Identification of cadmium-responsive microRNAs in Solanum torvum by high-throughput sequencing

Kang, Xiu-Ping; Gao, Jing; Zhao, Jinyan; Yin, Hongyan; Wang, W. Y.; Zhang, P.; Wang, R. L.; Xu, Jiajia

doi:10.1134/s1021443717020066

Cited by 7 publications

(4 citation statements)

References 25 publications

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“…pekinensis cv. Chiifu (Kim et al 2012;Sun et al 2015), B. parachinensis (Zhou et al 2017) and B. napus (Jian et al 2018), and 22 nt sRNAs were not examined in previous sRNA-seq studies of Cd stress responses in plants (Han et al 2016;Kang et al 2017;Jian et al 2018). In the present study, we found a 22 nt ndhB sRNA showing a Cd-induced decrease in abundance in leaves of both B. parachinensis cultivars (Fig.…”

Section: Ppr Genes Involved In CD Response In B Parachinensiscontrasting

confidence: 44%

Cultivar- and tissue-specific transcriptomic changes induced by cadmium in Brassica parachinensis

Liu

Deng

et al. 2019

Preprint

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Background One of the main pathways for cadmium (Cd) transfer from the environment to the human body is through the consumption of leafy vegetables, and Brassica leafy crops tend to be Cd hyper-accumulators. But its response strategies to Cd still lack of systematic study. Results To investigate Brassica response strategies to Cd, we identified two cultivars with different Cd translocation efficiencies and performed mutli-transcriptomic sequencing studies under Cd treatments. Certain transporter families exhibited different temporal expression profiles in the two cultivars and may underlie the different Cd translocation efficiencies. Cd induced a drastic reduction of a 22 nt small RNA, the footprint of a pentatricopeptide repeat (PPR) protein on the chloroplast ndhB transcript and the concomitant down-regulation of the ndhB transcript. A global reduction in the expression of PPR genes was found, revealing previously unknown effects of Cd on organellar gene expression. Analyses of microRNAs (miRNAs) and their target genes by small RNA and degradome sequencing not only revealed Cd-induced changes in miRNAs but also implicated the existence of a regulatory cascade involving bra-miR156, its target gene, and bra-miR397 and bra-miR398 in Cd stress responses. Conclusions The present findings help uncover the impact of Cd stress on the transcriptome of B. parachinensis and provide candidate genes and miRNAs for further investigation.

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Section: Ppr Genes Involved In CD Response In B Parachinensiscontrasting

confidence: 44%

Cultivar- and tissue-specific transcriptomic changes induced by cadmium in Brassica parachinensis

Liu

Deng

et al. 2019

Preprint

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“…This implies that Cd stress can regulate the expression of sRNAs, inducing the expression of some and repressing those of others. In fact, Cd stress is one of the most important abiotic stresses and has been shown to change sRNA expression profiles in plants, such as Triticum aestivum L. [26] and Solanum torvum Sw. [27]. These Cd stress-responsive sRNAs, especially miRNAs, play crucial roles in acclimation to Cd stress and in mediation of signalling responses to Cd stress.…”

Section: Discussionmentioning

confidence: 99%

The miRNAome of ramie (Boehmeria nivea L.): identification, expression, and potential roles of novel microRNAs in regulation of cadmium stress response

Chen

Sun

et al. 2018

BMC Plant Biol

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BackgroundMicroRNAs (miRNAs) regulate numerous crucial abiotic stress processes in plants. However, information is limited on their involvement in cadmium (Cd) stress response and tolerance mechanisms in plants, including ramie (Boehmeria nivea L.) that produces a number of economic valuable as an important natural fibre crop and an ideal crop for Cd pollution remediation.ResultsFour small RNA libraries of Cd-stressed and non-stressed leaves and roots of ramie were constructed. Using small RNA-sequencing, 73 novel miRNAs were identified. Genome-wide expression analysis revealed that a set of miRNAs was differentially regulated in response to Cd stress. In silico target prediction identified 426 potential miRNA targets that include several uptake or transport factors for heavy metal ions. The reliability of small RNA sequencing and the relationship between the expression levels of miRNAs and their target genes were confirmed by quantitative PCR (q-PCR). We showed that the expression patterns of miRNAs obtained by q-PCR were consistent with those obtained from small RNA sequencing. Moreover, we demonstrated that the expression of six randomly selected target genes was inversely related to that of their corresponding miRNAs, indicating that the miRNAs regulate Cd stress response in ramie.ConclusionsThis study enriches the number of Cd-responsive miRNAs and lays a foundation for the elucidation of the miRNA-mediated regulatory mechanism in ramie during Cd stress.Electronic supplementary materialThe online version of this article (10.1186/s12870-018-1561-5) contains supplementary material, which is available to authorized users.

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“…MicroRNA (miRNA) is the small noncoding RNA that modulates growth, development, nutrient uptake, and heavy metal tolerance in plants (Kang et al 2017;Xie et al 2017). Ding et al (2011) and Zhou et al (2012) identified cadmium (Cd)-responsive miRNA in plants.…”

mentioning

confidence: 99%

“…Ding et al (2011) and Zhou et al (2012) identified cadmium (Cd)-responsive miRNA in plants. Xie et al (2017) and Kang et al (2017) identified Zn-and Cd-responsive miRNAs in heavy metal hyperaccumulator Solanum nigrum and low Cd-accumulator Solanum torvum, respectively. https://doi.org/10.17221/57/2018-CJGPB Valdes-Lopez et al (2010) identified Mn toxicityand nutrient deficiency-responsive miRNAs in bean (Phaseolus vulgaris) by microarray analysis.…”

mentioning

confidence: 99%

Identification of manganese-responsive microRNAs in Arabidopsis by small RNA sequencing

Gong¹,

Liu²,

Li³

et al. 2019

Czech J. Genet. Plant Breed.

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Manganese (Mn) is an important micronutrient for growth and development in plants, however, excess Mn is harmful by disrupting photosynthesis system and inducing oxidative damage in leaves. MicroRNAs (miRNAs) play key roles in regulating Mn toxicity tolerance in plants. Here, we identified Mn toxicity-responsive miRNAs in Arabidopsis by using small RNA sequencing. Eighteen differentially expressed miRNAs were identified in Arabidopsis thaliana seedlings in response to Mn toxicity. These differentially expressed miRNAs are involved in regulating nutrition homeostasis, transport, stress response, and developmental processes. Our results indicated that these miRNAs play a key role in Mn toxicity response in plants.

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Identification of cadmium-responsive microRNAs in Solanum torvum by high-throughput sequencing

Cited by 7 publications

References 25 publications

Cultivar- and tissue-specific transcriptomic changes induced by cadmium in Brassica parachinensis

Cultivar- and tissue-specific transcriptomic changes induced by cadmium in Brassica parachinensis

The miRNAome of ramie (Boehmeria nivea L.): identification, expression, and potential roles of novel microRNAs in regulation of cadmium stress response

Identification of manganese-responsive microRNAs in Arabidopsis by small RNA sequencing

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