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Rapid detection of the rice false smut fungus Ustilaginoidea virens by lateral flow strip-based recombinase polymerase amplification assay

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Journal of Integrative Agriculture 2024年第11期 3763-3773页

作者： Jiacheng Xi Sanlian Wan Yue Li Yuandi Xu Jing Yang Ting Zhang Jiajia Chen Zhengguang Zhang Danyu Shen Haifeng Zhang Sanya Institute of Nanjing Agricultural University/Key Laboratory of Integrated Management of crop Diseases and Pests of Ministry of Education Department of Plant Pathology College of Plant Protection Nanjing Agricultural University Sanya Extension Service Center for Agricultural Technology College of Landscape Architecture Jiangsu Vocational College of Agriculture and Forestry

Rice false smut, caused by Ustilaginoidea virens, is a devastating disease that greatly reduces rice yield and ***, controlling rice false smut disease is challenging due to the unique infection mode of U. virens. Therefore,there is a need for early diagnosis and monitoring techniques to prevent the spread of this disease. Lateral flow strip-based recombinase polymerase amplification(LF-RPA) overcomes the limitations of current U. virens detection technologies, which are time-consuming, require delicate equipment, and have a high false-positive rate. In this study, we used a comparative genomics approach to identify Uv＿3611, a specific gene of U. virens, as the target for the LF-RPA assay. The designed primers and probe efffectively detected the genomic DNA(gDNA) of U. virens and demonstrated no cross-reactivity with related pathogens. Under optimal conditions, the LF-RPA assay demonstrated a sensitivity of 10 pg of U. virens gDNA. Additionally, by incorporating a simplified PEG-NaOH method for plant DNA extraction, the LF-RPA assay enabled the detection of U. virens in rice spikelets within 30 min, without the need for specialized equipment. Furthermore, the LF-RPA assay successfully detected U. virens in naturally infected rice and seed samples in the field. Therefore, the LF-RPA assay is sensitive, efficient, and convenient, and could be developed as a kit for monitoring rice false smut disease in the field.

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Genome-wide and candidate gene association studies identify BnPAP17 as conferring the utilization of organic phosphorus in oilseed rape

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Journal of Integrative Agriculture 2024年第4期23卷 1134-1149页

作者： Ping Xu Hao Li Haiyuan Li Ge Zhao Shengjie Dai Xiaoyu Cui Zhenning Liu Lei Shi Xiaohua Wang College of Agriculture and Forestry Science Linyi UniversityLinyi 27600China National Key Laboratory of crop Genetic Improvement/Microelement Research Centre/Key Laboratory of Arable Land Conservation(Middle and Lower Reaches of Yangtze River) Ministry of Agriculture and Rural Affairs/Huazhong Agricultural UniversityWuhan 430070China

Phosphorus(P)is essential for living plants,and P deficiency is one of the key factors limiting the yield in rapeseed production *** the most important organ for plants,root morphology traits(RMTs)play a key role in P *** investigate the genetic variability of RMT under low P availability,we dissected the genetic structure of RMTs by genome-wide association studies(GWAS),linkage mapping and candidate gene association studies(CGAS).A total of 52 suggestive loci were associated with RMTs under P stress conditions in 405 oilseed rape *** purple acid phosphatase gene BnPAP17 was found to control the lateral root number(LRN)and root dry weight(RDW)under low P *** expression of BnPAP17 was increased in shoot tissue in P-efficient cultivars compared to root tissue and P-inefficient cultivars in response to low P ***,the haplotype of BnPAP17^(Hap3)was detected for the selective breeding of P efficiency in oilseed ***-expression of the BnPAP17^(Hap3)could promote the shoot and root growth with enhanced tolerance to low P stress and organic phosphorus(Po)utilization in oilseed ***,these findings increase our understanding of the mechanisms underlying BnPAP17-mediated low P stress tolerance in oilseed rape.

关键词： genome-wide association studies(GWAS) root morphology traits(RMTs) organic phosphorus(Po) oilseed rape BnPAP17

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Three rare anti-inflammatory sesquiterpene lactones from Magnolia grandiflora

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Chinese Journal of Natural Medicines 2024年第3期22卷 265-272页

作者： XU Shuangyu ZHANG Feng TAO Linlan JIANG Yangming HUANG Tao LI Yanan HU Zhanxing YANG Jue HAO Xiaojiang YUAN Chunmao State Key Laboratory of Functions and Applications of Medicinal plants Guizhou Medical UniversityGuiyang 550014China School of Pharmaceutical Sciences Guizhou Medical UniversityGuiyang 550025China Natural Products Research Center of Guizhou Province Guiyang 550014China State Key Laboratory of Phytochemistry and Plant Resources in West China Kunming Institute of BotanyChinese Academy of SciencesKunming 650201China

Four new sesquiterpene lactones(SLs)(1–4),along with a biosynthetically related SL(5),have been isolated from the leaves of Magnolia *** A(1)is notable as the first C18 homogemarane type SL,featuring a unique 1,7-dioxaspiro[4.4]nonan-6-one *** 2 and 3,representing the first instances of chlorine-substituted gemarane-type SL analogs in natural products,were also *** structures of these isolates were elucidated through a combination of spectroscopic data analysis,electronic circular dichroism calculations,and X-ray single-crystal diffraction *** isolates demonstrated anti-inflammatory activity in lipopolysaccharide-stimulated RAW264.7 ***,3–5 showed a significant inhibitory effect on nitric oxide production,with IC50 values ranging from 0.79 to 4.73μmol·L^(−1).Additionally,4 and 5 exhibited moderate cytotoxic activities against three cancer cell lines,with IC50 values between 3.09 and 11.23μmol·L^(−1).

关键词： Magnolia grandiflora Sesquiterpene lactones Isolation and identification Anti-inflammatory activity

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Next Generation Nutrition: Genomic and Molecular Breeding Innovations for Iron and Zinc Biofortification in Rice

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Rice science 2024年第5期31卷 526-544,I0029,I0030页

作者： Kunhikrishnan Hemalatha DHANYALAKSHMI Reshma MOHAN Sasmita BEHERA Uday Chand JHA Debashis MOHARANA Ahalya BEHERA Sini THOMAS Preman Rejitha SOUMYA Rameswar Prasad SAH Radha BEENA department of Plant Physiology College of AgriculturePadannakkadKerala Agricultural UniversityKerala 671314India department of Plant Physiology College of AgricultureVellayaniKerala Agricultural UniversityKerala 695522India crop Improvement Division India Council of Agricultural Research-National Rice Research InstituteOdisha 7530006India department of Plant Breeding and Genetics Indian Institute of Pulse ResearchKanpur 208024India department of Plant Physiology College of AgricultureKumarakomKerala Agricultural UniversityKerala 686563India

Global efforts to address malnutrition and hidden hunger, particularly prevalent in low- and middle-income countries, have intensified, with a focus on enhancing the nutritional content of staple crops like rice. Despite serving as a staple for over half of the world's population, rice falls short in meeting daily nutritional requirements, especially for iron(Fe) and zinc(Zn). Genetic resources, such as wild rice species and specific rice varieties, offer promising avenues for enhancing Fe and Zn content. Additionally, molecular breeding approaches have identified key genes and loci associated with Fe and Zn accumulation in rice grains. This review explores the genetic resources and molecular mechanisms underlying Fe and Zn accumulation in rice grains. The functional genomics involved in Fe uptake, transport, and distribution in rice plants have revealed key genes such as OsFRO1, OsIRT1, and OsNAS3. Similarly, genes associated with Zn uptake and translocation, including OsZIP11 and OsNRAMP1, have been identified. Transgenic approaches, leveraging transporter gene families and genome editing technologies, offer promising avenues for enhancing Fe and Zn content in rice grains. Moreover, strategies for reducing phytic acid(PA) content, a known inhibitor of mineral bioavailability, have been explored, including the identification of low-PA mutants and natural variants. The integration of genomic information, including whole-genome resequencing and pan-genome analyses, provides valuable insights into the genetic basis of micronutrient traits and facilitates targeted breeding efforts. Functional genomics studies have elucidated the molecular mechanisms underlying Fe uptake and translocation in rice. Furthermore, transgenic and genome editing techniques have shown promise in enhancing Fe and Zn content in rice grains through the manipulation of key transporter genes. Overall, the integration of multi-omics approaches holds significant promise for addressing global malnutri

关键词： biofortification grain quality iron phytic acid rice zinc

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Near Infrared Spectroscopy (NIRS) Model-Based Prediction for Protein Content in Cowpea

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American Journal of Plant Sciences 2024年第3期15卷 145-160页

作者： Kavera Biradar Waltram Ravelombola Aurora Manley Caroline Ruhl Texas A&M AgriLife Research Vernon TX USA University of Agricultural Sciences Dharwad India department of Soil and crop Sciences Texas A&M University College Station TX USA

Cowpea (Vigna unguiculata L. Walp) is a multi-purpose legume with high quality protein for human consumption and livestock. The objective of this work was to develop near-infrared spectroscopy (NIRS) prediction models to estimate protein content in cowpea. A total of 116 cowpea breeding lines with a wide range of protein contents (19.28 % to 32.04%) were selected to build the model using whole seed and ground seed samples. Partial least-squares discriminant analysis (PLS-DA) regression technique with different pre-treatments (derivatives, standard normal variate, and multiplicative scatter correction) were carried out to develop the protein prediction model. Results showed: 1) spectral plots of both the whole seed and ground seed showed higher spectral scatter at higher wavelengths (>1450 nm), 2) data pre-processing affects prediction accuracy for bot whole seed and ground seed samples, 3) prediction using ground seed samples (0.64 R2 0.85) is better than the whole seed (0.33 R2 0.78), and 4) the data pre-processing second derivative with standard normal variate has the best prediction (R2_whole seed = 0.78, R2_ground seed = 0.85). The results will be of interest in cowpea breeding programs aimed at improving total seed protein content.

关键词： Cowpea Germplasm Protein Near-Infrared Spectroscopy (NIRS) Partial Least Squares (PLS)

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Expression analysis of the R2R3-MYB gene family in upland cotton and functional study of GhMYB3D5 in regulating Verticillium wilt resistance

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Journal of Integrative Agriculture 2024年第10期23卷 3294-3310页

作者： Jie Liu Zhicheng Wang Bin Chen Guoning Wang Huifeng Ke Jin Zhang Mengjia Jiao Yan Wang Meixia Xie Yanbin Li Dongmei Zhang Xingyi Wang Qishen Gu Zhengwen Sun Liqiang Wu Xingfen Wang Zhiying Ma Yan Zhang State Key Laboratory of North China crop Improvement and Regulation/North China Key Laboratory for Germplasm Resources Ministry of Education/College of AgronomyHebei Agricultural UniversityBaoding 071001China

Improving plant resistance to Verticillium wilt(VW),which causes massive losses in Gossypium hirsutum,is a global *** plants need to efficiently allocate their limited energy resources to maintain a balance between growth and ***,few transcriptional regulators specifically respond to Verticillium dahliae and the underlying mechanism has not been identified in *** this study,we found that the that expression of most R2R3-MYB members in cotton is significantly changed by *** infection relative to the other MYB *** novel R2R3-MYB transcription factor(TF)that specifically responds to ***,GhMYB3D5,was ***3D5 was not expressed in 15 cotton tissues under normal conditions,but it was dramatically induced by *** *** functionally characterized its positive role and underlying mechanism in VW *** *** infection,the up-regulated GhMYB3D5 bound to the GhADH1 promoter and activated *** addition,GhMYB3D5 physically interacted with GhADH1 and further enhanced the transcriptional activation of ***,the transcriptional regulatory module GhMYB3D5-GhADH1 then promoted lignin accumulation by improving the transcriptional levels of genes related to lignin biosynthesis(GhPAL,GhC4H,Gh4CL,and GhPOD/GhLAC)in cotton,thereby enhancing cotton VW *** results demonstrated that the GhMYB3D5 promotes defense-induced lignin accumulation,which can be regarded as an effective way to orchestrate plant immunity and growth.

关键词： cotton Verticillium wilt resistance GhMYB3D5 GhADH1 transcriptional regulatory module

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Exogenous application of bio-stimulants and growth retardants improve nutrient absorption and fiber quality in upland cotton

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Journal of Cotton Research 2024年第2期7卷 137-147页

作者： Al-Khayri Jameel M. Arif Muhammad Kareem Shadia Hama Salih Anwar Adeel Dehghanisanij Hossein Emami Somayeh Yasmeen Azra Aftab Komal Negm Mohamed department of Agricultural Biotechnology College of Agriculture and Food SciencesKing Faisal University31982 Al‑AhsaSaudi Arabia Water Resources Zone Irrigation Department PunjabD.G.KhanPakistan department of Biotechnology and crop Science College of Agricultural Engineering SciencesUniversity of SulaimaniSulaimaniIraq department of Agronomy PMAS-Arid Agriculture UniversityRawalpindiPakistan Agricultural Research Education and Extension OrganizationAgricultural Engineering Research InstituteKarajAlborzIran department of Water Engineering University of TabrizTabrizIran department of Agronomy Bahauddin Zakariya UniversityMultanPakistan department of Plant Breeding and Genetics Bahauddin Zakariya UniversityMultanPakistan Agricultural Research Center Cotton Research InstituteGiza 12619Egypt

Background Natural and synthetic plant growth regulators are essential for plant health,likewise these regulators also play a role in increasing organic production productivity and improving quality and yield *** the present study,we have evaluated the effects of foliar applied plant growth regulators,i.e.,moringa leaf extract(MLE)and mepiquat chloride(MC)alone and in combination MC and MLE on the conventional cotton cultivar(CIM 573)and transgenic one(CIM 598).The growth regulators were applied at the start of bloom,45 and 90 days after *** The application of MC and MLE at 90 days after blooming significantly improved the relative growth rate,net assimilation rate,the number of bolls per plant,and seed cotton ***,the combined application of MLE and MC at 90 days after blooming significantly boosted the nitrogen uptake in locules,as well as the phosphorus and potassium uptake in the leaves of both cotton *** application of MLE alone has considerably improved the nitrogen uptake in leaves,and phosphorus and potassium contents in locules of Bt and conventional cotton ***,Bt cotton treated with MLE at 90 days after blooming produced significantly higher ginning out turn and oil *** in combination(MLE+MC)at 90 days after blooming produced considerably higher micronaire value,fiber strength,and staple length in conventional *** The natural growth enhancer,MLE is a rich source of minerals and zeatin,improving the nutrient absorption and quality of cotton fiber in both conventional and Bt cotton cultivars.

关键词： Bio-stimulant Cotton Fiber quality Mepiquat chloride Moringa leaf extract Potassium accumulation Oil contents

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Eco-evolutionary evidence for the global diversity pattern of Cycas(Cycadaceae)

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Journal of Integrative Plant Biology 2024年第6期66卷 1170-1191页

作者： Jian Liu Anders JLindstrom Yiqing Gong Shanshan Dong Yusheng(Chris)Liu Shouzhou Zhang Xun Gong CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201China department of Economic plants and Biotechnology Yunnan Key Laboratory for Wild Plant ResourcesKunming Institute of BotanyChinese Academy of SciencesKunming 650201China University of Chinese Academy of Sciences Beijing 100049China Global Biodiversity Conservancy 144/124 Moo3Soi Bua ThongBangsalaeSattahipChonburi 20250Thailand Key Laboratory of Southern Subtropical Plant Diversity Fairy Lake Botanical GardenShenzhen&Chinese Academy of SciencesShenzhen 518004China department of Earth and Environmental Sciences Indiana University-IndianapolisIndianapolisIN 46202USA

The evolution of the latitudinal diversity gradient(LDG),characterized by a peak in diversity toward the tropics,has captured significant attention in evolutionary biology and ***,the inverse LDG(i-LDG)mechanism,wherein species richness increases toward the poles,remains inadequately *** are among one of the oldest lineages of extant seed plants and have undergone extensive diversification in the ***,the extant cycad abundance exhibits an i-LDG pattern,and the underlying causes for this phenomenon remain largely ***,using 1,843 nuclear genes from a nearly complete sampling,we conducted comprehensive phylogenomic analyses to establish a robust species-level phylogeny for Cycas,the largest genus within *** then reconstructed the spatial-temporal dynamics and integrated global environmental data to evaluate the roles of species ages,diversification rates,contemporary environment,and conservatism to ancestral niches in shaping the i-LDG *** found Cycas experienced decreased diversification rates,coupled with the cooling temperature since its origin in the Eocene from continental *** regions have distinctively contributed to the formation of i-LDG for Cycas,with the northern hemisphere acting as evolutionary museums and the southern hemisphere serving as ***,water-related climate variables,specifically precipitation seasonality and potential evapotranspiration,were identified as paramount factors constraining Cycas species richness in the rainforest biome near the ***,the adherence to ancestral monsoonal climates emerges as a critical factor in sustaining the diversity *** study underscores the imperative of integrating both evolutionary and ecological approaches to comprehensively unravel the mechanisms underpinning global biodiversity patterns.

关键词： cycads latitudinal diversity gradient niche conservatism spatiotemporal diversification species richness

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Fine mapping and characterization of stripe rust resistance gene YrAYH in near-isogenic lines derived from a cross involving wheat landrace Anyuehong

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The crop Journal 2024年第3期12卷 826-835页

作者： Li Long Jue Li Linyu Huang Huiling Jin Fangnian Guan Haipeng Zhang Sasa Zhao Hao Li Zhien Pu Wei Li Qiantao Jiang Yuming Wei Jian Ma Houyang Kang Shoufen Dai Pengfei Qi Qiang Xu Mei Deng Youliang Zheng Yunfeng Jiang Matthew James Moscou Guoyue Chen State Key Laboratory of crop Gene Exploration and Utilization in Southwest China Sichuan Agricultural UniversityChengdu 611130SichuanChina Triticeae Research Institute Sichuan Agricultural UniversityChengdu 611130SichuanChina College of Resources Sichuan Agricultural UniversityChengdu 611130SichuanChina The Sainsbury Laboratory Norwich Research ParkNorwich NR47UHEnglandUK United States department of Agriculture-Agricultural Research Service Cereal Disease LaboratorySt.PaulMN 55108USA

Stripe rust,caused by Puccinia striiformis ***(Pst),is a devastating disease in wheat *** and characterizing new resistance genes/QTL is crucial for wheat breeding *** this study,we fine-mapped and characterized a stripe rust resistance gene,YRAYH,on chromosome arm 5BL in the Chinese wheat landrace Anyuehong(AYH).Evaluations of stripe rust response to prevalent Chinese Pst races in near-isogenic lines derived from a cross of Anyuehong and Taichung 29 showed that YrAYH conferred a high level of resistance at all growth *** mapping using a large segregating population of 9748 plants,narrowed the YRAYH locus to a 3.7 Mb interval on chromosome arm 5BL that included 61 annotated *** analysis of two NIL pairs identified 64 upregulated differentially expressed genes(DEGs)in the resistant NILs(NILs-R).Annotations indicated that many of these genes have roles in plant disease resistance *** a combined approach of fine-mapping and transcriptome sequencing,we identified a serine/threonine-protein kinase SRPK as a candidate gene underlying YrAYH.A unique 25 bp insertion was identified in the NILs-R compared to the NILs-S and previously published wheat *** InDel marker was developed and co-segregated with *** trait evaluation of the NILs suggested that YrAYH not only reduces the impact of stripe rust but was also associated with a gene that increases plant height and spike length.

关键词： Candidate gene analysis crop protection Puccinia striiformis Transcriptome analyses

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Mining elite loci and candidate genes for root morphology-related traits at the seedling stage by genome-wide association studies in upland cotton(Gossypium hirsutum L.)

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Journal of Integrative Agriculture 2024年第10期23卷 3406-3418页

作者： Huaxiang Wu Xiaohui Song Muhammad Waqas-Amjid Chuan Chen Dayong Zhang Wangzhen Guo State Key Laboratory of crop Genetics&Germplasm Enhancement and Utilization/Engineering Research Center of Cotton Germplasm Enhancement and Application Ministry of Education/Nanjing Agricultural UniversityNanjing 210095China

Root system architecture plays an essential role in water and nutrient acquisition in plants,and it is significantly involved in plant adaptations to various environmental *** this study,a panel of 242 cotton accessions was collected to investigate six root morphological traits at the seedling stage,including main root length(MRL),root fresh weight(RFW),total root length(TRL),root surface area(RSA),root volume(RV),and root average diameter(AvgD).The correlation analysis of the six root morphological traits revealed strong positive correlations of TRL with RSA,as well as RV with RSA and AvgD,whereas a significant negative correlation was found between TRL and ***,a genome-wide association study(GWAS)was performed using the root phenotypic and genotypic data reported previously for the 242 accessions using 56,010 single nucleotide polymorphisms(SNPs)from the CottonSNP80K array.A total of 41 quantitative trait loci(QTLs)were identified,including nine for MRL,six for RFW,nine for TRL,12 for RSA,12 for RV and two for *** them,eight QTLs were repeatedly detected in two or more *** these results with a transcriptome analysis,we identified 17 candidate genes with high transcript values of transcripts per million(TPM)≥30 in the ***,we functionally verified the candidate gene GH_D05G2106,which encodes a WPP domain protein 2in root development.A virus-induced gene silencing(VIGS)assay showed that knocking down GH_D05G2106significantly inhibited root development in cotton,indicating its positive role in root system architecture ***,these results provide a theoretical basis and candidate genes for future studies on cotton root developmental biology and root-related cotton breeding.

关键词： cotton root-morphology traits quantitative trait loci candidate genes GWAS

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