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| 1 | AFF3-DNA methylation interplay in maintaining the mono-allelic expression pattern of XIST in terminally differentiated cells显示文摘X chromosome inactivation and genomic imprinting are two classic epigenetic regulatory processes that cause mono-allelic gene expression.In female mammals,mono-allelic expression of the long non-coding RNA gene X-inactive specific transcript(XIST)is essential for initiation of X chromosome inactivation upon differentiation.We have previously demonstrated that the central factor of super elongation complex-like 3(SEC-L3),AFF3,is enriched at gamete differentially methylated regions(DMRs)of the imprinted loci and regulates the imprinted gene expression.Here,we found that AFF3 can also bind to the DMR downstream of the XIST promoter.Knockdown of AFF3 leads to de-repression of the inactive allele of X IST in terminally differentiated cells.In addition,the binding of AFF3 to the XIST DMR relies on DNA methylation and also regulates DNA methylation level at DMR region.However,the KAP1-H3K9 methylation machineries,which regulate the imprinted loci,might not play major roles in maintaining the mono-aUelic expression pattern of XIST in these cells.Thus,our results suggest that the differential mechanisms involved in the X IST DMR and gDMR regulation,which both require AFF3 and DNA methylation. | Yue Zhang Chao Wang Xiaoxu Liu Qian Yang Hongliang Ji Mengjun Yang Manman Xu Yunyan Zhou Wei Xie Zhuojuan Luo Chengqi Lin | 2019 | Journal of Molecular Cell Biology2019，11，9： | 3 |
| 2 | Level set-based isogeometric topology optimization for maximizing fundamental eigenfrequency显示文摘Maximizing the fundamental eigenfrequency is an efficient means for vibrating structures to avoid resonance and noises.In this study,we develop an isogeometric analysis(IGA)-based level set model for the fonnulation and solution of topology optimization in cases with maximum eigenfrequency.The proposed method is based on a combination of level set method and IGA technique,which uses the non-uniform rational B-spline(NURBS),description of geometry,to perfonn analysis.The same NURBS is used for geometry representation,but also for IGA-based dynamic analysis and parameterization of the level set surface,that is,the level set function.The method is applied to topology optimization problems of maximizing the fundamental eigenfrequency for a given amount of material.A modal track method,that monitors a single target eigenmode is employed to prevent the exchange of eigenmode order number in eigenfrequency optimization.The validity and efficiency of the proposed method are illustrated by benchmark examples. | Manman XU Shuting WANG Xianda XIE | 2019 | Frontiers of Mechanical Engineering2019，14，2： | 3 |
| 3 | Isogeometric topology optimization based on energy penalization for symmetric structure显示文摘We present an energy penalization method for isogeometric topology optimization using moving morphable components(ITO–MMC),propose an ITO–MMC with an additional bilateral or periodic symmetric constraint for symmetric structures,and then extend the proposed energy penalization method to an ITO–MMC with a symmetric constraint.The energy penalization method can solve the problems of numerical instability and convergence for the ITO–MMC and the ITO–MMC subjected to the structural symmetric constraint with asymmetric loads.Topology optimization problems of asymmetric,bilateral symmetric,and periodic symmetric structures are discussed to validate the effectiveness of the proposed energy penalization approach.Compared with the conventional ITO–MMC,the energy penalization method for the ITO–MMC can improve the convergence rate from 18.6%to 44.5%for the optimization of the asymmetric structure.For the ITO–MMC under a bilateral symmetric constraint,the proposed method can reduce the objective value by 5.6%and obtain a final optimized topology that has a clear boundary with decreased iterations.For the ITO–MMC under a periodic symmetric constraint,the proposed energy penalization method can dramatically reduce the number of iterations and obtain a speedup of more than 2. | Xianda XIE Shuting WANG Ming YE Zhaohui XIA Wei ZHAO Ning JIANG Manman XU | 2020 | Frontiers of Mechanical Engineering2020，15，1： | 3 |
| 4 | Normal Alkane Distributions in Soil Samples along a Lhasa-Bharatpur Transect显示文摘We present n-alkane distributions in the soil samples along a transect from Lhasa on the Tibetan Plateau to Bharatpur in Nepal, which covers a large geographical area and a wide range of climatic conditions. These data allow us to assess the significance of n-alkane distributions in different vegetation types and their relationships to temperature and precipitation. In the tropical rainforest and broadleaved forest zones, n-alkanes exhibit a bimodal distribution pattern with dominant homologues around n-C_(31) and n-C_(23). The bimodal distribution of tropical rainforest n-alkanes may be a general pattern because of the presence of many lianas, epiphytic plants, algae and the strong microbial activity and degradation involved in the postdepositional process. In the warm-temperate mixed forest and needle-leaved forest zones, the long-chain alkanes have a pattern of n-C_(31) > n-C_(33) > n-C_(27). In the alpine shrub and grassland zone, although the most abundant homologue is n-C_(31) , relatively high n-C_(23) concentrations have also been observed in some samples. The statistical results show a good correlation between n-alkane proxies and climatic factors. The average chain length(ACL) values are positively correlated with precipitation and temperature across the transect. The carbon preference index(CPI) values show a negative correlation with temperature and precipitation along a Lhasa–Bharatpur transect. Although there is a positive relationship between ACL and temperature, it is difficult to separate the two climatic variables(temperature and precipitation) because they are well coupled in the monsoon region. | JIA Qiuhuan SUN Qing XIE Manman SHAN Yabing LING Yuan ZHU Qingzeng TIAN Mingzhong | 2016 | Acta Geologica Sinica(English Edition)2016，90，2： | 1 |
| 5 | A FLASH pipeline for arrayed CRISPR library construction and the gene function discovery of rice receptor-like kinases显示文摘Clustered regularly interspaced short palindromic repeats(CRISPR)-CRISPR-associated protein 9(Cas9)-mediated gene editing is revolutionizing plant research and crop breeding.Here,we present an effective and streamlined pipeline for arrayed CRISPR library construction and demonstrate it is suitable for small-to large-scale genome editing in plants.This pipeline introduces artificial PCR fragment-length markers for distinguishing guide RNAs(gRNAs)(FLASH),and a group of 12 constructs harboring different FLASH tags are co-transformed into plants each time.The identities of gRNAs in Agrobacterium mixtures and trans-genic plants can therefore be read out by detecting the FLASH tags,a process that requires only conven-tional PCR and gel electrophoresis rather than sequencing.We generated an arrayed CRISPR library target-ing all 1,072 members of the receptor-like kinase(RLK)family in rice.One-shot transformation generated a mutant population that covers gRNAs targeting 955 RLKs,and 74.3%(710/955)of the target genes had three or more independent T0 lines.Our results indicate that the FLASH tags act as bona fide surrogates for the gRNAs and are tightly(92.1%)associated with frameshift mutations in the target genes.In addition,the FLASH pipeline allows for rapid identification of unintended editing events without corresponding T-DNA integrations and generates high-order mutants of closely related RLK genes.Furthermore,we showed that the RLK mutant library enables rapid discovery of defense-related RLK genes.This study introduces an effective pipeline for arrayed CRISPR library construction and provides genome-wide rice RLK mutant resources for functional genomics. | Kaiyuan Chen Runnan Ke Manman Du Yuqing Yi Yache Chen Xiaochun Wang Lu Yao Hao Liu Xin Hou Lizhong Xiong Yinong Yang Kabin Xie | 2022 | Molecular Plant2022，15，2： | 0 |
| 6 | Advances in airborne microorganisms detection using biosensors:A critical review显示文摘Humanity has been facing the threat of a variety of ifectious diseases.Airborne microorganisms can cause airbome infectious diseases,which spread rapidly and extensively,causing huge losscs to human society on a global scale.In recent years,the detection technology for airbome microorganisms has developed rapidly;it can be roughly divided into biochemical,immune,and molecular technologies.However,these technologies still have some shortcomings;they are time consuming and have low sensitivity and poor stability.Most of them need to be used in the ideal environment of a laboratory,which limits their applications.A biosensor is a device that converts biological signals into detectable signals.As an interdisciplinary feld,biosensors have successfully introduced a variety of technologies for bio-detection.Given their fast analysis speed,high sensitivity good portability,strong specifcity,and low cost,biosensors have been widely uised in cnvironmental monitoring,medical research,food and agricultural safety,military.medicine and other fields.In recent years,the performance of biosensors has greatly improved,becoming.a promising techmology for airborne microorganism detection.This review introduces the detection principle of biosensors from the three aspects of component identification,energy conversion principle,and signal amplification.It also summarizes its research and application in airborne microorganism detection.The new progress and future development trend of the biosensor detection of airbormne microorganisms are analyzed. | Jinbiao Ma Manman Du Can Wang Xinwu Xie Hao Wang Qian Zhang | 2021 | Frontiers of Environmental Science & Engineering2021，15，3： | 0 |
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