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Chromosome-level genome assembly of Oncomelania hupensis: the intermediate snail host of Schistosoma japonicum

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Infectious Diseases of Poverty 2024年第1期13卷 16-26页

作者： Qin Liu Lei Duan Yun-Hai Guo Li-Min Yang Yi Zhang Shi-Zhu Li Shan Lv Wei Hu Nan-Sheng Chen Xiao-Nong Zhou National Institute of Parasitic Diseases at chinese Center for Disease Control and Prevention(chinese Centerfor Tropical Diseases Research) NHC Key Laboratory of Parasite and Vector BiologyWHO Collaborating Centre for Tropical DiseasesNational Center for International Research on Tropical DiseasesNational Key Laboratory of Intelligent Tracking and Forecasting for Infectious DiseasesShanghai 200025People's Republic of China School of Global health Chinese Center for Tropical Diseases ResearchShanghai Jiao Tong University School of MedicineShanghai 200025People's Republic of China School of Life Science Fudan UniversityShanghai 200438People's Republic of China CAS key laboratory of Marine Ecology and Environmental Sciences Institute of OceanologyChinese Academy of SciencesQingdaoShandong 266071People'sRepublicofChina

Background Schistosoma japonicum is a parasitic flatworm that causes human schistosomiasis,which is a signif-cant cause of morbidity in China,the Philippines and Indonesia.Oncomelania hupensis(Gastropoda:Pomatiopsidae)is the unique intermediate host of S.japonicum.A complete genome sequence of O.hupensis will enable the funda-mental understanding of snail biology as well as its co-evolution with the S.japonicum parasite.Assembling a high-quality reference genome of O.hupehensis will provide data for further research on the snail biology and controlling the spread of S.japonicum.Methods The draft genome was de novo assembly using the long-read sequencing technology(PacBio Sequel I)and corrected with llumina sequencing data.Then,using Hi-C sequencing data,the genome was assembled at the chromosomal level.CAFE was used to do analysis of contraction and expansion of the gene family and CodeML module in PAML was used for positive selection analysis in protein coding sequences.Results A total length of 1.46 Gb high-quality O.hupensis genome with 17 unique full-length chromosomes(2n=34)of the individual including a contig N50 of 1.35 Mb and a scaffold N50 of 75.08 Mb.Additionally,95.03%of these con-tig sequences were anchored in 17 chromosomes.After scanning the assembled genome,a total of 30,604 protein-coding genes were predicted.Among them,86.67%were functionally annotated.Further phylogenetic analysis revealed that O.hupensis was separated from a common ancestor of Pomacea canaliculata and Bellamya purificata approximately 170 million years ago.Comparing the genome of O.hupensis with its most recent common ancestor,it showed 266 significantly expanded and 58 significantly contracted gene families(P<0.05).Functional enrichment of the expanded gene families indicated that they were mainly involved with intracellular,DNA-mediated transposi-tion,DNA integration and transposase activity.Conclusions Integrated use of multiple sequencing technologies,we have successfully constructed the genome at the chromosomal-level of O

关键词： Schistosomiasis Schistosoma japonicum Oncomelania hupensis Chromosome-level genome

Plant virology in the 21st century in China:Recent advances and future directions

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Journal of Integrative Plant biology 2024年第3期66卷 579-622页

作者： Jianguo Wu Yongliang Zhang Fangfang Li Xiaoming Zhang Jian Ye Taiyun Wei Zhenghe Li Xiaorong Tao Feng Cui Xianbing Wang Lili Zhang Fei Yan Shifang Li Yule Liu Dawei Li Xueping Zhou Yi Li State key laboratory for Ecological Pest Control of Fujian and Taiwan Crops Vector-borne Virus Research CenterCollege of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhou 350002China State key laboratory of Plant Environmental Resilience and ministry of Agriculture key laboratory of Soil Microbiology College of Biological SciencesChina Agricultural UniversityBeijing 100193China State key laboratory for biology of Plant Diseases and Insect Pests Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijing 100193China State key laboratory of Integrated Management of Pest Insects and Rodents Institute of ZoologyChinese Academy of SciencesBeijing 100101China CAS Center for Excellence in Biotic Interactions University of Chinese Academy of SciencesBeijing 100049China State key laboratory of Plant Genomics Institute of MicrobiologyChinese Academy of SciencesBeijing 100101China State key laboratory of Rice biology Institute of BiotechnologyZhejiang UniversityHangzhou 310058China Department of Plant Pathology The Key Laboratory of Plant ImmunityNanjing Agricultural UniversityNanjing 210095China State key laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products Institute of Plant VirologyNingbo UniversityNingbo 315211China MOE key laboratory of Bioinformatics Center for Plant BiologySchool of Life SciencesTsinghua UniversityBeijing 100084China State key laboratory of Protein and Plant Gene Research School of Life SciencesPeking UniversityBeijing 100871China

Plant viruses are a group of intracellular pathogens that persistently threaten global food security.Significant advances in plant virology have been achieved by chinese scientists over the last 20 years,including basic research and technologies for preventing and controlling plant viral diseases.Here,we review these milestones and advances,including the identification of new crop-infecting viruses,dissection of pathogenic mechanisms of multiple viruses,examination of multilayered interactions among viruses,their host plants,and virus-transmitting arthropod vectors,and in-depth interrogation of plantencoded resistance and susceptibility determinants.Notably,various plant virus-based vectors have also been successfully developed for gene function studies and target gene expression in plants.We also recommend future plant virology studies in China.

关键词： China emerging plant viruses plant virology plant resistance/susceptibility to viral infection plant-virus transmission vector interactions plant virus-based vectors viral pathogenesis

Viromes of Haemaphysalis longicornis reveal different viral abundance and diversity in free and engorged ticks

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Virologica Sinica 2024年第2期39卷 194-204页

作者： Jian Xiao Xuan Yao Xuhua Guan Jinfeng Xiong Yaohui Fang Jingyuan Zhang You Zhang Abulimiti Moming Zhengyuan Su Jiayin Jin Yingying Ge Jun Wang Zhaojun Fan Shuang Tang Shu Shen Fei Deng key laboratory of Virology and Biosafety and National Virus Resource Center Wuhan Institute of VirologyChinese Academy of SciencesWuhan430071China Hubei Provincial Center for Disease Control and Prevention Wuhan430070China University of chinese Academy of Sciences Beijing101408China Hubei Jiangxia laboratory Wuhan430200China Xinjiang key laboratory of vector-borne Infectious Diseases Urumqi830002China Current address:Department of Medical laboratory The Second Affiliated HospitalHainan Medical UniversityHaikou57000China

Haemaphysalis longicornis ticks,commonly found in East Asia,can transmit various pathogenic viruses,includingthe severe fever with thrombocytopenia syndrome virus(SFTSV)that has caused febrile diseases among humansin Hubei Province.However,understanding of the viromes of H.longicornis was limited,and the prevalence ofviruses among H.longicornis ticks in Hubei was not well clarified.This study investigates the viromes of bothengorged(fed)and free(unfed)H.longicornis ticks across three mountainous regions in Hubei Province from 2019to 2020.RNA-sequencing analysis identified viral sequences that were related to 39 reference viruses belonging tounclassified viruses and seven RNA viral families,namely Chuviridae,Nairoviridae,Orthomyxoviridae,Parvoviridae,Phenuiviridae,Rhabdoviridae,and Totiviridae.Viral abundance and diversity in these ticks were analysed,andphylogenetic characteristics of the Henan tick virus(HNTV),Dabieshan tick virus(DBSTV),Okutama tick virus(OKTV),and Jingmen tick virus(JMTV)were elucidated based on their full genomic sequences.Prevalenceanalysis demonstrated that DBSTV was the most common virus found in individual H.longicornis ticks(12.59%),followed by HNTV(0.35%),whereas JMTV and OKTV were not detected.These results improve our understanding of H.longicornis tick viromes in central China and highlight the role of tick feeding status and geographyin shaping the viral community.The findings of new viral strains and their potential impact on public health raisethe need to strengthen surveillance efforts for comprehensively assessing their spillover potentials.

关键词： Ticks Virome Haemaphysalis longicornis Phylogenetic analysis Viral abundance and diversity

Species-level Microbiota of Biting Midges and Ticks from Poyang Lake

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Biomedical and Environmental Sciences 2024年第3期37卷 266-277,I0001-I0003页

作者： GONG Jian WANG Fei Fei LIU Yang Qing PU Ji DONG Ling Zhi ZHANG Si Hui HUANG Zhen Zhou HUANG Yu Yuan LI Ya Ben YANG Cai Xin TAO Yuan Meihui ZHAO Li Jun JIN Dong LIU Li Yun YANG Jing LU Shan Department of Epidemiology School of Public HealthShanxi Medical UniversityTaiyuan 030001ShanxiChina National key laboratory of Intelligent Tracking and Forecasting for Infectious Diseases National Institute for Communicable Disease Control and PreventionChinese Center for Disease Control and PreventionBeijing 102206China Jiangxi Provincial key laboratory of Animal-Origin and vector-Borne Diseases Nanchang Center for Disease Control and PreventionNanchang 330038JiangxiChina Research Units of Discovery of Unknown Bacteria and Function Chinese Academy of Medical SciencesBeijing 100730China

Objective The purpose of this study was to investigate the bacterial communities of biting midges and ticks collected from three sites in the Poyang Lake area,namely,Qunlu Practice Base,Peach Blossom Garden,and Huangtong Animal Husbandry,and whether vectors carry any bacterial pathogens that may cause diseases to humans,to provide scientific basis for prospective pathogen discovery and disease prevention and control.Methods Using a metataxonomics approach in concert with full-length 16S rRNA gene sequencing and operational phylogenetic unit(OPU)analysis,we characterized the species-level microbial community structure of two important vector species,biting midges and ticks,including 33 arthropod samples comprising 3,885 individuals,collected around Poyang Lake.Results A total of 662 OPUs were classified in biting midges,including 195 known species and 373 potentially new species,and 618 OPUs were classified in ticks,including 217 known species and 326 potentially new species.Surprisingly,OPUs with potentially pathogenicity were detected in both arthropod vectors,with 66 known species of biting midges reported to carry potential pathogens,including Asaia lannensis and Rickettsia bellii,compared to 50 in ticks,such as Acinetobacter lwoffii and Staphylococcus sciuri.We found that Proteobacteria was the most dominant group in both midges and ticks.Furthermore,the outcomes demonstrated that the microbiota of midges and ticks tend to be governed by a few highly abundant bacteria.Pantoea sp7 was predominant in biting midges,while Coxiella sp1 was enriched in ticks.Meanwhile,Coxiella spp.,which may be essential for the survival of Haemaphysalis longicornis Neumann,were detected in all tick samples.The identification of dominant species and pathogens of biting midges and ticks in this study serves to broaden our knowledge associated to microbes of arthropod vectors.Conclusion Biting midges and ticks carry large numbers of known and potentially novel bacteria,and carry a wide range of potentially pathogenic bacteria,which m

关键词： Biting midge Tick Microbiota Pantoea Coxiella

Inversely engineered metasurfaces for independent manipulation of transmitted and reflected light fields

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Science China(Physics,Mechanics & Astronomy) 2024年第7期67卷 97-106页

作者： Yongjian Liu Yu Luo Fei Zhang Mingbo Pu Hanlin Bao Mingfeng Xu Yinghui Guo Lanting Li Xiong Li Xiaoliang Ma Xiangang Luo National key laboratory of Optical Field Manipulation Science and Technology Chinese Academy of SciencesChengdu 610209China State key laboratory of Optical Technologies on Nano-Fabrication and Micro-Engineering Institute of Optics and ElectronicsChinese Academy of SciencesChengdu 610209China College of Materials Science and Opto-Electronic Technology University of Chinese Academy of SciencesBeijing 100049China Research Center on vector Optical Fields Institute of Optics and ElectronicsChinese Academy of SciencesChengdu 610209China Tianfu Xinglong Lake laboratory Chengdu 610299China

Independent manipulation of transmitted and reflected light fields is a key technology for the realization of multifunctional optical applications,which can be implemented based on multilayered plasmonic or supercell subwavelength structures.However,the former is not suitable for the optical bands,while the latter is insufficient in generating large phase gradients.Here,an adjoint-optimization-based inverse design methodology is proposed,which utilizes the polarization-selective local interference between individual meta-atoms and enables monolayer dielectric metasurfaces to decouple the wavefront of transmitted and reflected optical fields.Moreover,this methodology serves to mitigate the aperiodic electromagnetic crosstalk inherent between adjacent meta-atoms,consequently leading to a significant enhancement in the performance of meta-devices.We analyzed the physical mechanism of adjoint optimization and proposed the concept of phase factors,highlighting their importance in the rapid inverse design of meta-devices—an aspect often overlooked in previous research.To demonstrate the feasibility and robustness of our method,we optimize monolayer metasurfaces with different initial structures.These devices efficiently focus and deflect x-linearly and y-linearly polarized incident light in transmission and reflection spaces,respectively.Overall,this methodology holds immense potential for designing multifunctional,high-performing metasurfaces that meet multiple constraints,opening up broad prospects for applications.

关键词： full-space metasurfaces adjoint optimization inverse design

laboratory and Semi-Field Evaluation on S-Methoprene Formulations Against Anopheles sinensis(Diptera:Culicidae)—Yuxi City,Yunnan Province,China

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China CDC weekly 2024年第6期6卷 105-108页

作者： Wenbo Hu Yijin Chen Ying Liang Tianyun Su Qiyong Liu Xuewen Li Xiaobo Liu School of Public health Cheeloo College of MedicineShandong UniversityJinan CityShandong ProvinceChina National key laboratory of Intelligent Tracking and Forecasting for Infectious Diseases WHO Collaborating Centre for Vector Surveillance and ManagementDepartment of Vector Biology and ControlNational Institute for Communicable Disease Control and PreventionChinese Center for Disease Control and PreventionBeijingChina EcoZone International Riverside CityCAUSA Department of Environment and health School of Public HealthCheeloo College of MedicineShandong UniversityJinan CityShandong ProvinceChina Department of vector Control School of Public HealthShandong UniversityJi’nan CityShandong ProvinceChina Xinjiang key laboratory of vector-borne Infectious Diseases Urumqi CityXinjiang830002

Summary What is already known about this topic?Anopheles sinensis(An.sinensis)is the predominant malaria vector in China.The impact of S-methoprene on the emergence process of mosquito larvae suggests its potential as a control method for vector mosquitoes.However,the efficacy of S-methoprene in controlling An.sinensis has not yet been demonstrated.What is added by this report?

关键词： sinensis China. predominant

Development of innovative tripartite partnership for China’s engagement in global health: recommendations from China-Tanzania Cooperation Project on Malaria Control

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贫困所致传染病(英文) 2024年第2期13卷 1-3页

作者： Ma Xuejiao Lu Shenning Ding Wei Deng Shanying Wang Duoquan Xiao Ning Mlacha Yeromin Husain Lewis Zhou Xiaonong National Institute of Parasitic Diseases Chinese Center for Disease Control and Prevention (Chinese Center for Tropical Diseases Research) NHC Key Laboratory of Parasite and Vector Biology WHO Collaborating Center for Tropical Diseases National Center for International Research On Tropical Diseases Shanghai China University of Hong Kong Hong Kong China School of Global health Chinese Center for Tropical Diseases Research Shanghai Jiao Tong University School of Medicine Shanghai China Ifakara health Institute Dar-es-Salaam Tanzania Institute of Development Studies Brighton UK

Mutations and intron polymorphisms in voltage-gated sodium channel genes of different geographic populations of Culex pipiens pallens/ Culex pipiens quinquefasciatus in China

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贫困所致传染病(英文) 2024年第2期13卷 1-11页

作者： Li Wenyu Ma Delong Mu Qunzheng Zhou Xinxin Hua Dongdong Zhao Chunchun Liu Qiyong Wang Jun Meng Fengxia State key laboratory of Infectious Disease Prevention and Control Department of Vector Biology and Control National Institute for Communicable Disease Control and Prevention Chinese Center for Disease Control and Prevention WHO Collaborating Centre for Vector Surveillance and Management Beijing People’s Republic of China Ningxia Center for Disease Prevention and Control YinChuan NingXia People’s Republic of China Jinan Shizhong Center for Disease Control and Prevention Jinan Shandong China Vanke School of Public health Tsinghua University Beijing People’s Republic of China Weifang No. People’s Hospital Weifang Shandong People’s Republic of China Beijing Daxing Center for Disease Control and Prevention Beijing People’s Republic of China Jinan Second Maternal and Child health Hospital Jinan Shandong China

Background Culex pipiens pallens andCulex pipiens quinquefasciatus are the dominant species ofCulex mosquitoes in China and important disease vectors. Long-term use of insecticides can cause mutations in the voltage-gated sodium channel (vgsc) gene of mosquitoes, but little is known about the current status and evolutionary origins ofvgsc gene in different geographic populations. Therefore, this study aimed to determine the current status ofvgsc genes inCx. p. pallens andCx. p. quinquefasciatus in China and to investigate the evolutionary inheritance of neighboring downstream introns of thevgsc gene to determine the impact of insecticides on long-term evolution.Methods Sampling was conducted from July to September 2021 in representative habitats of 22 provincial-level administrative divisions in China. Genomic DNA was extracted from 1308 mosquitoes, the IIS6 fragment of thevgsc gene on the nerve cell membrane was amplified using polymerase chain reaction, and the sequence was used to evaluate allele frequency and knockdown resistance (kdr) frequency. MEGA 11 was used to construct neighborjoining (NJ) tree. PopART was used to build a TCS network.Results There were 6 alleles and 6 genotypes at the L1014 locus, which included the wild-type alleles TTA/L and CTA/L and the mutant alleles TTT/F, TTC/F, TCT/S and TCA/S. The geographic populations with akdr frequency less than 20.00% were mainly concentrated in the regions north of 38° N, and the geographic populations with akdr frequency greater than 80.00% were concentrated in the regions south of 30° N.kdr frequency increased with decreasing latitude. And within the same latitude, the frequency ofkdr in large cities is relatively high. Mutations were correlated with the number of introns. The mutant allele TCA/S has only one intron, the mutant allele TTT/F has three introns, and the wild-type allele TTA/L has 17 introns.Conclusions Cx. p. pallens andCx. p. quinquefasciatus have developed resistance to insecticides in most regions of China. The neighboring downstream i

关键词： Culex pipiens pallens Culex pipiens quinquefasciatus vgsc gene Mutation Frequency Intron Haplotype China

Spatial quantum coherent modulation with perfect hybrid vector vortex beam based on atomic medium

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chinese Physics B 2024年第2期33卷 360-364页

作者：马燕杨欣常虹杨鑫琪曹明涛张晓斐高宏董瑞芳张首刚 key laboratory of Time Reference and Applications National Time Service CenterChinese Academy of SciencesXi’an 710600China School of Astronomy and Space Science University of Chinese Academy of SciencesBeijing 100049China ministry of Education key laboratory for Nonequilibrium Synthesis and Modulation of Condensed Matter Shaanxi Key Laboratory of Quantum Information and Quantum Optoelectronic DevicesSchool of ScienceXi’an Jiaotong UniversityXi’an 710049China Department of Physics Shaanxi University of Science and TechnologyXi’an 710021China Hefei National laboratory Hefei 230088China

The perfect hybrid vector vortex beam(PHVVB)with helical phase wavefront structure has aroused significant concern in recent years,as its beam waist does not expand with the topological charge(TC).In this work,we investigate the spatial quantum coherent modulation effect with PHVVB based on the atomic medium,and we observe the absorption characteristic of the PHVVB with different TCs under variant magnetic fields.We find that the transmission spectrum linewidth of PHVVB can be effectively maintained regardless of the TC.Still,the width of transmission peaks increases slightly as the beam size expands in hot atomic vapor.This distinctive quantum coherence phenomenon,demonstrated by the interaction of an atomic medium with a hybrid vector-structured beam,might be anticipated to open up new opportunities for quantum coherence modulation and accurate magnetic field measurement.

关键词： perfect hybrid vector vortex beam topological charge quantum coherence optical manipulation