引物间同源性和裂口对PCR扩增的影响

采用ＰＣ／Ｇｅｎｅ软件对能扩增出特异睡不能扩增的ＰＣＲ引物进行同源性比较,同源间“裂口（ｇａｐｓ）”差数的统计,得出源率小于或等于３５％,“裂口”差数大于或等于３,是获得理想ＰＣＲ扩增效果的关键参数之一的结论,为引物设计提供了一条直观的依据。     

皖南地区丙型肝炎病毒治疗前后HVR1区碱基变异数量的研究

目的研究皖南地区丙型肝炎病毒治疗前后高变区1(HVR1)碱基变异数量与病情变化和治疗效果之间是否具有相关性。方法应用速率法和荧光定量PCR法,检测皖南地区141例慢性丙型肝炎患者血清ALT水平和HCV RNA的载量。应用RT-PCR法进行HCV基因型和治疗前后的HVR1区域序列的检测。结果 141例患者的血清ALT与HCV RNA两指标间采用Spearman等级相关分析显示,rs=0.213,P=0.011,差异具有统计学意义,存在正相关。通过HCV基因1型、2型和未分型3组的HVR1碱基变异数量的单因素方差分析,显示组与组之间差异具有统计学意义。结论慢性丙型肝炎患者治疗前后的HVR1序列碱基变异数量的分析,对治疗效果、病情变化及预后发展等方面的评估具有重要的指导意义。     

应用长PCR扩增蝗虫线粒体全基因组

介绍了用两对长PCR引物扩增蝗虫(Acridoidea)线粒体全基因组的方法。从NCBI的核酸数据库下载得到36种已测昆虫线粒体全基因组,选取cytochromeb(Cytb)c、ytochrome oxidase subunitⅡ(COⅡ)、cytochrome oxidase subunitⅠ(COⅠ)基因的保守区域设计两对引物。其中引物LP03和LP04从COⅠ向Cytb扩增;引物LPCytb和LPCOⅡ从Cytb向COⅡ扩增,两对引物扩增的片段之间有大约1 kb的重叠。应用这两对引物成功扩增出10种蝗虫的线粒体基因组。考虑到在设计引物过程中所选序列在其他昆虫中的保守性,它们应能在大部分昆虫线粒体基因组扩增中发挥作用。     

不同纯化方法处理DNA合成引物对PCR扩增效率的影响

对ＤＮＡ合成的幽门螺杆菌尿素酶引物ＨＰ１、ＨＰ２、ＨＰ３、ＨＰ４进行了几种不同的纯化试验,分别采用无水乙醇沉淀法、ＮＴ柱及聚丙烯酰胺凝胶电泳方法,对其相应的纯化收率,ＰＣＲ扩增效率作了比较及分析。琼脂糖凝胶电泳结果证实,以无水乙醇沉淀纯化方法的ＰＣＲ扩增效果较为理想。该方法操作简便、稳定高效、省时省力、成本低。为此建议用该法处理ＤＮＡ合成引物。     

四引物扩增受阻突变体系PCR快速测定绵羊 BMPR-IB基因型方法的建立

四引物ARMS PCR是检测SNP有效、快速、简便的方法.绵羊BMPR-lB基因是控制Booroola绵羊多胎性状的主效基因,此研究目的在于建立一种对BMPR-IB基因四引物ARMS PCR检测方法.根据四引物ARMS PCR技术原理,在绵羊BMPR-IB基因突变位点(A746G)设计一对特异性引物,并在突变点两侧设计一对参照引物,用来扩增含有突变点的DNA片段,可在一步PCR反应中根据电泳图谱准确判断绵羊个体的BMPR-IB基因型,对比PCR-RFLP检测结果表明,所建立的方法简单,操作简便,大大提高了检测效率.     

Potyvirus属成员基因组全序列的简并引物PCR和RACE扩增方法

Based on multi-alignment of complete polyprotein amino acid sequences of genus Potyvirus,five degenerated primers were designedThey were Sprimer(5′-GGX AAY AAY AGY GGX CAZ CC-3′),pNIa(+)(5′-TNY TGG AAM CAY TGG AT-3′),pCI2(+)(5′-GCX ACX AAX ATX ATX GAX AA-3′),pCI1(+)(5′-GTX GGX TCX GGX AAX TCX AC-3′)and pHC(+)(5′-TGY GAY AAY CAZ TTX GA-3′)(X=A,T,C or G:Y=T or C;Z=A or G;N=A or T;M=A,T or G)Using degenerated PCR and modified RACE methods,a protocol for determination of complete genome sequence of potyviruses was established and proved to be successful on five potyviruses     

体外PCR扩增和体内DNA复制有关问题的分析

体外PCR扩增和体内DNA复制是获得复制DNA的2种途径,它们都依据半保留复制的原理,但因其操作的环境不同,所要求的条件和具体的过程又有所不同。针对高中学生的特点对这2个过程所需要的条件、PCR扩增引物的设计、体内DNA复制冈崎片段的连接方式等进行了分析总结。     

20例藏族人mtDNA多态性的研究

本文通过对20例藏族产妇胎盘线粒体DNA (mtDNA）限制性类型的分析,发现藏族mtDNA是高度多态的,其每个核昔酸位点的平均替换率为0.035,比世界上迄今所报道的值都大。     

Leber氏病的mtDNA突变

Leber氏病是一种典型的母系遗传病,表现为急性、亚急性视神经萎缩,Wallace于1988年首次证实了此病患者中存在mtDNA的特异性改变—Wallace突变。我们研究了8个独立来源的中国汉族人Leber氏病患者,其中在4个患者中找到了mtDNA的Wallace突变,支持了Wallac。关于Leber氏病发病机理的假说。     

PCR专一性研究——PCR的二段扩增法

多聚酶链式反应（polymerasechainreaction,PCR）技术问世几年以来,已经广泛应用于分子生物学的各个领域。通过对此技术方法的改进及与其他技术配合,其应用范围更加扩大,方法更加简化。然而在进行分子生物学研究中,PCR扩增（的）产物的专一性特别重要。本文探更多还原提出了一二段扩增法,很好地解决了引物不理想和由于内切酶位点的引入带来的PCR非专一性扩增.     

人3型腺病毒六邻体高变区HVR1、HVR2、HVR5、HVR7的氨基酸修饰限制研究

传统腺病毒载体的局限性使得外源抗原以衣壳融合的方式在腺病毒载体上的应用越来越广泛,但是在3型腺病毒（Adenovirus serotype 3, Ad3)载体六邻体高变区(Hypervariable region,HVR)改造过程中经常出现无法成功拯救病毒的情况,本研究主要根据对生物信息学预测的HVR1,HVR2,HVR5,HVR7中某些氨基酸进行删减或保留,通过构建重组Ad3载体pBRAdΔE3GFP-mHexon,转染AD293细胞,验证Ad3载体在六邻体高变区的这些氨基酸有所改动时对病毒拯救的影响。由此获得高变区HVR1、HVR2、HVR5和HVR7在基因工程改造中应该保留的氨基酸的数据,这一研究结果为人3型腺病毒六邻体融合表达策略提供了操作依据,也为人3型腺病毒六邻体表达外源抗原表位,作为多价疫苗载体展示平台的应用奠定了基础。     

Does Human mtDNA Recombine?

In this article we review the evidence for and against recombination in human mtDNA. If recombination occurs, there needs to be a route by which genetic material can incorporate itself into the mitochondrial genome, and hence between mitochondrial lineages. We review the evidence for possible routes and then review the current state of the population genetic evidence for recombination. We conclude that there is no firmly established route by which recombination can occur, and that while some of the population genetic evidence is suggestive of recombination, it is far from conclusive. Received: 22 November 2000 / Accepted: 16 February 2001     

An economical mtDNA SNP assay detecting different mitochondrial haplogroups in identical HVR 1 samples of Caucasian ancestry

BackgroundWe had sequenced 329 Caucasian samples in Hypervariable Region 1 (HVR 1) and found that they belong to eleven different mitochondrial DNA (mtDNA) haplotypes. The sample set was further analysed by an mtDNA assay examining 32 single nucleotide polymorphisms (SNPs) for haplogroup discrimination.In a validation study on 160 samples of different origin it was shown that these SNPs were able to discriminate between the evolved superhaplogroups worldwide (L, M and N) and between the nine most common Caucasian haplogroups (H, I, J, K, T, U, V, W and X).ResultsThe 32 mtDNA SNPs comprised 42 different SNP haplotypes instead of only eleven haplotypes after HVR 1 sequencing. The assay provided stable results in a range of 5 ng genomic DNA down to virtually no genomic DNA per reaction. It was possible to detect samples of African, Asian and Eurasian ancestry, respectively.DiscussionThe 32 mtDNA SNP assay is a helpful adjunct to further distinguish between identical HVR 1 sequences of Caucasian origin. Our results suggest that haplogroup prediction using HVR 1 sequencing provides instable results. The use of coding region SNPs for haplogroup assignment is more suited than using HVR 1 haplotypes.     

荧光标记复合PCR扩增微卫星位点的构建与优化

本研究采用毛细管电泳技术,构建并优化了荧光标记复合PCR同时扩增多个微卫星位点。主要过程为：首先根据设计所扩增微卫星位点的期望长度,将9个微卫星位点分成两组,5个位点用FAM（蓝色）标记,4个位点用HEX（绿色）标记;两种荧光类型分组优化,用琼脂糖胶电泳检测。其次,荧光标记的复合PCR扩增8个中华绒螯蟹样品的9个微卫星位点,采用ABI3730xl毛细管电泳检测,以ROX500（红色）为长度标准物,结果经Genemapper3.5软件 分析,检测结果表明毛细管电泳检测荧光标记复合PCR产物不仅精确读取微卫星位点的长度（分辨率高达1bp）,还能区分微卫星位点复制时滑链所引起的“回声斑”;调整各微卫星位点引物比列使所有位点扩增强弱均匀。最后,逐一检测复合PCR基本参数（dNTP浓度、 PCR程序和模版DNA用量）对复合PCR产物的影响,优化PCR。结果表明通过毛细管电泳检测荧光标记复合PCR产物来读取微卫星位点的基因型具有精确性、高效性和稳定性。     

应用多重PCR鉴定微生物肥料常用芽孢杆菌

[目的]枯草群芽孢杆菌中枯草芽孢杆菌(Bacillus subtilis)、解淀粉芽孢杆菌(B.amyloliq-wefaciens)、地衣芽孢杆菌(B.licheniformis)和短小芽孢杆菌(B.pumilus)是微生物肥料中常用菌种,用传统方法鉴定费时费力,有必要建立检测和鉴定这些芽孢杆菌的种特异性PCR方法.[方法]利用已登录的gyrA、rpoA和16s rRNA基因序列分别设计和筛选上述菌种的特异引物并建立多重PCR反应体系.[结果]以基因组DNA为模板,扩增芽孢杆菌、类芽孢杆菌和短芽孢杆菌3属15种的标准菌株(共33株),4个目标种分别产生了大小不同的唯一的产物,除个别种与短小芽孢杆菌引物有交叉反应外,其余参考菌株均为阴性.从23株枯草群菌株的基因组DNA扩增发现,PCR鉴定与常规鉴定结果一致.[结论]本文建立的多重PCR方法具有较好的特异性,可快速准确鉴定枯草群的4个种,在微生物肥料检测方面有良好的实用前景.     

一种简单高效扩增人杯状病毒ORF2区RT-PCR方法的建立及其意义

人杯状病毒(human calicivirus,HuCV)属于杯状病毒科(Caliciviridae),是单股正链RNA病毒,长约7·5 kb,其3′末端有poly(A)结构。它可分为两个属:诺如病毒(Norovirus)和札如病毒(Sapovirus)[1],根据病毒抗原性和核苷酸序列的多样性,目前将诺如病毒和札如病毒分别划分为三个遗传组(group),每一遗传组依据RNA多聚酶及衣壳蛋白区域序列的差异,可进一步划分为不同群或基因型(cluster or genotype)。病毒基因组包括3个开放读码框(open reading frame,ORF),5′端和3′端各有一个小的非编码区。ORF1编码非结构蛋白的前体聚蛋白,其中包括RNA…     

Increased HVR in pregnancy: relationship to hormonal and metabolic changes

In prior studies at high altitude, we have found that pregnancy increases maternal hypoxic ventilatory response (HVR) but the factors responsible are unknown. Changes in metabolic rate and hormones that occur during pregnancy have previously been shown to influence HVR. We therefore sought to determine the contribution of metabolic rate and hormonal changes to the pregnancy-associated rise in HVR. Pregnancy increased HVR in each of 20 normal, low-altitude (1,600 m) residents. As measured by the shape parameter A, HVR at week 36 was 237 +/- 26 (SE) or twofold higher than the 124 +/- 13 value measured 3 mo postpartum (P less than 0.01) despite the presence of the potentially depressant effects of hypocapnia [change in alveolar partial pressure of CO2 (delta PACO2) = -4 +/- 1 mmHg] and alkalosis [change in arterial pH (delta pHa) = 0.02 +/- 0.01 U] during pregnancy. Sixty percent of the increase in HVR values had occurred by week 20 of gestation at which time O2 consumption (VO2) and CO2 production (VCO2) were unchanged relative to values measured postpartum. The remaining 40% rise in HVR paralleled increases in VO2 and VCO2, and further elevation in VO2 and VCO2 with moderate exercise produced an additional increase in HVR. Serum estradiol and progesterone levels increased with pregnancy, but levels did not correlate with HVR. The women reporting the greatest symptoms of dyspnea had higher HVR A values at week 36 than the least dyspneic women (285 +/- 28 vs. 178 +/- 34, respectively, P less than 0.05). We concluded that factors intrinsic to pregnancy in combination with increased metabolic rate raised HVR twofold with pregnancy and may have contributed to the often-reported symptoms of dyspnea in pregnant women.     

Somatic mtDNA Mutation Spectra in the Aging Human Putamen

The accumulation of heteroplasmic mitochondrial DNA (mtDNA) deletions and single nucleotide variants (SNVs) is a well-accepted facet of the biology of aging, yet comprehensive mutation spectra have not been described. To address this, we have used next generation sequencing of mtDNA-enriched libraries (Mito-Seq) to investigate mtDNA mutation spectra of putamen from young and aged donors. Frequencies of the “common” deletion and other “major arc” deletions were significantly increased in the aged cohort with the fold increase in the frequency of the common deletion exceeding that of major arc deletions. SNVs also increased with age with the highest rate of accumulation in the non-coding control region which contains elements necessary for translation and replication. Examination of predicted amino acid changes revealed a skew towards pathogenic SNVs in the coding region driven by mutation bias. Levels of the pathogenic m.3243A>G tRNA mutation were also found to increase with age. Novel multimeric tandem duplications that resemble murine control region multimers and yeast ρ⁻ mtDNAs, were identified in both young and aged specimens. Clonal ∼50 bp deletions in the control region were found at high frequencies in aged specimens. Our results reveal the complex manner in which the mitochondrial genome alters with age and provides a foundation for studies of other tissues and disease states.