Whole-genome sequencing to detect mutations associated with resistance to insecticides and Bt proteins in Spodoptera frugiperda

The fall armyworm (FAW), Spodoptera frugiperda, is a major pest native to the Americas that has recently invaded the Old World. Point mutations in the target-site proteins acetylcholinesterase-1 (ace-1), voltage-gated sodium channel (VGSC) and ryanodine receptor (RyR) have been identified in S. frugiperda as major resistance mechanisms to organophosphate, pyrethroid and diamide insecticides respectively. Mutations in the adenosine triphosphate-binding cassette transporter C2 gene (ABCC2) have also been identified to confer resistance to Cry1F protein. In this study, we applied a whole-genome sequencing (WGS) approach to identify point mutations in the target-site genes in 150 FAW individuals collected from China, Malawi, Uganda and Brazil. This approach revealed three amino acid substitutions (A201S, G227A and F290V) of S. frugiperda ace-1, which are known to be associated with organophosphate resistance. The Brazilian population had all three ace-1 point mutations and the 227A allele (mean frequency = 0.54) was the most common. Populations from China, Malawi and Uganda harbored two of the three ace-1 point mutations (A201S and F290V) with the 290V allele (0.47–0.58) as the dominant allele. Point mutations in VGSC (T929I, L932F and L1014F) and RyR (I4790M and G4946E) were not detected in any of the 150 individuals. A novel 12-bp insertion mutation in exon 15 of the ABCC2 gene was identified in some of the Brazilian individuals but absent in the invasive populations. Our results not only demonstrate robustness of the WGS-based genomic approach for detection of resistance mutations, but also provide insights for improvement of resistance management tactics in S. frugiperda.     

洞庭湖洲滩速生杨树林变化信息提取方法

洞庭湖是我国第二大淡水湖,其湿地资源具有重要的生态功能和经济价值。近20年来,洞庭湖洲滩速生杨树林发展迅速,其中西洞庭湖杨树林的扩张最为明显,极大改变了湖区湿地植被分布格局,隐含极大的生态风险。以Landsat ETM+和HJ-1A/1B CCD影像为数据源,提出了洞庭湖速生杨树林变化信息提取的两种方法,并对这两种方法进行了比较研究。一种是分类的方法,即采用面向对象分层信息提取的方法先提取出树林滩地信息,再将距离大堤一定范围内的树林滩地归为防护林,速生杨树林变化的面积即为两个时相提取结果的差值。另一种是变化检测的方法,它是基于像元进行变化检测,先确定出总的变化区域,再从中筛选速生杨树林的变化信息。结果表明:(1)两种提取方法都是可行的,不同方法提取的速生林变化信息存在一定差异,但空间分布大体一致;(2)基于分类的方法总体精度和Kappa系数均略高于基于变化检测的方法:其中基于分类的方法总体精度达84.00%,Kappa系数为0.67,基于变化检测的方法总体精度达83.00%,Kappa系数为0.65;(3)基于分类的方法图斑较大、图斑数较少,基于变化检测的方法图斑较小且较破碎、图斑数多;(4)基于分类的方法漏分较少、错分较多,基于变化检测的方法漏分较多、错分较少。为洞庭湖洲滩杨树林的动态监测提供了研究方法,也为杨树林扩张原因及其生态效应分析提供研究基础。     

Morphological and Molecular Characterization of Punctodera Stonei Brzeski, 1998 (Nematoda: Heteroderidae) from Virginia,USA

In August of 2021, several cysts with juveniles and eggs were discovered during a vegetation survey conducted at the Arlington National Cemetery, Virginia. Eight soil samples were collected from the rhizosphere region of the common grass (Festuca arundinacea L.) and processed at the Mycology and Nematology Genetic Diversity and Biology Laboratory (MNGDBL). Cysts were light to dark brown in color, and oval to pear-shaped without bullae in young cysts but present in older cysts and with prominent vulval cone. The juveniles had slightly concave stylet knobs projecting sometimes anteriorly, tail tapering gradually to a narrowly rounded terminus, and hyaline tail terminus conspicuous at least twice the length of stylet. The molecular analysis included the analysis of three gene sequence fragments: D2–D3 of 28S rRNA, ITS rRNA, and COI. The nematode species was identified by both morphological and molecular means as Stone''s cyst nematode, Punctodera stonei. Detection of P. stonei in Virginia represents a new record of this species in the United States, and a second report after Canada in North America.     

A Fluorescent Recombinase Aided Amplification Assay for Detection of Babesia microti

Babesia microti is one of the most common causative agents of babesiosis. A sensitive and rapid detection is necessary for screening potentially infected individuals. In this study, B. microti cytochrome c oxidase subunit I (cox1) was selected as the target gene, multiple primers were designed, and optimized by a recombinase-aided amplification (RAA) assay. The optimal primers and probe were labeled with fluorescein. The sensitivity of fluorescent RAA (fRAA) was evaluated using gradient diluents of the cox1 recombinant plasmid and genomic DNA extracted from whole blood of B. microti infected mice. The specificity of fRAA was assessed by other transfusion transmitted parasites. The analytical sensitivity of the fRAA assay was 10 copies of recombinant plasmid per reaction and 10 fg/μl B. microti genomic DNA. No cross-reaction with any other blood-transmitted parasites was observed. Our results demonstrated that the fRAA assay would be rapid, sensitive, and specific for the detection of B. microti.     

具有捕食正效应的捕食-食饵系统

在经典的捕食食饵系统中考虑到由于捕食效应对食饵种群带来的正向调节作用后,提出了具有捕食正效应的捕食-食饵系统.通过对模型的动力学行为的分析,从理论上说明了正向调节作用对系统的影响,并就第一象限内平衡点存在时的相图解释了捕食正效应的作用.结果表明:(1)捕食系统中适当的正向调节作用会增加系统的稳定性;(2)当捕食正效应达到一定的程度后系统拥有一个不稳定的极限环;(3)当捕食正效应过大时会使系统的稳定性发生变化,使捕食者种群与食饵种群同时趋向无穷,出现了调节放纵现象.这些结果在保护生物学中具有重要的意义.     

中华虎凤蝶湖南种群栖息地特性及其生态保护策略

自2009年首次在湖南乌云界国家级自然保护区发现中华虎凤蝶种群以来,在该保护区持续开展了10余年的野外调查监测。通过对中华虎凤蝶湖南种群6个分布点的野外观测数据分析,结果表明中华虎凤蝶湖南种群栖息环境中的植被以禾本科、菊科、蔷薇科、百合科及豆科植物为主,共计有46科96属128种;不同栖息生境中种群数量差异较大,高山灌草丛为中华虎凤蝶湖南种群的主要生境,而梯田生境、乔木林生境中,其种群数量均很低,展现出与低矮芒草丛的保温遮阴特性以及寄主植物的分布密切相关。寄主植物的复壮和围栏的建设对中华虎凤蝶湖南种群的栖息环境起到了明显的保护作用、对其种群数量的增效作用显著。为深入研究中华虎凤蝶湖南种群的生物学和生态学特性提供了基础数据,为中华虎凤蝶湖南种群的保育工作开展奠定了理论基础,也为当地保护区的保护措施优化提供了科学依据。     

检测大肠杆菌(Escherichia coli) O157:H7免疫磁珠的制备、保存与应用

【背景】大肠杆菌(Escherichia coli) O157:H7是导致肠出血性大肠杆菌食源性疾病暴发的主要血清型,免疫磁珠(Immunomagnetic beads,IMBS)在E. coli O157的检测中发挥着重要作用,而免疫磁珠的稳定性、特异性、广谱性等性能指标关系着在实际应用中的使用效果。【目的】制备高效、稳定且具有广谱性的免疫磁珠,联合分子检测技术如环介导恒温扩增 (Loop-mediated isothermal amplification,LAMP)技术、PCR等,提高目标菌的检出率。【方法】采用新型的磁珠活化剂MIX&GO制备E. coli O157免疫磁珠,并进行广谱性以及特异性检测;针对6种试剂牛血清白蛋白(Bovine serum albumin,BSA)、酪蛋白(Casein)、海藻糖(Trehalose)、聚乙烯吡咯烷酮(Polyvinyl pyrrolidone,PVP)、抗坏血酸(Vitamin C)和防腐剂ProClin 300,利用正交试验L18(37)优化免疫磁珠保存液组分;采用IMBS-LAMP、IMBS-PCR、IMBS-生化、菌液-LAMP、菌液-PCR、显色平板-生化鉴定6种方式对20份生猪肉样品进行检测。【结果】利用MIX&GO活化剂制备的免疫磁珠捕获率最高达到81.5%±1.3%;免疫磁珠保存液最优配方为：牛血清白蛋白15.0 g/L,酪蛋白10.0 g/L,海藻糖10.0 g/L,PVP 2.0 g/L,抗坏血酸5.0 g/L,ProClin 300 2.5 g/L,保存6个月后免疫磁珠捕获率为75.5%;在20份生猪肉样品的检测中,自制磁珠和商品化磁珠与LAMP联用均检出9例阳性样品;IMBS-LAMP在6种检测方式中具有最高的检测灵敏度,但检出的样品会因磁珠抗体的差异而有所不同。【结论】与商品化磁珠相比,实验制备的免疫磁珠具有良好的特异性和广谱性,免疫磁珠-LAMP联用提高了目标菌的检出率,是一种高灵敏度、具有应用前景的检测方法。     

Electrochemical detection of nucleic base mismatches with ferrocenyl naphthalene diimide

Electrochemical detection of nucleic base mismatches was attempted successfully with ferrocenyl naphthalene diimide (FND) in a model system with 20-meric double-stranded oligonucleotides with or without a mismatch(es). Thus, dA(20) or a 20-meric sequence of the lac Z gene was immobilized on a gold electrode and complementary oligonucleotides with different numbers of mismatches were allowed to hybridize in the presence of FND to give rise to an electrochemical signal. The signal intensity varied depending on the number of unpaired bases on the DNA duplex. From experiments with a quartz crystal microbalance, eight molecules of FND were found to bind to the 20-meric double-stranded oligos and this number decreased as the number of mismatches increased. These findings were further supported by matrix-assisted laser desorption ionization time-of-flight mass spectroscopy. This novel method will be useful for the analysis of single-nucleotide polymorphisms present on human genes.     

基于CRISPR/Cas系统的生物传感策略研究进展

CRISPR/Cas9系统是继锌指核酸内切酶、类转录激活因子效应物核酸酶之后的第三代基因组定点编辑工具,因其具有特异性切割双链DNA的能力,被广泛应用于基因编辑、生物传感等领域。Cas12a(Cpf1)、Cas13a(C2c2)等蛋白"附属切割"活性的发现,拓展了CRISPR/Cas系统在生物传感中的应用。近年来,研究人员开发出一系列快速、超敏、高特异性的生物传感系统用于分子检测,如SHERLOCK,DETECTR等。本文主要综述了基于CRISPR/Cas系统的生物传感策略的研究进展,并展望了其未来发展的方向。