Comparative proteomic analysis of oil palm leaves infected with <i>Ganoderma boninense</i> revealed changes in proteins involved in photosynthesis, carbohydrate metabolism, and immunity and defense

Daim, Leona Daniela Jeffery; Ooi, Tony Eng Keong; Ithnin, Nalisha; Yusof, Hirzun Mohd; Kulaveerasingam, Harikrishna; Majid, Nazia Abdul; Karsani, Saiful Anuar

doi:10.1002/elps.201400608

Cited by 20 publications

(4 citation statements)

References 56 publications

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“…Several studies have shown that soil sterilization can eliminate soil-borne pathogens and promote changes in soil microbe communities that lead to improved plant growth and increased beneficial microbes ( Mahmood et al, 2014 ; Zhang et al, 2016 ; Li et al, 2019 ). However, in our experiment, the soil used did not contain Ganoderma boninense , a fungal pathogen that infects oil palm trees in South East Asia ( Jeffery Daim et al, 2015 ) (ITS data not shown). The benefits of soil sterilization, specifically the elimination of soil-borne pathogens, were therefore not applicable to this experiment.…”

Section: Discussionmentioning

confidence: 89%

Impact of sterilization and chemical fertilizer on the microbiota of oil palm seedlings

Ding¹,

Ho²,

Ibrahim³

et al. 2023

Front. Microbiol.

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Soil nutrients and microbiota are known as essential components for healthy plant growth and crop productivity. However, limited studies have been conducted on the importance of soil microbiota in the early growth of oil palm seedlings (Elaeis guineensis Jacq.) under the influence of nitrogen, phosphorus and potassium (NPK) compound fertilizer (nitrogen, phosphorus, and potassium). In this study, we analyzed the root microbial community associated with seedlings grown under normal and sterilized soil conditions to ascertain the microbial strains potentially associated with soil, plant health and chemical fertilizer efficiency. Oil palm seedlings were grown under four treatments: (i) fertilized normal soil (+FN), (ii) unfertilized normal soil (−FN), (iii) fertilized sterilized soil (+FS) and (iv) unfertilized sterilized soil (−FS). Our findings revealed that chemical fertilizer promoted the growth of the copiotrophs Pseudomonadota and Bacteroidota in the control +FN, which are known to degrade complex polysaccharides. After autoclaving, the soil macronutrient content did not change, but soil sterilization reduced microbial diversity in the +FS and −FS treatments and altered the soil microbiota composition. Sterilized soil with a depleted microbial population adversely affected crop growth, which was exacerbated by fertilizer use. In the rhizosphere and rhizoplane compartments, a total of 412 and 868 amplicon sequence variances (ASVs) were found depleted in the +FS and −FS treatments, respectively. Several genera were identified in the ASVs with diminished abundance, including Humibacter, Microbacterium, Mycobacterium, 1921-2, HSB OF53-F07, Mucilaginibacter, Bacillus, Paenibacillus, and several unclassified genera, suggesting their possible roles in promoting the plant growth of oil palm seedlings. Soil sterilization might remove these beneficial microbes from the bulk soil pool, affecting the colonization ability in the rhizocompartments as well as their role in nutrient transformation. Therefore, this study provides useful insights concerning the benefits of a soil microbiome survey before making fertilizer recommendations.

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Section: Discussionmentioning

confidence: 89%

Impact of sterilization and chemical fertilizer on the microbiota of oil palm seedlings

Ding¹,

Ho²,

Ibrahim³

et al. 2023

Front. Microbiol.

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“…A protein expression analysis of Ganoderma -infected oil palm revealed changes in 51 proteins involved in photosynthesis, carbohydrate metabolism, and immunity/defense mechanisms. These findings provide insights into the molecular responses to BSR disease [ 173 ].…”

Section: Research On Detection Methods For Basal Stem Rotmentioning

confidence: 99%

An In-Depth Study of Phytopathogenic Ganoderma: Pathogenicity, Advanced Detection Techniques, Control Strategies, and Sustainable Management

Karunarathna,

Patabendige,

et al. 2024

JoF

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Phytopathogenic Ganoderma species pose a significant threat to global plant health, resulting in estimated annual economic losses exceeding USD (US Dollars) 68 billion in the agriculture and forestry sectors worldwide. To combat this pervasive menace effectively, a comprehensive understanding of the biology, ecology, and plant infection mechanisms of these pathogens is imperative. This comprehensive review critically examines various aspects of Ganoderma spp., including their intricate life cycle, their disease mechanisms, and the multifaceted environmental factors influencing their spread. Recent studies have quantified the economic impact of Ganoderma infections, revealing staggering yield losses ranging from 20% to 80% across various crops. In particular, oil palm plantations suffer devastating losses, with an estimated annual reduction in yield exceeding 50 million metric tons. Moreover, this review elucidates the dynamic interactions between Ganoderma and host plants, delineating the pathogen’s colonization strategies and its elicitation of intricate plant defense responses. This comprehensive analysis underscores the imperative for adopting an integrated approach to Ganoderma disease management. By synergistically harnessing cultural practices, biological control, and chemical treatments and by deploying resistant plant varieties, substantial strides can be made in mitigating Ganoderma infestations. Furthermore, a collaborative effort involving scientists, breeders, and growers is paramount in the development and implementation of sustainable strategies against this pernicious plant pathogen. Through rigorous scientific inquiry and evidence-based practices, we can strive towards safeguarding global plant health and mitigating the dire economic consequences inflicted by Ganoderma infections.

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“…Palm oil remains the most efficient oil crop in the world based on its land use (0.36% of the world agricultural land) and productivity (34% of world oils and fats production) [1]. There has been an increasing interest in studying the oil palm proteome to answer many physiological questions, for instance, the machinery of fatty acid production [2–6], fungal disease affecting the oil palm plantations [7, 8] and the flowering process [9] to enhance the sustainability of oil palm. Our proteomics studies revolved around establishing a quantitative model for oil palm lipid metabolism that would coincide with the biochemical, genomics and transcriptomics analyses.…”

Section: Introductionmentioning

confidence: 99%

Evaluation of sodium deoxycholate as solubilization buffer for oil palm proteomics analysis

Lau

Othman

2019

PLoS ONE

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Protein solubility is a critical prerequisite to any proteomics analysis. Combination of urea/thiourea and 3-[(3-cholamidopropyl)dimethylammonio]-1-propanesulfonate (CHAPS) have been routinely used to enhance protein solubilization for oil palm proteomics studies in recent years. The goals of these proteomics analysis are essentially to complement the knowledge regarding the regulation networks and mechanisms of the oil palm fatty acid biosynthesis. Through omics integration, the information is able to build a regulatory model to support efforts in improving the economic value and sustainability of palm oil in the global oil and vegetable market. Our study evaluated the utilization of sodium deoxycholate as an alternative solubilization buffer/additive to urea/thiourea and CHAPS. Efficiency of urea/thiourea/CHAPS, urea/CHAPS, urea/sodium deoxycholate and sodium deoxycholate buffers in solubilizing the oil palm ( Elaeis guineensis var. Tenera) mesocarp proteins were compared. Based on the protein yields and electrophoretic profile, combination of urea/thiourea/CHAPS were shown to remain a better solubilization buffer and additive, but the differences with sodium deoxycholate buffer was insignificant. A deeper mass spectrometric and statistical analyses on the identified proteins and peptides from all the evaluated solubilization buffers revealed that sodium deoxycholate had increased the number of identified proteins from oil palm mesocarps, enriched their gene ontologies and reduced the number of carbamylated lysine residues by more than 67.0%, compared to urea/thiourea/CHAPS buffer. Although only 62.0% of the total identified proteins were shared between the urea/thiourea/CHAPS and sodium deoxycholate buffers, the importance of the remaining 38.0% proteins depends on the applications. The only observed limitations to the application of sodium deoxycholate in protein solubilization were the interference with protein quantitation and but it could be easily rectified through a 4-fold dilution. All the proteomics data are available via ProteomeXchange with identifier PXD013255. In conclusion, sodium deoxycholate is applicable in the solubilization of proteins extracted from oil palm mesocarps with higher efficiency compared to urea/thiourea/CHAPS buffer. The sodium deoxycholate buffer is more favorable for proteomics analysis due to its proven advantages over urea/thiourea/CHAPS buffer.

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Comparative proteomic analysis of oil palm leaves infected with Ganoderma boninense revealed changes in proteins involved in photosynthesis, carbohydrate metabolism, and immunity and defense

Cited by 20 publications

References 56 publications

Impact of sterilization and chemical fertilizer on the microbiota of oil palm seedlings

Impact of sterilization and chemical fertilizer on the microbiota of oil palm seedlings

An In-Depth Study of Phytopathogenic Ganoderma: Pathogenicity, Advanced Detection Techniques, Control Strategies, and Sustainable Management

Evaluation of sodium deoxycholate as solubilization buffer for oil palm proteomics analysis

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