4.7 Article

5mC DNA methylation modification-mediated regulation in tissue functional differentiation and important flavor substance synthesis of tea plant (Camellia sinensis L.)

Related references

Note: Only part of the references are listed.
Review Biotechnology & Applied Microbiology

Theanine metabolism and transport in tea plants (Camellia sinensis L.): advances and perspectives

Shijia Lin et al.

Summary: Theanine, the most abundant amino acid in tea leaves, contributes to the taste, relaxation-promoting effects, and health benefits of tea. Recent advances have been made in understanding its metabolism, transport, and regulation in tea plants. This knowledge can be applied to improve the quality of non-tea crops by synthesizing theanine.

CRITICAL REVIEWS IN BIOTECHNOLOGY (2023)

Article Genetics & Heredity

RNA Methylome Reveals the m6A-mediated Regulation of Flavor Metabolites in Tea Leaves under Solar-withering

Chen Zhu et al.

GENOMICS PROTEOMICS & BIOINFORMATICS (2023)

Review Plant Sciences

Coordinated Epigenetic Regulation in Plants: A Potent Managerial Tool to Conquer Biotic Stress

Chien-Yu Huang et al.

Summary: Plants have evolved phenotypic plasticity to combat pathogens and pests through epigenetic regulation. This regulation involves changes in DNA methylation, histone modification, and chromatin structures, which may be inherited by future generations. Understanding the mechanisms of epigenetic regulation is important for developing effective and eco-friendly strategies for crop protection.

FRONTIERS IN PLANT SCIENCE (2022)

Article Plant Sciences

Architecture and Dynamics of the Wounding-Induced Gene Regulatory Network During the Oolong Tea Manufacturing Process (Camellia sinensis)

Yucheng Zheng et al.

Summary: Understanding the extensive transcriptional reprogramming events induced by wounding during oolong tea manufacturing process is crucial for improving tea quality. In this study, the high-resolution transcriptomic and metabolomic data of wounding-treated tea leaves were systematically analyzed at 11 time points. The results revealed that wounding rapidly activates transcriptional activity within 10 minutes and the temporal expression patterns can be classified into 18 clusters with distinct biological processes. Transcription factor activity linked to TF binding motif plays a role in specific biological processes within different clusters. Moreover, the study highlights the scientific significance of allowing for resting period after wounding treatment during the actual manufacturing process of oolong tea.

FRONTIERS IN PLANT SCIENCE (2022)

Article Plant Sciences

Transcription factor CsWRKY40 regulates L-theanine hydrolysis by activating the CsPDX2.1 promoter in tea leaves during withering

Haiyan Cheng et al.

Summary: This study identified key genes and transcription factors involved in L-theanine metabolism in tea leaves through transcriptome analysis. CsWRKY40 was found to activate the CsPDX2.1 promoter and promote L-theanine synthesis. Furthermore, water loss from tea leaves was found to be a critical factor affecting the content of ABA and L-theanine.

HORTICULTURE RESEARCH (2022)

Article Agronomy

Combination of quantitative trait locus (QTL) mapping and transcriptome analysis reveals submerged germination QTLs and candidate genes controlling coleoptile length in rice

Weilong Kong et al.

Summary: Through indica and japonica hybridization strategies, several superior homozygous rice varieties with high submergence resistance were successfully bred. Two QTLs responsible for coleoptile length were detected, providing new genetic resources for developing rice varieties suitable for direct seeding via molecular breeding strategies.

FOOD AND ENERGY SECURITY (2022)

Article Agriculture, Multidisciplinary

Changes in Non-Volatile and Volatile Metabolites Associated with Heterosis in Tea Plants (Camellia sinensis)

Pengjie Wang et al.

Summary: This study identified non-volatile and volatile metabolites in Camellia sinensis hybrids and their parents, and found that non-additive nucleotides, alkaloids, organic acids, and tannins contribute to positive heterosis in hybrids, while catechins and free amino acids show negative heterosis. Additionally, non-additive terpenes and other volatiles contribute to the aroma of tea plant hybrids. These non-additive metabolites play an important role in the formation of desirable breeding traits for hybrids.

JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2022)

Article Biochemical Research Methods

A pan-tissue DNA methylation atlas enables in silico decomposition of human tissue methylomes at cell-type resolution

Tianyu Zhu et al.

Summary: Bulk-tissue DNA methylomes represent an average over many different cell types, limiting our understanding of cell-type-specific contributions to disease development. This study leverages high-resolution tissue-specific single-cell RNA-sequencing datasets to construct a DNA methylation atlas for 13 solid tissue types and 40 cell types. The atlas accurately predicts the cell of origin for various cancer types and discovers new prognostic associations in olfactory neuroblastoma and stage 2 melanoma.

NATURE METHODS (2022)

Article Plant Sciences

CsMYB1 integrates the regulation of trichome development and catechins biosynthesis in tea plant domestication

Penghui Li et al.

Summary: This study reveals that the CsMYB1 gene is responsible for regulating trichome formation and galloylated cis-catechins biosynthesis in tea plants. The variations in CsMYB1 expression levels are closely associated with trichome indexes and galloylated cis-catechins contents. Furthermore, CsMYB1 interacts with CsGL3 and CsWD40 to form a transcriptional complex that activates the genes involved in trichome regulation and galloylated cis-catechins biosynthesis.

NEW PHYTOLOGIST (2022)

Article Food Science & Technology

Volatile metabolomics and coexpression network analyses provide insight into the formation of the characteristic cultivar aroma of oolong tea (Camellia sinensis)

Yucheng Zheng et al.

Summary: This study analyzed the aromatic differences and underlying mechanisms between two tea cultivars, Tieguanyin and Jinguanyin, through volatile metabolomics analysis, electronic nose analysis, sensory evaluation, and RNA sequencing. The results showed significant differences in odor characteristics between the two cultivars, with one having a sweet floral and fruity aroma, and the other having a green floral aroma. Linalool and geraniol were identified as potential contributors to the characteristic aroma. The study also suggested that the Tanqing treatment could enhance and intensify the characteristic cultivar aroma. Additionally, a linalool synthase with catalytic activity was identified through coexpression network analysis.

LWT-FOOD SCIENCE AND TECHNOLOGY (2022)

Article Food Science & Technology

The Impact of Different Withering Approaches on the Metabolism of Flavor Compounds in Oolong Tea Leaves

Yahui Wang et al.

Summary: This study conducted complementary metabolomic and proteomic analyses on solar- and indoor-withered oolong tea leaves to elucidate the mechanisms underlying the formation of flavor determinants during the early stage of oolong tea processing. The analysis identified a total of 978 non-volatile compounds and 152 volatile compounds, with differential accumulation of flavonoids and esters in different tea samples. Pathway enrichment analysis revealed that phenylpropanoid and flavonoid metabolisms, as well as protein processing in the endoplasmic reticulum, were the major pathways distinguishing the tea samples. The joint protein-metabolite analysis showed dynamic and distinct changes in the biochemical network induced by multiple stresses during the withering step, leading to decreases in flavonoids and amino acids. Furthermore, fruity and floral aromas, especially volatile terpenoids and phenylpropanoids/benzenoids, were retained or accumulated in the solar withered leaves, potentially contributing to the characteristic flavor of oolong tea made by indoor withered leaves.

FOODS (2022)

Article Biotechnology & Applied Microbiology

Single-cell transcriptome atlas reveals developmental trajectories and a novel metabolic pathway of catechin esters in tea leaves

Qiang Wang et al.

Summary: The tea plant is an economically important woody beverage crop. This study established a fast protoplast isolation method and investigated the transcriptional profiles of 16,977 single cells from 1st and 3rd leaves. By identifying marker genes, constructing a transcriptome atlas, and mapping developmental trajectories, the study revealed the distribution of different cell types during leaf differentiation and genes associated with cell fate transformation. A novel metabolism pathway of catechin esters in plants was also discovered through gene co-expression network analysis.

PLANT BIOTECHNOLOGY JOURNAL (2022)

Article Food Science & Technology

Untargeted Metabolomics and Transcriptomics Reveal the Mechanism of Metabolite Differences in Spring Tender Shoots of Tea Plants of Different Ages

Cuinan Yue et al.

Summary: The age of tea plants has a significant impact on the metabolites in their tender shoots, especially flavonoids and amino acids and their derivatives. Flavonoid contents were upregulated in aged tea plants of different genotypes, while the influence of plant age on amino acids and derivatives may be cultivar-specific.

FOODS (2022)

Article Chemistry, Applied

The stress-induced metabolites changes in the flavor formation of oolong tea during enzymatic-catalyzed process: A case study of Zhangping Shuixian tea

Liangyu Wu et al.

Summary: This study investigates the dynamic changes of constituents in oolong tea leaves during enzymatic-catalyzed processes. The analysis reveals that phenylpropanoid biosynthesis, flavonoid biosynthesis, and phenylalanine metabolism are closely related to the dynamic changes of key metabolites. A biological pathway network is constructed to elucidate the enzymatic-catalyzed production of critical flavoring compounds.

FOOD CHEMISTRY (2022)

Article Plant Sciences

Pan-transcriptome assembly combined with multiple association analysis provides new insights into the regulatory network of specialized metabolites in the tea plant Camellia sinensis

Weilong Kong et al.

Summary: This study constructed a pan-transcriptome of tea plant leaves to investigate global gene expression differences and regulatory genes for specialized metabolites, revealing clear differentiation between CSA and CSS at the population level and identifying many candidate genes and a regulatory network for specialized metabolites in tea plants.

HORTICULTURE RESEARCH (2022)

Article Biotechnology & Applied Microbiology

Genome-wide SNP discovery from Darjeeling tea cultivars-their functional impacts and application toward population structure and trait associations

Anjan Hazra et al.

Summary: Genotyping and identification of functionally relevant nucleotide variations in crop accessions are crucial for understanding the genetic control of desirable traits. In this study, high-quality SNP markers were discovered from Darjeeling tea elite cultivars using double-digest restriction-site associated DNA sequencing method, providing insights into the genetic relatedness among the accessions. The discovered SNPs and their impact on annotated genes offered a comprehensive understanding of their functional aspects in the tea system biology. Additionally, genome-wide association analyses of agronomic and biochemical traits revealed trait-linked polymorphic loci with high confidence levels.

GENOMICS (2021)

Article Agriculture, Multidisciplinary

Epigenetic Regulation of the Phytohormone Abscisic Acid Accumulation under Dehydration Stress during Postharvest Processing of Tea (Camellia sinensis)

Dachuan Gu et al.

Summary: This study discovered that dehydration stress during postharvest processing of tea increases the expression of ABA biosynthesis genes, leading to enhanced ABA accumulation. The results suggest that epigenetic modifications play a crucial role in ABA synthesis during tea postharvest processing.

JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2021)

Article Biochemistry & Molecular Biology

Transcription factor CsDOF regulates glutamine metabolism in tea plants (Camellia sinensis)

Jinhe Wang et al.

Summary: The study characterized a zinc finger protein CsDOF and a glutamine synthetase-encoding gene CsGS2 in tea plants, showing their crucial roles in glutamine biosynthesis and their regulation by shade. Suppressing CsDOF or CsGS2 expression led to decreased glutamine content in tea leaves. Overexpression of CsDOF or CsGS2 in Arabidopsis thaliana increased glutamine levels, with CsDOF directly binding to the promoter of CsGS2 to promote its activity.

PLANT SCIENCE (2021)

Article Plant Sciences

Chromosome-scale genome assembly provides insights into the evolution and flavor synthesis of passion fruit (Passiflora edulis Sims)

Zhiqiang Xia et al.

Summary: This study presents a chromosome-scale genome assembly of passion fruit, with insights into genome evolution, gene families, and metabolic pathways involved in the synthesis of important volatile organic compounds. The research identifies key genes and pathways contributing to passion fruit flavor traits, providing valuable resources for improved cultivation practices.

HORTICULTURE RESEARCH (2021)

Article Plant Sciences

Genome-wide association analysis identified molecular markers associated with important tea flavor-related metabolites

Kaixing Fang et al.

Summary: Through a genome-wide association analysis, multiple SNPs related to the levels of theanine, caffeine, and catechins in tea were identified, providing a foundation for future research on important flavor-related metabolites. Functional annotation revealed key genes and pathways associated with the synthesis of catechins, potentially accelerating the breeding of new tea varieties.

HORTICULTURE RESEARCH (2021)

Review Plant Sciences

Feasible strategies for studying the involvement of DNA methylation and histone acetylation in the stress-induced formation of quality-related metabolites in tea (Camellia sinensis)

Jie Yang et al.

Summary: This review summarized the epigenetic regulation of secondary metabolism in tea, emphasizing the important roles of DNA methylation and histone acetylation in plant secondary metabolism. Feasible research strategies were discussed to elucidate the specific epigenetic mechanisms underlying the regulation of secondary metabolism in tea, providing key epigenetic data for future tea genetic breeding research.

HORTICULTURE RESEARCH (2021)

Article Agriculture, Multidisciplinary

Molecular Basis of the Distinct Metabolic Features in Shoot Tips and Roots of Tea Plants (Camellia sinensis): Characterization of MYB Regulator for Root Theanine Synthesis

Yanrui Zhang et al.

Summary: The study reveals significant physiological and metabolic differences between shoot tips and roots of tea plants at the transcriptome level, with important implications for improving genome annotation. Additionally, the regulation of characteristic secondary metabolites such as catechins, theanine, and caffeine is closely related to a large number of alternative splicing (AS) and long noncoding RNA (lncRNA) transcripts. This research lays the groundwork for further investigation into metabolic genomics and regulation in tea plants.

JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2021)

Article Plant Sciences

Divergent DNA methylation contributes to duplicated gene evolution and chilling response in tea plants

Wei Tong et al.

Summary: The study reveals that the tea plant genome is highly methylated, with DNA methylation negatively regulating gene expression in the gene body, while non-CG methylation in the flanking regions can positively regulate gene expression. The dynamics of transposable element-mediated methylation significantly influences the expression divergence of duplicated genes in tea plants.

PLANT JOURNAL (2021)

Article Plant Sciences

DNA methylation is involved in acclimation to iron-deficiency in rice (Oryza sativa)

Shuo Sun et al.

Summary: This study identified widespread hypermethylation in rice seedlings under Fe-deficient conditions, particularly in the CHH context. Integrative analysis revealed a negative correlation between transcript abundance of Fe-deficiency-induced genes and nearby TEs, and a positive correlation with 24-nucleotide siRNAs. Both pharmacological and genetic manipulation of DNA methylation demonstrated a crucial role of specific methylation patterns, directed by siRNAs, in acclimation of rice to Fe-deficient conditions. Comparisons with other reports suggest that this may be a universal mechanism for plants to adapt to limited nutrient availability.

PLANT JOURNAL (2021)

Article Genetics & Heredity

Haplotype-resolved genome assembly provides insights into evolutionary history of the tea plant Camellia sinensis

Xingtan Zhang et al.

Summary: The study provides insights into the evolutionary history of the tea plant Camellia sinensis through haplotype-resolved genome assembly of Oolong tea Tieguanyin and population genomic analyses of 190 Camellia accessions. The results reveal potential mechanisms in response to mutation load during long-term clonal propagation and the significant genetic diversity contributing to modern tea cultivars.

NATURE GENETICS (2021)

Article Plant Sciences

Theanine transporters identified in tea plants (Camellia sinensis L.)

Chunxia Dong et al.

PLANT JOURNAL (2020)

Article Biotechnology & Applied Microbiology

Bisulphite sequencing reveals dynamic DNA methylation under desiccation and salinity stresses in rice cultivars

Mohan Singh Rajkumar et al.

GENOMICS (2020)

Article Biochemistry & Molecular Biology

Regulation of Leaf Longevity by DML3-Mediated DNA Demethylation

Lu Yuan et al.

MOLECULAR PLANT (2020)

Article Biochemistry & Molecular Biology

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data

Chengjie Chen et al.

MOLECULAR PLANT (2020)

Article Food Science & Technology

Chinese oolong tea: An aromatic beverage produced under multiple stresses

Lanting Zeng et al.

TRENDS IN FOOD SCIENCE & TECHNOLOGY (2020)

Article Biotechnology & Applied Microbiology

DNA methylome analysis provides evidence that the expansion of the tea genome is linked to TE bursts

Lei Wang et al.

PLANT BIOTECHNOLOGY JOURNAL (2019)

Article Biochemical Research Methods

An integrated package for bisulfite DNA methylation data analysis with Indel-sensitive mapping

Qiangwei Zhou et al.

BMC BIOINFORMATICS (2019)

Article Biochemical Research Methods

HOME: a histogram based machine learning approach for effective identification of differentially methylated regions

Akanksha Srivastava et al.

BMC BIOINFORMATICS (2019)

Article Horticulture

DNA methylation levels in different tissues in tea plant via an optimized HPLC method

Ying Gao et al.

HORTICULTURE ENVIRONMENT AND BIOTECHNOLOGY (2019)

Article Multidisciplinary Sciences

Global increase in DNA methylation during orange fruit development and ripening

Huan Huang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

Article Biochemical Research Methods

fastp: an ultra-fast all-in-one FASTQ preprocessor

Shifu Chen et al.

BIOINFORMATICS (2018)

Article Agriculture, Multidisciplinary

Biosynthesis of Jasmine Lactone in Tea (Camellia sinensis) Leaves and Its Formation in Response to Multiple Stresses

Lanting Zeng et al.

JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2018)

Article Multidisciplinary Sciences

Draft genome sequence of Camellia sinensis var. sinensis provides insights into the evolution of the tea genome and tea quality

Chaoling Wei et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)

Article Biotechnology & Applied Microbiology

Downregulation of RdDM during strawberry fruit ripening

Jingfei Cheng et al.

GENOME BIOLOGY (2018)

Review Plant Sciences

Epigenetics for Plant Improvement: Current Knowledge and Modeling Avenues

Philippe Gallusci et al.

TRENDS IN PLANT SCIENCE (2017)

Article Biotechnology & Applied Microbiology

The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

Adam J. Bewick et al.

GENOME BIOLOGY (2017)

Article Biochemistry & Molecular Biology

Highly conserved epigenetic regulation of BOULE and DAZL is associated with human fertility

Chenwang Zhang et al.

FASEB JOURNAL (2016)

Article Agriculture, Multidisciplinary

Formation of Volatile Tea Constituent Indole During the Oolong Tea Manufacturing Process

Lanting Zeng et al.

JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2016)

Article Biochemical Research Methods

HISAT: a fast spliced aligner with low memory requirements

Daehwan Kim et al.

NATURE METHODS (2015)

Article Biochemistry & Molecular Biology

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

Hume Stroud et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles

Altuna Akalin et al.

GENOME BIOLOGY (2012)

Article Plant Sciences

Flavonoids and Isoflavonoids: From Plant Biology to Agriculture and Neuroscience

Richard A. Dixon et al.

PLANT PHYSIOLOGY (2010)