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C57BL/6 and dBA/1 Mice differ in Their Response to Supplementation with 1,25d and Paricalcitol

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Biomedical and Environmental Sciences 2018年第8期31卷 613-618页

作者： Aline Parisoto Missio Thais Fernanda de Campos Fraga-Silva Larissa Lumi Watanabe Ishikawa Luiza Ayumi Nishiyama Mimura Thais Graziela donega Franga Larissa Ragozo Cardoso de Oliveira Alexandrina Sartori Sofia Femanda Goncalves Zorzella-Pezavento department of Microbiology and Immunology Sao Paulo State University(UNESP)Institute of BiosciencesBotucatuSao PauloBrazil

Active vitamin d (1,25d) is a fat-soluble vitamin that is mainly produced in the skin by the conversion of 7-dehydrocholesterol under ultraviolet light *** role in calcium homeostasis,bone growth, and prevention of ri... 详细信息

关键词： dBA BL C57BL/6 and dBA/1 Mice differ in Their Response to Supplementation with 1,25d and Paricalcitol

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A computational approach to explore the functional missense mutations in the spindle check point protein Mad1

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Frontiers in Biology 2013年第6期8卷 618-625页

作者： Merlin LOPUS Rao SETHUMAdHAVAN P. CHANdRASEKARAN K. SREEVISHNUPRIYA A.W. VARSHA V. SHANTHI K. RAMANATHAN R. RAJASEKARAN Bioinformatics division School of Biosciences and Technology Vellore Institute of Technology Vellore 632014 Tamil Nadu India Industrial Biotechnology division School of Biosciences and Technology Vellore Institute of Technology Vellore 632014 Tamil Nadu India

In this work, the most detrimental missense mutations of Madl protein that cause various types of cancer were identified computationally and the substrate binding efficiencies of those missense mutations were analyzed. Out of 13 missense mutations, I Mutant 2.0, SIFT and PolyPhen programs identified 3 variants that were less stable, deleterious and damaging respectively. Subsequently, modeling of these 3 variants was performed to understand the change in their conformations with respect to the native Madl by computing their root mean squared deviation （RMSd）. Furthermore, the native protein and the 3 mutants were docked with the binding partner Mad2 to explain the substrate binding efficiencies of those detrimental missense mutations. The docking studies identified that all the 3 mutants caused lower binding affinity for Mad2 than the native protein. Finally, normal mode analysis determined that the loss of binding affinity of these 3 mutants was caused by altered flexibility in the amino acids that bind to Mad2 compared with the native protein. Thus, the present study showed that majority of the substrate binding amino acids in those 3 mutants displayed loss of flexibility, which could be the theoretical explanation of decreased binding affinity between the mutant Madl and Mad2.

关键词： missense mutation Madl Mad2 spindle check point cancer

Potential of molecular chaperones for treating Alzheimer’s disease

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Neural Regeneration Research 2024年第11期19卷 2343-2344页

作者： Gefei Chen Jan Johansson department of biosciences and Nutrition Karolinska InstitutetHuddingeSweden department of Cell and Molecular Biology Uppsala UniversityUppsalaSweden

Alzheimer’s disease(Ad)is the most prevalent form of dementia,i.e.,progressive memory loss and profound cognitive dysfunction,resulting in a considerable societal *** the neuropathological level,the brains of Ad patients exhibit amyloid-β(Aβ)plaques,neurofibrillary tangles,and neuroinflammation(Sala Frigerio and de Strooper,2016).

关键词： Alzheimer inflammation Aβ

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Study of Bacillus subtilis on growth performance, nutrition metabolism and intestinal microflora of 1 to 42 d broiler chickens

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Animal Nutrition 2017年第2期3卷 109-113页

作者： Zhenhua Gao Haohao Wu Lin Shi Xiaohui Zhang Ran Sheng Fuquan Yin Ravi Gooneratne College of Agriculture Guangdong Ocean University department of Wine.Food and Molecular biosciences Lincoln University

To study the influence of different levels of Bacillus subtilis on growth performance, nutrition metabolism and intestinal microflora of 1 to 42 d Arbor Acres(AA) broilers, a total of 800 one-day-old healthy broilers were randomly divided into 5 groups with 4 replicates per group and 40 broilers per replicate. Broilers were fed a basic diet(group 1) which acted as the control group, and 4 other groups(2 to 5) were fed the basal diet with B. subtilis added at concentrations of 100, 150, 200 and 250 mg/kg, respectively for 42 days. The results showed as follow: the average daily gain(AdG) of group 4 was significantly higher than(P d the average daily feed intake(AdFI) of group 5 was the highest but the differences between groups were not significant(P > 0.05). The feed to gain ratio(F/G) of all the experimental groups was lower than that of the control and the difference was significant in group 4(P ddition, supplementation of B. subtilis increased the apparent metabolism of crude protein(P > 0.05), crude fat(P > 0.05), dry matter(P > 0.05) and organic matter(P decreased the Escherichia coli and Salmonella populations in the cecum. This shows that adding B. subtilis to the broiler diet can improve the growth performance, increase feed efficiency, regulate serum index and reduce harmful bacteria in the intestinal tract. Based on our study, it could be recommended that addition of B. subtilis at 200 mg/kg could improve the growth performance of broilers.

关键词： Bacillus subtilis AA broilers Growth performance Intestinal microflora

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Media optimization for extracellular amylase production by Pseudomonas balearica vitps19 using response surface methodology

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Frontiers in Biology 2018年第2期13卷 123-129页

作者： Moni Philip Jacob Kizhakedathil Subathra devi Chandrasekaran department of Biotechnology School of Biosciences and Technology VIT University Vellore -632014 Tamil Nadu India

BACKGROUNd： In this study, we optimized the process for enhancing amylase production from Pseudomonas balearica VITPS 19 isolated from agricultural lands in Kolathur, India. METHOdS： Process optimization for enhancing amylase production from the isolate was carried out by Response Surface Methodology （RSM） with optimized chemical and physical sources using design expert v.7.0. A central composite design was used to evaluate the interaction between parameters. Interaction between four factors - maltose （C-source）, malt extract （N- source）, pH, and CaCl2 was studied. RESULTS： The factors pH and CaCl2 concentration were found to affect amylase production. Validation of the experiment showed a nearly twofold increase in alpha amylase production. CONCLUSION： Amylase production was thus optimized and increased yield was achieved.

关键词： Pseudomonas balearica VITPS19 alpha amylase optimization response surface methodology central composite design pH

Machine learning for enumeration of cell colony forming units

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Visual Computing for Industry,Biomedicine,and Art 2022年第1期5卷 315-322页

作者： Louis Zhang department of Molecular biosciences College of Natural SciencesUniversity of Texas at AustinAustin TX 78713-8058USA

As one of the most widely used assays in biological research,an enumeration of the bacterial cell colonies is an important but time-consuming and labor-intensive *** speed up the colony counting,a machine learning method is presented for counting the colony forming units(CFUs),which is referred to as *** cellcounting program processes digital images and segments bacterial *** algorithm combines unsupervised machine learning,iterative adaptive thresholding,and local-minima-based watershed segmentation to enable an accurate and robust cell *** to a manual counting method,CFUCounter supports color-based CFU classification,allows plates containing heterologous colonies to be counted individually,and demonstrates overall performance(slope 0.996,Sd 0.013,95%CI:0.97–1.02,p valuedistinguishable from the gold standard of point-and-click *** CFUCounter application is open-source and easy to use as a unique addition to the arsenal of colony-counting tools.

关键词： Colony forming unit Enumeration Image analysis Blue/white screen Colony count

Identification of Potential Species <i>Croton bonplandianum</i>, Sedges and <i>Balanitis aegyptiaca</i>for the Application of Phytoremediation

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American Journal of Plant Sciences 2013年第6期4卷 1246-1251页

作者： Pritesh Parmar Bhaumik dave Ketankumar Panchal R. B. Subramanian B R d School of biosciences Sardar Patel University Vallabh Vidya India.

Heavy metal contamination to the environment is a serious problem in the developing countries due to anthropogenic activities, a threat needs to remediate to sustain the life on earth, technology includes use of microorganisms and different plant species. In consideration of biomass, phytoremediation is a very useful techniques above all, can be exploit by identification of hyperaccumulator, which accumulates the heavy metal under metal stress condition. In view of constraints of efficient plant species in present study thirty seven different plant species were screened for the identification of heavy metal accumulators. Croton bonplandianum, sedges and Balanites aegyptiaca amongst the all exhibit superior potential of heavy metal accumulation. This is the first report to unravel the heavy metal accumulation property of three different plant species which can be exploited for the bioremediation of heavy metals.

关键词： Balanitis aegyptiaca Croton bonplandianum Hyperaccumulator Phytoremediation Screening Sedges

Selection of effective and highly thermostable Bacillus subtilis lipase A template as an industrial biocatalyst-A modern computational approach

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Frontiers in Biology 2015年第6期10卷 508-519页

作者： B. Senthilkumar d. Meshachpaul Rao Sethumadhavan R. Rajasekaran School of biosciences and Technology Bioinformatics Division VIT University Vellore 632014 Tamil Nadu India

Biocatalysts are intrinsically reactive and hence their operational stability is of vital significance for any bioprocess. The setback in biocatalyst stability has been tackled from diverse prospects. Inherently, stable biocatalysts are markedly realized and a regular attempt is being made to seek out new organisms that harbor them. Here, we analyzed the industrial biocatalyst lipase A （Native） of Bacillus subtilis and its six thermostable mutants （2M, 3M, 4M, 6M, 9M and 12M） computationally using conformational sampling technique. Consequently, the various structural events deciphering thermostability like root mean square deviation, root mean square fluctuation, radius of gyration and polar surface area showed mutant 12M to be highly stable with statistical validation. Besides, static model analysis involving intra-molecular interactions, secondary structure, solvent accessibility, hydrogen bond pattern, simulated thermal denaturation and desolvation energy also supported 12M comparatively. Of note, the presence of high secondary structural rigidity and hydrogen bonds increased thermostability and functionality of 12M, thus selecting it as a best template for designing thermostable lipases in future. Also, this study has a significant implication toward a better understanding of conformational sampling in enzyme catalysis and enzyme engineering.

关键词： thermophilic Bacillus subtilis lipase A conformational analysis docking

dNA-directed assembly of copper nanoblocks with inbuilt fluorescent and electrochemical properties： Application in simultaneous amplification-free analysis of multiple RNA species

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nano Research 2018年第2期11卷 940-952页

作者： Kevin M. Koo Laura G. Carrascosa Matt Trau Centre for Personalized nanomedicine Australian Institute for Bioengineering and Nanotechnology (AIBN) The University of Queensland Brisbane Australia School of Chemistry and Molecular biosciences The University of Queensland Brisbane Australia

The intrinsic affinity of dNA molecules toward metallic ions can drive the specific formation of copper nanostructures within the nucleic acid helix structure in a sequence-dependent manner. The resultant nanostructures have interesting fluorescent and electrochemical properties, which are attractive for novel biosensing applications. However, the potential of using dNA-templated nano- structures for precision disease diagnosis remains unexplored. Particularly, dNA- templated nanostructures show high potential for the universal amplification-free detection of different RNA biomarker species. Because of their low cellular levels and differing species-dependent length and sequence features, simultaneous detection of different messenger RNAs, microRNAs, and long non-coding RNAs species with a single technique is challenging. Here, we report a contemporary technique for facile in situ assembly of dNA-templated copper nanoblocks （CuNBs） on various RNA species targets after hybridization-based magnetic isolation. Our approach circumvents the typical limitations associated with amplification and labeling procedures of current RNA assays. The synthesized CuNBs enabled amplification-free fM-level RNA detection with flexible fluorescence or electrochemical readouts. Furthermore, our nanosensing technique displays potential for clinical application, as demonstrated by non-invasive analysis of three diagnostic RNA biomarkers from a cohort of 10 prostate cancer patient urinary samples with 100%-concordance （quantitative reverse transcription- polymerase chain reaction （PCR） validation）. The good analytical performance and versatility of our method may be useful in both diagnostics and research fields.

关键词： prostate cancer RNA detection dNA-templated coppernanostTuctures amplification-free fluorescence detection electrochemical detection