金黄地鼠封闭群SPF化后的微卫星遗传学检测

目的检测和评估金黄地鼠封闭群SPF化后的遗传学变化,为SPF金黄地鼠遗传质量的控制提供技术资料。方法应用小鼠和大鼠的微卫星标记筛选适于金黄地鼠遗传检测的微卫星标记,并结合微卫星荧光标记-半自动基因分型技术,对成都生物制品研究所的SPF级金黄地鼠及其来源的普通级金黄地鼠进行遗传检测,计算其群体遗传学参数。结果对18个小鼠和6个大鼠微卫星标记进行了筛选,分别有2个小鼠和2个大鼠微卫星标记在金黄地鼠种群中具PCR扩增多态性。4个检测的微卫星位点在普通级金黄地鼠和SPF金黄地鼠种群分别发现25和20个等位基因,两群体的期望杂合度分别为0.4979和0.5048,其群体遗传多样性无显著差异;群体间的不同微卫星位点FST范围从0.0095到0.0367,平均为0.0315,表明两群体间的遗传分化很弱,其遗传多样性主要存在于群体内;Nei(1972)遗传距离和Nei(1978)无偏遗传距离分别为0.0678和0.0570,表明了2群体之间很高的遗传相似度和非常近的亲缘关系;Hardy-Weinberg平衡检验表明普通级和SPF金黄地鼠分别有2个和3个位点偏离遗传平衡,且偏离位点均表现为杂合子缺陷。结论该SPF金黄地鼠基本保持了其来源普通级黄地鼠的遗传多样性,两群体间遗传分化程度和遗传差异很小,但应进一步加强其封闭群的繁育控制,保持其遗传稳定性。     

微卫星座位对KM封闭群小鼠的遗传分析

应用微卫星分子标记对昆明小鼠(KM)封闭群相隔10代的两个群体(分别命名为A9和A19)进行遗传背景分析,共设计位于小鼠7条染色体上的7对微卫星引物用于实验研究,选取具有多态性的一个微卫星位点D3Mit22进行详细分析.结果表明:所研究的位点D3Mit22在两个群体共发现2个不同的等位基因,3种不同的基因型,其中A9代有3种不同的基因型,即AB,AA,BB.A19代有两种不同的基因型,即AB,BB.进一步埘不同的微卫星位点克隆测序,分析了该位点的DNA分子特性.对封闭群小鼠检测方法的建立及保持封闭群小鼠的遗传稳定性提供了重要的分子数据.     

应用微卫星标记研究Dunkin Hartley豚鼠封闭群的遗传背景

目的检测我国现有Dunkin Hartley豚鼠封闭的遗传背景,分析评估其遗传多样性水平和遗传分离情况,为建立标准化的豚鼠封闭群监测方法提供基础资料。方法应用筛选获得的8个微卫星位点,从一个数量为1000的豚鼠封闭群中随机选择72个个体,通过PCR扩增和聚丙烯酰胺凝胶电泳的方法,进行等位基因检测。并根据检测结果分析评估了该豚鼠封闭群的遗传现状。结果共检测到28个等位基因,每个座位的等位基因数为2～5个,有效等位基因数为1.5191～3.4422,平均2.3093。平均期望杂合度为0.5294。各位点多态信息含量在0.3154～0.6545之间,平均值为0.4687。有5个位点显著偏离Hardy-Weinberg平衡。结论豚鼠封闭群的遗传多态性处于中等水平,遗传平衡检测结果提示种群的繁殖过程未能实现完全随机交配,近交现象一定程度上存在。本研究的结果将为豚鼠封闭群遗传监测方法和标准的建立提供基础。     

长爪沙鼠的遗传多样性分析

利用17个微卫星DNA标记对Z:ZCLA长爪沙鼠封闭群、野生群和近交系进行遗传多样性分析, 评估群体内的遗传变异和群体间的遗传分化。结果表明：在Z:ZCLA封闭群和野生群中共有9个微卫星DNA标记获得稳定的结果, 分别为AF200940、AF200941、AF200942、AF200945、AF200946、AF200947、D11Mit128、PKC和 SCN, 共检测到41个等位基因, 每个基因的等位基因数从1～7不等, 片段大小在120～283 bp之间, 所有位点的平均期望杂合度(He)和多态信息含量(PIC)值分别为0.5032和0.4656, Z:ZCLA封闭群和野生群9个微卫星位点平均有效等位基因数分别为2.78和2.89, 平均基因杂合度分别为0.3704和 0.3893, 平均多态信息含量分别为0.3256和0.3344, 两个群体都表现为中度多态, Z:ZCLA封闭群较野生群稍低; 在3个近交系中共有8个位点获得稳定的扩增结果, 分别为AF200941、AF200942、AF200945、AF200946、AF200947、D11Mit128、PKC和 SCN, 共检测到11个等位基因, 片段大小在140~241 bp之间, 其中5个位点在群体内表现为单态纯合, 3个位点在群体内表现为单态杂合, 所有位点在群体内和群体间均呈单态性, 表明这3个长爪沙鼠品系基本符合近交系的要求, 微卫星标记技术适用于近交系长爪沙鼠的遗传检测。     

PLCε基因敲除小鼠微卫星DNA遗传监测分析

目的利用多态性微卫星DNA位点分析PLCε基因敲除小鼠的遗传特性。方法用所筛选的15个微卫星DNA位点对28只PLCε基因敲除小鼠的DNA进行了PCR扩增,通过基因片段大小来分析群体的遗传多样性。结果 13个微卫星DNA位点中（D1Mit365、D3Mit51、D4Mit235、D6Mit102、D7Mit281、D8Mit113、D9Mit23、D10Mit180、D13Mit88、D16Mit145、D17Mit36、D18Mit94、D19Mit97）每个位点的28只小鼠DNA片段泳动距离一致,呈现单态性,表明该群体符合近交系的遗传特性;而利用Dq（敲基因型）和Dy（野生型）两个位点对28只小鼠的PCR扩增结果进行了鉴别分析,其中敲除基因型小鼠为6只;野生型为7只;杂合型为15只。结论利用微卫星标记技术可以对群体进行遗传质量监测,并能有效地鉴别不同的基因型,为小鼠的遗传质量监测提供了一种可行的方法。     

基于转录组平台的蛤仔微卫星标记筛选

以菲律宾蛤仔转录组测序所得拼接序列为基础,采用MISA软件进行微卫星分析,对其中的145个微卫星位点进行引物设计,得到具有清晰扩增条带的微卫星位点58个。对大连庄河野生蛤仔群体的扩增结果表明,18个位点显示单态性,40个位点表现为多态性。该群体40个多态性微卫星位点得到的等位基因数在2—6之间,平均等位基因数为3.4250±0.9718,观测杂合度和期望杂合度分别在0.0000—1.0000和0.0615—0.7996之间,平均值分别为0.2727±0.2272和0.4739±0.1902,群体平均Nei指数为0.4664±0.1872。多态信息含量(PIC)在0.0586—0.7529之间,平均值为0.4148±0.1707,其中16个微卫星位点的PIC值大于0.5,为高度多态性,15个位点0.25PIC0.5,为中度多态性,其余9个为低度多态性。经Sequential Bonferroni校正的Hardy-Weinberg平衡检验,有10个位点尚未偏离平衡。基于转录组平台筛选微卫星标记的方法,在很大程度上推动了DNA分子标记的开发。研究开发的微卫星标记可用于蛤仔群体遗传学、遗传连锁图谱构建及其他相关研究,为蛤仔分子标记辅助育种及群体种质保护等工作提供技术支持。     

微卫星标记对WHBE兔封闭群、日本大耳白兔和新西兰兔的遗传分析

目的分析比较大耳白黑眼兔（WHBE兔）封闭群与日本大耳白兔（Jw兔）、新西兰兔（NZW兔）基因组存在的微卫星结构,研究WHBE兔封闭群的微卫星多态性。方法利用21个微卫星位点,通过微卫星分子标记技术对WHBE兔封闭群、Jw兔和NZW兔进行遗传多样性检测和对比。结果根据初步结果,在21对微卫星引物中筛选出扩增产物稳定并且具有多态性的11对引物。WHBE兔封闭群在每个位点上的等位基因数为3～8个不等,11个位点的平均有效等位基因数为2．0402个,平均杂合度为0．4810;Jw兔在每个位点上的等位基因数为2～8个不等,11个位点的平均有效等位基因数为3．6077个,平均杂合度为0．5039;NZW兔在每个位点上的等位基因数为3～9个不等,11个位点的平均有效等位基因数为2．6537个,平均杂合度为0．5334。WHBE兔封闭群在11个微卫星位点上的平均多态信息含量（PIC）为0．6005,多位点累积个体识别率达到100％,多位点累积非父排除概率（CPE）在双亲信息都是未知情况下的为0．9613,而在得知任一亲本信息的情况下,CPE值高达0．9973。在11个微卫星座位中,9个位点上出现了WHBE兔封闭群特有等位基因,其中在Sat2、Sat5、Sat7、Sat12、Sat13、Sat16、S0144和INRACCDDV0003八个位点上WHBE兔封闭群的特有等位基因为一个,在sat8位点上为两个。结论WHBE兔8个位点的平均杂合度、平均有效等位基因数均比JW兔及NZW兔低,说明WHBE兔群体的基因纯合度高于其他两个品系,具有更优的遗传稳定性。9个WHBE兔特有的等位基因可作为区分WHBE兔封闭群和其它两个品系实验兔的分子标记。     

无特定病原体金定鸭微卫星DNA遗传多样性分析

目的利用微卫星标记对无特定病原体金定鸭群进行遗传多样性分析。方法采用微卫星标记,对SPF金定鸭种群中71个个体进行遗传多样性分析。结果 SPF金定鸭种群中17个位点上共检测到119个等位基因,每个微卫星上等位基因数介于3~13;该SPF金定鸭群体中有13个位点(PIC0.5)呈现出高度多态,平均杂合度为(0.5816±0.0142),其他位点均呈现出中度多态。仅有5个位点处于Hardy-Weinberg平衡状态,其余12个位点显著偏离Hardy-Weinberg平衡,达到极显著水平(P0.01)。结论该SPF金定鸭群体内均存在丰富的遗传多样性,满足建立封闭群的遗传特征,可以利用该群体继续开展无特定病原体金定鸭封闭群的建立。     

近缘种扩增法对黑叶猴微卫星位点的筛选及特征分析(英文)

微卫星位点近缘种筛选法使得在探讨各种灵长类种群遗传结构和生殖策略上更加便捷。我们利用138条人类微卫星引物在黑叶猴中进行筛选,得到了23个具有多态性位点。在28个检测个体中,每个位点的等位基因数为3到9个,期望杂合度为0.62,观测杂合度为0.50,其中有7个位点偏离Hardy-Weinberg平衡,9个位点存在无效等位基因现象。但是各位点之间均未检测到连锁不平衡现象。这些位点将在黑叶猴种群遗传结构的研究中发挥重要作用。     

实验兔三个封闭群微卫星DNA多态性遗传分析

目的 对日本大耳白兔、青紫蓝兔、新西兰兔三个封闭群体开展群体遗传学分析.方法 利用10个微卫星位点,进行Hardy-Weinberg平衡(HWE)检验,统计三个种群的基因频率、观测杂合度、期望杂合度、F值和遗传距离.结果 青紫蓝品种在12L1E11位点,新西兰品种在INRACCDDV0087位点与INRACCDDV0203位点,日本大耳白兔在Sat12位点与INRACCDDV0203,P＜0.05,显著偏离HWE,多数表现为杂合子缺陷;三个群体在Sat13、So144、6L1F10、7L1F1、12L4A1、INRACCDDV0016点上均符合HWE;各位点平均等位基因数5.9,种群整体基因频率差别较大,其范围为0 -0.9060;三个种群的平均观测杂合度为0.6204,平均期望杂合度为0.6178;群体间分化系数(Fst)平均为0.0750,日本大耳白兔和青紫蓝兔遗传距离最近为0.1223,青紫蓝兔与新西兰兔遗传距离最远为0.1934.结论 三个种群的遗传结构均表现出遗传稳定性和均一性,在10个微卫星位点上呈现高度多态性,种群间遗传分化明显.     

Slc:Wistar outbred rats show close genetic similarity with F344 inbred rats

Although Slc:Wistar rats are used widely in biomedical research as outbred rats, close similarities in growth curves, survival rates, and immunological and biochemical phenotypes have been reported between Slc:Wistar and F344 inbred rats. We reported previously that nine genetic variations that were fixed in Slc:Wistar rats had identical genotypes in F344 rats. Here, we examined the genetic characteristics of Slc:Wistar rats using 27 simple-sequence length polymorphism (SSLP) markers and compared them with other Wistar stocks available in Japan and with some F344 strains. Among 27 SSLP loci, 23 (85%) were fixed in the Slc:Wistar rats, which was the highest among the other Wistar stocks. The 23 fixed loci shared identical genotypes with corresponding loci in F344 rats. Further, the predominant allele types in the unfixed loci had allele frequencies as high as 80%, and these alleles were identical in the F344 rats. When the nine genetic variations reported previously are added, a total of 32 (89%) out of the 36 loci examined were fixed and identical in the Slc:Wistar and F344 rat genomes. These findings indicate the low genetic variation in Slc:Wistar rats and the high genetic similarity between the Slc:Wistar and F344 inbred rats. This study demonstrates the importance of characterizing outbred rats and the need to pay ample attention to the genetic characteristics the Slc:Wistar rats for their proper use.     

Genetic analysis of microsatellite polymorphism in the Elliot's Pheasant (Syrmaticus ellioti) in China

In this study, we reported the population genetic analyses in the Elliot's Pheasant(Syrnaticus ellioti) using seven polymorphism microsatellite loci based on 105 individuals from 4 geographical populations. Departures from Hardy-Weinberg equilibrium were found in four geographical populations. The average number of alleles was 8.86, with a total of 62 alleles across 7 loci; observed heterozygosity (HO) was generally low and the average number was 0.504. For the seven microsatellite loci, the polymorphism information content ranged from 0.549 to 0.860, with an average number 0.712. Population bottlenecks of the four geographical populations were tested by infinite allele mutation model, step-wise mutation model and two-phase mutation model, which found that each population had experienced bottleneck effect during the recent period. Fst analysis across all geographical populations indicated that the genetic differentiaton between the Guizhou geographical population and the Hunan geographical population was highly significant (P<0.001), a finding supported by the far genetic relationship showed by the neighbor-joining tree of four geographical populations based on Nei's unbiased genetic distances. Using hierarchical analysis of molecular variance (Guizhou geographical population relative to all others pooled), we found a low level of the genetic variation among geographical populations and that between groups. However, differences among populations relative to the total sample explained most of the genetic variance (92.84%), which was significant.     

Polymorphic microsatellite markers in the outbred CFW and ICR stocks for the generation of speed congenic mice on C57BL/6 background

Reliable definition of the phenotype of particular alleles is carried out in the genetic background of inbred strains. Appearance of mutations in outbred mice therefore requires the generation of congenic mice. The aim of this study was the establishment of a list of polymorphic microsatellite markers which can be used in a polymerase chain reaction (PCR)-based marker-assisted selection protocol (MASP) to allow the use of the two common outbred stocks, CFW and ICR, as donor animals for the fast generation of congenic C57BL/6 mice. The selection of informative microsatellite markers was carried out to provide a simple evaluation of the PCR products by conventional agarose gel electrophoresis. Outbred mice from three suppliers were examined. In total, 153 microsatellite loci were analysed. Here we present 76 and 70 microsatellite markers polymorphic for the outbred ICR and CFW stocks compared to C57BL/6. At least three microsatellite loci per chromosome were chosen as informative markers for the autosomal genome, giving rise to a maximum marker distance of 58 cM. Thus, additional individual markers have to be selected for the respective outbred mouse which is chosen as a donor animal.     

Correction method for null alleles in species with variable microsatellite flanking regions, a case study of the black-lipped pearl oyster Pinctada margaritifera

In bivalves, heterozygote deficiencies and departures from Hardy-Weinberg equilibrium (HWE) in microsatellite analysis are common and mainly attributed to inbreeding, genetic patchiness (Walhund effect), or null alleles. We checked for the occurrence of null alleles at 3 microsatellite loci in 3 populations of black-lipped pearl oyster, Pinctada margaritifera, using a step-by-step method to re-amplify homozygotes and null individuals with redesigned primer pair combinations. After amplification with original primer pairs, the 3 populations exhibited null alleles, absence of structure, and significant departure from HWE for all 3 loci due to heterozygote deficiencies. After 3 re-amplification steps, with modified primer sets, all loci were corrected for null alleles. Once corrected, all populations appeared at HWE, demonstrating that null alleles were responsible for the initial disequilibrium of the populations. Furthermore, analysis from corrected genotypes demonstrates significant genetic differentiation for one population from the other 2.     

Microsatellite diversities and gene flow in the tsetse fly,Glossina morsitans s.l

Tsetse flies occupy discontinuous habitats and gene flow among them needs to be investigated in anticipation of area-wide control programs. Genetic diversities were estimated at six microsatellite loci in seven Glossina morsitans submorsitans Newstead (Diptera: Glossinidae) populations and five microsatellite loci in six G. m. morsitans Westwood populations. Nei's unbiased diversities were 0.808 and 76 alleles in G. m. submorsitans and 0.727 and 55 alleles in G. m. morsitans. Diversities were less in three laboratory cultures. Matings were random within populations. Populations were highly differentiated genetically. Populations were strongly subdivided, as indicated by fixation indices (F(ST)) of 0.18 in G. m. morsitans and 0.17 in G. m. submorsitans. 35% of the genetic variance in G. m. submorsitans was attributed to differences between populations from The Gambia and Ethiopia. All available genetic evidence suggests that genetic drift is much greater than gene flow among G. morsitans s.l. populations.     

Genetic diversity and differentiation of masu salmon (Oncorhynchus masou masou) between and within cultured populations inferred from microsatellite DNA analysis

Masu salmon,Oncorhynchus masou masou,is one of the most valuable fishery species that has been introduced to China,though to date no studies on the genetic diversity and genetic relationship among hatchery populations has been performed with molecular markers.We undertook such a study and sampled 120 individuals from three hatchery stocks and analyzed 20 microsatellite loci.All loci were polymorphic and a total of 91 alleles were detected.A relatively low level of genetic diversity was revealed with effective number of allele of 3.1094,3.3299 and 3.1894 and expected heterozygosity of 0.6600,0.6648 and 0.6638 in the three stocks,respectively.Deviations from Hardy-Weinberg equilibrium were found due to heterozygote deficit.Accordingly,evidence of genetic bottlenecks were found in the three stocks.An individual assignment test demonstrated that 85% of individuals were correctly assigned into their original stocks.Pairwise Fst revealed that significant differentiation occurred between these three stocks.The results of the study indicated that disequilibrium of genetic structure and differentiation has occurred in all three stocks.This information collectively provides a basis for measures to avoid of loss of genetic diversity and introgression in Chinese aquaculture.     

Genetic diversity and differentiation of masu salmon (Oncorhynchus masou masou) between and within cultured populations inferred from microsatellite DNA analysis

Masu salmon, Oncorhynchus masou masou, is one of the most valuable fishery species that has been introduced to China, though to date no studies on the genetic diversity and genetic relationship among hatchery populations has been performed with molecular markers. We undertook such a study and sampled 120 individuals from three hatchery stocks and analyzed 20 microsatellite loci. All loci were polymorphic and a total of 91 alleles were detected. A relatively low level of genetic diversity was revealed with effective number of allele of 3.1094, 3.3299 and 3.1894 and expected heterozygosity of 0.6600, 0.6648 and 0.6638 in the three stocks, respectively. Deviations from Hardy-Weinberg equilibrium were found due to heterozygote deficit. Accordingly, evidence of genetic bottlenecks were found in the three stocks. An individual assignment test demonstrated that 85% of individuals were correctly assigned into their original stocks. Pairwise Fst revealed that significant differentiation occurred between these three stocks. The results of the study indicated that disequilibrium of genetic structure and differentiation has occurred in all three stocks. This information collectively provides a basis for measures to avoid of loss of genetic diversity and introgression in Chinese aquaculture.     

Macrogeographic population structure of the tsetse fly, Glossina pallidipes (Diptera: Glossinidae)

Tsetse flies are confined to sub-Saharan Africa where they occupy discontinuous habitats. In anticipation of area-wide control programmes, estimates of gene flow among tsetse populations are necessary. Genetic diversities were partitioned at eight microsatellite loci and five mitochondrial loci in 21 Glossina pallidipes Austin populations. At microsatellite loci, Nei's unbiased gene diversity averaged over loci was 0.659 and the total number of alleles was 214, only four of which were shared among all populations. The mean number of alleles per locus was 26.8. Random mating was observed within but not among populations (fixation index FST=0.18) and 81% of the genetic variance was within populations. Thirty-nine mitochondrial variants were detected. Mitochondrial diversities in populations varied from 0 to 0.85 and averaged 0.42, and FST=0.51. High levels of genetic differentiation were characteristic, extending even to subpopulations separated by tens and hundreds of kilometres, and indicating low rates of gene flow.