RNA-seq and sRNA-seq analysis in lateral buds and leaves of juvenile and adult roses

Tan, Jiongrui; Yi, Xingwan; Luo, Le; Yu, Chao; Jia, Wang; Cheng, Tangren; Zhang, Qixiang

doi:10.1016/j.scienta.2021.110513

Cited by 5 publications

(7 citation statements)

References 72 publications

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“…Regarding the results of sugar content, it is consistent with previous results in P . delavayi and in R. chinensis [ 4 , 12 ]. Soluble sugar not only can provide energy for flowering but also can act as an endogenous signal to promote the juvenile-to-adult transition in plants [ 7 , 8 ].…”

Section: Discussionmentioning

confidence: 99%

“…With the rapid development of high-throughput histology technologies in recent years, studies on the molecular aspects about the juvenile-to-adult transition and flowering in plants have been intensified [ 5 , 11 , 12 ]. RNA-Seq is a deep sequencing technology with high precision and efficiency and is a powerful analysis tool for species lacking reference genomic information [ 13 , 14 ].…”

Section: Introductionmentioning

confidence: 99%

“…RNA-Seq is a deep sequencing technology with high precision and efficiency and is a powerful analysis tool for species lacking reference genomic information [ 13 , 14 ]. In revealing plant flowering mechanisms related to phase transition, significant differences in hormone biosynthesis and signal transduction and photosynthesis have been revealed in juvenile and adult leaves of woody plants such as Pyrus and Rosa chinensis by comparing RNA-Seq data [ 5 , 12 ]. Moreover, RNA-Seq was used to screen some key factors related to the juvenile-to-adult transition and flowering, such as SQUAMOSA PROMOTER BINDING PROTEIN-LIKE ( SPL ); SUPPRESSOR OF OVEREXPRESSION OF CONSTANS 1 ( SOC1 ); floral meristematic tissue characteristic genes; and the transcription factors involved in IAA signal transduction, GA signal transduction, and so on [ 5 , 12 ].…”

Section: Introductionmentioning

confidence: 99%

“…In revealing plant flowering mechanisms related to phase transition, significant differences in hormone biosynthesis and signal transduction and photosynthesis have been revealed in juvenile and adult leaves of woody plants such as Pyrus and Rosa chinensis by comparing RNA-Seq data [ 5 , 12 ]. Moreover, RNA-Seq was used to screen some key factors related to the juvenile-to-adult transition and flowering, such as SQUAMOSA PROMOTER BINDING PROTEIN-LIKE ( SPL ); SUPPRESSOR OF OVEREXPRESSION OF CONSTANS 1 ( SOC1 ); floral meristematic tissue characteristic genes; and the transcription factors involved in IAA signal transduction, GA signal transduction, and so on [ 5 , 12 ]. Among these key factors, SPL is a noteworthy key factor in the age pathway (miR156/ SPL module), a major regulatory pathway that regulates the juvenile-to-adult transition and flowering [ 15 , 16 , 17 , 18 ].…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Comparative Analysis Based on Physiological and Transcriptomic Data between Juvenile and Adult Tree Peony (Paeonia delavayi)

Zhai

Zhang

et al. 2023

IJMS

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A long juvenile period limits the breeding process of many woody plants including tree peony. To investigate the physiological and transcriptomic differences between juvenile and adult plants of tree peony and to explore the key SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) genes, which are vital in age-dependent pathways, 1-year-old and 3-year-old Paeonia delavayi plants were used to compare the relevant physiological parameters and transcriptomic profiles of the leaves in two phases of plants. The results of the physiological parameters showed that the starch content in the leaves of adult plants remained unchanged and that the soluble sugar content significantly increased compared with those in the juvenile plants. In terms of plant hormones, the contents of cytokinin-like hormone (N6-isopentenyladenine (iP)) and jasmonic acid (JA) significantly decreased, whereas the contents of auxin (indole-3-acetic acid, IAA), abscisic acid (ABA), cytokinin-like hormone (N6-isopentenyladenenosine (iPR)), and ethylene precursor (1-aminocyclopropane-1-carboxylic acid, ACC) showed no statistic difference. Transcriptome sequencing results showed that there were 194 differentially expressed genes (DEGs) between juvenile and adult plants, including 171 up-regulated DEGs and 23 down-regulated DEGs. Circadian rhythm, plant hormone signal transduction, and sugar metabolism were closely related to the juvenile-to-adult transition in P. delavayi, involving a total of 12 DEGs. In addition, a total of 13 SPL genes were identified in the transcriptome data, but only PdSPL10 (c71307.graph_c0) was differentially expressed. It was further validated via qRT-PCR analysis, indicating that PdSPL10 might be a key gene regulating the process of juvenile-to-adult in P. delavayi. Based on the above results, a hypothetical transcriptional network regulating juvenile-to-adult transition and flowering in P. delavayi was proposed. These findings provide a reference for understanding the mechanism of juvenile-to-adult transition in tree peony.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Comparative Analysis Based on Physiological and Transcriptomic Data between Juvenile and Adult Tree Peony (Paeonia delavayi)

Zhai

Zhang

et al. 2023

IJMS

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“…The method is used to find modules of highly related genes, summarize modules by using the hub genes of modules, and analyze the association between modules or those with specific traits [ 42 ]. In a previous study, the transcriptomes of once- and continuous-flowering roses were analyzed using an F1 population of R. chinensis “Zhaiye Tengben Yuejihua” (OF) × R. chinensis “Old Blush” (CF) as material (accession number in NCBI SRA: SRP12834051-SRP12834062) [ 43 ]. In total, 150 F1 seedlings were randomly selected from continuous-flowering seedlings to construct three mixed pools, numbered CF1, CF2, and CF3, with 50 plants in each mixed pool.…”

Section: Methodsmentioning

confidence: 99%

Differentially Expressed Genes Related to Flowering Transition between Once- and Continuous-Flowering Roses

Gao

Yang

et al. 2021

Biomolecules

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Roses are the most important cut flower crops and widely used woody ornamental plants in gardens throughout the world, and they are model plants for studying the continuous-flowering trait of woody plants. To analyze the molecular regulation mechanism of continuous flowering, comparative transcriptome data of once- and continuous-flowering roses in our previous study were used to conduct weighted gene co-expression network analysis (WGCNA) to obtain the candidate genes related to flowering transitions. The expression patterns of candidate genes at different developmental stages between Rosa chinensis “Old Blush” (continuous-flowering cultivar) and R. “Huan Die” (once-flowering cultivar) were investigated, and the relationship of the key gene with the endogenous hormone was analyzed. The results showed that the expression trends of VIN3-LIKE 1 (VIL1), FRIGIDA- LIKE 3 (FRI3), APETALA 2- LIKE (AP2-like) and CONSTANS-LIKE 2 (CO-like 2) genes were significantly different between “Old Blush” and “Huan Die”, and the expression trends of SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 (SOC1) and CO-like 2 were consistent in the flowering transition of “Old Blush” under different environments. The changes in cytokinin and gibberellic acid (GA3) content were different in the two rose cultivars. The overall change trend of the abscisic acid and GA3 in the flowering transition of “Old Blush” under different environments was consistent. The promoter sequence of CO-like 2 contained a P-box element associated with gibberellin response, as well as binding sites for transcription factors. In a word, we found CO-like 2 associated with continuous flowering and some factors that may synergistically regulate continuous flowering. The results provided a reference for elucidating the molecular regulatory mechanisms of continuous-flowering traits in roses.

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Identification of SNPs associated with the recurrent blooming trait in rose

Tan,

Yang,

et al. 2024

Scientia Horticulturae

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RNA-seq and sRNA-seq analysis in lateral buds and leaves of juvenile and adult roses

Cited by 5 publications

References 72 publications

Comparative Analysis Based on Physiological and Transcriptomic Data between Juvenile and Adult Tree Peony (Paeonia delavayi)

Comparative Analysis Based on Physiological and Transcriptomic Data between Juvenile and Adult Tree Peony (Paeonia delavayi)

Differentially Expressed Genes Related to Flowering Transition between Once- and Continuous-Flowering Roses

Identification of SNPs associated with the recurrent blooming trait in rose

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