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miRNA plant

Robert Pertermann, Selvaraj Tamilarasan, Torsten Gursinsky, Giorgio Gambino, Jana Schuck, Claus Weinholdt, Hauke Lilie, Ivo Grosse, Ralph Peter Golbik, Vitantonio Pantaleo, Sven-Erik Behrens
Many viral suppressors (VSRs) counteract antiviral RNA silencing, a central component of the plant's immune response by sequestration of virus-derived antiviral small interfering RNAs (siRNAs). Here, we addressed how VSRs affect the activities of cellular microRNAs (miRNAs) during a viral infection by characterizing the interactions of two unrelated VSRs, the Tombusvirus p19 and the Cucumovirus 2b, with miRNA 162 (miR162), miR168, and miR403. These miRNAs regulate the expression of the important silencing factors Dicer-like protein 1 (DCL1) and Argonaute proteins 1 and 2 (AGO1 and AGO2), respectively...
April 24, 2018: MBio
Hui Zhou, Syed Sarfraz Hussain, Michael Hackenberg, Natalia Bazanova, Omid Eini, Jie Li, Perry Gustafson, Bujun Shi
Drought is the most serious abiotic stress, which causes crop losses on worldwide scale. The present study identified a previously unknown microRNA (designated as hvu-miRX) of 21 nucleotides (nt) in barley. Its precursor (designated pre-miRX) and primary transcript (designated pri-miRX) were also identified, with lengths of 73 nt and 559 nt, respectively. The identified upstream sequence of pri-miRX contains both the TATA box and the CAAT box, which are both required for transcription initiation. Transient promoter activation assays showed that the core promoter region of pri-miRX ranged 500 nt from the transcription start site...
April 22, 2018: Plant Journal: for Cell and Molecular Biology
Guoqiang Fan, Yabing Cao, Zhe Wang
Paulownia witches' broom caused by phytoplasma infection affects the production of Paulownia trees worldwide. Emerging evidence showed that long noncoding RNAs (lncRNA) play a protagonist role in regulating the expression of genes in plants. So far, the identification of lncRNAs has been limited to a few model plant species, and their roles in mediating responses to Paulownia tomentosa that free of phytoplasma infection are yet to be characterized. Here, whole-genome identification of lncRNAs, based on strand-specific RNA sequencing, from four Paulownia tomentosa samples, was performed and identified 3689 lncRNAs...
2018: International Journal of Genomics
Fan Wu, Daiyu Zhang, Blaise Pascal Muvunyi, Qi Yan, Yufei Zhang, Zhuanzhuan Yan, Mingshu Cao, Yanrong Wang, Jiyu Zhang
Cleistogenes songorica, a grass species that exhibits two spatially different type of inflorescence, chastogamy (CH), flowers localized at the top, and cleistogamy (CL) flowers embedded in leaf sheath. This study aimed at dissecting reasons underlying these distinct floral development patterns at morphological and microRNA level. Phenotyping for CH and CL was conducted and four small RNA libraries were constructed from the CH and CL flowers for high-throughput sequencing to identify the differentiated miRNAs...
April 19, 2018: Scientific Reports
Xingli Ma, Xingguo Zhang, Kunkun Zhao, Fapeng Li, Ke Li, Longlong Ning, Jialin He, Zeyu Xin, Dongmei Yin
Seed expansion in peanut is a complex biological process involving many gene regulatory pathways. MicroRNAs (miRNAs) play important regulatory roles in plant growth and development, but little is known about their functions during seed expansion, or how they contribute to seed expansion in different peanut lines. We examined seed miRNA expression patterns at 15 and 35 days after flowering (DAF) in two peanut eighth-generation recombinant inbred lines (RIL8); 8106, a medium-pod variety, and 8107, a super-pod variety...
2018: Frontiers in Plant Science
Jian-Mei Long, Chao-Yang Liu, Meng-Qi Feng, Yun Liu, Xiao-Meng Wu, Wen-Wu Guo
As a highly conserved plant miRNA, miR156 has been intensively investigated for its versatile roles in plant development. Herein we report a novel role of miR156 in regulating somatic embryogenesis (SE) of citrus, one of the most widely cultivated fruit crops in the world. SE is an important way of regeneration, but SE potential of the preserved citrus embryogenic callus always declined during long-term sub-culturing, becoming a key obstacle for citrus biotechnology. In our study, either overexpression of csi-miR156a or individual knock-down of the two target genes CsSPL3 and CsSPL14 significantly enhanced SE competence of citrus callus, indicating that the effect of miR156-SPLs module was established for the initial phases of SE induction...
April 5, 2018: Journal of Experimental Botany
Wenyan Xie, Matthias F Melzig
Herbal medicine is now globally accepted as a valid alternative system of pharmaceutical therapies. Various studies around the world have been initiated to develop scientific evidence-based herbal therapies. Recently, the therapeutic potential of medicinal plant derived miRNAs has attracted great attraction. MicroRNAs have been indicated as new bioactive ingredients in medicinal plants. However, the stability of miRNAs during the herbal preparation process and their bioavailability in humans remain unclear...
April 16, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
Flávia Thiebaut, Cristian A Rojas, Clícia Grativol, Edmundo P da R Calixto, Mariana R Motta, Helkin G F Ballesteros, Barbara Peixoto, Berenice N S de Lima, Lucas M Vieira, Maria Emilia Walter, Elvismary M de Armas, Júlio O P Entenza, Sergio Lifschitz, Laurent Farinelli, Adriana S Hemerly, Paulo C G Ferreira
Studies have highlighted the importance of non-coding RNA regulation in plant-microbe interaction. However, the roles of sugarcane microRNAs (miRNAs) in the regulation of disease responses have not been investigated. Firstly, we screened the sRNA transcriptome of sugarcane infected with Acidovorax avenae . Conserved and novel miRNAs were identified. Additionally, small interfering RNAs (siRNAs) were aligned to differentially expressed sequences from the sugarcane transcriptome. Interestingly, many siRNAs aligned to a transcript encoding a copper-transporter gene whose expression was induced in the presence of A...
December 20, 2017: Non-Coding RNA
Li Zhang, Lei Yao, Ning Zhang, Jiangwei Yang, Xi Zhu, Xun Tang, Alejandro Calderón-Urrea, Huaijun Si
The NAC designation is derived from petunia ( Petunia hybrida ) gene NO APICAL MERISTEM ( NAM ) and Arabidopsis genes ATAF1/ATAF2 and CUP-SHAPED COTYLEDON2 ( CUC2 ), which belongs to the family of plant-specific transcription factors (TFs), and plays important role in plant development processes, such as response to biotic and abiotic stress, and hormone signaling. MicroRNAs (miRNAs) are a class of small, non-coding endogenous RNAs which play versatile and significant role in plant stress response and development via negatively affecting gene expression at a post-transcriptional level...
2018: Frontiers in Plant Science
Yang Cao, Shuang You, Yang Yao, Junchang Wei, Wureli Hazi, Cunyuan Li, Xiangyu Zhang, Xiaoxu Hou, Zhijin Liu, Xiaoyue Li, Dawei Wang, Chuangfu Chen, Yunfeng Zhang, Wei Ni, Shengwei Hu
Objective: Circular RNAs (circRNAs) are a newfound class of non-coding RNA in animals and plants. Recent studies have revealed that circRNAs play important roles in cell proliferation, differentiation, autophagy and apoptosis during development. However, there are few reports about muscle development-related circRNAs in livestock. Methods: RNA sequencing analysis was employed to identify and annotate circRNAs from longissimus dorsi of sheep. Reverse transcription followed by real-time quantitative (q) PCR analysis verified the presence of these circRNAs...
April 11, 2018: Asian-Australasian Journal of Animal Sciences
Carlos De la Rosa, Alejandra Alicia Covarrubias, José Luis Reyes
Plant microRNAs are commonly encoded in transcripts containing a single microRNA precursor. Processing by DICER-LIKE 1 and associated factors results in the production of a small RNA, followed by its incorporation into an AGO-containing protein complex to guide silencing of an mRNA possessing a complementary target sequence. Certain microRNA loci contain more that one precursor stem-loop structure, thus encoding more than one microRNA in the same transcript. Here we describe a unique case where the evolutionary-conserved miR398a is encoded in the same transcript as the legume-specific miR2119...
April 6, 2018: Plant, Cell & Environment
Hushuai Nie, Yumei Wang, Ying Su, Jinping Hua
Cytoplasmic male sterility (CMS) lines provide crucial material to harness heterosis for crop plants, which serves as an important strategy for hybrid seed production. However, the molecular mechanism remains obscure. Although microRNAs (miRNAs) play important roles in vegetative growth and reproductive growth, there are few reports on miRNAs regulating the development of male sterility in Upland cotton. In present study, 12 small RNA libraries were constructed and sequenced for two development stages of flower buds from a CMS line and its maintainer line...
April 7, 2018: Functional & Integrative Genomics
Wen Zhang, Xiaona Li, Lina Ma, Uzair Urrehman, Xilinqiqige Bao, Yujing Zhang, Chen-Yu Zhang, Dongxia Hou, Zhen Zhou
Ophiocordyceps sinensis is well known as a traditional Chinese medicine and has widely been used for over 2,000 years to stimulate immune system, decrease blood pressure and to inhibit tumor growth. While miRNAs are increasingly recognized for their roles in post-transcriptional regulation of gene expression in animals and plants, miRNAs in fungi were less studied until the discovery of microRNA-like RNA (milRNA). High-throughput sequencing and bioinformatics approaches were used to identify conserved and novel milRNAs in O...
March 27, 2018: Science China. Life Sciences
Raquel Salvador-Guirao, Yue-Ie Hsing, Blanca San Segundo
MicroRNAs (miRNAs) are small RNAs acting as regulators of gene expression at the post-transcriptional level. In plants, most miRNAs are generated from independent transcriptional units, and only a few polycistronic miRNAs have been described. miR166 is a conserved miRNA in plants targeting the HD-ZIP III transcription factor genes. Here, we show that a polycistronic miRNA comprising two miR166 family members, miR166k and miR166h, functions as a positive regulator of rice immunity. Rice plants with activated MIR166k-166h expression showed enhanced resistance to infection by the fungal pathogens Magnaporthe oryzae and Fusarium fujikuroi , the causal agents of the rice blast and bakanae disease, respectively...
2018: Frontiers in Plant Science
Wenjiao Fan, Yan Qi, Liying Qiu, Pan He, Chenghui Liu, Zhengping Li
A versatile flow cytometric strategy is developed for the sensitive detection of plant microRNA (miRNA) by coupling the target-templated click nucleic acid ligation (CNAL) with on-bead terminal enzymatic DNA polymerization (TEP). Unlike ligase-catalyzed ligation reaction, the plant miRNA-templated enzyme-free CNAL between two single-stranded DNA (ssDNA) probes respectively modified with Aza-dibenzocyclooctyne (Aza-DBCO) and N3, can not only simplify the operation but also achieve a much higher ligation efficiency...
March 30, 2018: Analytical Chemistry
Hui Xu, Zhiqiang Sun
Ryanodine receptors (RyRs) are calcium channels located on the endo(sarco)plasmic reticulum of muscle cells and neurons. They regulate release of stored intracellular calcium and play a critical role in muscle contraction. The N-terminal part of these receptors accounts for roughly 80% and contains the binding sites for diverse RyRs modulators. The C-terminal domain contains the transmembrane region. Ryanodine, a plant alkaloid, has been investigated extensively as a potential pest control agent but no selectivity between mammalians and insect pests...
March 29, 2018: Mini Reviews in Medicinal Chemistry
Jitendra Kumar Verma, Vijay Wardhan, Deepali Singh, Subhra Chakraborty, Niranjan Chakraborty
Architectural proteins play key roles in genome construction and regulate the expression of many genes, albeit the modulation of genome plasticity by these proteins is largely unknown. A critical screening of the architectural proteins in five crop species, viz., Oryza sativa , Zea mays , Sorghum bicolor , Cicer arietinum , and Vitis vinifera , and in the model plant Arabidopsis thaliana along with evolutionary relevant species such as Chlamydomonas reinhardtii , Physcomitrella patens , and Amborella trichopoda , revealed 9, 20, 10, 7, 7, 6, 1, 4, and 4 Alba (acetylation lowers binding affinity) genes, respectively...
March 28, 2018: Genes
Qing Sun, Xiaogang Liu, Juan Yang, Wenwen Liu, Qingguo Du, Hongqiu Wang, Chunxiang Fu, Wen-Xue Li
Lodging under N-luxury conditions substantially reduces crop yield and seed quality. However, the molecular mechanisms of plant lodging resistance remain largely unclear, especially in maize. We report here that the expression of ZmmiR528, a monocot-specific miRNA, is induced by nitrogen (N) luxury but reduced by N deficiency. Thioacidolysis and acetyl bromide (AcBr) analysis showed that N luxury significantly reduced the generation of H, G, and S monomers and the total lignin content of maize shoots. We further demonstrated that ZmLACCASE3 (ZmLAC3) and ZmLACCASE5 (ZmLAC5) are the targets of ZmmiR528...
March 26, 2018: Molecular Plant
Xiucun Zeng, Yaozhao Xu, Jinjin Jiang, Fenqin Zhang, Li Ma, Dewei Wu, Youping Wang, Wancang Sun
BACKGROUND: Low temperature is a major abiotic stress affecting the production of rapeseed in China by impeding plant growth and development. A comprehensive knowledge of small-RNA expression pattern in Brassica rapa under cold stress could improve our knowledge of microRNA-mediated stress responses. RESULTS: A total of 353 cold-responsive miRNAs, 84 putative novel and 269 conserved miRNAs, were identified from the leaves and roots of two winter turnip rape varieties 'Longyou 7' (cold-tolerant) and 'Tianyou 4' (cold-sensitive), which were stressed under - 4 °C for 8 h...
March 27, 2018: BMC Plant Biology
Guangping Li, Yun Wang, Xiaoming Lou, Hailing Li, Changqing Zhang
miRNAs are important regulators of plant gene expression. To better characterize their functions, we applied high-throughput sequencing and degradome analyses to investigate three blueberry ( Vaccinium ashei ) tissues. A total of 127 known and 101 novel miRNAs were identified. Moreover, 141 targets for 42 known and 19 novel miRNAs were experimentally validated by degradome sequencing. A functional analysis of these miRNA targets revealed they were associated with diverse biological activities and several pathways, e...
March 26, 2018: International Journal of Molecular Sciences
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