Transcriptome analysis in Hevea brasiliensis latex revealed changes in hormone signalling pathways during ethephon stimulation and consequent Tapping Panel Dryness

Montoro, Pascal; Wu, Shizhou; Favreau, Bénédicte; Herlinawati, Eva; Labrune, Cécile; Martin‐Magniette, Marie‐Laure; Pointet, Stéphanie; Rio, Maryannick; Leclercq, Julie; Ismawanto, Sigit; Kuswanhadi,

doi:10.1038/s41598-018-26854-y

Cited by 35 publications

(31 citation statements)

References 41 publications

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“…Differential expression analysis of RNAseq data in latex from mature trees were performed by Montoro et al (2018). Pairwise comparisons were performed between untreated and ethephon-treated healthy trees (WH vs EH) and between healthy and TPD ethephon-treated trees (EH vs ET).…”

Section: Plant Materials and Rna Samplesmentioning

confidence: 99%

“…The transcripts of the putative Hevea DCL1 and AGO1 orthologues (mRNA00000029 and mRNA00000323, respectively; Fig. 10) were identified, and their expression response in response to ethephon stimulation and TPD occurrence was analysed (Montoro et al, 2018) (Table S22). DCL1 expression was significantly downregulated as a result of ethephon treatment (1,591 vs. 659 reads), but not according to TPD.…”

Section: Identification and Regulation Of Genes Involved In Microrna mentioning

confidence: 99%

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Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis

Leclercq

Farinas

et al. 2020

PeerJ

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Background Small RNAs modulate plant gene expression at both the transcriptional and post-transcriptional level, mostly through the induction of either targeted DNA methylation or transcript cleavage, respectively. Small RNA networks are involved in specific plant developmental processes, in signaling pathways triggered by various abiotic stresses and in interactions between the plant and viral and non-viral pathogens. They are also involved in silencing maintenance of transposable elements and endogenous viral elements. Alteration in small RNA production in response to various environmental stresses can affect all the above-mentioned processes. In rubber trees, changes observed in small RNA populations in response to trees affected by tapping panel dryness, in comparison to healthy ones, suggest a shift from a transcriptional to a post-transcriptional regulatory pathway. This is the first attempt to characterise small RNAs involved in post-transcriptional silencing and their target transcripts in Hevea. Methods Genes producing microRNAs (MIR genes) and loci producing trans-activated small interfering RNA (ta-siRNA) were identified in the clone PB 260 re-sequenced genome. Degradome libraries were constructed with a pool of total RNA from six different Hevea tissues in stressed and non-stressed plants. The analysis of cleaved RNA data, associated with genomics and transcriptomics data, led to the identification of transcripts that are affected by 20–22 nt small RNA-mediated post-transcriptional regulation. A detailed analysis was carried out on gene families related to latex production and in response to growth regulators. Results Compared to other tissues, latex cells had a higher proportion of transcript cleavage activity mediated by miRNAs and ta-siRNAs. Post-transcriptional regulation was also observed at each step of the natural rubber biosynthesis pathway. Among the genes involved in the miRNA biogenesis pathway, our analyses showed that all of them are expressed in latex. Using phylogenetic analyses, we show that both the Argonaute and Dicer-like gene families recently underwent expansion. Overall, our study underlines the fact that important biological pathways, including hormonal signalling and rubber biosynthesis, are subject to post-transcriptional silencing in laticifers.

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Section: Plant Materials and Rna Samplesmentioning

confidence: 99%

Section: Identification and Regulation Of Genes Involved In Microrna mentioning

confidence: 99%

Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis

Leclercq

Farinas

et al. 2020

PeerJ

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“…Compared with healthy tree latex, the genes associated with defense response were largely upregulated in the TPD-affected tree. Montoro et al (2018) reported that analysis of differentially expressed genes were lower total of genes in TPD-affected tree than under exploitation tree. Jasmonic acid synthesis was importance pathway related TPD tolerance.…”

Section: Resultsmentioning

confidence: 99%

Physiological status of high and low metabolism Hevea clones in the difference stage of tapping panel dryness

et al. 2018

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Tistama R, Mawaddah PAS, Ade-Fipriani L, Junaidi. 2019. Physiological status of high and low metabolism Hevea clones in the difference stage of tapping panel dryness. Biodiversitas 20: 267-273. Tapping panel dryness (TPD) caused productivity of rubber trees drop sharply. However, the increase of TPD stage has not been completely elucidated, especially in physiological aspects. TPD incident was higher occurred in high metabolism than low metabolism clones. The incident has been classified based on visual observation. This research aimed to explore the physiological characters to identifying the physiological changes of each TPD stage in the two metabolism types of rubber clones, IRR 42 (low metabolism) and IRR 118 (high metabolism). The physiological parameters such as thiol, Pi content and peroxidase activity were specifically in each clone and the tissue types (bark or laticifer). The physiological pattern of IRR 42 was a difference with that of IRR 118 for the increase of the TPD stages. Phosphate inorganic content in the latex and bark were a decline in the TPD affected trees, whereas the sucrose content was relatively constant. The pattern of changes of thiol content in IRR 42 was reverse with IRR 118, both in the latex or bark tissue. Peroxidases activity in the latex and bark negatively correlated with the TPD stage. The decline of Pi and peroxidase activity can be used to identify the TPD incident in rubber trees.

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“…Complete tissue-specific (embryo, flower, latex, leaf, bark, root) transcriptomes were generated by (Duan et al 2013a;Piyatrakul et al 2012). Differential expression analysis of RNAseq data in latex from mature trees were performed by (Montoro et al 2018). Pairwise comparisons were performed between untreated and ethephontreated healthy trees (WH vs EH) and between healthy and TPD ethephon-treated trees (EH vs ET).…”

Section: Plant Materials and Rna Samplesmentioning

confidence: 99%

“…The transcripts of the putative Hevea DCL1 and AGO1 orthologues (mRNA00000029 and mRNA00000323, respectively; Fig. 10) were identified, and their expression response in response to ethephon stimulation and TPD occurrence was analysed (Montoro et al 2018 Table S22). DCL1 expression was significantly downregulated as a result of ethephon treatment PeerJ reviewing PDF | (2019:10:42450:1:1:NEW 27 Feb 2020)…”

Section: Identification and Regulation Of Genes Involved In Microrna mentioning

confidence: 99%

Peer Review #1 of "Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis (v0.1)"

2020

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Background. Small RNAs modulate plant genome expression at both the transcriptional and post-transcriptional level, mostly through the induction of either targeted DNA methylation or transcript cleavage, respectively. Small RNA networks are involved in specific plant developmental processes, in signaling pathways triggered by various abiotic stresses and in interactions between the plant and viral and non-viral pathogens. They are also involved in silencing maintenance of transposable elements and endogenous viral elements. Alteration in small RNA production in response to various environmental stresses can affect all the above-mentioned processes. In rubber trees, changes observed in small RNA populations in response to trees affected by tapping panel dryness, in comparison to healthy ones, suggest a shift from a transcriptional to a post-transcriptional regulatory pathway. This is the first attempt to characterise small RNAs involved in posttranscriptional silencing and their target transcripts in Hevea. Methods. Genes producing microRNAs (MIR genes) and loci producing trans-activated small interfering RNA (ta-siRNA) were identified in the clone PB 260 re-sequenced genome. Degradome libraries were constructed with a pool of total RNA from six different Hevea tissues in stressed and nonstressed plants. The analysis of cleaved RNA data, associated with genomics and transcriptomics data, led to the identification of transcripts that are affected by 20-22 nt small RNA-mediated post-transcriptional regulation. A detailed analysis was carried out on gene families related to latex production and in response to growth regulators. Results. Compared to other tissues, latex cells had a higher proportion of transcript cleavage activity mediated by miRNAs and ta-siRNAs. Post-transcriptional regulation was also

show abstract

Transcriptome analysis in Hevea brasiliensis latex revealed changes in hormone signalling pathways during ethephon stimulation and consequent Tapping Panel Dryness

Cited by 35 publications

References 41 publications

Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis

Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis

Physiological status of high and low metabolism Hevea clones in the difference stage of tapping panel dryness

Peer Review #1 of "Post-transcriptional regulation of several biological processes involved in latex production in Hevea brasiliensis (v0.1)"

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