Tissue specific long non-coding RNAs are involved in aroma formation of black tea

Varshney, Deepti; Rawal, Hukam C.; Dubey, Himanshu; Bandyopadhyay, Tanoy; Bera, Biswajit; Kumar, Praveen; Singh, Nagendra; Mondal, Tapan Kumar

doi:10.1016/j.indcrop.2019.03.020

Cited by 29 publications

(20 citation statements)

References 58 publications

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“…Consistent with this, we observed that the transcript levels of CHI and EGCG content were both present at a lower level in SW than in IW. Besides, studies have found that some lncRNAs have the regulatory effects on the transcript level of CHI gene [71]. Also, we found that the LTCONS_00060939 and CHI were both present at lower expression level in SW than in IW.…”

Section: Discussionsupporting

confidence: 49%

Transcriptome and phytochemical analyses provide new insights into long non-coding RNAs and characteristic secondary metabolites of oolong tea (Camellia sinensis) in solar-withering

Zhu

Zhang

et al. 2019

Preprint

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Background Oolong tea, a semi-fermented tea, was deeply loved by consumers. Among tea processing, withering is the first indispensable process for improving the unique flavor. However, the roles of long non-coding RNAs (lncRNAs) and characteristic secondary metabolites in withering of oolong tea remain unknown. Results Using phytochemical analyses, the total flavonoid, total catechins, EGC, CG, GCG, ECG, and EGCG were all present at significantly lower levels in solar-withered leaves (SW) than in fresh leaves (FL) and indoor-withered leaves (IW). However, terpenoid, JA, and MeJA were present at a higher level in SW than FL and IW. By analyzing the transcriptome data, we obtained a total of 32,036 lncRNAs. On the basis of Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, flavonoid metabolic pathway, terpenoid metabolic pathway, and JA/MeJA biosynthesis and signal transduction pathway were the representative pathways in this study. And a total of 63 differentially expressed-lncRNAs (DE-lncRNAs) and 23 target genes were identified in the 3 pathways. Analysis of the expression profiles of DE-lncRNAs and their target genes in SW compared with IW, we found that 4 up-regulated genes (FLS, CCR, CAD, and HCT), 7 up-regulated lncRNAs, 4 down-regulated genes (4CL, CHI, F3H, and F3'H), and 3 down-regulated lncRNAs in flavonoid metabolism; 9 up-regulated genes (DXS, CMK, HDS, HDR, AACT, MVK, PMK, GGPPS, and TPS), 3 up-regulated lncRNAs, 6 down-regulated lncRNAs in terpenoid metabolism; 6 up-regulated genes (LOX, AOS, AOC, OPR, ACX, and MFP2), 4 up-regulated lncRNAs, and 3 down-regulated lncRNAs in JA/MeJA biosynthesis and signal transduction pathway. Conclusions These results suggested that the expression of DE-lncRNAs and their targets involved in the 3 pathways maybe related to the low content of total flavonoid, total catechins, EGC, CG, GCG, ECG, and EGCG, and high content of terpenoid in SW. Moreover, solar light, high content of JA and MeJA, and the endogenous target mimics (eTMs) regulatory mechanism in SW were also crucial factors in increasing the terpenoid. These findings provide new insights into the view of "Kàn qīng shài qīng" that the solar-withering is more contribute to the high quality flavor of oolong tea compared to the indoor-withering.

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Section: Discussionsupporting

confidence: 49%

Transcriptome and phytochemical analyses provide new insights into long non-coding RNAs and characteristic secondary metabolites of oolong tea (Camellia sinensis) in solar-withering

Zhu

Zhang

et al. 2019

Preprint

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“…Consistent with these findings, we observed that the CHI transcript level and the EGCG content were lower in the SW than in the IW. An earlier investigation indicated that some lncRNAs help regulate the transcription of CHI (Varshney et al, 2019). We determined that the LTCONS_00060939 and CHI expression levels were lower in the SW than in the IW, implying that a high LTCONS_00060939 expression level is important for inhibiting CHI expression.…”

Section: Discussion the Expression Levels Of The Identified Differentmentioning

confidence: 76%

“…However, the molecular mechanisms underlying the differences in the total polyphenol, total flavonoid, and catechin contents in the SW and IW remain unclear. Moreover, previous studies concluded that lncRNAs play important regulatory roles at the transcript level (Liu et al, 2018b;Lin et al, 2019;Varshney et al, 2019). However, there has been relatively little research on the lncRNAs in tea plants, with no published reports regarding the regulatory mechanisms of lncRNAs related to the processing of tea leaves.…”

Section: Discussion the Expression Levels Of The Identified Differentmentioning

confidence: 99%

Transcriptome and Phytochemical Analyses Provide New Insights Into Long Non-Coding RNAs Modulating Characteristic Secondary Metabolites of Oolong Tea (Camellia sinensis) in Solar-Withering

Zhu

Zhang

et al. 2019

Front. Plant Sci.

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Oolong tea is a popular and semi-fermented beverage. During the processing of tea leaves, withering is the first indispensable process for improving flavor. However, the roles of long non-coding RNAs (lncRNAs) and the characteristic secondary metabolites during the withering of oolong tea leaves remain unknown. In this study, phytochemical analyses indicated that total polyphenols, flavonoids, catechins, epigallocatechin (EGC), catechin gallate (CG), gallocatechin gallate (GCG), epicatechin gallate (ECG), and epigallocatechin gallate (EGCG) were all less abundant in the solar-withered leaves (SW) than in the fresh leaves (FL) and indoor-withered leaves (IW). In contrast, terpenoid, jasmonic acid (JA), and methyl jasmonate (MeJA) contents were higher in the SW than in the FL and IW. By analyzing the transcriptome data, we detected 32,036 lncRNAs. On the basis of the Kyoto Encyclopedia of Genes and Genomes analysis, the flavonoid metabolic pathway, the terpenoid metabolic pathway, and the JA/MeJA biosynthesis and signal transduction pathway were enriched pathways. Additionally, 63 differentially expressed lncRNAs (DE-lncRNAs) and 23 target genes were identified related to the three pathways. A comparison of the expression profiles of the DE-lncRNAs and their target genes between the SW and IW revealed four up-regulated genes (FLS, CCR, CAD, and HCT), seven up-regulated lncRNAs, four down-regulated genes (4CL, CHI, F3H, and F3'H), and three downregulated lncRNAs related to flavonoid metabolism; nine up-regulated genes (DXS, CMK, HDS, HDR, AACT, MVK, PMK, GGPPS, and TPS), three up-regulated lncRNAs, and six down-regulated lncRNAs related to terpenoid metabolism; as well as six upregulated genes (LOX, AOS, AOC, OPR, ACX, and MFP2), four up-regulated lncRNAs, and three down-regulated lncRNAs related to JA/MeJA biosynthesis and signal transduction. These results suggested that the expression of DE-lncRNAs and their targets involved in the three pathways may be related to the low abundance of the total polyphenols, flavonoids, and catechins (EGC, CG, GCG, ECG, and EGCG) and the

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“…However, in many non-model plants, studies on lncRNAs are rather limited. Recently, Varshney et al (2019) discovered 33,400 putative lncRNAs in different tissues of tea plants, which was the first report of lncRNAs in tea plants.…”

Section: Introductionmentioning

confidence: 99%

Integrated Analysis of Long Non-coding RNAs (lncRNAs) and mRNAs Reveals the Regulatory Role of lncRNAs Associated With Salt Resistance in Camellia sinensis

et al. 2020

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Tea plant (Camellia sinensis), an important economic crop, is seriously affected by various abiotic stresses, including salt stress, which severely diminishes its widespread planting. However, little is known about the roles of long non-coding RNAs (lncRNAs) in transcriptional regulation under salt stress. In this study, high-throughput sequencing of tea shoots under salt-stress and control conditions was performed. Through sequencing analysis, 16,452 unique lncRNAs were identified, including 172 differentially expressed lncRNAs (DE-lncRNAs). The results of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of their cis-and trans-target genes showed that these DE-lncRNAs play important roles in many pathways such as the galactinol synthase (GOLS), calcium signaling pathway, and interact with transcription factors (TFs) under salt stress. The data from the gene-specific antisense oligodeoxynucleotide-mediated reduction in the lncRNA MSTRG.139242.1 and its predicted interacting gene, TEA027212.1 (Ca 2+-ATPase 13), in tea leaves revealed that MSTRG.139242.1 may function in the response of tea plants to high salinity. In addition, 12 lncRNAs were predicted to be target mimics of 17 known mature miRNAs, such as miR156, that are related to the salt-stress response in C. sinensis. Our results provide new insights into lncRNAs as ubiquitous regulators in response to salt stress in tea plants.

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Tissue specific long non-coding RNAs are involved in aroma formation of black tea

Cited by 29 publications

References 58 publications

Transcriptome and phytochemical analyses provide new insights into long non-coding RNAs and characteristic secondary metabolites of oolong tea (Camellia sinensis) in solar-withering

Transcriptome and phytochemical analyses provide new insights into long non-coding RNAs and characteristic secondary metabolites of oolong tea (Camellia sinensis) in solar-withering

Transcriptome and Phytochemical Analyses Provide New Insights Into Long Non-Coding RNAs Modulating Characteristic Secondary Metabolites of Oolong Tea (Camellia sinensis) in Solar-Withering

Integrated Analysis of Long Non-coding RNAs (lncRNAs) and mRNAs Reveals the Regulatory Role of lncRNAs Associated With Salt Resistance in Camellia sinensis

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