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Quantitative analysis of the interaction of heterologous viruses with Plum pox virus in C5 HoneySweet transgenic plums

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Journal of Integrative Agriculture 2019年第10期18卷 2302-2310页

作者： Khushwant Singh Tereza Neubauerová jiban kumar kundu Plant Virus and Vector Interactions Group Division of Crop Protection and Plant Health Crop Research Institute

Stone fruits are an important crop in most parts of the world and are heavily challenged by several viruses including Plum pox virus (PPV), Prune dwarf virus (PDV), Prunus necrotic ringspot virus (PNRSV), and Apple chlorotic leaf spot virus (ACLSV). We validated the PPV resistance in C5 plum plants (commercially known as HoneySweet) grown in the Czech Republic for more than 16 years in a field trial experiment under natural environmental conditions. We quantified single (PPV-Rec) and mixed viruses (PPV-Rec+ACLSV, PPV-Rec+PDV and PPV-Rec+ACLSV+PDV) in C5 transgenic plums inoculated for the period 2016 to 2018. The accumulation of PPV-Rec was high (~5.43E+05 copies) compared with that of ACLSV (~8.70E+04 copies) in the inoculated graft of C5 transgenic plants. Leaves close to the inoculum sources showed a differential level of virus titre in single and mixed infections (~10 to ~5×10^2 copies). C5 plants with permanent virus pressure showed 103- to 105-fold fewer copies of viruses than those of the inoculated graft. We observed high accumulation of conserved miRNAs such as miR167, miR69 and miR396 in C5 plants co-infected with PPV, ACLSV and PDV that are associated with its resistance against viruses. Overall, i) C5 transgenic plums showed high resistance to PPV infection, and a low level (~32 copies) of PPV only accumulated in some grafted plants, ii) high accumulation of PPV was found in inoculated grafts in single PPV infection and mixed infections, iii) heterologous virus infection sustained by ACLSV or PDV did not suppress PPV resistance, and iv) high and low conserved microRNAs accumulated in C5 plants.

关键词： PPV PDV ACLSV C5 HoneySweet resistance

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Wheat streak mosaic virus： incidence in field crops, potential reservoir within grass species and uptake in winter wheat cultivars

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Journal of Integrative Agriculture 2017年第3期16卷 523-531页

作者： Jana Chalupniková jiban kumar kundu Khushwant Singh Pavla Bartaková Eva Beoni Division of Crop Protection and Plant Health Crop Research Institute Prague 16106 Czech Republic Department of Experimental Plant Biology Faculty of Science Charles University in Prague Prague 12843 Czech Republic

Wheat streak mosaic virus（WSMV）has become a re-emerging pathogen in cereal crops in the Czech *** was first reported in the former Czechoslovakia in the early 1980s,and then no record of the virus was documented until *** incidence of the virus was recorded in recent years in several winter wheat fields and many grass ***,we surveyed the incidence of WSMV in cereal *** results demonstrated the existence of the virus in winter wheat and volunteer wheat during each year of the monitoring period,which spanned from 2013–*** the range of infected samples was low（6.4%of the total tested samples）,a high incidence of well-distributed virus was *** at least six fields,the virus reached severe and potentially epidemic *** accordance with our previous report detailing WSMV infection of native grasses,we tested several grass species commonly grown in the Czech *** found that some grass species acted as experimental hosts and possible reservoirs of the virus;these included Anthoxanthum odoratum（sweet vernal grass）,Arrhenatherum elatius（false oat-grass）,Lolium multiflorum（Italian rye-grass）,Bromus japonicus（Japanese chess）,Echinochloa crus-galli（barnyard grass）,Holcus lanatus（meadow soft grass）and Holcus mollis（creeping soft grass）.Some of these grass species are also important weeds of cereals,which may be the potential source of WSMV infection in cereal *** widely used winter wheat cultivars were tested in the field after artificial inoculation with WSMV to evaluate virus titre by ***,the tested cultivars had a low virus titre,which is associated with mild disease symptoms and may provide a good level of crop resistance to WSMV.

关键词： WSMV survey grass species cereal crops

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Two mutations in the truncated Rep gene RBR domain delayed the Wheat dwarf virus infection in transgenic barley plants

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Journal of Integrative Agriculture 2018年第11期17卷 2492-2500页

作者： Pavel Cejnar Ludmila Ohnoutkova Jan Ripl Tomas Vlcko jiban kumar kundu Division of Crop Protection and Plant Health Crop Research Institute Prague 16106 Czech Republic Department of Chemical Biology and Genetics Centre of the Region Hana for Biotechnological and Agricultural Research Palack~/ University Olomouc 78371 Czech Republic

Wheat dwarf virus （WDV）, an important cereal pathogen, is closely related to Maize streak virus （MSV）, a model virus of the Mastrevirus genus. Based on its similarity to known MSV resistance strategies, a truncated part of the WDV replication- associated （RepA） gene （WDVRepA215） and the WDV RepA gene with a mutated retinoblastoma-related protein （RBR） interaction domain （WDVRepA215RBRre^t） were cloned into the plPKb002 expression vector and transformed into immature embryos of spring barley cv. Golden Promise plants through Agrobacterium-mediated transformation. A detailed study of T1-generation plants infected by leafhoppers （Psammotettix alienus） fed on infection sources of variable strength was performed over a 5-week period encompassing the initial stages of virus infection. A DNA WDV TaqMan qPCR assay normalized using the DNA puroindoline-b SYBR Green qPCR assay for samples on a per week basis revealed an approximately 2-week delay in WDVRepA215RBR^mut plants to WDVRepA215 plants before significant increases in the WDV viral levels occurred. Both WDVRepA215 and WDVRepA215RBR^mut plants showed similar levels of transgenic transcripts over the screened period; however, the transgenic plants also showed increased numbers of infected plants compared to the control plants.

关键词： Wheat dwarf virus (WDV) truncated Rep gene RBR domain qPCR screening

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Virome identification in wheat in the Czech Republic using small RNA deep sequencing

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Journal of Integrative Agriculture 2020年第7期19卷 1825-1833页

作者： Khushwant SINGH Jana JAROSOVA Jan FOUSEK CHEN Huan jiban kumar kundu Plant Virus and Vector Interactions Group Division of Crop Protection and Plant HeatthCrop Research InstitutePrague 16106Czech Republic Zhejiang Tianke High-Technology Development Co. Ltd.Hangzhou 310012P.R.China

High-throughput deep-sequencing technology and bioinformatics analysis of the small RNA(sRNA)population isolated from plants allows universal virus detection and complete virome reconstruction for a given *** the present sRNA deep-sequencing analysis of virus-infected wheat samples in the Czech Republic,samples were firstly tested for barley yellow dwarf viruses(BYDVs),wheat streak mosaic virus(WSMV)and wheat dwarf virus(WDV)using ELISA,RT-PCR and *** sRNA sequencing of these samples yielded more than^60 million single-end 50-bp reads with high confidence for nine field samples of ***,16.5%of reads were virus-specific and 83.5%were mapped to the *** 21-nt reads(-7.7E+06 reads)were found than 24-nt(~6.20E+06 reads)or 22-nt(-4.30E+06 reads)*** novo assembly of the high-quality contigs revealed the presence of three earlier repoted viruses in the Czech Republic:BYDVs(31.48%),WSMV(24.23%)and WDV(2666%).We also showed the presence of cereal yellow dwarf virus(14.33%;two species CYDV-RPS and CYDV-RPV family Luteoviridae/Polerovirus)and wheat yellow dwarf virus(WYDV,3.30%;Luteoviridae).Phylogenetic analysis showed CYDV and WYDV grouped separately from ***,several recombination breakpoints were found among the groups of yellow dwarf viruses(BYDVs,CYDV,and WYDV).Using RNA deep sequencing,we confirmed the presence of the three known viruses(BYDVs,WSMV,and WDV)and the first record of two species of CYDV and WYDV in wheat in the Czech Republic.

关键词： NGS sRNA BYDVs CYDV WSMV WYDV WDV

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Molecular diversity of barley yellow dwarf virus-PAV from China and the Czech Republic

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Journal of Integrative Agriculture 2020年第11期19卷 2736-2745页

作者： May Oo KHINE Brozenka MICHAELA LIU Yan jiban kumar kundu WANG Xi-feng State Key Laboratory for Biology of Plant Diseases and Insect Pests Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijing 100193P.R.China Division of Crop Protection and Plant Health Crop Research InstitutePraha 16106Czech Republic

Wheat yellow dwarf disease(BYD),caused by different species of barley/cereal yellow dwarf viruses(B/CYDVs),is one of the most serious cereal diseases in China and the Czech *** genetic diversity of the virus directly influences disease epidemiology,the molecular diversity and population structure of 24 Chinese isolates and 16 the Czech Republic isolates of BYDV-PAV from different regions in two countries were analyzed by sequencing their coat protein(CP)and readthrough protein(RTP)domain(RTD)genes and comparing the sequences with six CP and 16 RTP sequences of BYDVPAV isolates from the NCBI database based on nucleotide identity position,phylogenetic analysis and nucleotide *** identities between the Chinese and the Czech Republic isolates for the CP were 76.6–99.4%,73.9–89.1%for RTD(ORF5),*** Chinese and the other country isolates showed 74.7–99.2%nucleotide identity for RTP(ORF3+ORF5).Phylogenetic analysis of CP sequences showed that 20 Chinese isolates clustered in the same clade,but the other four Chinese isolates clustered in another clade with the isolates from the Czech Republic and other *** population of BYDV-PAV in China had greater nucleotide variability and was more divergent than that in the Czech *** and ecological factors but not hosts might contribute to the population differences in the two countries.

关键词： barley yellow dwarf virus-PAV coat protein(CP) readthrough protein(RTP) phylogeny genetic diversity China the Czech Republic

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Viral pathogens and plant parasitic nematode

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Journal of Integrative Agriculture 2017年第3期16卷 509-509页

作者： jiban kumar kundu Division of Crop Protection and Plant Health Crop Research Institute Prague 16106 Czech Republic

This special focus is dedicated to three parts：i）One of the most ubiquitous viral pathogens of stone fruit tree,Plum pox virus（PPV）;ii）a re-emerging pathogen,Wheat streak mosaic virus（WSMV）of cereal crops in Ce... 详细信息

关键词： PPV Viral pathogens and plant parasitic nematode

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Phytochemical Screening and Evaluation of Pharmacological Potential of Baliospermum solanifolium Leaf Extract

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Clinical Complementary Medicine and Pharmacology 2024年第1期4卷 69-75页

作者： Amit Mazumder Rabindra Nath Acharyya Milton kumar kundu Pritam kundu Md.Amirul Islam Md.Mustafizur Rahman Pharmacy Discipline Khulna UniversityKhulna-9208Bangladesh

Background:Baliospermum solanifolium is a traditional medicinal plant,locally known as“dantigaacha”from Eu-phorbiaceae family,and has been used in different diseases treatments likes helminthiasis,skin diseases,diabetes,snake-bite,and ***:Depending on the traditional uses of *** and the lack of scientific works,we aimed to conduct some pharmacological tests on its ***:Active constituents of *** were assessed by qualitative ***(2,2-diphenyl-1-picrylhydrazyl)was used for free radical scavenging *** change and mortality rate were used as indicators to assess the toxicity of *** antidiabetic potential was evaluated by oral glucose toler-ance test(OGTT)and alpha-glucosidase enzyme inhibitory *** antidiarrheal activity,castor oil-induced mice were *** test was carried out by disk diffusion assay and MIC ***,analgesic activity was done by acetic acid-induced writhing ***:*** contains alkaloids,carbohydrates,glycosides,flavonoids,tannis,phenolics *** toxicity test ensured the safety of the *** DPPH,the extract showed antioxidant activity with an IC50(con-centration needed to scavenge 50%DPPH)value of 61.65μg/*** phenolic,flavonoid and tannin contents were determined as 124 mg GAE/g,440 mg QE/g and 344 mg GAE/g dried extract,*** OGTT,the ex-tract reduced the blood glucose level *** the alpha-glucosidase inhibitory activity,the plant showed a concentration-dependent reduction of the enzyme at IC50 of 8.53 mg/*** the antidiarrheal test,*** inhibit defecation 30.69%and 53.41%at dose 250 mg/kg and 500 mg/kg,*** extract also showed antibacterial activity against four bacterial strains in the disk diffusion method and minimum inhibitory concen-tration(MIC)values were 62.5μg/mL,62.5μg/mL,125μg/mL and 62.5μg/mL against four bacterial strains,*** an

关键词： Baliospermum solanifolium Antioxidant Antidiabetic Antidiarrheal Antibacterial Analgesic

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Trigonelline mitigates bleomycin-induced idiopathic pulmonary fibrosis in mice

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Asian Pacific Journal of Tropical Biomedicine 2024年第9期14卷 391-400,I0008-I0291页

作者： Swapnil Gavhane Chandrakant Gawli Sachin kumar Biswajit Das Gayatri Marathe Vishal S.Patil Harun M.Patel Basavaraj Bommanahalli Chanakya Nath kundu Chandragouda R.Patil R.C.Patel Institute of Pharmaceutical Education and Research Karwand NakaShirpurMaharashtra 425405India Department of Pharmacology Delhi Pharmaceutical Sciences and Research UniversityNew Delhi 110017India School of Biotechnology Kalinga Institute of Industrial TechnologyBhubaneshwar 751024India Gadag Institute of Medical Sciences GadagKarnataka 582103India

Objective:To evaluate the effect of trigonelline on bleomycin-induced idiopathic pulmonary fibrosis(IPF)and to explore its underlying mechanisms using network ***:IPF was induced in C57BL/6 mice by a single intratracheal instillation of bleomycin(5 mg/kg).Trigonelline was administered at doses of 25,50,and 100 mg/kg/day orally from the 2nd day post-bleomycin induction up to the 14th *** IPF-induced mice,lung coefficient,immune cell infiltration in bronchoalveolar lavage fluid,and oxidative stress were *** alterations in lung tissues were also ***,network pharmacology approach was conducted to reveal molecular interactions of bleomycin and trigonelline with targets of ***:Trigonelline treatment reduced bleomycin-induced oxidative stress and immune cell infiltration,and mitigated physiological changes in the lung tissues of ***,trigonelline alleviated bleomycin-induced histological alterations in lung *** pharmacology analysis showed that bleomycin and trigonelline interacted with IPF targets,such as NFKB1,HDAC2,HIF1A,and ***:The interaction of trigonelline with key IPF targets and its ameliorative effects on lung damage and oxidative stress highlight its potential in treating *** may be considered an antifibrotic agent for further clinical development.

关键词： Trigonelline Idiopathic pulmonary fibrosis Antifibrotic Bleomycin Network pharmacology

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Transgenic plum Prunus domestica L., clone C5(cv. Honey Sweet) for protection against sharka disease

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Journal of Integrative Agriculture 2017年第3期16卷 516-522页

作者： Jaroslav Polák jiban K kundu Boris Krska Eva Beoni Petr Komínek Jitka Pívalová Jana Jarosová Division of Crop Protecting and Plant Health Crop Research Institute Prague 16106 Czech Republic Horticultural Faculty Lednice Mendel University Brno Lednice 69144 Czech Republic

Sharka caused by Plum pox virus（PPV）is the most harmful disease of stone fruits in Europe and elsewhere in the *** is no highly PPV resistant cultivar of *** approach has led to the development of resistance through genetic *** this study,we evaluated a transgenic plum Prunus domestica L.,clone C5（*** Sweet）,where the PPV resistance is based on RNA interference（RNAi）.Resistance in C5 plums has been evaluated for PPV,Prune dwarf virus（PDV）,and Apple chlorotic leaf spot virus（ACLSV）in a regulated field trial in the Czech Republic for 12 years（2002–2013）.Even under high and permanent infection pressure introduced through graft inoculation of the viruses,PPV has been detected in C5 trees only in several leaves situated close to the point of inoculum grafting in the first nine *** symptoms of PPV disappeared year by *** PPV symptoms were observed in the last three years and results of ELISA detection were *** results were obtained,when RT-PCR was used for PPV *** natural infection of PPV by aphids was recorded in C5 plums,even if PPV infected plants were growing in the same experimental field in close ***-infections of PPV with PDV and/or ACLSV had practically no influence on stability of resistance in C5 *** years of field testing in the Czech Republic clearly demonstrated the high level of resistance of C5 either to PPV infection by graft inoculation or natural infection through aphid vectors.

关键词： PPV C5 resistance transgenic plum HoneySweet

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Modeling a Novel Hyper-Parameter Tuned Deep Learning Enabled Malaria Parasite Detection and Classification

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Computers, Materials & Continua 2023年第12期77卷 3289-3304页

作者： Tamal kumar kundu Dinesh kumar Anguraj S.V.Sudha Department of Computer Science&Engineering Koneru Lakshmaiah Education FoundationVaddeswaramAndhra PradeshIndia Department of Artificial Intelligence and Data Science KPR Institute of Engineering and TechnologyCoimbatoreTamil Nadu641407India

A theoretical methodology is suggested for finding the malaria parasites’presence with the help of an intelligent hyper-parameter tuned Deep Learning(DL)based malaria parasite detection and classification(HPTDL-MPDC)in the smear images of human peripheral *** existing approaches fail to predict the malaria parasitic features and reduce the prediction *** trained model initiated in the proposed system for classifying peripheral blood smear images into the non-parasite or parasite classes using the available online *** Adagrad optimizer is stacked with the suggested pre-trained Deep Neural Network(DNN)with the help of the contrastive divergence method to *** features are extracted from the images in the proposed system to train the DNN for initializing the visible *** smear images show the concatenated feature to be utilized as the feature vector in the proposed ***,hyper-parameters are used to fine-tune DNN to calculate the class labels’*** suggested system outperforms more modern methodologies with an accuracy of 91%,precision of 89%,recall of 93%and F1-score of 91%.The HPTDL-MPDC has the primary application in detecting the parasite of malaria in the smear images of human peripheral blood.

关键词： Malaria parasite classification hyper-parameter deep neural network the feature vector

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