The miR408a-BBP-LAC3/CSD1 module regulates anthocyanin biosynthesis mediated by crosstalk between copper homeostasis and ROS homeostasis during light induction in Malus plants

Hu, Yujing; Ji, Jiayi; Cheng, Hao; Luo, Rongli; Li, Wenjing; Wang, Xingsui; Zhang, Jie; Yao, Yuncong

doi:10.1016/j.jare.2022.11.005

Cited by 12 publications

(9 citation statements)

References 77 publications

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“…taxonomy reference proteome (195,302 entries , UniProtKB-FASTA). In silico hydrolysis was executed using an ExPASy PeptideCutter . Simultaneously, the downloaded O.…”

Section: Methodsmentioning

confidence: 99%

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Se-Pair Search for Deciphering Selenium-Encoded Peptide and a Pyrolysis-Thermolysis Dietary Model for Minimizing Loss of “KKSe(M)R” during Processing

Wang,

Jia

2024

J. Agric. Food Chem.

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Dietary deficiency of selenium is a global health hazard. Supplementation of organic selenopeptides via food crops is a relatively safe approach. Selenopeptides with heterogeneous selenium-encoded isotopes or a poorly fragmented peptide backbone remain unidentified in site-specific selenoproteomic analysis. Herein, we developed the Se-Pair Search, a UniProtKB-FASTA-independent peptide-matching strategy, exploiting the fragmentation patterns of shared peptide backbones in selenopeptides to optimize spectral interpretation, along with developing new selenosite assignment schemes (steps 1–3) to standardize selenium-localization data reporting for the selenoproteome community and thereby facilitating the discovery of unexpected selenopeptides. Using selenium-biofortified rice under cooking, fermentation, and high-temperature and high-pressure processing conditions as a pyrolysis-thermolysis dietary model, we probed the single-molecule-level kinetic evolution of the novel selenopeptide “KKSe(M)R” with qual-quantitative information on graph-theory-oriented localization calculations, abundance patterns, activation energy, and rate constants at a selenoproteome-wide scale. We ground-truth-annotated thirteen pyrolysis-thermolysis products and inferred four pyrolysis-thermolysis pathways to characterize the formation reactivity of the main intermediate variables of KKSe(M)R and constructed an advanced probe-type ultrasound technique prior to pyrolysis-thermolysis conditions for minimizing loss of KKSe(M)R during processing. Importantly, we reveal the unappreciated pyro-excitation diversion of KKSe(M)R at pyrolysis-thermolysis time and temperature matrices. These findings provide pioneering theoretical guidance for controlling dietary selenium supplementation within the safety thresholds.

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“…taxonomy reference proteome (195,302 entries , UniProtKB-FASTA). In silico hydrolysis was executed using an ExPASy PeptideCutter . Simultaneously, the downloaded O.…”

Section: Methodsmentioning

confidence: 99%

“…In silico hydrolysis was executed using an ExPASy PeptideCutter. 28 Simultaneously, the downloaded O. sativa L. protein sequences were inputted into the online server, and the enzymes required for protein hydrolysis were chosen.…”

Section: ■ Introductionmentioning

confidence: 99%

Se-Pair Search for Deciphering Selenium-Encoded Peptide and a Pyrolysis-Thermolysis Dietary Model for Minimizing Loss of “KKSe(M)R” during Processing

Wang,

Jia

2024

J. Agric. Food Chem.

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“…domestica ‘Fuji’ fruit or M . spectabilis leaves were described previously (Hu et al ., 2022; Meng et al ., 2022).…”

Section: Methodsmentioning

confidence: 99%

“…AF406991.1) to suppress MsMYB62-like gene expression. The procedures used for overexpression and suppression of miR858 and MsMYB62-like by agroinfiltration in M. domestica 'Fuji' fruit or M. spectabilis leaves were described previously (Hu et al, 2022;Meng et al, 2022).…”

Section: Agroinfiltration Of Malus Domestica 'Fuji' Fruit and M Spect...mentioning

confidence: 99%

The eTM–miR858–MYB62‐like module regulates anthocyanin biosynthesis under low‐nitrogen conditions in Malus spectabilis

et al. 2023

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The anthocyanin content increases in Malus spectabilis leaves under low-nitrogen conditions. Noncoding RNAs are indicated to play key regulatory roles in anthocyanin biosynthesis. However, the functional roles of noncoding RNAs in anthocyanin biosynthesis under lownitrogen conditions remain elusive.In this study, miR858 was screened as a key regulator of anthocyanin biosynthesis under low-nitrogen conditions through whole-transcriptome sequencing. Then, we used miR858 as an entry point to explore the regulatory network of lncRNA-miRNA-mRNA by dual-luciferase reporter assays and GUS histochemical staining assays, as well as to identify the mechanism of this regulatory network in anthocyanin biosynthesis by both transient and stable transformation experiments in Malus.MiR858 overexpression increased total anthocyanin content. MiR858 acted by negatively regulating its target gene, MsMYB62-like, under the low-nitrogen condition. MsMYB62-like inhibited the expression of MsF3 0 H, thereby negatively regulating anthocyanin biosynthesis. In addition, eTM858-1 and eTM858-2 were identified as endogenous target mimics of miR858 that bind to miR858 to prevent cleavage of MsMYB62-like and thereby negatively regulate anthocyanin biosynthesis.The results clarify the mechanism through which the eTM-miR858-MYB62-like module regulates anthocyanin biosynthesis in Malus under low-nitrogen conditions.

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“…It has been shown that miR408 is important for regulating the growth and development of plant leaves, owers, seeds, and roots (Gao, et al 2022;Guo, et al 2023). miR408 targeting of BBP indirectly interacts with copper-binding proteins LAC3 (Laccase) and CSD1, Laccase is the last enzyme of the lignin biosynthesis pathway and is important for the process by which lignin monomers are polymerized into macromolecular heteropolymers (Hu, et al 2023). The miR408 might therefore participate in regulating ROS homeostasis and lignin metabolism Therefore, in supporting our previous work on the ABA priming effect on metabolites (Khoshniat, et al 2023), the reduction in miR408 expression after ABA spray likely boosts antioxidant activity and lignin synthesis (Fig.…”

Section: Aba-responsive Mirnas At First-time Pointmentioning

confidence: 99%

ABA-responsive small RNAs contribute to drought stress memory by regulating antioxidant activity and lignification

Khoshniat,

Rafudeen,

Seifi

2023

Preprint

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Previously we showed that a single exogenous application of Abscisic acid (ABA) on Arabidopsis in early developmental stages results in enhanced plant biomass and drought tolerance in the adult plants. Here we tested the hypothesis that small RNAs (sRNAs), including micro RNAs (miRNAs) and small interfering RNAs (siRNAs), contribute to the observed ABA effects. We sequenced sRNA populations in Arabidopsis plants that were sprayed with ABA or water at the cotyledonary stage at two time-points, 4 hours and 14 days after spraying. Analyses of the sRNAs revealed that at 4 hours, four miRNA families, miR408, miR398, miR397, and miR393, were significantly down-regulated by the ABA application. These miRNAs are all copper-induced miRNAs, which are known to be involved in the regulation of antioxidant enzymes and lignification metabolic pathways. After 14 days, miR395 and miR169 families were up-regulated, while miR399 and miR827 families were down-regulated in ABA-treated plants. These miRNAs are mostly characterized as regulators of macronutrient uptake. We identified 77 and 30 differentially expressed siRNA loci in the first and second time-points respectively. Interestingly, a majority of these ABA-responsive siRNAs were found to be mainly associated with the non-coding regions of the genome, as well as with genes related to photosynthesis, particularly those encoding light-harvesting complex proteins. In summary, our data suggest that ABA-responsive miRNAs contribute to the positive effects of ABA by increasing plant antioxidant capacity and lignification in the short-term while increasing nutrient uptake in the long term.

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The miR408a-BBP-LAC3/CSD1 module regulates anthocyanin biosynthesis mediated by crosstalk between copper homeostasis and ROS homeostasis during light induction in Malus plants

Cited by 12 publications

References 77 publications

Se-Pair Search for Deciphering Selenium-Encoded Peptide and a Pyrolysis-Thermolysis Dietary Model for Minimizing Loss of “KKSe(M)R” during Processing

Se-Pair Search for Deciphering Selenium-Encoded Peptide and a Pyrolysis-Thermolysis Dietary Model for Minimizing Loss of “KKSe(M)R” during Processing

The eTM–miR858–MYB62‐like module regulates anthocyanin biosynthesis under low‐nitrogen conditions in Malus spectabilis

ABA-responsive small RNAs contribute to drought stress memory by regulating antioxidant activity and lignification

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