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Insight on Rosaceae Family with Genome Sequencing and Functional Genomics Perspective
Soundararajan, Prabhakaran,Won, So Youn,Kim, Jung Sun Hindawi 2019 BioMed research international Vol.2019 No.-
<P>Rosaceae is one of the important families possessing a variety of diversified plant species. It includes many economically valuable crops that provide nutritional and health benefits for the human. Whole genome sequences of valuable crop plants were released in recent years. Understanding of genomics helps to decipher the plant physiology and developmental process. With the information of cultivating species and its wild relative genomes, genome sequence-based molecular markers and mapping loci for economically important traits can be used to accelerate the genome assisted breeding. Identification and characterization of disease resistant capacities and abiotic stress tolerance related genes are feasible to study across species with genome information. Further breeding studies based on the identification of gene loci for aesthetic values, flowering molecular circuit controls, fruit firmness, nonacid fruits, etc. is required for producing new cultivars with valuable traits. This review discusses the whole genome sequencing reports of<I> Malus</I>,<I> Pyrus</I>,<I> Fragaria</I>,<I> Prunus</I>, and<I> Rosa</I> and status of functional genomics of representative traits in individual crops.</P>
Soundararajan, D.,Yoon, J.K.,Kwon, J.S.,Kim, Y.I.,Kim, S.H.,Park, J.H.,Kim, Y.J.,Park, D.Y.,Kim, B.C.,Wallac, G.G.,Ko, J.M. Korean Chemical Society 2010 Bulletin of the Korean Chemical Society Vol.31 No.8
Closely arranged CdSe and Zn doped CdSe vertical nanorod bundles were grown directly on FTO coated glass by using electrodeposition method. Structural analysis by XRD showed the hexagonal phase without any precipitates related to Zn. FE-SEM image showed end capped vertically aligned nanorods arranged closely. From the UV-vis transmittance spectra, band gap energy was found to vary between 1.94 and 1.98 eV due to the incorporation of Zn. Solar cell parameters were obtained by assembling photoelectrochemical cells using CdSe and CdSe:Zn photoanodes, Pt cathode and polysulfide (1M $Na_2S$ + 1M S + 1M NaOH) electrolyte. The efficiency was found to increase from 0.16 to 0.22 upon Zn doping. Electrochemical impedance spectra (EIS) indicate that the charge-transfer resistance on the FTO/CdSe/polysulfide interface was greater than on FTO/CdSe:Zn/polysulfide. Cyclic voltammetry results also indicate that the FTO/CdSe:Zn/polysulfide showed higher activity towards polysulfide redox reaction than that of FTO/CdSe/polysulfide.
Soundararajan, Prabhakaran,Manivannan, Abinaya,Ko, Chung Ho,Muneer, Sowbiya,Jeong, Byoung Ryong MDPI 2017 INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES Vol.18 No.8
<P>Beneficial effects of silicon (Si) on growth and development have been witnessed in several plants. Nevertheless, studies on roses are merely reported. Therefore, the present investigation was carried out to illustrate the impact of Si on photosynthesis, antioxidant defense and leaf proteome of rose under salinity stress. In vitro-grown, acclimatized <I>Rosa hybrida</I> ‘Rock Fire’ were hydroponically treated with four treatments, such as control, Si (1.8 mM), NaCl (50 mM), and Si+NaCl. After 15 days, the consequences of salinity stress and the response of Si addition were analyzed. Scorching of leaf edges and stomatal damages occurred due to salt stress was ameliorated under Si supplementation. Similarly, reduction of gas exchange, photosynthetic pigments, higher lipid peroxidation rate, and accumulation of reactive oxygen species under salinity stress were mitigated in Si treatment. Lesser oxidative stress observed was correlated with the enhanced activity and expression of antioxidant enzymes, such as superoxide dismutase, catalase, and ascorbate peroxidase in Si+NaCl treatment. Importantly, sodium transportation was synergistically restricted with the stimulated counter-uptake of potassium in Si+NaCl treatment. Furthermore, two-dimensional electrophoresis (2-DE) and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) results showed that out of 40 identified proteins, on comparison with control 34 proteins were down-accumulated and six proteins were up-accumulated due to salinity stress. Meanwhile, addition of Si with NaCl treatment enhanced the abundance of 30 proteins and downregulated five proteins. Differentially-expressed proteins were functionally classified into six groups, such as photosynthesis (22%), carbohydrate/energy metabolism (20%), transcription/translation (20%), stress/redox homeostasis (12%), ion binding (13%), and ubiquitination (8%). Hence, the findings reported in this work could facilitate a deeper understanding on potential mechanism(s) adapted by rose due to the exogenous Si supplementation during the salinity stress.</P>
Soundararajan, P.,Manivannan, A.,Ko, C. H.,Jeong, B. R. Springer Science + Business Media 2018 Journal of plant growth regulation Vol.37 No.1
<P>Silicon (Si) is considered one of the most beneficial elements for plant growth and development. Its advantageous effects are visible during abiotic and biotic stresses. In this experiment, the effect of Si on redox homeostasis and protein expression was studied in Rosa hybrida 'Rock Fire.' Acclimatized plantlets were grown hydroponically under salt stress (50 mM NaCl) for 15 days with or without 0 or 1.8 mM of potassium silicate (K2SiO3). Exposure of R. hybrida 'Rock Fire' to salinity restricted root growth. The addition of Si with NaCl significantly improved fresh and dry weights of roots. The presence of Si in the nutrient solution induced the growth of root hairs during both normal and stress conditions. Under salt stress, higher lipid peroxidation and excessive accumulation of reactive oxygen species (ROS) such as superoxide (O-2 (-)) and hydrogen peroxide (H2O2) affect the redox homeostasis potential of plants. However, addition of Si decreased the content of malondialdehyde, O-2 (-), and H2O2. Detoxification of ROS was highly correlated with the enhanced activity and expression of antioxidant enzymes such as superoxide dismutase (SOD), catalase (CAT), ascorbate peroxidase (APX), and guaiacol peroxidase (GPX). In addition, the two-dimensional gel electrophoresis results illustrated the improved abundance of protein on roots to overcome the salinity stress due to the addition of Si. Out of 70 spots identified, 59 proteins [except hypothetical (6%)] were functionally classified into 8 groups such as redox homeostasis/defense (15%), transcription/translation (26%), lipid metabolism (14%), signaling (13%), energy and carbohydrate metabolism (10%), transportation/metal ion-binding (7%), terpene synthesis (3%), and cell-wall regulation (6%). The observed results suggest that the substantial improvement of redox homeostasis by Si could facilitate preventive mechanism(s) to overcome the metabolic disorder emanate under salt stress.</P>
Macromolecular Docking Simulation to Identify Binding Site of FGB1 for Antifungal Compounds
Soundararajan, Prabhakaran,Sakkiah, Sugunadevi,Sivanesan, Iyyakkannu,Lee, Keun-Woo,Jeong, Byoung-Ryong Korean Chemical Society 2011 Bulletin of the Korean Chemical Society Vol.32 No.10
Fusarium oxysporum, an important pathogen that mainly causes vascular or fusarium wilt disease which leads to economic loss. Disruption of gene encoding a heterotrimeric G-protein-${\beta}$-subunit (FGB1), led to decreased intracellular cAMP levels, reduced pathogenicity, colony morphology, and germination. The plant defense protein, Nicotiana alata defensin (NaD1) displays potent antifungal activity against a variety of agronomically important filamentous fungi. In this paper, we performed a molecular modeling and docking studies to find vital amino acids which can interact with various antifungal compounds using Discovery Studio v2.5 and GRAMMX, respectively. The docking results from FGB1-NaD1 and FGB1-antifungal complexes, revealed the vital amino acids such as His64, Trp65, Ser194, Leu195, Gln237, Phe238, Val324 and Asn326, and suggested that the anidulafungin is a the good antifungal compound.The predicted interaction can greatly assist in understanding structural insights for studying the pathogen and host-component interactions.