An Assessment of Genetic Integrity of Micropropagated Plants of Plumbago Zeylanica by RAPD Markers

Clones of Plumbago zeylanica were micropropagated using nodal culture. The application of random amplified polymorphic DNA (RAPD) in assessing the genetic integrity of the micropropagated plants was evaluated by polymerase chain reaction. Twenty arbitrary decamers were used to amplify genomic DNA from in vitro and in vivo plant material to assess the genetic fidelity. All RAPD profiles from micro-propagated plants were monomorphic and similar to those of field grown mother plants. No polymorphism was detected within the micropropagated plants.     

Genetic Variation in Hippophae rhamnoides ssp. sinensis (Elaeagnaceae) Revealed by RAPD Markers

Hippophae rhamnoides ssp. sinensis is endemic to China, and it is a dioecious, outcrossing plant. Although many studies have been undertaken mainly on its agricultural, nutritional, medical, and ornamental value, little is known about its population genetics. This study uses random amplified polymorphic DNA to investigate the genetic diversity and population genetic structure of 13 natural populations of the subspecies sinensis. Fifteen primers amplified 107 reproducible bands, with 95 (88.79%) being polymorphic. The gene diversity within population was 0.168, considerably lower than that of tree species and most perennial, outcrossing species, but higher than that of annual or short-lived, selfing species. The Gst value showed that 18.3% of the total genetic variation resided among populations, a little lower than that of outcrossing species. The present results are quite similar to those previously reported in another subspecies, H ssp. . rhamnoides rhamnoides. The low genetic differentiation among populations in ssp. sinensis may be attributed to the long-distance dispersal of seeds facilitated by birds, in addition to its characteristics of outcrossing, wind pollination, and widespread distribution. No association between genetic distance and geographical distribution was found. The population relationships revealed by the UPGMA dendrogram parallel this result, in that genetic distance did not increase with geographic separation. This pattern of population differentiation may imply the adaptation of ssp. s populations to the local environment, given that its habitats vary greatly across its distribution.     

19个茶树杂交新品系主要性状比较及其遗传多样性分析

为探讨茶树（Camellia sinensis）种质资源的遗传背景,加快新品种选育进程,对19份区试茶树新品系的农艺性状进行观测,结合SSR标记进行遗传多样性分析。结果表明,新品系1001 （‘春绿2号’）、1017、46-6为特早生种,萌发期比对照‘福鼎大白’早10 d以上;除1001是小乔木外,其余品系均为灌木;新品系叶形多为长椭圆形,1017品系为近圆形,1011与1012品系为近椭圆形。利用48对SSR引物对19个茶树新品系进行扩增,共扩增出231个等位基因（Na）,每对引物平均扩增出4.8个;多态性信息含量（PIC）为0.14~0.85,平均0.55,PIC超过平均值（0.55）的有28对引物,占引物总数的58.33%。聚类分析表明,在遗传距离为0.32时,29份种质资源可分为4类,第一类有1009、‘黄玫瑰’、‘黄旦’和‘黄观音’等4个,第二类有1011、1008、1014等16个,第三类有‘福鼎大白’、‘福云6号’、1017、1019、1015等5个;第四类有1001与‘早春毫’。这为茶树新品种的选育提供了种质资源。     

Detection of Various Variant Verotoxin Genes in Escherichia coli by Polymerase Chain Reaction

We constructed common primers for the polymerase chain reaction to detect the genes for various Verotoxins reported, that is, VT1 (or SLT-I), VT2 (or SLT-II), VT2vha, VT2vhb, SLT-IIv (or VT2vp1, VTe) and SLT-IIva (or VT2vp2). A total of 80 Verocytotoxin-producing Escherichia coli strains isolated from humans, domestic animals and meats gave a positive result by PCR with the designed common primers. Digestion by restriction endonucleases BglII and EcoT14I of the amplicon of the VT2vp2 gene gave specific bands of the expected sizes, but not of the amplicons of other VT genes, suggesting a possible method for identification of the VT2vp2 gene. Application of the PCR with the designed primers in diagnostic and epidemiological studies on VTEC infection is also discussed.     

Stability of RAPD fingerprints in potato: Effect of source tissue and primers

Variations in random amplified polymorphic DNA (RAPD) profiles from leaf, stem, root, and tuber tissues were observed in case of two glasshouse grown potato cultivars using 40 decamer primers suggesting possible danger of cultivar misidentification. Genomic DNA extracted from the above four tissues of four in vitro grown potato cultivars, however, produced more uniform RAPD fingerprints. A significant effect of random primers on fingerprint uniformity was observed in case of both glasshouse and in vitro grown samples. A new concept of stability index for random primers based on homogeneity of RAPD profiles obtained from different tissues of a single plant have been introduced. It is concluded that RAPD analysis of genomic DNA extracted from any tissue of in vitro grown potato plants using 14 selected decamer primers could be used to develop RAPD fingerprints for identification of Indian potato cultivars.     

RAPD Assessment for Identification of Clonal Identity and Genetic Stability of in vitro Propagated Chestnut Hybrids

Randomly amplified polymorphic DNA (RAPD) was used as a tool to assess the clonal identity of four in vitro propagated chestnut rootstock hybrids (Castanea sativa × C. crenata) described as originally isolated from the same mother tree. To confirm genetic stability after in vitro multiplication for more than 4 years, RAPD patterns of in vitro and donor plants were compared. From 40 arbitrary 10-mer primers used to amplify DNA, 21 provided patterns and were chosen for comparisons. Although significant differences were found in growth parameters between in vitro material of the putative clones, RAPD profiling showed polymorphism in none but one. This accession may then be withdrawn from the same clonal origin as the other three. As expected, no polymorphism was detected between the material propagated in vitro and the donor plants they originated from.     

Detection of Low Genetic Variation in a Critically Endangered Chinese Pine, Pinus squamata, Using RAPD and ISSR Markers

With only 32 individuals in the northeastern corner of Yunnan Province, China, Pinus squamata is one of the most endangered conifers in the world. Using two classes of molecular markers, RAPD and ISSR, its very low genetic variation was revealed. Shannon's index of phenotypic diversity (I) was 0.030, the mean effective number of alleles per locus (A_e) was 1.032, the percentage of polymorphic loci (P) was 6.45, and the expected heterozygosity (H_e) was 0.019 at the species level based on RAPD markers. The results of ISSR were consistent with those detected by RAPD but somewhat higher (I = 0.048, A_e = 1.042, P = 12.3, H_e = 0.029). The genetic variation of the subpopulation on the southwest-facing slope was much higher than that of the subpopulation on the northeast-facing slope, which may be attributed to the more diverse environment on the southwest-facing slope. The genetic differentiation between the two subpopulations was very low. The between-subpopulation variabilities, Φ_ST, calculated from RAPD and ISSR data were 0.011 and 0.024. Because of the lack of fossil records and geological historical data, it was difficult to explain the extremely low genetic diversity of the species. We postulate that this ancient pine might have experienced strong bottlenecks during its long evolutionary history, which caused the loss of genetic variation. Genetic drift and inbreeding in post-bottlenecked small populations may be the major forces that contribute to low genetic diversity. Human activities such as logging may have accelerated the loss of genetic diversity in P. squamata.     

Detection of Genomic Polymorphism in Plasmodium falciparum Using an Arbitrarily Primed PCR Assay

ABSTRACT. Modifications of the arbitrarily primed polymerase chain reaction assay (i.e. a low annealing temperature and a very slow increase in the temperature during the elongation steps during the amplification cycles) allowed it to be used with the AT-rich Plasmodium falciparum DNA. The analysis of the products by polyacrylamide—urea gels, after silver staining, resulted in high resolution and sensitivity. Eighteen single and six combined pairs of arbitrary primers were tested. Two produced polymorphic patterns complex enough to differentiate between close Colombian isolates in a single assay. This method may be useful in studying the distribution and migration of strains in endemic areas, and for identifying intralaboratory cross-contamination of cultures.     

Molecular characterisation of Sargassum polycystum and S. siliquosum (Phaeophyta) by polymerase chain reaction (PCR) using random amplified polymorphic DNA (RAPD) primers

Genomic DNA was extracted from 13 samples of Sargassum polycystum and S. siliquosum collected from various localities around Peninsular Malaysia and Singapore by using four different extraction methods. The yields and the suitability of the DNA to be used as template for the polymerase chain reaction (PCR) was compared. DNA samples were subjected to PCR analysis by using random primers. Only DNA samples that were extracted using the CTAB method were successfully amplified by random amplified polymorphic DNA (RAPD)-PCR. Five of 31 random primers (OPA02, OPA03, OPA04, OPA13 and OPM10) tested amplified sequences of DNA from the DNA samples. Reproducible, amplified products were obtained using these primers and showed some potential to be useful in discriminating individual samples within the genus, in determining relationships between species within a genus and in developing individual fingerprints for individual samples.     

新型MGB探针在沙眼衣原体实时PCR检测中的应用

为建立基于TaqMan-MGB探针的沙眼衣原体DNA荧光定量PCR检测方法,探讨其临床应用价值,用 PCR法扩增沙眼衣原体隐蔽质粒pLVG440 2 464～2 980 nt段,并克隆入pMD18-T载体用作参比模板,设计一对引物和一个TaqMan-MGB探针,优化反应条件,建立沙眼衣原体DNA荧光定量PCR检测系统,并运用该系统同时应用连接酶链式反应(LCR)法对临床标本进行检测.结果显示所建立的沙眼衣原体DNA荧光定量PCR检测系统,最低检测限度为1 DNA拷贝每反应;在10⁰～10⁹ DNA拷贝每反应范围内,C_t值(每个反应管内的荧光信号达到设定的域值时所经历的循环数）和DNA拷贝数呈线性关系（r＞0.990）;对临床标本检测结果同LCR分析结果吻合率为100%.以上结果表明,所建立的基于TaqMan-MGB探针的沙眼衣原体DNA荧光定量PCR检测系统具有敏感性高、特异性强和线性检测范围广等特点,适用于对沙眼衣原体进行大规模筛选.     

Glutamine Synthetase Activity, Relative Water Content and Water Potential in Maize Submitted to Drought

Primer screening and optimization for random amplified polymorphic DNA (RAPD) analysis of cashew (Anacardium occidentale L.) was investigated. Among four series (A, B, D and N) of 10-mer primers, A-series performed better amplification of fragments than other series. The maximum amplification fragments was obtained using OPA-02, OPA-03, OPA-09, OPB-06, OPB-10, OPD-03, OPD-05 and OPN-03 primers. The primers OPA-02 and OPN-03 produced maximum number of DNA fragments in Anacardium occidentale cv. H-320. Primers (OPB-08 and OPN-05 performed a least number of amplification fragments. RAPD profile also indicate that some primer did not produce good amplification. The primer OPA-02 amplified 12 number of polymorphic bands in 20 cultivars of cashew. Only one DNA fragment was produced in A. occidentale cv. Vridhachalam - 2 (M-44/3) by using the primer OPA-02. This revised version was published online in July 2006 with corrections to the Cover Date.     

A PCR-based method for mating type determination inCochliobolus heterostrophus

A rapid and accurate method based on multiplex PCR using three different primers was developed for determining mating type inCochliobolus heterostrophus. The primers of MAT113 and MAT123 were uniquely derived fromMAT1-1 andMAT1-2, respectively, and the primer MATcon5 is conserved in the flanking regions of the idiomorphs. The amplification product was estimated to be 702 bp (MAT1-1) or 547 bp (MAT1-2). Crossing experiments confirmed the accuracy of this method, which requires less time than the conventional determination of mating type.     

Genetic Variability in Phytophthora palmivora (Butl.) Using RAPD Markers

Phytophthora palmivora causes bud rot, fruit and immature nut fall in India, and causes significant coconut yield losses. Genetic variability was estimated in 70 isolates representing seven populations from the Kerala and Karnataka regions using random amplified polymorphic DNA (RAPD) markers. RAPDs generated a total of 163 markers with 15 decamer primers, of which 92% were found to be polymorphic. The number of polymorphic loci within a single population varied from 45 to 92 with estimated hetrozygosities ranging from 0.08 to 0.23. The majority of the genetic diversity was distributed within populations (68.25%) and only 31.75% were among populations. Genetic relationships estimated by the unweighted pair‐group method with arithmatic averaging (UPGMA) revealed clear separation of Kerala and Karnataka populations.     

不同浓度氟对茶树幼苗叶片叶绿素荧光特性的影响

为探讨氟对茶树[Camellia sinensis(L.)O.Kuntze]叶片叶绿素荧光特性的影响,采用盆栽沙培法,用不同浓度的Na F溶液处理6周,对茶树叶片的叶绿素荧光特性进行研究。结果表明,用600 mg L–1的氟处理,茶苗叶片的OJIP曲线O相呈小幅度上升,P相下降得非常明显,IP相显著下降,出现清晰的L点(150μs)和K点(300μs);经过氟处理的茶苗叶片I点、J点的相对可变荧光和耗散能增加;荧光参数RC/CSo、ETo/ABS、PIabs、PIcs等明显下降,而DIo/RC、DIo/CSo和DIo/ABS等参数大幅度增加;叶片氟含量与ETo/TRo、REo/ABS、PICS呈负相关,与DIo/RC呈正相关。因此,氟胁迫处理削弱了茶树叶片的光合电子传递能力,影响了光合机构的作用,同时叶片以增加自身热耗散来防止受到光抑制和光破坏。     

茶树CPP转录因子家族的全基因组鉴定及分析

CPP(cysteine-rich polycomb-like protein)转录因子广泛存在于动植物中,是一类成员数目较少的转录因子家族,在调控植物生长发育和响应非生物胁迫中起重要作用。该研究通过对茶树基因组系统的鉴定,获得10个CsCPP转录因子均具有典型的CXC结构域。系统发育分析将CsCPP家族成员分为4类(A^D),且大部分成员与葡萄在进化关系上更为接近。A类和C类成员的CXC结构域分布在蛋白序列的N端,而B类和D类成员分布在C端。茶树组织表达分析表明,CsCPP转录因子在生长活跃的顶芽和嫩叶中普遍高表达,不同组织的表达水平排序为:顶芽和嫩叶>根和茎>成熟叶和果>老叶和花。启动子分析发现了CsCPP家族成员的启动子区域存在大量的ABA和干旱响应元件;干旱处理下,6个CsCPP成员的表达水平均有不同程度上调,其中4个成员在ABA处理后表达迅速上调,表明CsCPP转录因子可能在ABA介导的干旱胁迫响应中起正调控作用;低温处理下,大部分CsCPP成员的表达均有轻微下调,而CsCPP 2和CsCPP 6的表达水平在6 h达到顶峰,表达量均超过2倍。研究结果为进一步发掘茶树CPP转录因子家族的功能奠定了基础。     

Detection of Two Fungal Biocontrol Agents against Root-knot Nematodes by RAPD Markers

The strain ZK7 of Pochonia chlamydosporia var. chlamydosporia and IPC of Paecilomyces lilacinus are highly effective in the biological control against root-knot nematodes infecting tobacco. When applied, they require a specific monitoring method to evaluate the colonization and dispersal in soil. In this work, the randomly amplified polymorphic DNA (RAPD) technique was used to differentiate between the two individual strains and 95 other isolates, including isolates of the same species and common soil fungi. This approach allowed the selection of specific fragments of 1.2 kb (Vc1200) and 2.0 kb (Vc2000) specific for ZK7, 1.4 kb (P1400) and 0.85 kb (P850) specific for IPC, using the random Primers OPL-02, OPD-05, OPD-05 and OPC-11, respectively. These fragments were cloned, sequenced, and used to design sequence-characterized amplification region (SCAR) primers specific for the two strains. In classical polymerase chain reaction (PCR), with serial dilution of ZK7 and IPC pure culture DNAs template, the detection limits of these oligonucleotide SCAR-PCR primers were found to be 10, 1000, 500, 100 pg, respectively. In the dot blotting, digoxigenin (DIG)-labeled amplicons from these four primers specifically recognized the corresponding fragments in the DNAs template of these two strains. The detection limit of these amplicons were 0.2, 0.2, 0.5, 0.5 μg, respectively.     

氮素水平对不同品种茶树光合及叶绿素荧光特性的影响

为探明氮素水平对不同品种茶树的光合系统的影响机制,以‘福鼎大白茶’、‘保靖黄金茶1号’、‘白毫早’两年生茶苗为材料,设置不施氮N_0(0g)、低氮N_1(11g)、中氮N_2(22g)和高氮N_3(33g)4个氮素[(NH_4)_2SO_4]水平的盆栽实验,研究了铵态氮对3个品种茶树的生长势、叶片叶绿素含量、光合参数与叶绿素荧光参数的影响。结果表明:(1)施氮处理能够显著促进茶树的生长,提高茶树叶片叶绿素含量、净光合速率(Pn)、气孔导度(Gs)、蒸腾速率(Tr),降低胞间CO_2浓度(Ci),并以N_2处理最好,但水分利用率(WUE)在3个品种茶树间表现不同。(2)在N_2处理下,3个茶树品种的叶片光系统Ⅱ(PSⅡ)暗适应下的最大光化学效率(F_v/F_m)、光化学猝灭系数(qP)、PSⅡ的相对电子传递速率(rETR)亦增加最大,非光化学淬灭系数(NPQ)降低。(3)茶树叶片叶绿素含量与光合参数间存在着一定的联系,并且具有品种特异性。研究发现,适量施氮能够显著增加茶树叶绿素含量、气孔导度、光合活性,从而使得各品种茶树净光合速率增加;氮素水平对各茶树品种的光合及荧光特性影响存在差异,水分利用率亦具有品种特异性;生产中应综合叶绿素含量、光合作用参数、叶绿素荧光参数,可快速、直观地评价不同品种茶树对氮素营养的内在需求,为茶园施肥管理提供指导。     

RAPD marker polymorphism among commercial winery yeast strains

Random amplified polymorphic DNA (RAPD) analysis was employed to characterize commercial winery yeast strains currently used in Brazilian industries and to examine the relationship between them. Sixteen strains were subjected to RAPD analysis using eight primers, selected from the 40 primers of the kits B and X of Operon Techn. From the total of 93 scorable bands, 39 (41.9%) were polymorphics. Using the accumulated information of several reactions, all strains under investigation were differentiated. Cluster analysis revealed three groups. Most of the strains (11) were clustered in one group. The highest distance (28%) was obtained with the strain Redstar (Universal Food Corp.).     

拉萨市藏族人群15个STR基因座多态性的研究

利用多重PCR和五色荧光(6FAM、VIC、NED、PET、LIZ)自动化检测技术调查西藏自治区拉萨市藏族人群D8S1179、D21S11、D7S820、CSF1PO、D3S1358、TH01、D13S317、D16S539、D2S1338、D19S433、VWA、TPOX、D18S51、D5S818、FGA共１5个STR基因座多态性分布, 获得了15个STR基因座的遗传学数据。结果显示: 15个STR基因座的基因型分布符合Hardy-Weinberg平衡。 15个STR基因座的个体鉴别力(DP)在0.7515~0.9599之间, 杂合度(H)在0.5576~0.8538之间, 多态信息含量(PIC)在0.5455~0.8458之间, 非父排除率(EPP)在0.3755~0.8520之间, 累积个体鉴别力为0.99999999, 累积非父排除率为0.999999997。15个STR基因座适合作为藏族人群的遗传标志用于人类学、遗传疾病连锁分析、法医学亲子鉴定和个体识别等研究领域。