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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 Host KH RNA-Binding Protein Is a Susceptibility Factor Targeted by an RXLR Effector to Promote Late Blight Disease

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Molecular Plant 2015年第9期8卷 1385-1395页

作者： Xiaodan Wang Petra Boevink Hazel McLellan miles armstrong Tatyana Bukh-arova Zhiwei Qin Paul R.J. Birch Horticultural College Northeast Agricultural University No. 59 Mucai Road Harbin 150030 China Cell and Molecular Sciences James Hutton Institute Errol Road Invergowrie Dundee DD2 5DA UK Division of Plant Sciences College of Ufe Sciences University of Dundee (at JHI) Errol Road Invergowrie Dundee DD2 5DA UK Virus-free Seedling Research Institute of Heilongjiang Academy of Agricultural Sciences No. 368 Xuefu Road Harbin 150086 China These authors contributed equatly to this article.

Plant pathogens deliver effector proteins that alter host processes to create an environment conducive to colonization. Attention has focused on identifying the targets of effectors and how their manipulation facil- itates disease. RXLR effector Pi04089 from the potato blight pathogen Phytophthora infestans accumu- lates in the host nucleus and enhances colonization when transiently expressed in planta. Its nuclear local- ization is required for enhanced P. infestans colonization. Pi04089 interacts in yeast and in planta with a putative potato K-homology （KH） RNA-binding protein, StKRBPI. Co-localization of Pi04089 and StKRBP1, and bimolecular fluorescence complementation between them, indicate they associate at nuclear speckles. StKRBP1 protein levels increased when it was co-expressed with Pi04089. Indeed, such accumu- lation of StKRBP1 was observed also on the first day of leaf colonization by the pathogen. Remarkably, overexpression of StKRBP1 significantly enhances P. infestans infection. Mutation of the nucleotide- binding motif GxxG to GDDG in all three KH domains of StKRBP1 abolishes its interaction with Pi04089, its localization to nuclear speckles, and its increased accumulation when co-expressed with the effector. Moreover, the mutant StKRBP1 protein no longer enhances leaf colonization by P. infestans, implying that nucleotide binding is likely required for this activity. We thus argue that StKRBP1 can be regarded as a sus- ceptibility factor, as its activity is beneficial to the pathogen.

关键词： effector-triggered susceptibility oomycete plant disease late blight

Restimate:Recovery Estimation Tool for Resilience Planning

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Journal of Safety Science and Resilience 2024年第1期5卷 47-63页

作者： Scott miles Megan Ly Nick Terry Youngjun Choe Department of Human Centered Design&Engineering Campus Box 352315University of WashingtonSeattleWA 98195United States of America Department of Industrial&Systems Engineering Box 352650University of WashingtonSeattleWA 98195United States of America

The *** Institute of Standards and Technology(NIST)published the Community Resilience Planning Guide in *** NIST Guide advocates for a participatory process for developing a performance measurement framework for the jurisdiction’s resilience against a scenario *** framework centers around tables of expected and desired recovery times for selected community assets,such as electricity,water,and natural gas *** NIST Guide does not provide a method for estimating the expected recovery ***,building high-fidelity computer models for such estimations requires substantial resources that even larger ju-risdictions cannot *** most promising approach to recovery time estimation is to systematically use data elicited from people to tap into the wisdom of the(knowledgeable)*** paper describes a novel research-through-design project to enable the computer-supported elicitation of recovery time series *** work is the first in the literature to examine people’s ability to estimate recovery curves and how design in-fluences such *** main contribution to resilience planning is three-fold:development of a new elicitation tool called Restimate,understanding its potential user base,and providing insights into how it can facilitate resilience *** is the first tool to enable evidence-based expert elicitation in any community with limited resources for resilience *** resilience planning,those who facilitate high-stakes planning activities under large uncertainties(e.g.,mission-critical system design and planning)will benefit from a similar research-through-design process.

关键词： expert elicitation disaster natural hazard infrastructure community resilience restoration user-centered design computer-supported cooperative work

Oomycetes Seek Help from the Plant：Phytophthora infestans Effectors Target Host Susceptibility Factors

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Molecular Plant 2016年第5期9卷 636-638页

作者： Petra C. Boevink Hazel McLellan Eleanor M. Gilroy Shaista Naqvi Qin He Lina Yang Xiaodan Wang Dionne Turnbull miles R. armstrong Zhendong Tian Paul R.J. Birch Cell and Molecular Science James Hutton Institute(JHI) InvergowrieDundee DD2 5DA UK Division of Plant Science College of Life Science University of Dundee(at JHI) Invergowrie Dundee DD2 5DA UK Key Laboratory of Horticultural Plant Biology Huazhong Agricultural University Wuhan Hubei 430070 China Fujian Key Laboratory of Plant Virology Fujian Agriculture and Forestry University Fuzhou 350002 China Virus-free Seedling Research Institute of Heilongjiang Academy of Agricultural Sciences 368 Xuefu Road Harbin 150086 China

Plants have a sophisticated immune system to defend against a wide range of invaders,including insects,nematodes,bacteria,oomycetes,fungi,and *** may manipulate or suppress immunity by delivering effector proteins,either to the inside or outside of plant *** attention has been focused on identifying the targets of effector proteins in the host and on characterizing how effector activities suppress immunity.

关键词： Oomycetes Phytophthora Susceptibility

Mitochondrial therapeutics and mitochondrial transfer for neurodegenerative diseases and aging

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Neural Regeneration Research 2025年第3期20卷 794-796页

作者： Neville Ng Michelle Newbery Nicole miles Lezanne Ooi Molecular Horizons and School of Chemistry and Molecular Bioscience University of WollongongWollongongNSWAustralia

Mitochondrial dysfunction and neurodegeneration:Progressive neurodegenerative diseases affect a significant proportion of the population;in a single year,there are as many as 276 million disabilities and 9 million dea... 详细信息

关键词： degenerative diseases Mitochondrial

Provenance and depositional setting of the Late MiocenePleistocene clastic sediments in the eastern Arabian Peninsula and western Iraq using rare earth elements geochemistry

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Acta Geochimica 2024年第2期43卷 399-410页

作者： Salih M.Awadh Zinah S.Al-Ankaz Mohanad R.A.Al-Owaidi John S.armstrong-Altrin Department of Geology College of ScienceUniversity of BaghdadBaghdadIraq Department of Geology College of ScienceUniversity of WasitWasit 52011Iraq Department of Applied Geology College of ScienceUniversity of BabylonBabylon 51001Iraq Unidad de Procesos Oceanicos y Costeros Instituto de Ciencias del Mar y LimnologíaUniversidad Nacional Autonoma de MexicoCiudad Universitaria04510 Mexico CityCDMXMexico Department of Marine Sciences Bharathidasan UniversityTiruchirapalliTamil Nadu 620024India

The sandstones of the Late miocene–Pliocene Dibdibba Formation in the Najaf–Karbala Plateau and Basra were examined to determine their source rocks and origin. The rare earth elements(REE) and trace elements(Sc, Co, V, and Th) concentrations in these sandstones revealed that they likely derived from a single source. The steep light rare earth elements(LREE) and flat, heavy rare earth element(HREE) patterns, negative Eu anomaly, and high ΣREE contents in sandstones suggest its derivation from a suggests that a passive continental margin environment and originated from felsic source rocks. The average concentration of ΣREE is 93.5 ppm, which is lower than that of the average crustal compositions like Upper Continental Crust and Post Archean Australian Shale. The higher proportion of LREE compared to HREE implies that these sandstones were recycled and derived from a distal source. The Th/Co, Th/Sc, La/Sc, La/Co, Eu/Eu*and(La/Lu)cn elemental ratios indicated that these Late Miocene–Pliocene sandstones were derived from felsic rocks located in the marginal region of the Arabian Shield.

关键词： REE Dibdibba formation Clastic sediments Passive continental margin

Enhanced detection of freeze‒thaw induced landslides in Zhidoi county(Tibetan Plateau,China)with Google Earth Engine and image fusion

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Advances in Climate Change Research 2024年第3期15卷 476-489页

作者： Jia-Hui YANG Yan-Chen GAO Lang JIA Wen-Juan WANG Qing-Bai WU Francis ZVOMUYA miles DYCK Hai-Long HE College of Natural Resources and Environment Northwest A&F UniversityYangling 712100China State Key Laboratory of Frozen Soil Engineering Northwest Institute of Eco-Environment and ResourcesChinese Academy of SciencesLanzhou 730000China Department of Soil Science University of Manitob1Winnipeg MB R3T 2N2Canada Department of Renewable Resources University of Albert1Edmonton AB T6G 2H1Canad

Freeze‒thaw induced landslides(FTILs)in grasslands on the Tibetan Plateau are a geological disaster leading to soil *** landslides reduce biodiversity and intensify landscape fragmentation,which in turn are strengthen by the persistent climate change and increased anthropogenic ***,conventional techniques for mapping FTILs on a regional scale are impractical due to their labor-intensive,costly,and time-consuming *** study focuses on improving FTILs detection by implementing image fusion-based Google Earth Engine(GEE)and a random forest *** of multiple data sources,including texture features,index features,spectral features,slope,and vertical‒vertical polarization data,allow automatic detection of the spatial distribution characteristics of FTILs in Zhidoi county,which is located within the Qinghai‒Tibet Engineering Corridor(QTEC).We employed statistical techniques to elucidate the mechanisms influencing FTILs *** enhanced method identifies two schemes that achieve high accuracy using a smaller training sample(scheme A:94.1%;scheme D:94.5%)compared to other methods(scheme B:50.0%;scheme C:95.8%).This methodology is effective in generating accurate results using only~10%of the training sample size necessitated by other *** spatial distribution patterns of FTILs generated for 2021 are similar to those obtained using various other training sample sources,with a primary concentration observed along the central region traversed by the *** results highlight the slope as the most crucial feature in the fusion images,accounting for 93%of FTILs occurring on gentle slopes ranging from 0°to 14°.This study provides a theoretical framework and technological reference for the identification,monitoring,prevention and control of FTILs in *** developments hold the potential to benefit the management of grassland ecosystem,reduce economic losses,and promote grassland sustainability.

关键词： Permafrost degradation Random forest Thaw slump Spatial distribution Tibetan Plateau

Empirical model for fusion cross sections of Ca-induced reactions

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Chinese Physics C 2024年第3期48卷 126-132页

作者： Reddi Rani.L N.Sowmya K.N Sridhar H C.Manjunatha M.M.armstrong Arasu Department of Physics St.Joseph's College(Autonomous)Affiliated to Bharathidasan UniversityTiruchirappalli620002TNIndia Department of Physics Govt.First.Grade CollegeChikkaballapur-562101KarnatakaIndia Department of Physics Govt.First.Grade CollegeMalur-563160KarnatakaIndia Department of Physics Govt.First.Grade CollegeDevanahalli-562110KarnatakaIndia

A new empirical formula for the astrophysical S-factor has been suggested as a function of the Coulomb interaction parameter,center of mass energy,and barrier *** 22 fusion reactions with ^(40,48)Ca as projectiles were considered for different targets,leading to compound nuclei with atomic and mass numbers varying between 40≤Z≤≤Z≤112 and 88≤A≤27888≤A≤278,*** fusion cross-sections have been estimated using the geometric factor,the Gamow-Sommerfield factor,and the empirical formula for the *** study's findings showed better agreement with those of available experiments when compared to Wong's *** present work leads to a smaller standard deviation value than Wong's formula when used to correlate the experimental data of calcium-induced fusion ***'s formula provides a good approximation of fusion cross-sections when the center of mass energy is below the fusion barrier when compared to above the fusion barrier.

关键词： fusion cross-sections Wong formula Gamow-Sommerfield-factor Geometric-factor S-factor

Seismic attribute and well-log analysis for channel characterization in the upper San Andres and Grayburg formations of the Midland Basin,Texas

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Energy Geoscience

Energy Geoscience 2024年第2期5卷 263-278页

作者： Sumit Verma Esra Yalçın Yılmaz Laura Ortiz Sanguino Justin Yandell miles A.Henderson Robert C.Trentham Department of Geosciences The University of Texas Permian BasinOdessaTXUSA School of Geosciences The University of OklahomaNormanOKUSA

The Permian Basin is one of the most prolific,and currently one of the most active,oil and gas basins in the *** Lower Permian strata in the Permian Basin have produced more than 14 billion barrels of oil(BBO),making it the largest volume of hydrocarbon in the *** in the Midland Basin during late Leonardian through early Guadalupian(ca.272e269 Ma)resulted in progradation of shelf edge and ultimately closure of the basin by Middle Permian *** analyzed a merged seismic survey covering parts of the Permian Basin(i.e.,Central Basin Platform and Midland Basin)in Andrews,Ector,and Midland Counties,*** seismic survey and well logs show the presence of gently dipping(ca.1°)clinoforms in the Upper San Andres and Grayburg Formations on the eastern edge of the Central Basin Platform and western Midland *** seismic attributes,curvature,and spectral decomposition identify low sinuosity slope channels oriented north-south,but such channels do not appear beyond the *** shelf edge shifts from north to south during deposition of the Upper San Andres and Grayburg *** identify five basinward shifts noted by the migration of the shelf edge toward the basin center and the presence of channel features along the depositional *** petrophysical analysis indicates that channels cut into carbonate rocks and are filled by siliciclastic sediments;this interpretation is supported by the most negative curvature anomalies along the channel axes caused by the differential compaction between the carbonate and siliciclastic *** are a few channels with a northwest-southeast strike,which matches the direction of the Concho Lineament observed by satellite *** observations are consistent with previous interpretations of the northern Midland Basin closure during Middle-Late Permian time.

关键词： Permian shelf carbonate