Transcriptome and weighted correlation network analyses provide insights into inflorescence stem straightness in Paeonia lactiflora

Wan, Yingling; Zhang, Min; Hong, Aiying; Lan, Xinyu; Yang, Huiyan; Liu, Yan

doi:10.1007/s11103-019-00945-4

Cited by 9 publications

(11 citation statements)

References 64 publications

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“…As shown in Table S2, the TFs containing SSRs accounted for 28.16% of the total TFs (1218) in the transcriptome of herbaceous peony, including 51 kinds of TF families (e.g., ERF, MYB, MYB related and ARF). Regarding the hub genes (46) for inflorescence stem straightness, as described in a previous study [27], 21.74% of the genes contained SSRs and were involved in lignin monolignol biosynthesis (4CL1, CCoAOMT2, HST and CAD2), xylan synthesis and metabolic process (IRX-15 L), auxin signaling transduction (IAA26, IAA31 and SAUR20) and lateral organ boundary domain TF (LBD15 and LBD36) pathways.…”

Section: Annotation Of the Unigenes With Ssrsmentioning

confidence: 71%

“…All the SSR sequences used in this study were obtained from transcriptome data from inflorescence stems of P. lactiflora 'Da Fugui' and 'Chui Touhong' at five developmental stages (i.e., stages representing every seven days from stem elongation to flowering). The transcriptome data have been deposited in the Sequence Read Archive (SRA) database as described previously (accession number: PRJNA528693) [26,27] and were assembled by Trinity 3.0.…”

Section: Ssr Identification Annotation From Transcriptome Data and Smentioning

confidence: 99%

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Characteristics of Microsatellites Mined from Transcriptome Data and the Development of Novel Markers in Paeonia lactiflora

Wan

Zhang

Hong³

et al. 2020

Genes

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The insufficient number of available simple sequence repeats (SSRs) inhibits genetic research on and molecular breeding of Paeonia lactiflora, a flowering crop with great economic value. The objective of this study was to develop SSRs for P. lactiflora with Illumina RNA sequencing and assess the role of SSRs in gene regulation. The results showed that dinucleotides with AG/CT repeats were the most abundant type of repeat motif in P. lactiflora and were preferentially distributed in untranslated regions. Significant differences in SSR size were observed among motif types and locations. A large number of unigenes containing SSRs participated in catalytic activity, metabolic processes and cellular processes, and 28.16% of all transcription factors and 21.74% of hub genes for inflorescence stem straightness were found to contain SSRs. Successful amplification was achieved with 89.05% of 960 pairs of SSR primers, 55.83% of which were polymorphic, and most of the 46 tested primers had a high level of transferability to the genus Paeonia. Principal component and cluster dendrogram analyses produced results consistent with known genealogical relationships. This study provides a set of SSRs with abundant information for future accession identification, marker-trait association and molecular assisted breeding in P. lactiflora.

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Section: Annotation Of the Unigenes With Ssrsmentioning

confidence: 71%

Section: Ssr Identification Annotation From Transcriptome Data and Smentioning

confidence: 99%

Characteristics of Microsatellites Mined from Transcriptome Data and the Development of Novel Markers in Paeonia lactiflora

Wan

Zhang

Hong³

et al. 2020

Genes

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“…Among them, lignin has been studied the most. The total lignin content was correlated with stem straightness, and the S-lignin and G-lignin monomer contents and the ratio of S/G lignin and lignin distribution area of the upright cultivars were higher than those of cultivars with poor straightness ( Wan et al., 2020 ; Tang et al., 2022 ; Zhao et al, 2020a ; Zhao et al, 2020b ). Exogenous sprays of silicon, calcium, the calcium ion chelator EGTA, and melatonin affected the mechanical strength of herbaceous peony stems by influencing the secondary cell wall thickness, lignin content, and gene expression of lignin monomer synthesis pathways and deposition, such as PAL , C4H , 4CL , CCR , CAD , CSE , POD , COMT , and CCoAOMT ( Zhao et al, 2013 ; Tang et al., 2019 ; Zhao et al, 2019 ; Zhao et al., 2021 ; Zhao et al., 2022 ).…”

Section: Introductionmentioning

confidence: 93%

“…In recent decades, it has become one of the most popular new cut flowers, and high transaction prices have brought herbaceous peony farmers of significant economic benefits ( Kamenetsky-Goldstein & Yu, 2022 ). A straight stem is a vital criterion for cut peony selection ( Wan et al., 2020 ). In field observations, it was determined that stems of a large number of cultivars would gradually bend along with the development, which became a nonnegligible limit to high-quality cut herbaceous peonies.…”

Section: Introductionmentioning

confidence: 99%

Effect of the pectin contents and nanostructure on the stem straightness of two Paeonia lactiflora cultivars

Huang

Ren

Wan

et al. 2023

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Herbaceous peony (Paeonia lactiflora Pall.) is an ancient ornamental crop and, in recent decades, an emerging popular cut flower. Straight stems are a vital criterion for cut herbaceous peony selection, while many cultivars bend as the plant develops. Pectin helps maintain the mechanical strength of the cell wall. However, little is known about its role in the stem bending of herbaceous peony. Two herbaceous peony cultivars with contrasting stem morphologies (‘Dong Fang Shao Nv’, upright; ‘Lan Tian Piao Xiang’, bending gradually) at five developmental stages were used as materials to investigate the effects of pectin content and nanostructure on straightness using the carbazole colorimetric method and atomic force microscopy observations. The contents of water-soluble pectin (WSP), CDTA-soluble pectin (CSP), and sodium carbonate-soluble pectin (SSP) differed significantly between the two cultivars, and the contents and angle of the flower and branch showed correlations. For the pectin nanostructure, WSP showed agglomerates and long chains, with a higher proportion of broad agglomerates at the later stages of the bending cultivar than the upright cultivar. CSP showed branched chains, and the proportion of broad chains was higher in the upright cultivar at later stages, while CSP shape changed from agglomerates to chains in the bending cultivar. SSP mainly consisted of short linear main chains, and side chains in the upright stem were stacked, and the bent cultivar had more broad and short chains. It can be concluded that the contents, nanometric shape, and size of the three kinds of pectin are highly likely to affect herbaceous peony stem straightness. This study provides a theoretical basis for the role of pectin in the production and breeding of herbaceous peony cut flowers.

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“…found that P. lactiflora stem mechanical strength was significantly positively correlated with stem diameter, stem weight, and calcium and silicon contents. Subsequently, lignin was found to be the main factor affecting P. lactiflora stem mechanical strength [22][23][24] . Moreover, foliar spraying of calcium and silicon could significantly improve P. lactiflora stem mechanical strength by increasing the lignin content [25][26][27] .…”

Section: Introductionmentioning

confidence: 99%

Lignin provides mechanical support to herbaceous peony (Paeonia lactiflora Pall.) stems

et al. 2020

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Stem bending caused by mechanical failure is a major constraint for high-quality herbaceous peony (Paeonia lactiflora Pall.) cut flowers, but little is known about the underlying factors. In this study, two P. lactiflora cultivars, Xixia Yingxue (bending) and Hong Feng (upright), were used to investigate differences in stem bending. The results showed that the stem mechanical strength of Hong Feng was significantly higher than that of Xixia Yingxue, and the thickening of the secondary cell wall and the number of thickened secondary cell wall layers in Hong Feng were significantly higher than those in Xixia Yingxue. Moreover, compared with Xixia Yingxue, Hong Feng showed greater lignification of the cell wall and lignin deposition in the cell walls of the sclerenchyma, vascular bundle sheath and duct. All three types of lignin monomers were detected. The S-lignin, G-lignin, and total lignin contents and the activities of several lignin biosynthesis-related enzymes were higher in Hong Feng than in the other cultivar, and the S-lignin content was closely correlated with stem mechanical strength. In addition, 113,974 full-length isoforms with an average read length of 2106 bp were obtained from the full-length transcriptome of P. lactiflora stems, and differential expression analysis was performed based on the comparative transcriptomes of these two cultivars. Ten lignin biosynthesis-related genes, including 26 members that were closely associated with lignin content, were identified, and multiple upregulated and downregulated transcription factors were found to positively or negatively regulate lignin biosynthesis. Consequently, lignin was shown to provide mechanical support to P. lactiflora stems, providing useful information for understanding the formation of P. lactiflora stem strength.

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Transcriptome and weighted correlation network analyses provide insights into inflorescence stem straightness in Paeonia lactiflora

Cited by 9 publications

References 64 publications

Characteristics of Microsatellites Mined from Transcriptome Data and the Development of Novel Markers in Paeonia lactiflora

Characteristics of Microsatellites Mined from Transcriptome Data and the Development of Novel Markers in Paeonia lactiflora

Effect of the pectin contents and nanostructure on the stem straightness of two Paeonia lactiflora cultivars

Lignin provides mechanical support to herbaceous peony (Paeonia lactiflora Pall.) stems

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