Overexpression of the long non-coding RNA lncWOX5 negatively regulates the development of adventitious roots in Populus

Qi, Haoran; Wu, Ling; Shen, Tengfei; Liu, Sian; Cai, Heng; Ran, Na; Wang, Jiali; Xu, Meng

doi:10.1016/j.indcrop.2022.116054

Cited by 3 publications

(3 citation statements)

References 59 publications

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“…The lncWOX5 negatively regulated WOX5 , and lncWOX11 positively regulated WOX11 during the AR formation of poplar [ 46 ]. The overexpression of lncWOX5 negatively regulated the development of AR in Populus [ 83 ]. A total of 130 cis-acting lncRNAs were identified associated with the hub genes of modules significantly correlated with JA and DEGs in the phenylpropanoid biosynthesis, flavonoid biosynthesis, and isoflavonoid biosynthesis pathway, with 17 of them exhibiting significant differential expression during root cuttings in favorable conditions of other growth environment factors in E. ulmoides .…”

Section: Discussionmentioning

confidence: 99%

Integrated Transcriptomics and Metabolomics Analysis Promotes the Understanding of Adventitious Root Formation in Eucommia ulmoides Oliver

Du,

Song,

Wang

et al. 2024

Plants

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As a primary approach to nutrient propagation for many woody plants, cutting roots is essential for the breeding and production of Eucommia ulmoides Oliver. In this study, hormone level, transcriptomics, and metabolomics analyses were performed on two E. ulmoides varieties with different adventitious root (AR) formation abilities. The higher JA level on the 0th day and the lower JA level on the 18th day promoted superior AR development. Several hub genes executed crucial roles in the crosstalk regulation of JA and other hormones, including F-box protein (EU012075), SAUR-like protein (EU0125382), LOB protein (EU0124232), AP2/ERF transcription factor (EU0128499), and CYP450 protein (EU0127354). Differentially expressed genes (DEGs) and metabolites of AR formation were enriched in phenylpropanoid biosynthesis, flavonoid biosynthesis, and isoflavonoid biosynthesis pathways. The up-regulated expression of PAL, CCR, CAD, DFR, and HIDH genes on the 18th day could contribute to AR formation. The 130 cis-acting lncRNAs had potential regulatory functions on hub genes in the module that significantly correlated with JA and DEGs in three metabolism pathways. These revealed key molecules, and vital pathways provided more comprehensive insight for the AR formation mechanism of E. ulmoides and other plants.

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Section: Discussionmentioning

confidence: 99%

Integrated Transcriptomics and Metabolomics Analysis Promotes the Understanding of Adventitious Root Formation in Eucommia ulmoides Oliver

Du,

Song,

Wang

et al. 2024

Plants

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“…Plant-specific WUSCHEL-related homeobox (WOX) transcription factors (TFs), especially WOX11, LATERAL ORGAN BOUNDARIES DOMAIN 16, and SMALL AUXIN-UP RNA 36 (SAUR36), are essential regulators of AR formation via the auxin pathway [99]. Numerous lncRNAs that regulate the expression of WOX11 have been identified [97,100]. Among them, lncWOX11a is located 54,293 bp upstream of Pe-WOX11a on chromosome 13 and is mainly expressed in 1-week-old roots.…”

Section: Root Growth and Developmentmentioning

confidence: 99%

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

Yadav,

Mathan,

Dubey

et al. 2024

ncRNA

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Plant species utilize a variety of regulatory mechanisms to ensure sustainable productivity. Within this intricate framework, numerous non-coding RNAs (ncRNAs) play a crucial regulatory role in plant biology, surpassing the essential functions of RNA molecules as messengers, ribosomal, and transfer RNAs. ncRNAs represent an emerging class of regulators, operating directly in the form of small interfering RNAs (siRNAs), microRNAs (miRNAs), long noncoding RNAs (lncRNAs), and circular RNAs (circRNAs). These ncRNAs exert control at various levels, including transcription, post-transcription, translation, and epigenetic. Furthermore, they interact with each other, contributing to a variety of biological processes and mechanisms associated with stress resilience. This review primarily concentrates on the recent advancements in plant ncRNAs, delineating their functions in growth and development across various organs such as root, leaf, seed/endosperm, and seed nutrient development. Additionally, this review broadens its scope by examining the role of ncRNAs in response to environmental stresses such as drought, salt, flood, heat, and cold in plants. This compilation offers updated information and insights to guide the characterization of the potential functions of ncRNAs in plant growth, development, and stress resilience in future research.

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“…DNA from the frozen leaf tissue was extracted using a Plant Genomic DNA kit according to the manufacturer's instructions (Tiangen, Beijing, China). Elongation factor 1-alpha (EF1α) was used as an internal control fragment [18,19]. PCR amplification was performed using a Veriti ™ 96-Well Thermal Cycler (Thermo Fisher, Waltham, MA, USA) and the PCR mix (25 µL) contained 12.5 µL Premix Taq ™ (Takara, Beijing, China), 1 µL (10 µM) forward primer (5 -GGCAAGGAGAAGGTACACAT-3 ), 1 µL (10 µM) reverse primer (5 -CAATCACACGCTTGTCAATA-3 ), 3 µL (10 ng•µL −1 ) template DNA, and 7.5 µL ddH 2 O.…”

Section: Plant Materialsmentioning

confidence: 99%

Male-Specific Sequence in Populus simonii Provides Insights into Gender Determination of Poplar

Wang,

Lei,

Liu

et al. 2023

Forests

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The genus Populus is composed of dioecious woody plants and adult females produce large numbers of seed hairs that can affect public health and pose a potential fire risk. However, it is difficult to distinguish between males and females based on their morphology at the seedling stage. Therefore, developing a technology that identifies the gender of poplar seedlings is crucial for controlling seed hairs. In this study, we developed an approach for the early gender identification of Tacamahaca and Aigeiros species based on the male-specific sequence in Populus simonii. The gender of Tacamahaca and Aigeiros species can be accurately identified by PCR. The sequencing results showed that the male-specific sequence was conserved in P. simonii and its F1 progenies. Interestingly, there were three nucleobase differences between Tacamahaca and Aigeiros species. Sequence alignment showed that the male-specific sequence had not been assembled on the pseudochromosome. Subsequently, fluorescence in situ hybridization (FISH) was used to locate this specific sequence at the short arm end of chromosome 19 in male P. simonii. This study provides an efficient and convenient method for early gender determination of Tacamahaca and Aigeiros species and lays the groundwork for exploring key sex-determination genes.

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Overexpression of the long non-coding RNA lncWOX5 negatively regulates the development of adventitious roots in Populus

Cited by 3 publications

References 59 publications

Integrated Transcriptomics and Metabolomics Analysis Promotes the Understanding of Adventitious Root Formation in Eucommia ulmoides Oliver

Integrated Transcriptomics and Metabolomics Analysis Promotes the Understanding of Adventitious Root Formation in Eucommia ulmoides Oliver

The Emerging Role of Non-Coding RNAs (ncRNAs) in Plant Growth, Development, and Stress Response Signaling

Male-Specific Sequence in Populus simonii Provides Insights into Gender Determination of Poplar

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