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肺PET图像的定量分析:挑战和机遇

中华核医学与分子影像杂志 2019年第11期39卷 698-704页

作者：陈聪霞(译) 李文婵(译) 郭悦(译) 姚稚明(审校者) Delphine L.Chen Joseph Cheriyan Edwin R.Chilvers Gourab Choudhury Christopher Coello Martin Connell Marie Fisk Ashley M.Groves Roger N.Gunn Beverley F.Holman brian F.hutton Sarah Lee William MacNee Divya Mohan David Parr Deepak Subramanian Ruth Tai-Singer Kris Thielemans Edwin J.R.van Beek Laurence Vass Jeremy W.Wellen Ian Wilkinson Frederick J.Wilson 北京医院核医学科、国家老年医学中心 100730 Mallinckrodt Institute of Radiology Washington University School of MedicineSt.LouisMissouri Department of Medicine University of CambridgeCambridgeUnited Kingdom Cambridge University Hospitals NHS Foundation Trust CambridgeUnited Kingdom Queen's Medical Research Institute University of EdinburghEdinburghUnited Kingdom Imanova Ltd. London y United Kingdom Institute of Nuclear Medicine University College LondonLondonUnited Kingdom Department of Medicine Imperial College LondonLondonUnited Kingdom Medical Image Analysis Consultant LondonUnited Kingdom Clinical Discovery Respiratory Therapy Area UnitGlaxoSmithKline R&DKing of PrussiaPennsylvania University Hospitals Coventry and Warwickshire CoventryUnited Kingdom Derby Teaching Hospitals NHS Foundation Trust DerbyUnited Kingdom Worldwide Research and Development PfizerInc.CambridgeMassachusetts Experimental Medicine Imaging GlaxoSmithKlineStevenageUnited Kingdom

数百万人受呼吸系统疾病的影响,导致巨大的全球性健康困扰。由于目前对导致呼吸系统疾病发展和进展的潜在机制认识不足,治疗选择仍然有限。为克服此局限和理解相关分子变化,将无创影像技术如PET和SPECT用于探索生物标志物,其中18F-脱氧... 详细信息

数百万人受呼吸系统疾病的影响,导致巨大的全球性健康困扰。由于目前对导致呼吸系统疾病发展和进展的潜在机制认识不足,治疗选择仍然有限。为克服此局限和理解相关分子变化,将无创影像技术如PET和SPECT用于探索生物标志物,其中18F-脱氧葡萄糖(FDG)PET显像的研究最多。由于肺内组织、气体、血液和水的构成比变异,定量分析肺的分子影像数据仍具挑战性。这些成分的比例随着肺部疾病的不同而不同,因此有不同的定量分析方法来显示这种变化,但迄今为止还没有开发出对数据标准化的方法。该文回顾了肺部疾病中18F-FDG PET定量分析方法的数据,聚焦于解释肺内成分变化的方法,解读衍生参数。分析的疾病包括急性呼吸窘迫综合征、慢性阻塞性肺疾病、肺间质性疾病如特发性肺纤维化。基于对既往文献、进行中的研究以及作者间讨论的回顾,作者提出了建议性的注意事项,以协助解读从这些方法及未来研究设计中衍生的参数。

关键词：肺肺部炎症分子成像正电子发射计算机断层显像

系统综述与网状Meta分析的PRISMA扩展声明

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中国循证心血管医学杂志 2016年第6期8卷 656-660,665页

作者：李志霞杨俊叶欣周凌波杨智荣孙凤詹思延 brian hutton Georgia Salanti Deborah M.Caldwell Anna Chaimani Christopher H.Schmid Chris Cameron John P.A.Ioannidis Sharon Straus Kristian Thorlund Jeroen P.Jansen Cynthia Mulrow Ferrán Catalá-López Peter C.Gozsche Kay Dickersin Isabelle Boutron Douglas G.Altman David Moher 北京大学公共卫生学院北京100191 剑桥大学初级医疗中心

PRISMA声明旨在提高系统综述和META分析报告的完整性,该声明已经广泛用于指导系统综述和META分析的报告和发表。原始的PRISMA声明是针对两种干预措施比较的传统的系统综述与META分析而制定的,然而,随着多种干预措施比较的系统综述的发展... 详细信息

PRISMA声明旨在提高系统综述和META分析报告的完整性,该声明已经广泛用于指导系统综述和META分析的报告和发表。原始的PRISMA声明是针对两种干预措施比较的传统的系统综述与META分析而制定的,然而,随着多种干预措施比较的系统综述的发展,实施和报告这一类系统综述面临较大挑战。此时,针对网状META分析的PRISMA扩展声明应运而生,旨在提高网状META分析系统综述的报告质量。PRISMA扩展声明是由专家们通过DELPHI调查、面对面讨论和共识大会而最终确立的。PRISMA扩展声明是在原始PRISMA声明的报告清单的基础上经过修改,最终确定了32个条目,每个条目均与网状META分析报告的内容直接相关。本文对网状META分析的PRISMA扩展声明进行了阐述,对报告清单各条目进行了举例说明,并详细说明了在原始PRISMA声明的基础上新增和修改各条目的理由。此外,PRISMA扩展声明强调了在网状META分析的实际操作中需要重点关注的信息。本文的目标读者包括网状META分析的作者与读者,以及期刊杂志的编辑与同行评审。

关键词：系统综述 Meta分析网状 META分析 DELPHI 报告质量期刊杂志条目

Identification and mapping of Rpi-blb4 in diploid wild potato species Solanum bulbocastanum

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The Crop Journal 2023年第6期11卷 1828-1835页

作者： Jie Li Amanpreet Kaur brian Harrower Miles Armstrong Daolong Dou Xiaodan Wang Ingo Hein Department of Plant Pathology and MOA Key Lab of Pest Monitoring and Green Management College of Plant ProtectionChina Agricultural UniversityBeijing 100193China The James hutton Institute InvergowrieDundee DD25DAUK University of Dundee Dundee DD14HNUK Crop Research Centre TeagascOakParkCarlow R93 XE12Ireland College of Plant Protection Academy for Advanced Interdisciplinary StudiesNanjing Agricultural UniversityNanjing 210095JiangsuChina

More than 170 years after causing the potato famine in Ireland,late blight is still considered one of the most devastating crop *** potato breeding efforts depend on natural sources of resistance to protect crops from the rapidly evolving late blight pathogen,Phytophthora *** have identified and mapped a novel broad-spectrum disease resistance gene effective against *** from the wild,diploid potato species Solanum *** resistance gene enrichment sequencing(dRenSeq)was used to confirm the uniqueness of the identified *** and GenSeq-based mapping of the resistance,referred to as Rpi-blb4,alongside recombinant screening,positioned the locus responsible for the resistance to potato chromosome *** interval spans approximately 2.3 Mb and corresponds to the DM reference genome positions of 11.25 and 13.56 Mb.

关键词： Renseq Disease resistance Late blight Solanum bulbocastanum

SMRT-AgRenSeq-d in potato (Solanum tuberosum) as a method to identify candidates for the nematode resistance Gpa5

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Horticulture Research 2023年第11期10卷 271-279页

作者： Yuhan Wang Lynn H.Brown Thomas M.Adams Yuk Woon Cheung Jie Li Vanessa Young Drummond T.Todd Miles R.Armstrong Konrad Neugebauer Amanpreet Kaur brian Harrower Stan Oome Xiaodan Wang Micha Bayer Ingo Hein Division of Plant Sciences at the hutton The University of DundeeErrol RoadInvergowrieDundeeDD25DAUK The James hutton Institute Errol RoadInvergowrieDundeeDD25DAUK College of Plant Protection China Agricultural UniversityHaidian DistrictBeijing100083China James hutton Limited The James Hutton InstituteErrol RoadInvergowrieDundeeDD25DAUK Biomathematics and Statistics Scotland Errol RoadInvergowrieDundeeDD25DAUK Crop Research Centre TeagascOak ParkCarlow R93 XE12Ireland HZPC Research B.V.HZPC Edisonweg 58501 XG JoureNetherlands

Potato is the thirdmost important food crop in *** pathogens threaten sustainable crop production but can be controlled,in many cases,through the deployment of disease resistance genes belonging to the family of nucleotide-binding,leucine-rich-repeat(NLR)*** identify effective disease resistance genes in established varieties,we have successfully established SMRT-AgRenSeq in tetraploid potatoes and have further enhanced the methodology by including dRenSeq in an approach that we term *** inclusion of dRenSeq enables the filtering of candidates after the association analysis by establishing a presence/absence matrix across resistant and susceptible varieties that is translated into an F1 *** a SMRT-RenSeq-based sequence representation of the NLRome from the cultivar Innovator,SMRT-AgRenSeq-d analyses reliably identified the late blight resistance benchmark genes Rpi-R1,Rpi-R2-like,Rpi-R3a,and Rpi-R3b in a panel of 117 varieties with variable phenotype *** benchmark genes were identified with an F1 score of 1,which indicates absolute linkage in the *** method also identified nine strong candidates for Gpa5 that controls the potato cyst nematode(PCN)species Globodera pallida(pathotypes Pa2/3).Assuming that NLRs are involved in controlling many types of resistances,SMRT-AgRenSeq-d can readily be applied to diverse crops and pathogen systems.

关键词： resistance linkage crops

A New Approach to Developing Universally Transferable Markers for Disease Resistance Breeding

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A New Approach to Developing Universally Transferable Marker...

Micro-Tuber Production in Diploid and Tetraploid Potato after Gamma Irradiation of in Vitro Cuttings for Mutation Induction

2019年中国马铃薯大会

作者： Xinwei Chen Mile R.Armstrong Micha Bayer brian Harrower Ingo Hein Cell and Molecular Sciences The James Hutton Institute School of Life Sciences The University of Dundee

Modern molecular technologies enable identification and discrimination of the causal genes for resistance to a variety of pests and *** disease resistance breeding requires efficient tracking and screening for the resistance genes in progenies by employing molecular ***,application of marker assisted selection faces great challenges of limited diagnostics and transferability in potato due to its complex genome of high heterozygosity and *** study aims to tackle the problem through development of a novel type of maker based on diagnostic resistance gene enrichment sequencing(dRenSeq)and assessment for uniqueness of all potential SNPs in comparison with known functional genes across potato *** generated dRenSeq datasets for a total of 136 diverse cultivated and wild potato *** data for three resistance genes R3 a,Nem-Gpa2 and Rx functionally involving in potato resistance to late blight,potato cyst nematode and potato virus X respectively were extracted and *** an extremely stringent threshold with 0% mismatch rate,27,13 and 13 cultivars were detected covering the full reference resistance gene sequences,suggesting presence of the functional resistance genes in these cultivars.A relaxed stringency of 4% mismatch rate was used to explore SNP variations across the dRenSeq panel and identify SNPs with non-resistance nucleotides(NRNs)being universally present in all clones,a criterium adopted for development of universal transferability markers(UTM).One or more SNPs per gene met the criteria as candidate for *** of the candidate SNPs into Kompetitive-allele-specific PCR(KASP)markers faithfully reproduced the dRenseq results and distinguished in 100% success rate clones carrying R-genes from those *** study provides insight into development of UTMs which can be readily extended to other resistance genes and/or different types of functional genes for other traits.

关键词： universally transferrable markers resistance genes marker assisted breeding

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American Journal of Plant Sciences 2016年第14期7卷 1871-1887页

作者： Souleymane Bado Margit Laimer Ndiogou Gueye Ndeye Fatou Deme Enoch Sapey Abdelbagi Mukhtar Ali Ghanim Vivian Carol Blok brian Peter Forster Plant Breeding and Genetics Laboratory (PBGL) Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture FAO/IAEA Laboratories Seibersdorf Austria Plant Biotechnology Unit Department of Biotechnology University of Natural Resources and Life Sciences Vienna Austria Biotechnology Laboratory of Mushrooms Department of Plant Biology Faculty of Sciences & Techniques University of Cheikh Anta Diop Dakar Fann Sénégal Council for Scientific and Industrial Research (CSIR)-Oil Palm Research Institute (OPRI) Kade Ghana The James hutton Institute Errol Rd Invergowrie Dundee UK BioHybrids International Ltd. Reading UK

Micro-tubers are important propagules in potato breeding and potato production, and they are also dormant and easily transported and therefore good targets for mutation induction in potato mutation breeding. A prerequisite for mutation breeding is to determine optimal mutation treatments. Therefore, radio-sensitivity tests of a tetraploid and a diploid potato to gamma irradiation were undertaken. Effects of different gamma sources on radio-activity were also studied. In vitro potato cuttings were gamma irradiated using a wide dose range (0, 3, 6, 9, 12, 15 and 20 Gy). The irradiated cuttings were then cultured to induce micro-tubers directly in vitro. Micro-tuber morphotypes were assessed after irradiation of cuttings using three gamma sources with emission activities of 1.8, 7.07 and 139 Gy/min. The diploid species (Solanum verrucosum) was more radio-sensitive than the tetraploid cultivar Desirée (Solanum tuberosum). Gamma dose rates had significant influences on subsequent micro-tuber production at various mutant generations. Effects included reductions in the number, size and weight of micro-tubers produced. Gamma dose was more lethal for the diploid potato genotype and micro-tubers produced were small compared to those produced by the tetraploid genotype after irradiation. Different treatments are recommended for diploid and tetraploid potato irradiation in producing large mutant micro-tuber populations. The mutant micro-tuber populations may then be screened for interesting mutations/trait for both genetics and plant breeding purposes.

关键词： Potato in Vitro Cuttings Micro-Tubers Mutation Induction Gamma Irradiation Mutant Populations Recommended Dose Rates