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A CRISPR/RfxC as13d-mediated strategy for efficient RNA knockdown in mouse embryonic development

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Science China Life Sciences 2024年

作者： Lin Zhang Shi-Meng Cao Hao Wu Meng Yan Jinsong Li ling-ling chen State Key Laboratory of Cell Biology Shanghai Key Laboratory of Molecular Andrology Shanghai Institute of Biochemistry and Cell Biology Center for Excellence in Molecular Cell Science Chinese Academy of Sciences University of Chinese Academy of Sciences Key Laboratory of RNA Innovation Science and Engineering CAS Center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell Biology University of Chinese Academy of Sciences Chinese Academy of Sciences Key Laboratory of Systems Health Science of Zhejiang Province School of Life Science Hangzhou Institute for Advanced Study University of Chinese Academy of Sciences School of Life Science and Technology ShanghaiTech University New Cornerstone Science Laboratory Shenzhen

The growing variety of RNA classes, such as mRNAs, lncRNAs, and circRNAs, plays pivotal roles in both developmental processes and various pathophysiological conditions. Nonetheless, our comprehension of RNA functions in live organisms remains limited due to the absence of durable and effective strategies for directly influencing RNA levels. In this study, we combined the CRISPR-RfxCas13d system with spermlike stem cell-mediated semi-cloning techniques, which enabled the suppressed expression of different RNA species. This approach was employed to interfere with the expression of three types of RNA molecules: Sfmbt2 mRNA, Fendrr lncRNA, and circMan1a2(2,3,4,5,6). The results confirmed the critical roles of these RNAs in embryonic development, as their loss led to observable phenotypes, including embryonic lethality, delayed embryonic development, and embryo resorption. In summary, our methodology offers a potent toolkit for silencing specific RNA targets in living organisms without introducing genetic alterations.

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Factors influencing willingness to participate in ophthalmic clinical trials and strategies for effective recruitment

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International Journal of Ophthalmology(English edition) 2024年第1期17卷 157-163页

作者： Jia-En Liang Meng-Yin Liang En-En Zhang Yu-Ying Peng ling-ling chen Jia-Yu Deng Ting Lin Jun Fu Jia-Ni Zhang Shao-Li Li Fei Li Hui-Ming Xaio Wen-Min Huang Yu-Hong Liu State Key Laboratory of Ophthalmology Zhongshan Ophthalmic CenterSun Yat-sen UniversityGuangdong Provincial Key Laboratory of Ophthalmology and Visual ScienceGuangdong Provincial Clinical Research Center for Ocular DiseasesGuangzhou 510060Guangdong ProvinceChina

AIM:To explore the factors influencing individuals’willingness to participate in ophthalmic clinical ***:A questionnaire survey was conducted from January to April 2021 among patients and their family members at Zhongshan Ophthalmic Center,Sun Yat-sen University,in Guangzhou,*** survey gathered data on respondents’willingness,demographic and socioeconomic profiles,as well as their reasons and concerns regarding engagement in clinical ***:Of the 1078 residents surveyed(mean age 31.2±13.1y;65.8%females)in Guangzhou,749(69.5%)expressed a willingness to participate in future ophthalmic clinical *** characteristics associated with greater willingness included a younger age,lower annual income,higher education,prior participation experience,previous ophthalmic treatment,and a better understanding of clinical *** the exception of age,these characteristics were significantly linked to a higher *** primary barrier to participation,expressed by 64.8%of those willing and 54.4%of those unwilling,was“Uncertain efficacy”.In terms of motivations,the willing group ranked“Better therapeutic benefits”(35.0%),“Professional monitoring”(34.3%),and“Trust in healthcare professionals”(33.1%)as their top three reasons,whereas the unwilling participants indicated“Full comprehension of the protocol”(46.2%)as the key ***:This study reveals a substantial willingness to participate in ophthalmic clinical trials and demonstrates the predictive role of demographic and socioeconomic *** in motivators and concerns between willing and unwilling participants highlight the significance of tailored recruitment ***,the need for and trust in healthcare professionals stand out as powerful motivations,underscoring the importance of enhancing physician-patient relationships,adopting patient-centered communication approaches,and addressing individualized needs to improve accrual rates.

关键词： participation willingness recruitment strategy ophthalmic clinical trial

Dysregulation of circular RNAs in inflammation and cancers

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Fundamental Research 2023年第5期3卷 683-691页

作者： Jiayu Liu Fangqing Zhao ling-ling chen Shicheng Su Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation Medical Research CenterSun Yat-Sen Memorial HospitalSun Yat-Sen UniversityGuangzhou 510120China Breast Tumor Center Sun Yat-Sen Memorial HospitalSun Yat-Sen UniversityGuangzhou 510120China Beijing Institutes of Life Science Chinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Center for Excellence in Animal Evolution and Genetics Chinese Academy of SciencesKunming 650223China State Key Laboratory of Molecular Biology Shanghai Key Laboratory of Molecular AndrologyCAS Center for Excellence in Molecular Cell ScienceShanghai Institute of Biochemistry and Cell BiologyChinese Academy of SciencesShanghai 200031China School of Life Science and Technology ShanghaiTech UniversityShanghai 200092China School of Life Science Hangzhou Institute for Advanced StudyUniversity of Chinese Academy of SciencesChinese Academy of SciencesHangzhou 310003China Department of Immunology Zhongshan School of MedicineSun Yat-Sen UniversityGuangzhou 510080China

Emerging lines of evidence have shown that the production of the covalently closed single-stranded circular RNAs is not splicing errors,but rather a regulated process with distinct biogenesis and *** RNAs are expressed in a cell type-and tissue-specific manner and often localize to specific subcellular regions or organelles for *** dysregulation of circular RNAs from birth to death is linked to the pathogenesis and progression of diverse *** review outlines how aberrant circular RNA biogenesis,subcellular location,and degradation are linked to disease progression,focusing on metaflammation and *** also discuss potential therapeutic strategies and obstacles in targeting such disease-related circular RNAs.

关键词： Circular RNA Metaflammation Biogenesis Degradation Subcellular localization

Evaluation of 3D crustal seismic velocity models in southwest China:Model performance,limitation,and prospects

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Science China Earth Sciences 2024年第2期67卷 604-619页

作者： Xin WANG ling chen Qi-Fu chen Key Laboratory of Earth and Planetary Physics Institute of Geology and GeophysicsChinese Academy of SciencesBeijing100029China College of Earth and Planetary Sciences University of Chinese Academy of SciencesBeijing100049China State Key Laboratory of Lithospheric Evolution Institute of Geology and GeophysicsChinese Academy of SciencesBeijing100029China

Southwest China is a tectonically and seismically active region,witnessing strong deformation due to the collision between the Indian and Eurasian *** the subsurface velocity structure of this region is thus important in understanding the tectonics and geodynamic processes of continental collision and in mitigating seismic *** studies have provided various 3D seismic velocity models in southwest ***,discrepancies exist among these models,and less effort has been made to quantify the reliability and accuracy of these existing velocity *** this study,we use regional 3D waveform simulation to evaluate the performance of various regional crustal 3D velocity models in reproducing observed *** particularly focus on two recent earthquake sequence in the region,the 2021 Yunnan Yangbi MS_(6.4) earthquake sequence and the 2022 Sichuan Luding MS_(6.8) earthquake *** tested 3D velocity models include the Southwest China Community Velocity model V1.0,the Unified Seismic Tomography Models for Continental China Lithosphere V2.0,the adjoint full waveform tomography model of the crustal and upper mantle beneath Eastern Tibetan Plateau,and the shallow seismic structure model beneath continental *** results show that the tested 3D velocity models generally capture well long-period(<0.2 Hz)waveforms,indicating that the 3D models adequately resolve overall large-scale subsurface ***,the 3D synthetics show discrepancies in higher frequencies(0.05–0.3 Hz)and the performance of the 3D velocity models varies from region to region,suggesting that smaller scale heterogeneities are not well *** shallow velocity structures(<10 km)can improve the waveform fitting,emphasizing the importance of incorporating shallow structures in waveform *** full-waveform tomography model shows a slighter better performance than the other models,especially for the body-waves,highlighting the advantages

关键词： Southwest China Seismic tomography models Shallow Structures Waveform simulation Model evaluation

MaizeNetome:A multi-omics network database for functional genomics in maize

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Molecular Plant 2023年第8期16卷 1229-1231页

作者： Jia-Wu Feng Linqian Han Hao Liu Wen-Zhao Xie Hanmingzi Liu Lin Li ling-ling chen National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070China State Key Laboratory for Conservation and Utilization of Subtropical Agrobioresources College of Life Science and TechnologyGuangxi UniversityNanning 530004China

Dear Editor,Eukaryotic life is a complex system(Trewavas,2006).Networks offer a reasonable means of describing complex life *** constructed for animals and plants have significantly furthered our understanding of complex life systems and functional genomics(Consortium,2011;Walley et al.,2016;Altmann et al.,2020;Luck et al.,2020;McWhite et al.,2020;Zander et al.,2020).However,integrative networks spanning different layers of genetic information are lacking.

关键词： network functional networks

An overview and perspective of identifying lunar craters

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Science China Earth Sciences 2024年第5期67卷 1395-1416页

作者： Yan JIANG Changyi Xu ling chen State Key Laboratory of Lithospheric Evolution Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100029China College of Earth and Planetary Sciences University of Chinese Academy of SciencesBeijing 100029China Key Laboratory of Earth and Planetary Physics Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100049China

The spatiotemporal evolution of lunar impact craters is crucial for investigating lunar interior structure,internal and external dynamic processes,and interplanetary impact *** in lunar crater identification are reviewed based on topography and gravity data,and the features and mechanisms of topographic or buried craters are analyzed regarding morphology,gravity anomalies,gravity gradients,and the underlying crust-mantle interface *** on the compiled crater catalog,the early lunar impact flux and thermal evolution are further discussed according to the basin ages and their interior *** some ancient impact basins,the crater size-frequency distribution measurements revealed age discrepancies from previous studies,suggesting that the lunar late heavy bombardment event started at~3.95 *** degraded bulge structures of the crust-mantle interface beneath mare basins reveal that these basins formed on the lunar crust surface under high-temperature conditions and underwent prolonged relaxation compared to highland ***,we reveal that the up-to-date identification of lunar buried craters remains inaccurate and incomplete,preventing us from accurately reconstructing lunar and interplanetary impact ***,we propose that a gravity model constructed using localized orthogonal basis functions can be useful for identifying lunar craters.

关键词： Moon Gravity field Craters Impact flux Early evolution

A two-step multi-frequency receiver function inversion method for shallow crustal S-wave velocity structure and its application across the basin-mountain range belts in Northeast China

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Science China Earth Sciences 2024年第3期67卷 687-703页

作者： Ruihao YANG Xu WANG ling chen Mingye FENG Qifu chen State Key Laboratory of Lithospheric Evolution Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100029China College of Earth and Planetary Sciences University of Chinese Academy of SciencesBeijing 100049China Key Laboratory of Earth and Planetary Physics Institute of Geology and GeophysicsChinese Academy of SciencesBeijing 100029China

A shallow crustal velocity structure(above 10 km depth) is essential for understanding the crustal structures and deformation and assessing the exploration prospect of natural resources, and also provides priori information for imaging deeper crustal and mantle structure. Passive-source seismic methods are cost-effective and advantageous for regional-scale imaging of shallow crustal structures compared to active-source methods. Among these passive methods, techniques utilizing receiver function waveforms and/or body-wave amplitude ratios have recently gained prominence due to their relatively high spatial resolution. However, in basin regions, reverberations caused by near-surface unconsolidated sedimentary layers often introduce strong non-uniqueness and uncertainty, limiting the applicability of such methods. To address these challenges, we propose a two-step inversion method that uses multi-frequency P-RF waveforms and P-RF horizontal-to-vertical amplitude ratios. Synthetic tests indicate that our two-step inversion method can mitigate the non-uniqueness of the inversion and enhance the stability of the results. Applying this method to teleseismic data from a linear seismic array across the sedimentary basins in Northeast China, we obtain a high-resolution image of the shallow crustal S-wave velocity structure along the array. Our results reveal significant differences between the basins and mountains. The identification of low-velocity anomalies(<2.8 km s^(-1)) at depths less than 1.0 km beneath the Erlian Basin and less than 2.5 km beneath the Songliao Basin suggests the existence of sedimentary layers. Moreover, the high-velocity anomalies(~3.4–3.8 km s^(-1)) occurring at depths greater than 7 km in the Songliao Basin may reflect mafic intrusions emplaced during the Early Cretaceous. Velocity anomaly distribution in our imaging result is consistent with the location of the major faults, uplifts, and sedimentary depressions, as well as active-source seismic res

关键词： Receiver function Frequency dependence Two-step inversion Shallow crustal velocity structures Unconsolidated sedimentary basins

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GenomeSyn:a bioinformatics tool for visualizing genome synteny and structural variations

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Journal of Genetics and Genomics 2022年第12期49卷 1174-1176页

作者： Zu-Wen Zhou Zhi-Guang Yu Xiao-Ming Huang Jin-Shen Liu Yi-Xiong Guo ling-ling chen Jia-Ming Song State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanningGuangxi 530004China College of Stomatology Guangxi Medical UniversityNanningGuangxi 530021China National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhanHubei 430070China

Advances in the next-generation and long-read sequencing technologies have promoted the development of genome-wide comparative genomics analysis,and constructing pangenomes and identifying structural variations(SVs)are becoming the frontier of *** genomics is of critical importance for determining the gene function and the evolutionary basis of traits.

关键词： traits Genome structural

LaMnO_(3)/Co_(3)O_(4) nanocomposite for enhanced triethylamine sensing properties

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Journal of Rare Earths 2024年第4期42卷 733-742页

作者： Jian Zhang Yanping chen ling Li Xue chen Wenya An Xiujuan Qian Yuye Tao School of Science Shandong Jianzhu UniversityJinan250100China

LaMnO_(3) modified Co_(3)O_(4) nanocomposites were prepared by simple hydrothermal method co mbined with sol-gel *** gas sensitivity properties of pure Co_(3)O_(4) and LaMnO_(3)/Co_(3)O_(4) with different composite proportions are *** is found that 0.6-LMO/Co_(3)O_(4) sensor has higher sensitivity to triethylamine(TEA)than pure Co_(3)O_(4) sensor,which is improved by 9.27 *** the working temperature is reduced from 150 to 130℃.Besides,it has excellent gas selectivity and *** improvement of the gas sensitivity of LaMnO_(3)/Co_(3)O_(4) sensor may be due to the fact that LaMnO_(3) is an effective catalyst,and the catalytic performance perhaps is beneficial to improving the sensing *** addition,the formation of p-p heterojunctions may be the key factor to improve the gas sensing *** work provides a new Co_(3)O_(4)-based gas sensing material for the detection of TEA.

关键词： Gas sensing Co_(3)O_(4) LaMnO_(3) Triethylamine Rareearths