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Genome-Wide Dissection of Quan 9311A Breeding Process and Application Advantages

Rice science 2023年第6期30卷 552-566页

作者： LI Qianlong FENG Qi wang Heqin KANG Yunhai ZHANG Conghe DU Ming ZHANG Yunhu wang Hui CHEN Jinjie HAN Bin FANG Yu wang ahong Center for Excellence in Molecular Plant Sciences Institute of Plant Physiology and EcologyChinese Academy of SciencesShanghai 200032China Shanghai ZKW Molecular Breeding Technology Co.Ltd Shanghai 200234China Win-all Hi-tech Seed Co.Ltd/Key Laboratory for New Variety Creative of Hybrid Rice Ministry of Agriculture and Rural AffairsHefei 230088China Institute of Crop Science&Institute of Bioinformatics Zhejiang UniversityHangzhou 310058China

Germplasm resource innovation is a crucial factor for cultivar development,particularly within the context of hybrid rice breeding based on the three-line system.Quan 9311A,a cytoplasmic male sterile(CMS)line,has been successfully cultivated using rice restoration materials and extensively employed as a female parent in hybrid breeding program in China.This line was developed by crossing the CMS line Zhong 9A with a two-line restorer line 93-11,with the intention of eliminating the restoring ability of 93-11 while retaining the sterility gene WA352c from Zhong 9A.Quan 9311A effectively amalgamates the most favorable agronomic traits from both parental lines.In this study,the relationship between phenotypic characteristics and the known functional genes of Quan 9311A were analyzed using the rice genome navigation technology based on whole-genome sequencing.The findings revealed that Quan 9311A harbors multiple superior alleles from both 93-11 and Zhong 9A,providing exceptional agronomic traits that are unavailable in earlier CMS lines.Despite the removal of the fertility restorer gene Rf3 from 93-11,numerous chromosomal segments from 93-11 persist in the Quan 9311A genome.Furthermore,the hybrid rice Quanyousimiao(QYSM)and the restorer line Wushansimiao(WSSM)were used as examples to illustrate the important role of Quan 9311A as the female parent in heterosis.It was found that QYSM carries a great number of superior alleles,which accounts for its high grain yield and wide adaptability.These insights not only advanced the utilization of hybrid rice pairing groups but also provided guidance for future breeding endeavors.The study introduced innovative concepts to further integrate genomics with traditional breeding techniques.Ultimately,Quan 9311A signified a significant milestone in rice breeding technology,opening up novel avenues for hybrid rice development.

关键词： breeding hybrid rice phenotype quantitative trait nucleotide locus rice genome navigation system whole-genome sequencing

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我国作物设计育种体系发展及挑战

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作物杂志 2024年第1期 1-7页

作者：杜明王阿红冯旗方玉上海中科荃银分子育种技术有限公司上海200234 中国科学院分子植物科学卓越创新中心/国家基因研究中心上海200233 浙江大学作物科学研究所/生物信息学研究所浙江杭州310058

作物设计育种是全球育种技术研究的“圣杯”。由于农作物有其环境适应性和应用多元化,作物设计育种是需要将有利等位基因聚合并克服同时空表达可能出现的问题,选育出在不同环境下所需品种的过程,是一个以遗传学为基础,结合作物栽培与耕... 详细信息

作物设计育种是全球育种技术研究的“圣杯”。由于农作物有其环境适应性和应用多元化,作物设计育种是需要将有利等位基因聚合并克服同时空表达可能出现的问题,选育出在不同环境下所需品种的过程,是一个以遗传学为基础,结合作物栽培与耕作学、生物技术、信息技术,并涉及材料学和机械工程等多学科交叉的技术体系。育种的发展经历了最初的基于表型的选择,到当前基于基因组或基因水平的设计,是一个逐渐进步和技术化的过程。本文通过梳理总结作物育种的发展历程,结合作物育种的发展规律和人们的主观需求,提出作物设计育种未来的趋势,并对设计育种在新技术与常规育种的融合及其商业化发展中遇到的挑战进行了重点阐述,探索符合我国种业发展需求的底层技术驱动下未来商业化作物设计育种体系。

关键词：设计育种作物分子育种体系

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Diagnostic Accuracy of the Apparent Diffusion Coefficient for Microvascular Invasion in Hepatocellular Carcinoma: A Meta-analysis

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Journal of Clinical and Translational Hepatology 2022年第4期10卷 642-650页

作者： Yuhui Deng Jisheng Li Hui Xu ahong Ren Zhenchang wang Dawei Yang Zhenghan Yang Department of Radiology Beijing Friendship HospitalCapital Medical UniversityBeijingChina Medical Imaging Division Heilongjiang Provincial HospitalHarbin Institute of TechnologyHarbinHeilongjiangChina Department of Interventional Radiology Yantai Penglai Traditional Chinese Medicine HospitalYantaiShandongChina

Background and Aims:Microvascular invasion(MVI)is a major risk factor for the early recurrence of hepatocel-lular carcinoma(HCC)and it seriously worsens the prog-nosis.Accurate preoperative evaluation of the presence of MVI could greatly benefit the treatment management and prognosis prediction of HCC patients.The study aim was to evaluate the diagnostic performance of the apparent dif-fusion coefficient(ADC),a quantitative parameter for the preoperative diagnosis MVI in HCC patients.Methods:Original articles about diffusion-weighted imaging(DWI)and/or intravoxel incoherent motion(IVIM)conducted on a 3.0 or 1.5 Tesla magnetic resonance imaging(MRI)system indexed through January 17,2021were collected from MED-LINE/PubMed,Web of Science,EMBASE,and the Cochrane Library.Methodological quality was evaluated using Quality Assessment of Diagnostic Accuracy Studies 2(QUADAS-2).The pooled sensitivity,specificity,and summary area un-der the receiver operating characteristic curve(AUROC)were calculated,and meta-regression analysis was per-formed using a bivariate random effects model through a meta-analysis.Results:Nine original articles with a total of 988 HCCs were included.Most studies had low bias risk and minimal applicability concerns.The pooled sensitivity,specificity and AUROC of the ADC value were 73%,70%,and 0.78,respectively.The time interval between the index test and the reference standard was identified as a pos-sible source of heterogeneity by subgroup meta-regression analysis.Conclusions:Meta-analysis showed that the ADC value had moderate accuracy for predicting MVI in HCC.The time interval accounted for the heterogeneity.

关键词： Hepatocellular carcinoma Meta-analysis Diagnostic accuracy Diffusion-weighted imaging Microvascular invasion

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A Pyramid Breeding of Eight Grain-yield Related Quantitative Trait Loci Based on Marker-assistant and Phenotype Selection in Rice(Oryza sativa L.)

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Journal of Genetics and Genomics 2012年第7期39卷 335-350页

作者： Guo Zong ahong wang Lu wang Guohua Liang Minghong Gu Tao Sang Bin Han National Center for Gene Research and Institute of Plant Physiology and Ecology Shanghai Institutes of Biological SciencesChinese Academy of SciencesShanghai 200233China Jiangsu Key Laboratory of Crop Genetics and Physiology/Key Laboratory of the Ministry of Education for Plant Functional Genomics Yangzhou University88 Daxue RoadYangzhou 225009China State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of SciencesBeijing 100093China

1000-Grain weight and spikelet number per panicle are two important components for rice grain yield. In our previous study, eight quantitative trait loci （QTLs） conferring spikelet number per panicle and 1000-grain weight were mapped through sequencing-based genotyping of 150 rice recombinant inbred lines （RILs）. In this study, we validated the effects of four QTLs from Nipponbare using chromosome segment substitution lines （CSSLs）, and pyramided eight grain yield related QTLs. The new lines containing the eight QTLs with positive effects showed increased panicle and spikelet size as compared with the parent variety 93-11. We further proposed a novel pyramid breeding scheme based on marker-assistant and phenotype selection （MAPS）. This scheme allowed pyramiding of as many as 24 QTLs at a single hybridization without massive cross work. This study provided insights into the molecular basis of rice grain yield for direct wealth for high-yielding rice breeding.

关键词： Rice Spikelet number 1000-Grain weight Quantitative trait loci Pyramid breeding Marker assisted and phenotype selection

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Enhancing rice grain production by manipulating the naturally evolved cis-regulatory element-containing inverted repeat sequence of OsREM20

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Molecular Plant 2021年第6期14卷 997-1011页

作者： Xiaowei Wu Yan Liang Hengbin Gao Jiyao wang Yan Zhao Lekai Hua Yundong Yuan ahong wang Xiaohui Zhang Jiafan Liu Jie Zhou Xiangbing Meng Dahan Zhang Shaoyang Lin Xuehui Huang Bin Han Jiayang Li Yonghong wang State Key Laboratory of Plant Genomics and National Center for Plant Gene Research(Beijing) Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China CAS Center for Excellence in Molecular Plant Sciences Chinese Academy of SciencesShanghai 200032China Innovation Academy for Seed Design Chinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China National Center for Gene Research Institute of Plant Physiology and EcologyShanghai Institutes for Biological SciencesChinese Academy of SciencesShanghai 200233China College of Resources and Environment Fujian Agriculture and Forestry UniversityFuzhou 350002China Shanghai Key Laboratory of Plant Molecular Sciences College of Life SciencesShanghai Normal UniversityShanghai 200234China College of Life Sciences Shandong Agricultural UniversityTaianShandong 271018China

Grain number per panicle(GNP)is an important agronomic trait that contributes to rice grain yield.Despite its importance in rice breeding,the molecular mechanism underlying GNP regulation remains largely unknown.In this study,we identified a previously unrecognized regulatory gene that controls GNP in rice,Oryza sativa REPRODUCTIVE MERISTEM 20(OsREM20),which encodes a B3 domain transcription factor.Through genetic analysis and transgenic validation we found that genetic variation in the CArG box-containing inverted repeat(IR)sequence of the OsREM20 promoter alters its expression level and contributes to GNP variation among rice varieties.Furthermore,we revealed that the IR sequence regulates OsREM20 expression by affecting the direct binding of OsMADS34 to the CArG box within the IR sequence.Interestingly,the divergent pOsREM20IR and pOsREM20ΔIR alleles were found to originate from different Oryza rufipogon accessions,and were independently inherited into the japonica and indica subspecies,respectively,during domestication.Importantly,we demonstrated that IR sequence variations in the OsREM20 promoter can be utilized for germplasm improvement through either genome editing or traditional breeding.Taken together,our study characterizes novel genetic variations responsible for GNP diversity in rice,reveals the underlying molecular mechanism in the regulation of agronomically important gene expression,and provides a promising strategy for improving rice production by manipulating the cis-regulatory element-containing IR sequence.

关键词： rice(Oryza sativa L.) OsREM20 grain number inverted repeat sequence c/s-regulatory element transcriptional regulation

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Mechanical design of a low β superconducting elliptical cavity for CSNS-II

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Radiation Detection Technology and Methods 2021年第3期5卷 315-323页

作者： Peihua Qu Huachang Liu Yun wang Bo Li Xiaolei Wu ahong Li Mengxu Fan Qiang Chen Jun Peng Institute of High Energy Physics Chinese Academy of Sciences(CAS)Beijing 100049China Spallation Neutron Source Science Center Dongguan 523803China

Background A lowβsuperconducting elliptical cavity was designed for the China Spallation Neutron Source phase II project(CSNS-II).Methods The method to improve the mechanical stability of the lowβsuperconducting elliptical cavity was introduced,and the corresponding mechanical design was given.The software COMSOL Multiphysics and ANSYS APDL were used to calculate the static Lorentz force detuning factor k_(L)(LFD)and the helium pressure sensitivity factor k_(p)(DFDP)of the bare cavity,which were−4.71 Hz(MV/m)^(−2) and−21.1 Hz/mbar,respectively.The double-ring stiffeners reinforcement scheme was adopted.Results The radii of the double-ring stiffeners were 70 and 135 mm,respectively.The structure design of the helium vessel of the cavity was given.The following is the mechanical parameters of the reinforced cavity,the tuning sensitivity is 199.8 kHz/mm,longitudinal stiffness is 4.76kN/mm,k_(L) and k_(p) were−1.39 Hz(MV/m)^(−2) and 4.67 Hz/mbar,respectively,which met the operating requirements.The tuning sensitivity and stiffness of the reinforced cavity with different wall thicknesses were optimized,and the final wall thickness was selected as 4 mm.Conclusion The mechanical design of CSNS-II 648 MHz five-cell lowβsuperconducting elliptical cavity was introduced systematically in the paper.The LFD,DFDP,and the maximum surface stress of the cavity were reduced by optimizing the cavity wall thickness and the position of the double-ring stiffeners.The reinforced cavity met operational requirements.

关键词： Lowβsuperconducting elliptical cavity Mechanical design LFD DFDP Tuning sensitivity Longitudinal stiffness

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Structural design of 648 MHz single spoke resonator prototype at CSNS

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Radiation Detection Technology and Methods 2020年第4期4卷 407-414页

作者： Yun wang Huachang Liu Xiaolei Wu Bo Li Peihua Qu ahong Li Mengxu Fan Qiang Chen Jianpin Dai Institute of High Energy Physics Chinese Academy of SciencesBeijing 100049China Spallation Neutron Source Science Center Dongguan 523803China University of Chinese Academy of Sciences Beijing 100049China

Purpose Superconducting radio frequency(SRF)cavities are adopted to upgrade the CSNS Linac energy from 80 to 300 MeV in phaseⅡ.A 648 MHz single spoke resonator(SSR)prototype has a compact size and low cost,which is a good pre-research cavity for CSNS to learn SRF technology.In this paper,the sequential approach of analysis and optimization performed for the structural design of 648 MHz SSR prototype are presented.Methods The COMSOL Multiphysics is used to perform the multiphysics analysis of jacketed cavity.Firstly,the mechanical performance of bare cavity is estimated,and then,several stiffeners are added to strengthen the cavity.After that,the Lorentz coefficient and helium fluctuation df/dp of jacketed cavity are optimized.At last,the tuning sensitivity and mechanical performance of maximum allowable working pressure are calculated.Results The final results of Lorentz coefficient and df/dp are-5.06 Hz/(MV/m)^(2)and 0.3 Hz/mbar,respectively,and the tuning range of jacketed cavity is larger than±1000 kHz at 2 K.Conclusion The structural design of a 648 MHz SSR prototype is performed in this paper.The Lorentz coefficient and df/dp are carefully optimized.The simulation result shows all mechanical performance satisfies the design goals very well.

关键词： 648 MHz SSR prototype Multiphysics analysis Mechanical performance optimize

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RF design of a compact 648 MHz single spoke cavity at CSNS

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Radiation Detection Technology and Methods 2019年第3期3卷 301-306页

作者： Yun wang Huachang Liu Jianping Dai Peng Sha Ziwei Deng Bo Li Mengxu Fan ahong Li Peihua Qu Xiaolei Wu Qiang Chen Institute of High Energy Physics Chinese Academy of SciencesBeijing 100049China Spallation Neutron Source Science Center Dongguan 523803China University of Chinese Academy of Sciences Beijing 100049China

Purpose In order to increase CSNS beam power from 100 to 500 kW,the linac injection energy needs to be increased from 80 to 300 MeV.The combined layout of superconducting spoke cavities and lliptical cavities will be adopted to accelerate H-beam to 300 MeV.In this paper,a compact single spoke cavity withφ50-mm beam aperture was proposed,with the RF performance of the spoke cavity optimized to E_(p)/E_(acc).value.Results The simulation got optimum results of E_(peak)/E_(acc)=4.97 and B_(peak)/E_((acc)=8.42 mT/(MV/m),and themax is 1.52at E_(acc)=7.74 MV/m.Conclusion A 648 MHzβ=0.4 single spoke cavity with beam apertureФ50 mm was proposed in the paper.This compact cavity may be a very promising option for CSNS linac upgrading.In addition to the optimization of the RF parameters,the multipacting behavior of the cavity is also studied,and cavity shape is optimized to reducevalue.

关键词： Single spoke cavity RF performance optimization Multipacting simuaion

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基于图像的水稻穗粒相关性状智能检测算法研究

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植物生理学报 2022年第5期58卷 957-971页

作者：王栋陈佳玮沈利言王永春王阿红周济南京农业大学前沿交叉研究院/作物表型组学交叉研究中心南京210095 南京农业大学工学院南京210031 中国科学院分子植物科学卓越创新中心/中国科学院国家基因研究中心上海200233 英国国立农业植物研究所/英国剑桥作物研究中心英国剑桥CB3 OLE

水稻(Oryza sativa)生产对保障中国粮食安全具有重要意义。水稻穗粒相关性状,例如每穗粒数、种皮颜色、穗粒长度和宽度等,是衡量产量和品质的重要依据之一。针对当前水稻穗粒性状分析仍较多依靠人工计数或各类考种设备,时间和经济成本... 详细信息

水稻(Oryza sativa)生产对保障中国粮食安全具有重要意义。水稻穗粒相关性状,例如每穗粒数、种皮颜色、穗粒长度和宽度等,是衡量产量和品质的重要依据之一。针对当前水稻穗粒性状分析仍较多依靠人工计数或各类考种设备,时间和经济成本均较高的情况,本研究通过多学科融合,结合表型分析、图像处理和深度学习等技术,开发了一种无需脱粒、直接通过稻穗图像考察每穗粒数和多种穗粒相关性状的智能表型解析算法。该方法适用于高清照相机、智能手机或扫描仪等成像设备在室内外多种场景下所采集的图像,可从图像中快速提取完整穗粒并量化分析其粒长、粒宽、长宽比、圆形度和颜色等多种穗粒相关性状。对室内定点拍摄的18个水稻品种,算法对每穗粒数分析结果与人工计数比较的决定系数(R^(2))分别为0.95(n=4930粒,P<0.001;基于图像)和0.88(n=4191粒,P<0.001;基于实际稻穗);对室外手机拍摄图像分析,每穗粒数与人工计数的R^(2)分别为0.86(n=2490粒,P<0.001;基于图像)和0.85(n=2645粒,P<0.001;基于实际稻穗)。长宽比分析结果与人工统计的R^(2)分别为0.84(n=1454粒,P<0.001;基于室内图像)和0.71(n=726粒,P<0.001;基于室外图像)。此外,通过聚类分析可将所试18个品种按其穗粒相关性状分为4类,与人工聚类分析结果相似,可高效区分不同水稻品种间的穗粒性状差异。结果表明,本研究构建的算法应用范围广、使用便捷且成本低,性状分析结果具有生物学意义,因此适用于对精确度和泛化性要求较高的穗粒性状快速鉴定及分型工作。研究结果为智能化穗粒性状解析提供新思路和新方法。

关键词：水稻穗粒相关性状自动化图像处理深度学习经济型穗粒表型分析

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120例青少年非自杀性自伤的特征分析

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上海预防医学 2023年第12期35卷 1242-1245,1252页

作者：杜庆贵茅荣杰徐阿红汪作为上海市虹口区精神卫生中心上海200083

【目的】探讨青少年非自杀性自伤(NSSI)的特点,增强临床医生对青少年伴有NSSI的进一步了解,以更好地进行临床诊断和干预。【方法】采用方便抽样选取2022年7月—2023年6月某院门诊就诊的伴有NSSI的青少年患者120例,利用自制的一般情况调... 详细信息

【目的】探讨青少年非自杀性自伤(NSSI)的特点,增强临床医生对青少年伴有NSSI的进一步了解,以更好地进行临床诊断和干预。【方法】采用方便抽样选取2022年7月—2023年6月某院门诊就诊的伴有NSSI的青少年患者120例,利用自制的一般情况调查表收集一般人口学资料,使用青少年NSSI问卷和渥太华自伤量表(OSI)分析青少年NSSI的自伤特点及动机。【结果】青少年初次自伤的平均年龄为(12.90±1.233)岁,最常见者13岁;最常见的自伤部位是下臂或腕部(58.33%),其次是手(27.5%);最常用的自伤方式是故意割伤自己(68.33%);最常见的自伤的动机是情绪调节。【结论】伴有NSSI的青少年在性别方面存在显著差异;首次自伤的年龄存在集中度,高发年龄为11~14岁;常用的自伤方式是割伤;NSSI通常与减轻痛苦的意图有关,具有高频率、方法多样及死亡率低的特征;伴有NSSI的青少年常选择以情绪调节为主导功能实施NSSI,包括外部情绪调节和内部情绪调节。

关键词：青少年非自杀性自伤行为特征动机表现

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