Single-base-resolution methylomes of Populus euphratica reveal the association between DNA methylation and salt stress

Su, Yutao; Bai, Xiaotao; Yang, Wenbo; Wang, Weiwei; Chen, Zeyuan; Ma, Jianchao; Ma, Tao

doi:10.1007/s11295-018-1298-1

Cited by 30 publications

(23 citation statements)

References 64 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The context of CG had higher methylation level, while CHG and CHH was lower (Additional le 11). The DNA methylation context patterns displayed a similarity with those previous observed in Populus [18,59]. PCA showed that JW and MW had distinct DNA methylation ( Fig.…”

Section: Dna Methylation In Formation Of Jw and Mwsupporting

confidence: 80%

“…In plant, most of DNA methylation occurs at the fth carbon of cytosine (including three cytosine contexts, CG, CHG and CHH, where H represents A, C or T) to form 5-methylcytosine by DNA methyltransferase [14][15][16]. Evidence indicates that DNA methylation can regulate gene expression in numerous biological processes including response to abiotic stresses [17][18][19][20][21], plant development and morphogenesis [22] and wood formation [23]. The degree of DNA methylation is also related to plant development phases.…”

mentioning

confidence: 99%

See 1 more Smart Citation

A Comparative Analysis of Transcription Networks Active in Juvenile and Mature Wood in Populus

Luo

Zhu

Gui

et al. 2020

Preprint

View full text Add to dashboard Cite

Background: Juvenile wood (JW) and mature wood (MW) have distinct physical and chemical characters, reflecting the different wood formation over the tree life-span. However, the regulatory mechanisms that distinguish or modulate the characteristics of JW and MW in relation to each other have not been mapped. Using RNA sequencing (RNA-seq) and whole genome bisulfite sequencing (WGBS), we analyzed wood properties associated with JW and MW forming tissue from Populus trees with an identical genetic background.Results: JW and MW of Populus displayed different wood properties as the result of significant differences in transcriptional programs and patterns of DNA methylation. Differences were concentrated in gene networks involved in regulating hormonal signaling pathways responsible for auxin distribution and brassinosteroids biosynthesis as well as genes active in regulating cell expansion and secondary cell wall biosynthesis. An observed correlation between gene expression profiling and DNA methylation indicated that DNA methylation affected expression of the genes related to auxin distribution and brassinosteroids signal transduction, cell expansion in JW and MW formation. Conclusions: Auxin distribution, brassinosteroids biosynthesis and signaling play critical roles in formation of JW and MW. DNA methylation is involved in formatting the transcriptional programs in different development phases which contribute to JW and MW formation. The study sheds light to better understand the molecular networks underlying regulation of wood properties which could inform improvement of wood formation.

show abstract

Section: Dna Methylation In Formation Of Jw and Mwsupporting

confidence: 80%

mentioning

confidence: 99%

A Comparative Analysis of Transcription Networks Active in Juvenile and Mature Wood in Populus

Luo

Zhu

Gui

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…Extensive studies have shown that dynamic changes in plant methylation levels are importantly associated with various abiotic stresses, including drought stress (Liu et al, 2018a;Sanchez & Paszkowski, 2014), cold stress (Steward et al, 2002), salt stress (Su et al, 2018;Sun et al, 2018), and ultraviolet (UV)/light radiation stresses (Eichten & Springer, 2015;Ganguly et al, 2018). In addition, DNA methylation also plays an important role in regulating growth and development Xing et al, 2015) and secondary metabolism (Bharti et al, 2015;Zhang et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide investigation and transcriptional analysis of cytosine-5 DNA methyltransferase and DNA demethylase gene families in tea plant (Camellia sinensis) under abiotic stress and withering processing

Zhu

Zhang

Zhou

et al. 2020

PeerJ

View full text Add to dashboard Cite

DNA methylation is a highly conserved epigenetic modification involved in many biological processes, including growth and development, stress response, and secondary metabolism. In the plant kingdom, cytosine-5 DNA methyltransferase (C5-MTase) and DNA demethylase (dMTase) genes have been identified in some plant species. However, to the best of our knowledge, no investigator has focused on the identification and analysis of C5-MTase and dMTase genes in tea plants (Camellia sinensis) based on genome-wide levels. In this study, eight CsC5-MTases and four dMTases were identified in tea plants. These CsC5-MTase genes were divided into four subfamilies, including CsMET, CsCMT, CsDRM and CsDNMT2. The CsdMTase genes can be classified into CsROS, CsDME and CsDML. Based on conserved domain analysis of these genes, the gene loss and duplication events occurred during the evolution of CsC5-MTase and CsdMTase. Furthermore, multiple cis-acting elements were observed in the CsC5-MTase and CsdMTase, including light responsiveness, phytohormone responsiveness, stress responsiveness, and plant growth and development-related elements. Then, we investigated the transcript abundance of CsC5-MTase and CsdMTase under abiotic stress (cold and drought) and withering processing (white tea and oolong tea). Notably, most CsC5-MTases, except for CsCMT1 and CsCMT2, were significantly downregulated under abiotic stress, while the transcript abundance of all four CsdMTase genes was significantly induced. Similarly, the same transcript abundance of CsC5-MTase and CsdMTase was found during withering processing of white tea and oolong tea, respectively. In total, our findings will provide a basis for the roles of CsC5-MTase and CsdMTase in response to abiotic stress and the potential functions of these two gene families in affecting tea flavor during tea withering processing.

show abstract

“…All these traits are regulated by genes. DNA methylation involves signal transduction and regulation of gene expression in response to abiotic stress [70].…”

Section: Dna Methylation and Flower Developmentmentioning

confidence: 99%

The Effects of DNA Methylation Inhibition on Flower Development in the Dioecious Plant Salix Viminalis

Cheng

Peng

et al. 2019

Forests

View full text Add to dashboard Cite

DNA methylation, an important epigenetic modification, regulates the expression of genes and is therefore involved in the transitions between floral developmental stages in flowering plants. To explore whether DNA methylation plays different roles in the floral development of individual male and female dioecious plants, we injected 5-azacytidine (5-azaC), a DNA methylation inhibitor, into the trunks of female and male basket willow (Salix viminalis L.) trees before flower bud initiation. As expected, 5-azaC decreased the level of DNA methylation in the leaves of both male and female trees during floral development; however, it increased DNA methylation in the leaves of male trees at the flower transition stage. Furthermore, 5-azaC increased the number, length and diameter of flower buds in the female trees but decreased these parameters in the male trees. The 5-azaC treatment also decreased the contents of soluble sugars, starch and reducing sugars in the leaves of the female plants, while increasing them in the male plants at the flower transition stage; however, this situation was largely reversed at the flower development stage. In addition, 5-azaC treatment decreased the contents of auxin indoleacetic acid (IAA) in both male and female trees at the flower transition stage. These results indicate that hypomethylation in leaves at the flower transition stage promotes the initiation of flowering and subsequent floral growth in Salix viminalis, suggesting that DNA methylation plays a similar role in vegetative–reproductive transition and early floral development. Furthermore, methylation changes during the vegetative–reproductive transition and floral development were closely associated with the biosynthesis, metabolism and transportation of carbohydrates and IAA. These results provide insight into the epigenetic regulation of carbohydrate accumulation.

show abstract

Single-base-resolution methylomes of Populus euphratica reveal the association between DNA methylation and salt stress

Cited by 30 publications

References 64 publications

A Comparative Analysis of Transcription Networks Active in Juvenile and Mature Wood in Populus

A Comparative Analysis of Transcription Networks Active in Juvenile and Mature Wood in Populus

Genome-wide investigation and transcriptional analysis of cytosine-5 DNA methyltransferase and DNA demethylase gene families in tea plant (Camellia sinensis) under abiotic stress and withering processing

The Effects of DNA Methylation Inhibition on Flower Development in the Dioecious Plant Salix Viminalis

Contact Info

Product

Resources

About