miRNA transcriptome reveals key miRNAs and their targets contributing to the difference in Cd tolerance of two contrasting maize genotypes

Teng, Lidong; Zhang, Xueqing; Wang, Runfeng; Lin, Kaina; Zeng, Meng; Chen, Hao; Cao, Fengming

doi:10.1016/j.ecoenv.2023.114881

Cited by 7 publications

(4 citation statements)

References 57 publications

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“…Microtubules are the main components of the cytoskeleton and are formed by the polymerization of tubulin dimers, which play important roles in maintaining cell morphology, activity, and division [ 36 ]. zma-MIR171h was reported to potentially regulate the response to low phosphorus and cadmium stresses in maize and may be associated with the interaction between maize and the pathogen Fusarium verticillioides [ 37 , 38 , 39 ]. Based on the reported expression data [ 40 , 41 ], we analyzed the expression level of Zm00001d002644 and zma-MIR171h ( Figure S4 ).…”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Association Study Identifies Quantitative Trait Loci and Candidate Genes Involved in Deep-Sowing Tolerance in Maize (Zea mays L.)

Yang,

Liu,

Liu

et al. 2024

Plants

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Deep sowing is an efficient strategy for maize to ensure the seedling emergence rate under adverse conditions such as drought or low temperatures. However, the genetic basis of deep-sowing tolerance-related traits in maize remains largely unknown. In this study, we performed a genome-wide association study on traits related to deep-sowing tolerance, including mesocotyl length (ML), coleoptile length (CL), plumule length (PL), shoot length (SL), and primary root length (PRL), using 255 maize inbred lines grown in three different environments. We identified 23, 6, 4, and 4 quantitative trait loci (QTLs) associated with ML, CL, PL, and SL, respectively. By analyzing candidate genes within these QTLs, we found a γ-tubulin-containing complex protein, ZmGCP2, which was significantly associated with ML, PL, and SL. Loss of function of ZmGCP2 resulted in decreased PL, possibly by affecting the cell elongation, thus affecting SL. Additionally, we identified superior haplotypes and allelic variations of ZmGCP2 with a longer PL and SL, which may be useful for breeding varieties with deep-sowing tolerance to improve maize cultivation.

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Section: Resultsmentioning

confidence: 99%

Genome-Wide Association Study Identifies Quantitative Trait Loci and Candidate Genes Involved in Deep-Sowing Tolerance in Maize (Zea mays L.)

Yang,

Liu,

Liu

et al. 2024

Plants

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“…Recently, the essential functions of miRNAs in exploring the regulation molecular mechanism of plant response to abiotic stress have garnered extensive attention [ 24 ]. As the post-transcriptional regulators that modulate the expression levels of functional target genes (mRNA) [ 5 ], miRNAs play crucial roles in controlling major biological processes in plants, including growth, development, and fitness to environment alteration [ 6 ].…”

Section: Discussionmentioning

confidence: 99%

Integration analysis of miRNA-mRNA pairs between two contrasting genotypes reveals the molecular mechanism of jujube (Ziziphus jujuba Mill.) response to high-temperature stress

Jin,

Yang,

Fan

et al. 2024

BMC Plant Biol

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With global warming, high temperature (HT) has become one of the most common abiotic stresses resulting in significant crop yield losses, especially for jujube (Ziziphus jujuba Mill.), an important temperate economic crop cultivated worldwide. This study aims to explore the coping mechanism of jujube to HT stress at the transcriptional and post-transcriptional levels, including identifying differentially expressed miRNAs and mRNAs as well as elucidating the critical pathways involved. High-throughput sequencing analyses of miRNA and mRNA were performed on jujube leaves, which were collected from “Fucumi” (heat-tolerant) and “Junzao” (heat-sensitive) cultivars subjected to HT stress (42 °C) for 0, 1, 3, 5, and 7 days, respectively. The results showed that 45 known miRNAs, 482 novel miRNAs, and 13,884 differentially expressed mRNAs (DEMs) were identified. Among them, integrated analysis of miRNA target genes prediction and mRNA-seq obtained 1306 differentially expressed miRNAs-mRNAs pairs, including 484, 769, and 865 DEMIs-DEMs pairs discovered in “Fucuimi”, “Junzao” and two genotypes comparative groups, respectively. Furthermore, functional enrichment analysis of 1306 DEMs revealed that plant-pathogen interaction, starch and sucrose metabolism, spliceosome, and plant hormone signal transduction were crucial pathways in jujube leaves response to HT stress. The constructed miRNA-mRNA network, composed of 20 DEMIs and 33 DEMs, displayed significant differently expressions between these two genotypes. This study further proved the regulatory role of miRNAs in the response to HT stress in plants and will provide a theoretical foundation for the innovation and cultivation of heat-tolerant varieties.

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“…Post-transcriptional regulation by microRNAs (miRNAs) is a crucial regulatory process underlying this reprogramming. The length of miRNAs ranges from 20 to 24 nucleotides in length and these miRNAs are involved in gene silencing in plants (Cuperus et al, 2011), many biological processes, such as plant growth, development, biotic and abiotic stress resistance (Chen, 2005;Cuperus et al, 2011;Teng et al, 2023). Teng et al (2023) identified 23 differentially expressed miRNAs which were highly associated with Cd tolerance in maize.…”

Section: Introductionmentioning

confidence: 99%

“…The length of miRNAs ranges from 20 to 24 nucleotides in length and these miRNAs are involved in gene silencing in plants (Cuperus et al, 2011), many biological processes, such as plant growth, development, biotic and abiotic stress resistance (Chen, 2005;Cuperus et al, 2011;Teng et al, 2023). Teng et al (2023) identified 23 differentially expressed miRNAs which were highly associated with Cd tolerance in maize. The target genes of these miRNAs were mainly involved in GSH metabolism, antioxidant enzyme activity and metal transport.…”

Section: Introductionmentioning

confidence: 99%

Mechanistic basis for mitigating drought tolerance by selenium application in tobacco (Nicotiana tabacum L.): a multi-omics approach

Dai,

Yang,

Teng

et al. 2023

Front. Plant Sci.

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The lack of irrigation water in agricultural soils poses a significant constraint on global crop production. In-depth investigation into microRNAs (miRNAs) has been widely used to achieve a comprehensive understanding of plant defense mechanisms. However, there is limited knowledge on the association of miRNAs with drought tolerance in cigar tobacco. In this study, a hydroponic experiment was carried out to identify changes in plant physiological characteristics, miRNA expression and metabolite profile under drought stress, and examine the mitigating effects of selenium (Se) application. The shoot dry weight of drought-stressed plants was approximately half (50.3%) of that in non-stressed (control) conditions. However, plants supplied with Se attained 38.8% greater shoot dry weight as compared to plants with no Se supply under drought stress. Thirteen miRNAs were identified to be associated with drought tolerance. These included 7 known (such as nta-miR156b and nta-miR166a) and 6 novel miRNAs (such as novel-nta-miR156-5p and novel-nta-miR209-5p) with the target genes of squamosa promoter-binding-like protein 4 (SPL4), serine/threonine protein phosphatase 2A (PPP2A), cation/calcium exchanger 4-like (CCX4), extensin-1-like (EXT1) and reduced wall acetylation 2 (RWA2). Further investigation revealed that the expression levels of Ext1 and RWA2 were significantly decreased under drought stress but increased with Se addition. Moreover, key metabolites such as catechin and N-acetylneuraminic acid were identified, which may play a role in the regulation of drought tolerance. The integrated analysis of miRNA sequencing and metabolome highlighted the significance of the novel-nta-miR97-5p- LRR-RLK- catechin pathway in regulating drought tolerance. Our findings provide valuable insights into the molecular mechanisms underlying drought tolerance and Se-induced stress alleviation in cigar tobacco.

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miRNA transcriptome reveals key miRNAs and their targets contributing to the difference in Cd tolerance of two contrasting maize genotypes

Cited by 7 publications

References 57 publications

Genome-Wide Association Study Identifies Quantitative Trait Loci and Candidate Genes Involved in Deep-Sowing Tolerance in Maize (Zea mays L.)

Genome-Wide Association Study Identifies Quantitative Trait Loci and Candidate Genes Involved in Deep-Sowing Tolerance in Maize (Zea mays L.)

Integration analysis of miRNA-mRNA pairs between two contrasting genotypes reveals the molecular mechanism of jujube (Ziziphus jujuba Mill.) response to high-temperature stress

Mechanistic basis for mitigating drought tolerance by selenium application in tobacco (Nicotiana tabacum L.): a multi-omics approach

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