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Harini Ramalingam Sonu Kashyap Patricia Cobo-Stark Andrea Flaten Chun-Mien Chang Sachin Hajarnis Kyaw Zaw Hein Jorgo Lika Gina M. Warner Jair M. Espindola-Netto Ashwani Kumar Mohammed Kanchwala Chao Xing Eduardo N. Chini Vishal Patel 《Cell metabolism》2021,33(6):1234-1247.e7
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Sachin Teotia Xiaoran Wang Na Zhou Mengmeng Wang Haiping Liu Jun Qin Dianwei Han Chingwen Li Christine E. Li Shangjin Pan Haifeng Tang Wenjun Kang Zhanhui Zhang Xiaoqing Tang Ting Peng Guiliang Tang 《Plant biotechnology journal》2023,21(9):1799-1811
MicroRNAs (miRNAs) are small non-coding RNA molecules that play a crucial role in gene regulation. They are produced through an enzyme-guided process called dicing and have an asymmetrical structure with two nucleotide overhangs at the 3′ ends. Artificial microRNAs (amiRNAs or amiRs) are designed to mimic the structure of miRNAs and can be used to silence specific genes of interest. Traditionally, amiRNAs are designed based on an endogenous miRNA precursor with certain mismatches at specific positions to increase their efficiency. In this study, the authors modified the highly expressed miR168a in Arabidopsis thaliana by replacing the single miR168 stem-loop/duplex with tandem asymmetrical amiRNA duplexes that follow the statistical rules of miRNA secondary structures. These tandem amiRNA duplexes, called “two-hit” amiRNAs, were shown to have a higher efficiency in silencing GFP and endogenous PDS reporter genes compared to traditional “one-hit” amiRNAs. The authors also demonstrated the effectiveness of “two-hit” amiRNAs in silencing genes involved in miRNA, tasiRNA, and hormone signalling pathways, individually or in families. Importantly, “two-hit” amiRNAs were also able to over-express endogenous miRNAs for their functions. The authors compare “two-hit” amiRNA technology with CRISPR/Cas9 and provide a web-based amiRNA designer for easy design and wide application in plants and even animals. 相似文献
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Sudeep Bose Surajit Ganguly Sachin Kumar Fredric R. Boockfor 《Neurochemical research》2016,41(6):1390-1400
Recent evidence reveals that prolactin gene expression (PRL-GE) in mammotropes occurs in pulses, but the molecular process(es) underlying this phenomenon remains unclear. Earlier, we have identified an E-box (E-box133) in the rat PRL promoter that binds several circadian elements and is critical for this dynamic process. Preliminary analysis revealed a Pit-1 binding site (P2) located immediately adjacent to this E-box133 raising the possibility that some type of functional relationship may exist between these two promoter regions. In this study, using serum shocked GH3 cell culture system to synchronize PRL-GE activity, we determined that Pit-1 gene expression occurred in pulses with time phases similar to that for PRL. Interestingly, EMSA analysis not only confirmed Pit-1 binding to the P2 site, but also revealed an interaction with factor(s) binding to the adjacent E-box133 promoter element. Additionally, down-regulation of Pit-1 by siRNA reduced PRL levels during pulse periods. Thus, using multiple evidences, our results demonstrate clearly that the Pit-1 P2 site is necessary for PRL-GE elaboration. Furthermore, the proximity of this critical Pit-1 binding site (P2) and the E-box133 element coupled with the evidences of a site-to-site protein interactions suggest that the process of PRL-GE pulse activity might involve more dynamic and intricate cross-talks between promoter elements that may span some, or all, of the proximal region of the PRL promoter in driving its pulsatile expression. 相似文献
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Sachin Gupta 《人类与生态风险评估》2020,26(3):843-858
AbstractAgriculture crop residue burning is a serious issue in Northern India due to ineffective control policies. An epidemiological study has been done on school going children to evaluate the trends in their physiological parameters due to crop residue burning activity in the affected area. Total 600 children were recruited and continuously inspected for three years at three different sites. Season wise, the level of fine particulate matter (PM10 and PM2.5) was higher in rice crop residue burning seasons than in wheat crop residue burning seasons. As per dose–response relationship, maximum degradation was observed in FVC (?7.62%) and PEF (?6.23%) parameters from their baseline values due to burning activities. With adjustment of socioeconomic, anthropometric parameters of selected subjects and meteorological parameters in multivariate mixed effect model, prediction equations have been purposed to observe the future trends in physiological parameters of children. Based on Tiffenue index, an unrecoverable effect has been observed in lung parameters. Trends were alarming and may cause serious complications in early age of human subjects. 相似文献
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Sachin S. Talathi Dong-Uk Hwang Paul R. Carney William L. Ditto 《Journal of computational neuroscience》2010,28(2):305-321
Recent experiments have shown that GABAA receptor mediated inhibition in adult hippocampus is shunting rather than hyperpolarizing. Simulation studies of realistic
interneuron networks with strong shunting inhibition have been demonstrated to exhibit robust gamma band (20–80 Hz) synchrony
in the presence of heterogeneity in the intrinsic firing rates of individual neurons in the network. In order to begin to
understand how shunting can contribute to network synchrony in the presence of heterogeneity, we develop a general theoretical
framework using spike time response curves (STRC’s) to study patterns of synchrony in a simple network of two unidirectionally
coupled interneurons (UCI network) interacting through a shunting synapse in the presence of heterogeneity. We derive an approximate
discrete map to analyze the dynamics of synchronous states in the UCI network by taking into account the nonlinear contributions
of the higher order STRC terms. We show how the approximate discrete map can be used to successfully predict the domain of
synchronous 1:1 phase locked state in the UCI network. The discrete map also allows us to determine the conditions under which
the two interneurons can exhibit in-phase synchrony. We conclude by demonstrating how the information from the study of the
discrete map for the dynamics of the UCI network can give us valuable insight into the degree of synchrony in a larger feed-forward
network of heterogeneous interneurons. 相似文献
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Sachin Gursahani Richard T. Schoephoerster M. Prabhakaran 《Journal of biomolecular structure & dynamics》2013,31(3):329-338
Abstract Electron transfer between heme proteins with mediators plays an important role in the fabrication of sensitive bio-nano sensors. Heme protein Cytochrome c (pdb code—1HRC) was chosen as the mediator with Cytochrome c′ (pdb code—1A7V) as the probe protein for our investigation on the electron transfer process. We used the software GRAMM, HEX, and MACRODOX to build the protein complex with further evaluation by GROMACS potential. After molecular mechanics refinement by GROMACS the protein complexes were evaluated in terms of the following criteria: Hydrophobic packing, proximity of the hemes, hydrogen bonds, enthalpy and entropy of binding. The free energy was calculated for each complex to derive the feasible stable models. The combined electron transport of the chosen geometric models was evaluated to choose the possible models. Electrostatic potential was calculated using the program APBS around the heme in the presence and absence of other proteins. From our studies, we derived multiple feasible models and possible electronic path. These studies helped us to understand the relay mechanism between the two proteins and to design mutant proteins by rational site directed mutagenesis to enhance the redox potential and thereby improving the signal to noise ratio in amperometric bionano sensors. 相似文献
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