodormancy release. In addition, the upregulation of MwCBF1 during dormancy release highlighted the enhancement of cold resistance. This study provides new insights into the cold tolerance of M. wufengensis in the winter from bud dormancy based on RNA-sequencing and offers fundamental data for further research on breeding improvement of M. wufengensis.

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“…The threshold for significant differential expression was a p-value < 0.05 and fold change >2 or <0.5. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed on DEGs using R, based on a hypergeometric distribution [66,67].…”

Section: Rna Data Processing and Analysismentioning

confidence: 99%

Transcriptome and Metabolome Analyses Provide Insights into the Stomium Degeneration Mechanism in Lily

Teng

2021

IJMS

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Lily (Lilium spp.) is a widely cultivated horticultural crop that has high ornamental and commercial value but also the serious problem of pollen pollution. However, mechanisms of anther dehiscence in lily remain largely unknown. In this study, the morphological characteristics of the stomium zone (SZ) from different developmental stages of ‘Siberia’ lily anthers were investigated. In addition, transcriptomic and metabolomic data were analyzed to identify the differentially expressed genes (DEGs) and secondary metabolites involved in stomium degeneration. According to morphological observations, SZ lysis occurred when flower buds were 6–8 cm in length and was completed in 9 cm. Transcriptomic analysis identified the genes involved in SZ degeneration, including those associated with hormone signal transduction, cell structure, reactive oxygen species (ROS), and transcription factors. A weighted co-expression network showed strong correlations between transcription factors. In addition, TUNEL (TdT-mediated dUTP nick-end labeling) assays showed that programmed cell death was important during anther SZ degeneration. Jasmonates might also have key roles in anther dehiscence by affecting the expression of the genes involved in pectin lysis, water transport, and cysteine protease. Collectively, the results of this study improve our understanding of anther dehiscence in lily and provide a data platform from which the molecular mechanisms of SZ degeneration can be revealed.

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Integrated transcriptome and proteome analysis provides insight into chilling-induced dormancy breaking in Chimonanthus praecox

Cited by 32 publications

References 102 publications

Transcriptome analysis and identification of genes associated with floral transition and fruit development in rabbiteye blueberry (Vaccinium ashei)

Transcriptome analysis and identification of genes associated with floral transition and fruit development in rabbiteye blueberry (Vaccinium ashei)

Transcriptomic Analysis Reveals the Positive Role of Abscisic Acid in Endodormancy Maintenance of Leaf Buds of Magnolia wufengensis

Transcriptome and Metabolome Analyses Provide Insights into the Stomium Degeneration Mechanism in Lily

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