汉坦病毒的分子生物学分型

汉坦病毒的分型是近年来的一个研究热点,本文就汉坦病毒分型研究中的分子生物学方法进行了综述,包括逆转录－多聚酶链反应结合限制性核酸内切酶图谱分析,分型ＰＣＲ以及系统进化分析等。     

汉坦病毒抗原性差异及其基因分型

用抗汉坦病毒单克隆抗体（Ｍｃ－Ａｂ）对汉坦病毒Ｂ７８株（来自病人血）和Ｒ１７８株（分离自褐家鼠）进行间接免疫荧光试验,以分析病毒的单克隆抗体反应谱,又用病毒免疫血清进行交叉中和试验,结果表明,两株病毒均具有双型（Ⅰ型／ＨＴＮ型和Ⅱ型／ＳＥＯ型）反应特征,但Ｒ１７８株基本上属于Ⅰ型。用汉坦病毒Ⅰ￣Ⅳ型型特异性引物进行ＰＣＲ扩增,Ｂ７８株用Ⅰ型和Ⅱ型引物均得到特异性扩增,而Ｒ１７８株虽经重复扩增均未见     

汉坦病毒的基因分型及其序列分析

为了探讨从核苷酸水平耐汉坦病毒进行分型,设计两对型特异性引物,采用反转录和聚合酶链式反应（ＲＴ－ＰＣＲ）,对亚太地区１８株汉坦病毒进行了扩增鉴定,并对其中７株汉坦病毒的ＰＣＲ产物进行了测序分析。ＰＣＲ的分型结果表明,Ⅰ型引物只能扩增血清Ⅰ型病毒的ｃＤＮＡ;Ⅱ型引物也只能扩增血清Ⅱ型病毒,其间无交叉反应。采用巢式ＰＣＲ和限制性内切酶验证了ＰＣＲ产物的特异性。序列分析结果表明,Ｒ３６Ｍ片段Ｇ１区的核苷酸序列与血清Ⅰ型病毒代表株７６－１１８的同源性为７８．４％,而与血清Ⅱ型病毒Ｒ２２的同源性为６８．１％;Ｒ３６与汉坦病毒序列同源性的成对比较结果也表明,Ｒ３６与血清Ⅰ型病毒的同源性均高于血清Ⅱ型病毒;Ｌｅａｋｅｙ虽然能被Ⅱ型引物扩增,但其序列与血清Ⅱ型病毒Ｒ２２的同源性仅为４４．９％,故不属于血清Ⅱ型病毒。上述研究结果表明,反转录聚合酶链反应能对多数汉坦病毒准确分型,但最终结果尚有赖于序列分析。     

采用PCR-测序法对北京地区325例妇女宫颈脱落细胞样品中人乳头瘤病毒进行检测和基因分型

为了探讨PCR-测序法在宫颈脱落细胞样品中人乳头瘤病毒 (Human papillomavirus, HPV) 临床检测中的应用价值,采用HPV通用引物PGMY09/11针对HPV L1区基因序列进行PCR扩增,并通过DNA测序法对HPV进行基因分型。对于混合感染样品,利用HPV型别特异性引物PCR的方法进行基因分型。325例临床样品中,228例为HPV阳性,其中66例为混合感染。共发现27种不同的HPV型别,其中HPV 16比例最多,其次是HPV 58和52。高危型HPV检出率随病变程度加重显著性增加     

汉坦病毒沟3株PCR分型

汉坦病毒 (HV)沟 3株在以往报道的免疫学中和效价检测 ,为一株中和抗原广谱的毒株。本研究对这一毒株经过两次挑斑纯化 ,并经PCR方法进行分型检定 ,初步认为沟 3毒株为SEO型HV病毒。     

汉坦病毒沟3株PCR分型

汉坦病毒(HV)沟3株在以往报道的免疫学中和效价检测,为一株中和抗原广谱的毒株。本研究对这一毒株经过两次挑斑纯化,并经PCR方法进行分型检定,初步认为沟3毒株为SEO型HV病毒。     

啮齿类动物中汉坦病毒感染血清学和病原学检测方法比较研究

致病性汉坦病毒的宿主主要为啮齿类动物,其病毒感染状况是人间疫情发生的关键影响因素,可通过检测宿主动物标本中病毒基因组RNA、蛋白抗原及特异性抗体而进行监测。本研究利用367份鼠肺及鼠血标本,对双抗原夹心ELISA(ELISA)、实时荧光RT-PCR(RT-PCR)和免疫荧光(IFA)等三种分别检测抗体、核酸和抗原的方法进行比较评估。ELISA法检出抗体阳性鼠血标本46份,阳性率为12.53%;RT-PCR法检出病毒RNA阳性鼠肺标本28份,阳性率为7.63%;IFA检出抗原阳性鼠肺标本24份,阳性率为6.54%。宿主动物组织标本中检出汉坦病毒RNA和(或)结构蛋白抗原的标本,对应的血液标本中可检出病毒特异性抗体,100%(24/24)IFA检测阳性标本和89.3%(25/28)RT-PCR检测阳性标本对应血标本ELISA抗体检测阳性,反之亦然,检出抗体的标本基本包含了可检出抗原和RNA的标本。RT-PCR与IFA检测结果差异无显著性(χa2=0.64,P0.05),一致性检验Kappa系数为0.71,一致性高(Z=13.66,P0.05),首先对血标本开展基于ELISA的特异性抗体检测,可显著缩小RT-PCR或IFA法检测病毒RNA或抗原的范围(χb2=12.04,χc2=20.05,P0.05)。本研究为宿主动物汉坦病毒感染实验室监测方案优化提供了有益的依据。     

多位点测序分型技术在病原微生物分型鉴定中的应用

多位点测序分型(Multilocus sequence typing,MLST)技术是一种以核苷酸序列为基础的病原菌分型方法,它是高通量测序技术与成熟的群体遗传学相结合的产物。该方法简单易行,重复性强,可以通过国际互联网对某一致病菌株在全球范围内的传播分布情况进行追踪监控。目前,MLST技术已被广泛应用于原核病原菌及一些真核病原菌(如真菌)的分型鉴定中。主要对MLST技术的原理及其在一些常见病原菌分型鉴定中的应用进行了简要的阐述。     

汉坦病毒HTN261株S基因片段的核苷酸序列测定及分析

黑龙江省是肾综合征因热（HFRS）的重疫区。近年来HFRS年的发病人数曾超过万人。流行病学和血清学研究表明黑龙江省HFRS疫区主要是姬鼠型,但目前尚缺乏病毒的分子生物学资料。我们对从疫区捕获的宿主动物－黑线姬鼠肺中分离的汉坦病毒HTN261株的S基因片段的全基因序列进测定和初步分析。结果如下,HTN261株的S基因片段的全序列长为1697nt。只有一个主要的编码N蛋白的ORF,起始位置为第37nt,终止于1326nt,编码的蛋白长为429aa。没有发现存在ORF2。HTN261株的S基因片段核苷酸序列与HGTN型中的病毒株的同源性很高,而与汉坦病毒其他型的同源民生较差,从种系发生树分析来看,HNT261株归结于汉坦病毒的HTN型。在HTN型之内,HTN261株和HTN76－118株在一个分枝内,就其核苷酸和蛋白的同源性说,HT N261株和HTN76－118株的同源性分别是89％（全S基因）和98％（蛋白）。而与中国境内发现的其他汉坦病毒株Z10,HU,Chen4,NC167等基因和蛋白的同源性相对较差,汉坦病毒除具有其宿主的依赖性外,还具有其地理的簇集性。HTN261株和HTN76－118株之间S基因和N蛋白序列的变异性的差异分别为11％和2％,表明HTN261株和HTN76－118株还有不同,可能是不同的亚型。不过,尚有待于进一步研究证明。     

A族乙型溶血性链球菌emm基因测序分型的研究进展

emm测序分型是根据编码M蛋白的emm基因高变区核苷酸序列特异性将A族乙型溶血性链球菌分型的分子生物学技术。与传统血清学分型比较,具有准确,快速的特点,实验室间可方便,快捷地通过网络进行资料比较。在多价疫苗的构建和效能检测上将有很好的发展前景。     

Hantavirus-specific antibodies in rodents and humans living in Kuwait

Hantaviruses are found in widely scattered areas of the world and are transmitted by inhalation of virus-contaminated aerosols of rodent excreta. The present study was undertaken in Kuwait to investigate the serological evidence for hantavirus infection in rodents and humans. Sera were collected from 283 wild rodents and 183 human subjects (46 Kuwaitis and 137 non-Kuwaitis). The rodent sera were investigated for the presence of antibodies against the Seoul and Puumala strains of the hantaviruses by enzyme-linked immunosorbent assay and immunofluorescence technique using the virus-infected Vero E6 cells. The findings showed the presence of anti-hantavirus antibodies in seven out of the 283 (2.8%) rodents. Antibodies against the Seoul strain were present in six (2.1%) and against the Puumala strain in three (1%) rodents. Further, it was observed that three out of 84 (3.6%) of the Rattus norvegicus and four out of 174 (2.3%) Mus musculus had anti-hantavirus antibodies. Two rodents belonging to species Mus musculus had antibodies against both strains of the hantaviruses. Out of 183 human sera, 13 (7%) were positive for hantavirus antibodies. Among the Kuwaitis 5/46 (11%) and among the non-Kuwaitis 8/137 (6%) were positive for the hantavirus antibodies. Antibodies to both Puumala and Hantaan strains were detected in Kuwaitis as well as in non-Kuwaitis. Although no human case of hantavirus illness has yet been reported in Kuwait, the serological evidence of infection suggests a constant vigil.     

A novel multiplex PCR method for Clostridium botulinum neurotoxin type A gene cluster typing

A rapid, simple and sensitive multiplex PCR method for boNT/A gene cluster typing was developed by combining the results of BoNT/A subtype (boNT/A1 or /A2) gene detection with ha33 and/or p47 gene detection. Ten isolates associated with infant botulism in Japan were examined and divided into boNT/A gene cluster types 2 and 3 by origin (honey feeding or not) and period (1986–1987 or 1999–2007). It is suggested that this multiplex PCR method will be be useful for epidemiological studies of botulism.     

PCR for the detection and typing of campylobacters

The flaA gene of Campylobacter sp. was amplified using PCR. Primers were chosen which amplified 1.3 kb of the flaA gene in Camp. jejuni and Camp. coli. 'Campylobacter upsaliensis' amplimer was approximately 1.7 kb in size and was easily distinguishable. Other species of campylobacter failed to yield amplimer. The amplimer was digested with Alu 1 which demonstrated considerable restriction fragment length polymorphism and should allow the development of a rapid novel typing scheme which does not rely on previous culture of campylobacter strains.     

一站式全基因组和外显子组测序数据自动分析软件(SeqMule)

SeqMule可根据调用的人类基因组和外显子组数据自动调节变量,对所有测序数据的单核苷酸多态性(Single nucleotide polymorphism,SNP)进行分析和注释。目的:通过对两名痛风患者的实验数据进行分析,详细地为生物信息学研究人员介绍了SeqMule软件,以期为全基因组和外显子组测序数据提供一站式的分析途径。方法:基于SeqMule内置的BWA(BurrowsWheeler Aligner)、GATK(The Genome Analysis Toolkit)、SAMtools、Freebayes比对和分析工具,以两名痛风患者的DNA测序数据分析为例,本文详细地论述了SeqMule的特点及操作,并对两名患者的外显子测序数据进行了自动化比对与SNP分析。发现SeqMule优化了很多分析软件存在的一些问题,可以对外显子组和全基因组测序数据实现全面、灵活、高效地自动化分析,能更好地分析高通量测序数据,最终提升数据分析的一致性和准确性。     

Molecular typing of Histoplasma capsulatum isolated from infected bats, captured in Mexico

The present paper represents data on the genetic polymorphism of 13 Histoplasma capsulatum isolates recovered from infected bats randomly captured in the Mexican states of Morelos, Puebla, and Oaxaca. The polymorphic DNA patterns were analyzed by two-primer RAPD-PCR (random amplified polymorphic DNA-polymerase chain reaction) method. To amplify the fungal genome by PCR, the following primer arrangements were used: 5'-AACGCGCAAC-3' and 5'-AAGAGCCCGT-3'; 5'-AACGCGCAAC-3' and 5'-GTTTCCGCCC-3'; or 5'-AACGCGCAAC-3' and 5'-GCGATCCCCA-3'. A common polymorphic DNA pattern of H. capsulatum was revealed in different assays. This pattern is shared by 7 H. capsulatum isolates recovered from different specimens of nonmigratory bats (Artibeus hirsutus) captured in a cave in Morelos, by 5 isolates recovered from infected migratory bats (Leptonycteris nivalis) captured in Morelos and Puebla, and by 1 isolate from another migratory bat (L. curasoae) captured in Oaxaca. This polymorphic DNA pattern of H. capsulatum could represent fungal markers for the geographic areas studied, and considering its distribution in three different states of the Mexican Republic, the role of bats as responsible for H. capsulatum spreading in nature, in relation to their movements and migrations besides their shelter habits, is suggested. Analyses of DNA patterns of H. capsulatum isolated from infected bats, from clinical cases, and from blackbird excreta, have shown a major relatedness between bats and clinical isolates, in contrast to those isolates from bird excreta.     

LoPPS: a long PCR product sequencing method for rapid characterisation of long amplicons

Here, we propose an optimised protocol (LoPPS, long PCR product sequencing) which allows the fast, cost-attractive, and high-throughput sequencing of long PCR products. LoPPS constitutes an alternative to the primer-walking technology which is expensive and time consuming but remains the current standard procedure. It is based on the ultrasonic shearing, polishing, and cloning of PCR or RT-PCR products and is compatible with 96- or 384-well microplate systems in which bacterial growth, preparation of plasmid DNA, and sequencing can be automated. We present results obtained from 24 different RT-PCR products (2.5-4.8 kbp long) obtained from various RNA viruses and fully sequenced using LoPPS. The method proved to be robust and fast. It was successfully used on a low amount of DNA and allowed each target nucleotide position to be controlled twice or more, with a final cost which is one-third of that of primer-walking.     

High-resolution typing for chicken BF2 (MHC class I) alleles by automated sequencing

Sequence-based typing (SBT) was developed for major histocompatibility complex (MHC) class I and class II alleles in humans. We report here the development and application of a SBT method for alleles of the chicken BF2 locus (the more polymorphic of the two MHC class I loci in chickens). Exon 2 of the BF2 gene was selectively amplified from genomic DNA using a BF2 locus-specific PCR primer. Exon 2 sequences were sufficient to identify the 21 distinct BF2 alleles described in standard B haplotypes of Leghorns and in commercial broiler-breeder lines. Sixty-six samples from MHC typed, pedigreed chickens were tested, including 50 different heterozygous combinations. BF2 sequences from all B homozygotes were successfully amplified, and all combinations of BF2 alleles in heterozygotes were co-amplified equally. The two different BF2 alleles in heterozygotes could be identified unambiguously by distinct sequence motif patterns. In tests of samples of unknown B genotype in commercial broiler-breeder flocks, we identified expected BF2 alleles as well as an allele not previously encountered in one of the lines.     

汉坦病毒糖蛋白的结构及功能研究进展

汉坦病毒感染人类可导致肾综合征出血热和汉坦病毒肺综合征,其包膜糖蛋白(GP)是重要的结构蛋白,本文就汉坦病毒糖蛋白的结构和功能的研究进展作一综述。