Global DNA methylation changes in Cucurbitaceae inter-species grafting

Avramidou, Evangelia V.; Kapazoglou, Aliki; Aravanopoulos, Filippos A.; Xanthopoulou, Aliki; Ganopoulos, Ioannis; Tsaballa, Aphrodite; Madesis, Panagiotis; Doulis, Andreas G.; Tsaftaris, Athanasios

doi:10.1590/1984-70332015v15n2n20

Cited by 38 publications

(39 citation statements)

References 26 publications

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“…Recent evidence has suggested that modifications of DNA methylation may be central to explaining grafting‐induced variations (Avramidou et al ., ; Kasai et al ., ). In this study, whole genome bisulfite sequencing (WGBS) was conducted to investigate the variation in the DNA methylomes of r‐CCC4.…”

Section: Resultsmentioning

confidence: 98%

“…The purposes of grafting are varied, but the most common use is the clonal vegetative propagation of heterogenic trees that harbour desirable traits (Tsutsui and Notaguchi, ). Grafting‐induced changes in phenotype and genotype have been observed and confirmed in model plants and woody species (Frankel, ; Clearwater et al ., ; Stegemann and Bock, ; Avramidou et al ., ; Melnyk, ). For example, Taller et al .…”

Section: Introductionmentioning

confidence: 99%

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Maintenance of grafting‐induced epigenetic variations in the asexual progeny of Brassica oleracea and B. juncea chimera

Cao

et al. 2018

The Plant Journal

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Grafting-induced variations have been observed in many plant species, but the heritability of variation in progeny is not well understood. In our study, adventitious shoots from the C cell lineage of shoot apical meristem (SAM) grafting chimera TCC (where the origin of the outmost, middle and innermost cell layers, respectively, of SAM is designated by 'T' for tuber mustard and 'C' for red cabbage) were induced and identified as r-CCC (r = regenerated). To investigate the maintenance of grafting variations during cell propagation and regeneration, different generations of asexual progeny (r-CCCn, n = generation) were established through successive regeneration of axillary shoots from r-CCC. The fourth generation of r-CCC (r-CCC4) was selected to perform whole genome bisulfite sequencing for comparative analysis of hetero-grafting-induced global methylation changes relative to r-s-CCC4 (s = self-grafting). Increased CHH methylation levels and proportions were observed in r-CCC4, with substantial changes occurring in the repeat elements. Small RNA sequencing revealed 1135 specific small interfering RNA (siRNA) tags that were typically expressed in r-CCC, r-CCC2 and r-CCC4. Notably, 65% of these specific siRNAs were associated with repeat elements, termed RE siRNAs. Subsequent analysis revealed that the CHH methylation of RE siRNA-overlapping regions was mainly hypermethylation in r-CCC4, indicating that they were responsible for directing and maintaining grafting-induced CHH methylation. Moreover, the expression of 13 differentially methylated genes (DMGs) correlated with the phenotypic variation, showing differential expression levels between r-CCC4 and r-s-CCC4. These DMGs were predominantly CG hypermethylated, their methylation modifications corresponded to the transcription of relative methyltransferase.

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Section: Resultsmentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

Maintenance of grafting‐induced epigenetic variations in the asexual progeny of Brassica oleracea and B. juncea chimera

Cao

et al. 2018

The Plant Journal

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“…However, despite its long history and practical utilities of plant vegetative grafting, the underlying mechanisms for graft-induced phenotypic and physiological changes remains to be fully understood. It is generally accepted that metabolic substances including those that may produce large biological effects, such as hormones, proteins and signal molecules, could be transferred from one grafting partner to the other 18 , 28 , 38 , 42 causing changes in graft partners. Also healing response is known to involve in salicylate 36 , 37 , jasmonate 38 , and other plant hormone signals 39 , 40 .…”

Section: Discussionmentioning

confidence: 99%

“…Grafting approaches reported here could be used in cotton improvement studies. For instance, interspecific grafting experiments would allow the increase in some physiologic, agronomic, genetic and epigenetic traits 34 , 42 . Grafting experiments have been already used in cotton for different purposes.…”

Section: Discussionmentioning

confidence: 99%

Interspecific grafting between Gossypium hirsutum, G. barbadense and G. herbaceum lines

Karaca

İnce

Reddy

2020

Sci Rep

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Seedling grafting could provide additional crop improvement strategies for cotton. However, there existed limited studies on interspecific grafting and approaches. Four different grafting approaches were developed and compared between lines representing three of the four cultivated cotton species G. hirsutum, G. barbadense and G. herbaceum. Grafting approaches of this study focused on the cotyledon node and cotyledon leaves retained on scions, rootstocks, without cotyledon node and cotyledon leaves on scions and rootstocks or halved cotyledon node and single cotyledon leaf on scions and rootstocks. Evaluations of the grafting approaches were made by comparing survival and growth rate during the second and fifth weeks after transplantation, respectively. The formation of any lateral shoots at the grafted sites were studied in two of four grafting approaches in the first and the second year during flowering stage. DNA alterations due to grafting were investigated using microsatellite markers. There were no statistically significant differences between grafts and their control in survival rate and locus specific DNA alteration. Growth rate and lateral shoot formation, on the other hand, were different among grafting types and grafts. We concluded that grafting without cotyledon node and cotyledon leaves on rootstocks, and with cotyledon node but without cotyledon leaves on scions were easy to perform and suitable for interspecific cotton grafting. Results suggested that grafting seedlings and allowing time to heal graft wounds prior to spring transplanting or double cropping is suitable for wheat–cotton intercropping to prevent late or early chilling damage associated with seed sowing or conventional transplanting of susceptible seedlings. Furthermore, the rapid and consistent wound healing in seedling grafts along with lateral shoot formation occurring in two of four grafting approaches make them a suitable approach to investigate possible genetic and epigenetic movement between scions and rootstocks, especially across species.

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“…miRNAs are also exchanged between the scion and rootstock in grafted watermelon, which may regulate the growth and development of the scion (Cookson and Ollat, 2013; Liu et al, 2013). A genomic DNA methylation analysis was performed in cucumber and melon scions by a grafting system using cucurbitaceous inter-grafting (Avramidou et al, 2015). Recently, some research identified many DEGs involved in various metabolic processes in grafted cucumber and verified by qRT-PCR (Miao et al, 2019a; Miao et al, 2019b).…”

Section: Discussionmentioning

confidence: 99%

Transcription Factor CsWIN1 Regulates Pericarp Wax Biosynthesis in Cucumber Grafted on Pumpkin

Zhang

Yang

et al. 2019

Front. Plant Sci.

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Pericarp wax of cucumber is an important economic trait, determining sales and marketing. Grafting of cucumber onto pumpkin rootstock (Cucurbita moschata) is an effective way to produce glossy cucumber fruits. However, the molecular regulation mechanism of this phenomenon remains largely unknown. In the present study, transcriptome analyses, genome-wide DNA methylation sequencing, and wax metabolite analysis were performed on the pericarp of self-rooted versus grafted cucumber. We identified the AP2/ERF-type transcription factor CsWIN1 as methylated and significantly upregulated in grafted cucumber compared to self-rooted cucumber. The increased expression of CsWIN1 was also positively correlated with several key wax biosynthesis genes, including CsCER1, CsCER1-1, CsCER4, CsKCS1, and the wax transporter gene CsABC. The transcriptome expression level of these genes was validated through qRT-PCR profiles. Furthermore, wax metabolite analysis showed that more wax ester (C20 fatty acid composition), but fewer alkanes (C29 and C31) were deposited in grafted cucumber pericarp. The higher expression of CsWIN1 and wax biosynthesis genes was reflected in the glossier appearance of grafted pericarp, possibly the result of higher wax ester content and higher integration of small trichomes in the pericarp. This study demonstrates that grafting can affect the content and composition of pericarp wax in cucumber grafted on pumpkin, and a unique regulation model of CsWIN1 for wax biosynthesis may exist in cucumber.

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Global DNA methylation changes in Cucurbitaceae inter-species grafting

Abstract: -Grafting has been used to improve yield, fruit quality and disease resistance in a range

Cited by 38 publications

References 26 publications

Maintenance of grafting‐induced epigenetic variations in the asexual progeny of Brassica oleracea and B. juncea chimera

Maintenance of grafting‐induced epigenetic variations in the asexual progeny of Brassica oleracea and B. juncea chimera

Interspecific grafting between Gossypium hirsutum, G. barbadense and G. herbaceum lines

Transcription Factor CsWIN1 Regulates Pericarp Wax Biosynthesis in Cucumber Grafted on Pumpkin

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