DNA methylation changes in clonally propagated oil palm

Sarpan, Norashikin; Taranenko, Elizaveta; Ooi, Siew–Eng; Low, Eng‐Ti Leslie; Espinoza, Alejandro Palacios; Tatarinova, Tatiana V.; Ong‐Abdullah, Meilina

doi:10.1007/s00299-020-02561-9

Cited by 8 publications

(7 citation statements)

References 69 publications

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“…At DNA level, consistent with previous studies (Ong-Abdullah et al, 2015;Sarpan et al, 2020), identification of mantled abnormality by kDEF1 marker showed that kDEF1 was not detected in all 2,4-D treated samples, suggesting that the callus obtained from explants exposed to 2,4-D are not mantled.…”

Section: Discussionsupporting

confidence: 90%

“…The plant growth regulator 2,4-D may function as stress chemical to induce mantled somaclonal factors may also be contributed in the process (Morcillo et al, 2006). Several studies (Jaligot et al, 2000;Morcillo et al, 2006;Jaligot et al, 2014;Ong-Abdullah et al, 2015;Sarpan et al, 2020) have reported on the molecular mechanisms and DNA methylation underlying the mantled variation in oil palm. However, the effect of 2,4-D on the development of mantled phenotype is very limited.…”

Section: Discussionmentioning

confidence: 99%

“…Many studies have reported the association of DNA methylation and induction of mantled phenotype (Jaligot et al, 2000;Morcillo et al, 2006;Jaligot et al, 2014;Ong-Abdullah et al, 2015;Sarpan et al, 2020). The accumulation of nucleosides in leaves and callus tissues was investigated by Jaligot et al (2000) to evaluate the methylation rates.…”

Section: Introductionmentioning

confidence: 99%

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High Concentration of 2, 4-D Treatment May Not Result in Mantled Variation During Callus Induction of Oil Palm

2022

THE JAPS

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Mantled is a kind of fruit abnormality in oil palm and can cause serious yield loss of palm oil. It was reported that mantled phenotype could be resulted from the application of plant growth regulators (e.g. 2, 4-D) during tissue culture. However, the effect of 2, 4-D treatment on the development of mantled variation is still very limited. In this study, based on our present oil palm tissue culture system, the inflorescence explants were treated with different concentrations of 2,4-D at callus induction stage to induce mantled. Along with a known mantled sample as control, all 2,4-D treated samples were detected with an available DNA marker (kDEF1) for mantled identification, the expression of EgDEF1 transcripts (kDEF1 and tDEF1) and the accumulation of mantled related metabolites (deoxycytidine) were then analyzed using transcriptomics and metabolomics analysis. Detection of mantled by kDEF1 marker showed that kDEF1 was detected only in control (mantled) sample whereas none was found in 2,4-D treated samples. Furthermore, transcriptome analysis confirmed that kDEF1 transcript was not presented at all in 2,4-D treated samples. In contrast with earlier reports in mantled samples, tDEF1 was down-regulated and the accumulation of deoxycytidine was increased during callus induction. Therefore, the mantled variation was not identified at DNA, RNA and metabolite levels in 2,4-D treated samples, suggesting that high concentration of 2,4-D may not result in mantled variation during callus induction. However, similar research at embryogenesis stage could be till needed to explore more possibilities.

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Section: Discussionsupporting

confidence: 90%

Section: Discussionmentioning

confidence: 99%

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High Concentration of 2, 4-D Treatment May Not Result in Mantled Variation During Callus Induction of Oil Palm

2022

THE JAPS

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“…The publicly available oil palm reference genome (Singh et al, 2013b) expedited the application of molecular breeding approaches for crop improvement, which has to date been further improved. The updated physical genome coverage of 79% from the earlier 43%, has successfully placed 1968 unassigned scaffolds onto the genome which extended the 16 pseudochromosomes thus, enhancing its overall quality (Ong et al, 2020). Leveraging the available oil palm genome databases as well as next generation sequencing technologies, Zhou et al (2020) and identified candidate genes, potential pathways as well as transcription factors likely to be involved in drought tolerance in the oil palm.…”

Section: Mitigating the Changing Environment Through Technologymentioning

confidence: 99%

OIL PALM ECONOMIC PERFORMANCE IN MALAYSIA AND R&D PROGRESS IN 2020

Parveez¹,

Tarmizi²,

Sundram³

et al. 2021

JOPR

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The year 2020 faced unprecedented challenge for most of the global economic growth due to the outbreak of Coronavirus disease . Despite a downward trend performance of the Malaysian oil palm industry, particularly for the first half of 2020, the impact is less severe due to the encouraging palm oil export revenue through the National Economic Recovery Plan (PENJANA) which nurtures a notable increase in crude palm oil (CPO) price. In honouring the Malaysian pledge on forest conservation, land expansion for the oil palm cultivation remains stagnant over the years. The effort is now shifting towards enhancing the oil palm yield performance through new planting materials and good agricultural practices, coupled with systematic pest and disease management. Sustainability continues to be the key agenda of the oil palm industry, in moving forward to sustain the industry ecosystem. The industry is now open for innovative palm oil processes to comply with the dynamic and stringent food safety and quality standards and trade regulations. Owing to the distinction in food and feed applicability together with health prospects, translating the information into consumer-friendly language is becoming crucial for effective communication. Valorisation via the concept of 'waste to wealth' has compelled series of innovations in capitalising oil palm co-products for greener bioenergy and oleochemicals, and source of phytonutrients to generate higher earnings without having to heavily rely on palm oil trade as commodity. Mandatory enactment of the Malaysian Sustainable Palm Oil (MSPO) certification scheme has portrayed a success story of showing the utmost commitment towards sustainability. With persistent dedication, the oil palm industry is envisaged to be self-sustaining, amidst the never-ending challenges surrounding economy, well-being and environment.

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“…EgCHI1, EgVIR-1, EgVIR-2, EgIFR-2, EgMT-1, and EgSPI-2 as potential positive biomarkers for oil palm of moderate tolerant to Ganoderma. Sarpan et al (2020) has been reported the EgDEF1 gene was expressed for clonal abnormality in the epigenetic phenomenon and linked for hypomethylation to transposable elements. However, in general, there is little knowledge about the function of the flowering gene in Ganoderma pathogenresistant plants.…”

mentioning

confidence: 99%

Short Communication: MADS-box genes expression in seedlings of Elaeis guineensis Jacq. resistance to Ganoderma boninense

et al. 2020

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Abstract. Hayati R, Lisnawita, Munir E, Basyuni M. 2020. Short Communication: MADS-box genes expression in seedlings of Elaeis guineensis Jacq. resistance to Ganoderma boninense. Biodiversitas 21: 5805-5810. Advances in molecular technology were allowed the molecular studies of the flowering genes to expected to be used to predict oil palm (Elaeis guineensis) fruit production. This study aims to identify the genetic structure associated with flowering genes, belonging to the MADS-box gene family of E. guineensis to Ganoderma boninense susceptible and resistance types. Different length of expression genes was identified for each population displayed the single band pattern. On the basis of UVITEC-1D methods, all populations (RA, RS, SS, and SA) detected overall expression in primer EGGLO and EGDEF. Moreover, several populations (SS, SA, RA) were not expressed in primer EGSQUA, EGAGL2, and EGAG. Based on the GENEALEX results, 5 sets of MADS-box family markers showed Na values were 2.20 to 3.00, and He values were 0.40–0.67. High polymorphism information content (PIC > 0.50) was found in Resistance Asymptomatic (RA) and Susceptible Asymptomatic (SA) populations (PIC = 0.82). The phylogenetic tree described clustering for populations based on genetic distances. The dendrogram was constructed with two cluster groups. The first cluster was described as resistance asymptomatic and symptomatic population. Furthermore, the second cluster consisted of two clustering susceptible asymptomatic and symptomatic populations, separately. Several oil palm genes resistant symptomatic and asymptomatic was found in one cluster, similarly in susceptible symptomatic and asymptomatic grouped more closely. This phenomenon is likely to be the sampling rate and the addictive nature of parent crossing derivatives.

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DNA methylation changes in clonally propagated oil palm

Cited by 8 publications

References 69 publications

High Concentration of 2, 4-D Treatment May Not Result in Mantled Variation During Callus Induction of Oil Palm

High Concentration of 2, 4-D Treatment May Not Result in Mantled Variation During Callus Induction of Oil Palm

OIL PALM ECONOMIC PERFORMANCE IN MALAYSIA AND R&D PROGRESS IN 2020

Short Communication: MADS-box genes expression in seedlings of Elaeis guineensis Jacq. resistance to Ganoderma boninense

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