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Emergence of a novel multi-resistance-mediating integrative and conjugative element ICEPmu3 in Pasteurella multocida

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Journal of Integrative Agriculture 2024年第11期 3938-3942页

作者： Jiao He Zhishuang Yang Mingshu Wang Renyong Jia Shun Chen Mafeng Liu Xinxin Zhao Qiao Yang Ying Wu Shaqiu Zhang Juan Huang Xumin Ou Di Sun Bin Tian Yu He Zhen Wu Anchun Cheng Dekang Zhu research center of Avian diseases College of Veterinary MedicineSichuan Agricultural University International Joint research center for animal disease prevention and control of Sichuan Province engineering research center of southwest animal disease prevention and control technology Ministry of Education Key Laboratory of Agricultural Bioinformatics Ministry of Education

Pasteurella multocida (PM) has been infecting a variety of hosts for a long time,causing sustained economic losses worldwide;however,there have been limited studies on its extensive adaptability (Aktories et al.2012).Analysis of strains data collected in our laboratory revealed that PM typically acquires foreign genes through transformation and conjugation,rather than transformation and *** and conjugative elements (ICEs)are a crucial mechanism that leads to abrupt changes in niche preferences and enhances environmental adaptability for bacteria,with their number far exceeding the number of plasmids and phages (Wozniak and Waldor 2010;Johnson and Grossman 2015;Botelho and Schulenburg 2021).Previous research has shown that the European bovine-sourced strain Pm36950 contains the experimentally transferable resistant ICEPmu1,which could integrate into the host chromosome or forming a circular intermediate (Michael et al.2012).Additionally,a few studies have suggested that PM strains isolated from European bovine and Asian swine might contain ICEs,but these claims lack experimental verification (Klima et al.2014;Moustafa et al.2015;Kadlec et al.2017;Peng et al.2017;Beker et al.2018;Schink et al.2022).Currently,there is no data available on ICE-carrying PM strains isolated from hosts outside of European cattle or Chinses *** letter presents a report on a novel ICE identified in the hypervirulent and multidrug-resistant PM HN141014 strain isolated from Chinese *** ICE was specifically analyzed for its resistance genes,transferable capacity and host diversity.

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Significant genomic introgression from grey junglefowl(Gallus sonneratii)to domestic chickens(Gallus gallus domesticus)

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Journal of animal Science and Biotechnology 2024年第4期15卷 1482-1493页

作者： Xiurong Zhao Junhui Wen Xinye Zhang Jinxin Zhang Tao Zhu Huie Wang Weifang Yang Guomin Cao Wenjie Xiong Yong Liu Changqing Qu Zhonghua Ning Lujiang Qu National engineering Laboratory for animal Breeding College of Animal Science and TechnologyChina Agricultural UniversityBeijing 100193China Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin Xinjiang Production and Construction CorpsTarim UniversityAlar 843300China Beijing Municipal General Station of animal Science Beijing 100107China animal husbandry station of Fangchenggang FangchenggangGuangxi Province 538001China animal disease prevention and control center of Fangchenggang FangchenggangGuangxi Province 538001China Beijing Agricultural Effect Poultry Industry Co. Ltd.Beijing 101100China engineering technology research center of Anti‑aging Chinese Herbal Medicine of Anhui Province Fuyang Normal UniversityFuyangAnhui 236037China

Background Chicken is one of the most numerous and widely distributed species around the world,and many studies support the multiple ancestral origins of domestic *** research regarding the yellow skin phenotype in domestic chickens(regulated by BCO2)likely originating from the grey junglefowl serves as crucial evidence for demonstrating the multiple origins of ***,beyond the BCO2 gene region,much remains unknown about the introgression from the grey junglefowl into domestic ***,in this study,based on wholegenome data of 149 samples including 4 species of wild junglefowls and 13 local domestic chicken breeds,we explored the introgression events from the grey junglefowl to domestic *** We successfully detected introgression regions besides BCO2,including two associated with growth trait(IGFBP2 and TKT),one associated with angiogenesis(TIMP3)and two members of the heat shock protein family(HSPB2 and CRYAB).Our findings suggest that the introgression from the grey junglefowl may impact the growth performance of ***,we revealed introgression events from grey junglefowl at the BCO2 region in multiple domestic chicken breeds,indicating a phenomenon where the yellow skin phenotype likely underwent strong selection and was ***,our haplotype analysis shed light on BCO2 introgression event from different sources of grey junglefowl into domestic chickens,possibly suggesting multiple genetic flows between the grey junglefowl and domestic *** In summary,our findings provide evidences of the grey junglefowl contributing to the genetic diversity of domestic chickens,laying the foundation for a deeper understanding of the genetic composition within domestic chickens,and offering new perspectives on the impact of introgression on domestic chickens.

关键词： BCO2 Domestic chickens Grey junglefowl Introgression

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Identification of Shell Color-Associated Genes Using Mantle Branch-Specific RNA Sequencing of Yellow-Colored Line of Pearl Oyster Pinctada fucata martensii

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Journal of Ocean University of China 2024年第4期23卷 1076-1086页

作者： PENG Haiming LIAO Yongshan YANG Chuangye MKUYE Robert DENG Yuewen YUE Chenyang Fisheries College Guangdong Ocean UniversityZhanjiang 524088China Pearl research Institute Guangdong Ocean UniversityZhanjiang 524088China Guangdong Science and Innovation center for Pearl Culture Zhanjiang 524088China Pearl Breeding and Processing engineering technology research center of Guangdong Province Zhanjiang 524088China Guangdong Provincial Key Laboratory of Aquatic animal disease control and Healthy Culture Zhanjiang 524088China

The yellow-colored line of pearl oyster Pinctada fucata martensii displays a yellow prismatic layer and a white nacreous layer that can be used as an ideal model for research on shell color ***-Raman spectroscopy and transcriptome analyses were performed to explore the potential molecular mechanism underlying the phenotype *** micro-Raman spectroscopy results indicate that the prismatic layer exhibits distinct characteristic peaks of carotenoids,while these peaks are not prominent in the nacreous *** the transcriptome comparison of the central zone of mantle and mantle edge tissue,which function in nacreous and prismatic layer formation,respectively,935 significantly differentially expressed genes(DEGs)were identified,with 385 genes upregulated and 227 genes downregulated(|log_(2)(Fold change)|>1 and false discovery rate<0.05)in the mantle edge *** these genes,some were associated with melanoma/melanogenesis,such as tyrosinase,zinc metalloprotease,glutathione S-transferase,and ATP-binding cassette sub-family;some were associated with the carotenoid-related pathway,including scavenger receptors,cytochrome P450 and lipoprotein *** associated with porphyrin metabolism,including porphobilinogen deaminase,and copper/zinc superoxide dismutase,and genes associated with shell matrix protein,including amorphous calcium carbonate binding protein,shematrin,PIF,and collagen,also exhibited significantly different *** is speculated that the different colours between prismatic layer and nacreous layer in the yellow-colored line of *** might be resulted from melanin,carotenoids and porphyrin metabolism,while genes related to shell structure and biomineralization might also affect *** results provide new insights to understand the mechanism of shell color formation in mollusca.

关键词： Pinctada fucata martensii shell coloration transcriptome

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Progress in models for coupled human and natural systems

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Science China Earth Sciences 2024年

作者： Tianxiang YUE Chenchen WU Wenjiao SHI Yongzhong TIAN Qing WANG Yimin LU Lili ZHANG State Key Laboratory of Resources and Environment Information System Institute of Geographical Sciences and Natural Resources ResearchChinese Academy of Sciences College of Resources and Environment University of Chinese Academy of Sciences School of Geographical Sciences Southwest University National Institute of Environmental Health Chinese Center for Disease Control and Prevention National engineering research center of Geospatial Information technology Fuzhou University The Aerospace Information research Institute Chinese Academy of Sciences

1. Introduction Malthus(1798) was one of the earliest researchers to propose a coupled human-natural system(CHANS) model, particularly in his analysis of the relationship between population growth and food supply. He argued that while population grows geometrically, food supply increases only arithmetically, suggesting that this imbalance could eventually lead to a food crisis due to diminishing per capita food availability(Malthus, 1798).

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Eureka lemon zinc finger protein ClDOF3.4 interacts with citrus yellow vein clearing virus coat protein to inhibit viral infection

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Journal of Integrative Agriculture 2024年第6期23卷 1979-1993页

作者： Ping Liao Ting Zeng Mengyang Huangfu Cairong Zheng Jiequn Ren Changyong Zhou Yan Zhou Integrative Science center of Germplasm Creation in Western China(CHONGQING)Science City Citrus Research InstituteSouthwest UniversityChongqing 400712China National Citrus engineering research center Citrus Research InstituteSouthwest UniversityChongqing 400712China Chongqing Three Gorges Academy of Agricultural Science Chongqing Three Gorges UniversityChongqing 404020China

Citrus yellow vein clearing virus(CYVCV)is a new citrus virus that has become an important factor restricting the development of China’s citrus industry,and the CYVCV coat protein(CP)is associated with viral *** this study,the Eureka lemon zinc finger protein(ZFP)ClDOF3.4 was shown to interact with CYVCV CP in vivo and in *** expression of ClDOF3.4 in Eureka lemon induced the expression of salicylic acid(SA)-related and hypersensitive response marker genes,and triggered a reactive oxygen species burst,ion leakage necrosis,and the accumulation of free ***,the CYVCV titer in ClDOF3.4 transgenic Eureka lemon plants was approximately 69.4%that in control plants 6 mon after inoculation,with only mild leaf chlorotic spots observed in those transgenic *** together,the results indicate that ClDOF3.4 not only interacts with CP but also induces an immune response in Eureka lemon by inducing the SA *** is the first report that ZFP is involved in the immune response of a citrus viral disease,which provides a basis for further study of the molecular mechanism of CYVCV infection.

关键词： citrus yellow vein clearing virus coat protein ClDOF3.4 plant immune response

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Development of RPA-Cas12a-fluorescence assay for rapid and reliable detection of human bocavirus 1

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animal Models and Experimental Medicine 2024年第2期7卷 179-188页

作者： Weidong Qian Xuefei Wang Ting Wang Jie Huang Qian Zhang Yongdong Li Si Chen School of Food and Biological engineering Shaanxi University of Science and TechnologyXi'anP.R.China Department of Dermatology Huazhong University of Science and Technology Union Shenzhen HospitalShenzhenP.R.China Ningbo Municipal center for disease control and prevention NingboP.R.China Medical College of Shenzhen University ShenzhenP.R.China

Human bocavirus(HBoV)1 is considered an important pathogen that mainly affects infants aged 6–24 months,but preventing viral transmission in resource-limited regions through rapid and affordable on-site diagnosis of individuals with early infection of HBoV1 remains somewhat ***,we present a novel faster,lower cost,reliable method for the detection of HBoV1,which integrates a recombinase polymerase amplification(RPA)assay with the CRISPR/Cas12a system,designated the RPA-Cas12a-fluorescence *** RPA-Cas12a-fluorescence system can specifically detect target gene levels as low as 0.5 copies of HBoV1 plasmid DNA per microliter within 40 min at 37℃without the need for sophisticated *** method also demonstrates excellent specificity without cross-reactivity to non-target ***,the method was appraised using 28 clinical samples,and displayed high accuracy with positive and negative predictive agreement of 90.9%and 100%,***,our proposed rapid and sensitive HBoV1 detection method,the RPA-Cas12a-fluorescence assay,shows promising potential for early on-site diagnosis of HBoV1 infection in the fields of public health and health *** established RPA-Cas12a-fluorescence assay is rapid and reliable method for human bocavirus 1 *** RPA-Cas12a-fluorescence assay can be completed within 40 min with robust specificity and sensitivity of 0.5 copies/μl.

关键词： CRISPR-Cas12a detection human bocavirus 1 on-site diagnosis recombinase polymerase amplification

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Crop pest image recognition based on the improved ViT method Author links open overlay panel

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Information Processing in Agriculture 2024年第2期11卷 249-259页

作者： Xueqian Fu Qiaoyu Ma Feifei Yang Chunyu Zhang Xiaolong Zhao Fuhao Chang Lingling Han College of Information and Electrical engineering China Agricultural UniversityBeijingChina National Innovation center for Digital Fishery China Agricultural UniversityBeijingChina Key Laboratory of Smart Farming Technologies for Aquatic animal and Livestock Ministry of Agriculture and Rural AffairsBeijingChina Beijing engineering and technology research center for Internet of Things in Agriculture BeijingChina

The crop pests and diseases in agriculture is one of the most important reason for the reduction of bulk grain and oil crops and the decline of fruit and vegetable crop quality,which threaten macroeconomic stability and sustainable ***,the recognition method based on manual and instruments has been unable to meet the needs of scientific research and production due to its strong subjectivity and low *** recognition method based on pattern recognition and deep learning can automatically fit image features,and use features to classify and predict *** study introduced the improved Vision Transformer(ViT)method for crop pest image *** them,the region with the most obvious features can be effectively selected by block *** self-attention mechanism of the transformer can better excavate the special solution that is not an obvious lesion *** the experiment,data with 7 classes of examples are used for *** can be illustrated from results that this method has high accuracy and can give full play to the advantages of image processing and recognition technology,accurately judge the crop diseases and pests category,provide method reference for agricultural diseases and pests identification research,and further optimize the crop diseases and pests control work for agricultural workers in need.

关键词： Crop diseases recognition Fruit tree leaf disease Vision Transformer Deep learning Computer Vision

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Recent advances of rodent models for alcoholic liver disease in evaluating healthy effects of food bioactive ingredients

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Food Science and Human Wellness 2024年

作者： Xiaoting Yu Xuedi Zhang Lijuan Zhang Haitao Wang Mingqian Tan State Key Lab of Marine Food Processing & Safety control， Dalian Polytechnic University Academy of Food Interdisciplinary Science， School of Food Science and technology， Dalian Polytechnic University National engineering research center of Seafood， Dalian Polytechnic University engineering research center of Seafood of Ministry of Education of China， Dalian Polytechnic University

The development of rodent models that accurately reflect the pathogenesis of alcoholic liver disease (ALD) in humans is crucial for evaluating the nutritional intervention of food bioactive ingredients in ALD. Although various models have been employed to establish ALD models over the past few decades， most successful cases are associated with high mortality rates， operational difficulties， and incompatibility formation mechanism compared to human ALD. However， the ALD models established by oral administration that simulate human drinking behavior often fail to induce significant liver damage. Therefore， it is imperative to explore simple and effective modes of oral administration for establishing ALD models consistent with the pathophysiological process of human ALD. Herein， we summarized the pathogenesis of ALD and discussed several issues related to construct ALD models with rodents (mainly mice and rats) by oral administration， including animal selection， animal feeding， alcohol intervention， and evaluation criteria. The purpose of this review is to provide a standardized and efficient formula for ALD modeling， so as to facilitate efficacy evaluation and mechanism analysis of food bioactive ingredients in ALD.

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Identification of an H1N1 subtype of swine influenza virus and serological analysis

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Journal of Integrative Agriculture 2019年第7期18卷 1436-1442页

作者： SUN Fa-chao TAN Min ZHANG Yuan-chao WANG Yu-chao CAO Sheng-liang DING Guo-fei CONG Fang-yuan GUO Li-hong LIU Si-dang XIAO Yi-hong Department of Basic Veterinary Medicine College of Animal Science and Veterinary Medicine/Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention/Shandong Provincial Engineering Technology Research Center of Animal Disease Control and PreventionShandong Agricultural University

To investigate the epizootic of swine influenza virus(SIV),60 nasal swabs were collected from a clinical cases of pig farm in Tai’an City,Shandong Province of China in April *** was isolated by inoculating into 10-day-old Special Pathogen Free embryonated eggs and the whole genome was *** H1N1 subtype SIV was isolated and designated as A/swine/Shandong/TA04/2017(H1N1).Phylogenetic analysis showed that apart from the polymerase A(PA) fragment belonging to the 2009 pandemic H1N1 branch,seven genome segments belonged to avian-like H1N1 influenza virus *** cleavage site sequence of the hemagglutinin(HA) protein was PSIQSR↓G,which is a typical molecular biological *** potential N-glycosylation sites(N14,N26,N277,N484 and N543) were found in the HA *** further investigate the epidemiology of SIV in this farm,the 995 serum samples were assessed with EAH1N1 2009 pandemic H1N1 and H3 N2 *** results showed that the total positive rate was 65.43%.The positive rates of single virus infection detected by EAH1N1,2009 pdmH1N1 and H3 N2 for serum HI(Hemagglutination inhibition) were 48.35,30.85 and 7.47%,*** results showed that SIV in Shandong Province has been reassorted in some segments and the SIV-positive rate was high on the SIV outbreak *** data provide evidence of an epizootic of SIV.

关键词： SIV H1N1 subtype genetic analysis molecular feature serology

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宿主蛋白TOB1通过IFN和EGFR通路影响口蹄疫病毒感染

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中国兽医科学 2024年第8期54卷 1136-1136页

作者： Gaochuang Peng Tianran Liu Xiaolan Qi Yuzhe Wang Jingjing Ren Jiangling Peng Xuguang Du Siyu Hu Sen Wu Yaofeng Zhao Dan Li Haixue Zheng State Key Laboratory of animal Biotech Breeding College of Biological Sciences National Engineering Laboratory for Animal Breeding Frontiers Science Center for Molecular Design Breeding China Agricultural University Beijing China State Key Laboratory for animal disease control and prevention College of Veterinary Medicine Lanzhou University Lanzhou Veterinary Research Institute Chinese Academy of Agricultural Sciences Lanzhou China

口蹄疫病情(FMDV)在与宿主相互作用中进化出了一系列逃逸宿主抗病毒免疫的策略,在分子水平深入挖掘FMDV与宿主相互作用机制是高效疫苗研发和抗病分子育种的前提。2024年3月PLoS Pathogens杂志发表了“A genome-wide CRISPR screening un... 详细信息

口蹄疫病情(FMDV)在与宿主相互作用中进化出了一系列逃逸宿主抗病毒免疫的策略,在分子水平深入挖掘FMDV与宿主相互作用机制是高效疫苗研发和抗病分子育种的前提。2024年3月PLoS Pathogens杂志发表了“A genome-wide CRISPR screening uncovers that TOB1acts as a key host factor for FMDV infection via both IFN and EGFR mediated pathways”的研究论文,论文的通讯作者为吴森教授、赵要风教授、李丹研究员、郑海学研究员。该研究利用CRISPR/Cas9敲除技术,在全基因组水平筛选了猪源细胞中与FMDV感染相关的重要宿主因子。

关键词：口蹄疫病毒抗病毒免疫 FMDV 分子育种宿主蛋白相互作用机制

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