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Search Results: 1 - 10 of 18513 matches for " Zhaohua Peng "
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ARR5 and ARR6 Mediate Tissue Specific Cross-talk between Auxin and Cytokinin in Arabidopsis  [PDF]
Aparna Kakani, Zhaohua Peng
American Journal of Plant Sciences (AJPS) , 2011, DOI: 10.4236/ajps.2011.24065
Abstract: Auxin and cytokinin interaction plays an essential role in a wide range of plant growth and developmental processes. The interaction consequence of the two hormones is highly tissue specific. The molecular mechanisms underlying the tissue specificity are largely unknown. Here we show that the cytokinin signaling pathway key components ARR5 and ARR6 respond to auxin with a highly tissue specific and contrasted pattern in Arabidopsis seedlings and calli in the presence of cytokinin. Our results suggest that the two highly homologous but functionally distinct genes, ARR5 and ARR6, play a critical role in mediating tissue specific interaction between auxin and cytokinin.
Plant Long ncRNAs: A New Frontier for Gene Regulatory Control  [PDF]
Jian Zhang, Hana Mujahid, Yuxuan Hou, Babi R. Nallamilli, Zhaohua Peng
American Journal of Plant Sciences (AJPS) , 2013, DOI: 10.4236/ajps.2013.45128

Long non-coding RNA (lncRNA) refers to an over 200 nt functional RNA molecule that will not be translated into protein. Previously thought to be dark matters of the genome, lncRNAs have been gradually recognized as crucial gene regulators. Although tremendous progress has been made in animals and human, the study of lncRNAs in plant is still in its infancy. Here, we reviewed the biogenesis and regulation mechanisms of lncRNAs and summarized the achievements that have been made in plant lncRNA identification and functional characterization. Genome-wide identification has uncovered large amount of lncRNAs in Arabidopsis, Rice, Maize and Wheat, and more information from other plant species will be expected with the aid of deep sequencing technologies. Similar to other species, LncRNA-mediated gene regulation also widely exists in plants, even though only a few functionally characterized examples are available. Up to now, at least four divergent lncRNA-mediated regulation mechanisms have been unraveled, including target mimicry, transcription interference, PRC2 associated histone methylation and DNA methylation. lncRNAs may be involved in the regulation of flowering, male sterility, nutrition metabolism, biotic and abiotic stress response in plants.

A Rapid and Simple Quantitative Method for the Active Ingredients of Aescin in the Extraction Process Using Near Infrared Spectroscopy  [PDF]
Haichi Li, Jinfang Ma, Huanfen Xu, Yin Peng, Huazhuang Jiang, Zhaohua Shi, Fahuan Ge
American Journal of Analytical Chemistry (AJAC) , 2018, DOI: 10.4236/ajac.2018.910037
Abstract: To achieve a rapid and simple detection for the active ingredients of Aescin in the extraction process using near-infrared spectroscopy (NIR) and to realize the state monitoring and quality control of the extraction process. Partial least square regression (PLS) was applied to build the near-infrared calibration models, and the applicability of the model was investigated by predicting the unknown samples in the extraction process. The correlation coefficients of the established Aescin models (A, B, C, D) were 0.9836, 0.9831, 0.9833, 0.9824, and the prediction standard deviations (SEP) were 0.05636, 0.05043, 0.02412, 0.05636, respectively. This study suggests that the proposed model has superior stability and accuracy. NIR spectroscopy technique provides a novel efficient and environmentally friendly approach to the rapid determination of four Aescin key quality indicators (A, B, C, D) in the extraction, which was solved the problem that the lack of state monitoring during the extraction of Aescin, thereby improved the quality of Aescin.
Comparison of Four ChIP-Seq Analytical Algorithms Using Rice Endosperm H3K27 Trimethylation Profiling Data
Brandon M. Malone,Feng Tan,Susan M. Bridges,Zhaohua Peng
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0025260
Abstract: Chromatin immunoprecipitation coupled with high throughput DNA Sequencing (ChIP-Seq) has emerged as a powerful tool for genome wide profiling of the binding sites of proteins associated with DNA such as histones and transcription factors. However, no peak calling program has gained consensus acceptance by the scientific community as the preferred tool for ChIP-Seq data analysis. Analyzing the large data sets generated by ChIP-Seq studies remains highly challenging for most molecular biology laboratories.
Coordinating the Assembly System Based on Compensation Mechanism Under Supply Disruption
Guo Li,Bingzong Peng,Tao Gao,Zhaohua Wang
Information Technology Journal , 2011,
Abstract: A well-coordinated assembly system plays an important role in an enterprises strategic management. As the uncertainty of the supply chain is increasing, coordinating the assembly system effectively under supply disruption becomes a critical success factor for a global supply chain system. In this study, we consider an assembly system with two suppliers and one manufacturer and formulate the model of each partner with bonus policy under supply disruption. The optimal decision of each partner is analyzed under decentralized decision. Then we optimize the total cost of assembly system under centralized decision which is regarded as the benchmark. Furthermore, to achieve this benchmark, the compensation mechanism is designed to coordinate the assembly system under supply disruption. At last, the sensitivity is analyzed and the numerical analysis shows that our compensation mechanism is reasonable and effective.
Thermocapillary migration and interactions of two nondeformable droplets
Zhaohua Yin,Lei Chang,Wenrui Hu,Peng Gao
Physics , 2011,
Abstract: A numerical study on interactions of two spherical drops in thermocapillary migration in microgravity is presented. Finite-difference methods were adopted and the interfaces of drops were captured by the front-tracking technique. It is found that the arrangement of drops directly influences their migrations and interaction, and that the motion of one drop is mainly determined by the disturbed temperature field because of the existence of the other drop.
Polycomb Group Gene OsFIE2 Regulates Rice (Oryza sativa) Seed Development and Grain Filling via a Mechanism Distinct from Arabidopsis
Babi Ramesh Reddy Nallamilli,Jian Zhang,Hana Mujahid,Brandon M. Malone,Susan M. Bridges,Zhaohua Peng
PLOS Genetics , 2013, DOI: 10.1371/journal.pgen.1003322
Abstract: Cereal endosperm represents 60% of the calories consumed by human beings worldwide. In addition, cereals also serve as the primary feedstock for livestock. However, the regulatory mechanism of cereal endosperm and seed development is largely unknown. Polycomb complex has been shown to play a key role in the regulation of endosperm development in Arabidopsis, but its role in cereal endosperm development remains obscure. Additionally, the enzyme activities of the polycomb complexes have not been demonstrated in plants. Here we purified the rice OsFIE2-polycomb complex using tandem affinity purification and demonstrated its specific H3 methyltransferase activity. We found that the OsFIE2 gene product was responsible for H3K27me3 production specifically in vivo. Genetic studies showed that a reduction of OsFIE2 expression led to smaller seeds, partially filled seeds, and partial loss of seed dormancy. Gene expression and proteomics analyses found that the starch synthesis rate limiting step enzyme and multiple storage proteins are down-regulated in OsFIE2 reduction lines. Genome wide ChIP–Seq data analysis shows that H3K27me3 is associated with many genes in the young seeds. The H3K27me3 modification and gene expression in a key helix-loop-helix transcription factor is shown to be regulated by OsFIE2. Our results suggest that OsFIE2-polycomb complex positively regulates rice endosperm development and grain filling via a mechanism highly different from that in Arabidopsis.
Diminishing Returns from Increased Percent Bt Cotton: The Case of Pink Bollworm
Yunxin Huang, Peng Wan, Huannan Zhang, Minsong Huang, Zhaohua Li, Fred Gould
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0068573
Abstract: Regional suppression of pests by transgenic crops producing insecticidal proteins from Bacillus thuringiensis (Bt) has been reported in several cropping systems, but little is known about the functional relationship between the ultimate pest population density and the pervasiveness of Bt crops. Here we address this issue by analyzing 16 years of field data on pink bollworm (Pectinophora gossypiella) population density and percentage of Bt cotton in the Yangtze River Valley of China. In this region, the percentage of cotton hectares planted with Bt cotton increased from 9% in 2000 to 94% in 2009 and 2010. We find that as the percent Bt cotton increased over the years, the cross-year growth rate of pink bollworm from the last generation of one year to the first generation of the next year decreased. However, as the percent Bt cotton increased, the within-year growth rate of pink bollworm from the first to last generation of the same year increased, with a slope approximately opposite to that of the cross-year rates. As a result, we did not find a statistically significant decline in the annual growth rate of pink bollworm as the percent Bt cotton increased over time. Consistent with the data, our modeling analyses predict that the regional average density of pink bollworm declines as the percent Bt cotton increases, but the higher the percent Bt cotton, the slower the decline in pest density. Specifically, we find that 95% Bt cotton is predicted to cause only 3% more reduction in larval density than 80% Bt cotton. The results here suggest that density dependence can act against the decline in pest density and diminish the net effects of Bt cotton on suppression of pink bollworm in the study region. The findings call for more studies of the interactions between pest density-dependence and Bt crops.
Numerical blowup in two-dimensional Boussinesq equations
Zhaohua Yin
Physics , 2009,
Abstract: In this paper, we perform a three-stage numerical relay to investigate the finite time singularity in the two-dimensional Boussinesq approximation equations. The initial asymmetric condition is the middle-stage output of a $2048^2$ run, the highest resolution in our study is $40960^2$, and some signals of numerical blowup are observed.
A Hermite pseudospectral solver for two-dimensional incompressible flows on infinite domains
Zhaohua Yin
Physics , 2013, DOI: 10.1016/j.jcp.2013.10.039
Abstract: The Hermite pseudospectral method is applied to solve the Navier-Stokes equations on a two-dimensional infinite domain. The feature of Hermite function allows us to adopt larger time steps than other spectral methods, but also leads to some extra computation when the stream-function is calculated from the vorticity field. The scaling factor is employed to increase the resolution within the region of our main interest, and the aliasing error is fully removed by the 2/3-$rule$. Several traditional numerical experiments are performed with high accuracy, and some related future work on physical applications of this program is also discussed.
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