Subcellular Proteomics to Understand Promotive Effect of Plant-Derived Smoke Solution on Soybean Root

Murashita, Yusuke; Nishiuchi, Takumi; Rehman, Shafiq Ur; Komatsu, Setsuko

doi:10.3390/proteomes9040039

Cited by 7 publications

(7 citation statements)

References 48 publications

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“…Membranes were isolated according to the manufacturer's instructions of the Mem-PER Plus Membrane Protein Extraction Kit (Thermo Fisher Scientific, San Jose, CA, USA) with some modifications. The procedures are described in a previous study [48] (Table S1).…”

Section: Isolation Of Membrane Fractionsmentioning

confidence: 99%

“…An SDS-sample buffer consisting of 60 mM Tris-HCl (pH 6.8), 2% SDS, 10% glycerol, and 5% dithiothreitol was added to the protein extracts [52]. The quantified proteins (10 µg) were separated via electrophoresis on a 10% SDS-polyacrylamide gel and transferred onto a polyvinylidene difluoride (PVDF) membrane using a semidry transfer blotter (Nippon Eido, Tokyo, Japan) [48]. The blotted PVDF membrane was blocked for 5 min in a Bullet Blocking One regent (Nacalai Tesque, Kyoto, Japan).…”

Section: Immunoblot Analysismentioning

confidence: 99%

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Membrane Proteomics to Understand Enhancement Effects of Millimeter-Wave Irradiation on Wheat Root under Flooding Stress

Komatsu

Hamada

Furuya

et al. 2023

IJMS

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Millimeter-wave irradiation of wheat seeds enhances the growth of roots under flooding stress, but its mechanism is not clearly understood. To understand the role of millimeter-wave irradiation on root-growth enhancement, membrane proteomics was performed. Membrane fractions purified from wheat roots were evaluated for purity. H+-ATPase and calnexin, which are protein markers for membrane-purification efficiency, were enriched in a membrane fraction. A principal-component analysis of the proteomic results indicated that the millimeter-wave irradiation of seeds affects membrane proteins in grown roots. Proteins identified using proteomic analysis were confirmed using immunoblot or polymerase chain reaction analyses. The abundance of cellulose synthetase, which is a plasma-membrane protein, decreased under flooding stress; however, it increased with millimeter-wave irradiation. On the other hand, the abundance of calnexin and V-ATPase, which are proteins in the endoplasmic reticulum and vacuolar, increased under flooding stress; however, it decreased with millimeter-wave irradiation. Furthermore, NADH dehydrogenase, which is found in mitochondria membranes, was upregulated due to flooding stress but downregulated following millimeter-wave irradiation even under flooding stress. The ATP content showed a similar trend toward change in NADH dehydrogenase expression. These results suggest that millimeter-wave irradiation improves the root growth of wheat via the transitions of proteins in the plasma membrane, endoplasmic reticulum, vacuolar, and mitochondria.

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Section: Isolation Of Membrane Fractionsmentioning

confidence: 99%

Section: Immunoblot Analysismentioning

confidence: 99%

Membrane Proteomics to Understand Enhancement Effects of Millimeter-Wave Irradiation on Wheat Root under Flooding Stress

Komatsu

Hamada

Furuya

et al. 2023

IJMS

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“…A soybean subcellular root protein study was performed using fractions of membranes and nuclei, resulting in 441 identified proteins. Plant-derived smoke solution increased soybean root growth through transcriptional promotion with RNA polymerase II expression and energy production with ATPase accumulation [ 43 ]. The use of the nuclei isolation/extraction kit (Sigma-Aldrich, St. Louis, MO, USA) is an easy and convenient methodology employed in many recent studies.…”

Section: Crop Subcellular Proteomicsmentioning

confidence: 99%

Crop Proteomics under Abiotic Stress: From Data to Insights

Kausar

Wang

Komatsu

2022

Plants

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Food security is a major challenge in the present world due to erratic weather and climatic changes. Environmental stress negatively affects plant growth and development which leads to reduced crop yields. Technological advancements have caused remarkable improvements in crop-breeding programs. Proteins have an indispensable role in developing stress resilience and tolerance in crops. Genomic and biotechnological advancements have made the process of crop improvement more accurate and targeted. Proteomic studies provide the information required for such targeted approaches. The crosstalk among cellular components is being analyzed by subcellular proteomics. Additionally, the functional diversity of proteins is being unraveled by post-translational modifications during abiotic stress. The exploration of precise cellular responses and the networking among different cellular organelles help in the prediction of signaling pathways and protein–protein interactions. High-throughput mass-spectrometry-based protein studies are now possible due to incremental advancements in mass-spectrometry techniques, sample protocols, and bioinformatic tools as well as the increasing availability of plant genome sequence information for multiple species. In this review, the key role of proteomic analysis in identifying the abiotic-stress-responsive mechanisms in various crops was summarized. The development and availability of advanced computational tools were discussed in detail. The highly variable protein responses among different crops have provided a wide avenue for molecular-marker-assisted genetic buildup studies to develop smart, high-yielding, and stress-tolerant varieties to cope with food-security challenges.

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“…The combined effect of plant growth-promoting bacteria and PDS solution was more effective than the individual effect on rice [ 21 ]; however, they are both usually used individually to improve plant growth under saline conditions. In the case of soybean, PDS solution positively affected the post-germination growth [ 22 , 23 ]. Additionally, this solution enhanced soybean growth under flooding [ 24 ] and after flooding [ 25 ].…”

Section: Introductionmentioning

confidence: 99%

Proteomic Analysis Reveals Salt-Tolerant Mechanism in Soybean Applied with Plant-Derived Smoke Solution

Komatsu,

Kimura,

Rehman

et al. 2023

IJMS

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Salt stress of soybean is a serious problem because it reduces plant growth and seed yield. To investigate the salt-tolerant mechanism of soybean, a plant-derived smoke (PDS) solution was used. Three-day-old soybeans were subjected to PDS solution under 100 mM NaCl for 2 days, resulting in PDS solution improving soybean root growth, even under salt stress. Under the same condition, proteins were analyzed using the proteomic technique. Differential abundance proteins were associated with transport/formaldehyde catabolic process/sucrose metabolism/glutathione metabolism/cell wall organization in the biological process and membrane/Golgi in the cellular component with or without PDS solution under salt stress. Immuno-blot analysis confirmed that osmotin, alcohol dehydrogenase, and sucrose synthase increased with salt stress and decreased with additional PDS solution; however, H+ATPase showed opposite effects. Cellulose synthase and xyloglucan endotransglucosylase/hydrolase increased with salt and decreased with additional PDS solution. Furthermore, glycoproteins decreased with salt stress and recovered with additional treatment. As mitochondrion-related events, the contents of ATP and gamma-aminobutyric acid increased with salt stress and recovered with additional treatment. These results suggest that PDS solution improves the soybean growth by alleviating salt stress. Additionally, the regulation of energy metabolism, protein glycosylation, and cell wall construction might be an important factor for the acquisition of salt tolerance in soybean.

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Subcellular Proteomics to Understand Promotive Effect of Plant-Derived Smoke Solution on Soybean Root

Cited by 7 publications

References 48 publications

Membrane Proteomics to Understand Enhancement Effects of Millimeter-Wave Irradiation on Wheat Root under Flooding Stress

Membrane Proteomics to Understand Enhancement Effects of Millimeter-Wave Irradiation on Wheat Root under Flooding Stress

Crop Proteomics under Abiotic Stress: From Data to Insights

Proteomic Analysis Reveals Salt-Tolerant Mechanism in Soybean Applied with Plant-Derived Smoke Solution

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