Graphical representation and the similarity of DNA primary sequences

In this article, graphical representations of DNA primary sequences were generated. Topological indices and molecular connectivity indices were calculated and used for the comparison of similarities among eight different DNA segments. The satisfactory results were achieved by this analysis.

DNA编码序列的图形表示及相似度计算

将DNA编码序列转化为图,然后计算得图的不变量-分子连接性指数,由所得的拓扑指数对DNA编码序列进行相似度比较以确认其同源性,得到了较好的结果

ON HALL AND KIERS TOPOLOGICAL STATE AND TOTAL TOPOLOGICAL INDEX

The topological state and the total topological index, tau, have been tested systematically. Counterexamples are provided proving that the topological state method cannot determine classes of symmetrically equivalent atoms in a molecule fully correct. The

胆甾醇丙烯酸酯／甲基丙烯酸丁酯无规共聚物的研究

胆甾醇丙烯酸酯／甲基丙烯酸丁酯无规共聚物的研究李安东，宋襄玉，周恩乐（中国科学院长春应用化学研究所高分子物理开放研究实验室，长春，１３００２２）关键词胆甾醇丙烯酸酯，甲基丙烯酸丁酯，高分子液晶，相态转变近来场致显示受到极大重视［１，２］，但对含有胆甾...

Characterization and mapping of expressed sequence tags isolated from a subtracted cDNA library of Litopenaeus vannamei injected with white spot syndrome virus

A large number of polymorphic simple sequence repeats (SSRs) or microsatellites are needed to develop a genetic map for shrimp. However, developing an SSR map is very time-consuming, expensive, and most SSRs are not specifically linked to gene loci of immediate interest. We report here on our strategy to develop polymorphic markers using expressed sequence tags (ESTs) by designing primers flanking single or multiple SSRs with three or more repeats. A subtracted cDNA library was prepared using RNA from specific pathogen-free (SPF) Litopenaeus vannamei juveniles (similar to 1 g) collected before (0) and after (48 h) inoculation with the China isolate of white spot syndrome virus (WSSV). A total of 224 clones were sequenced, 194 of which were useful for homology comparisons against annotated genes in NCBI nonredundant (nr) and protein databases, providing 179 sequences encoded by nuclear DNA, 4 mitochondrial DNA, and 11 were similar to portions of WSSV genome. The nuclear sequences clustered in 43 groups, 11 of which were homologous to various ESTs of unknown function, 4 had no homology to any sequence, and 28 showed similarities to known genes of invertebrates and vertebrates, representatives of cellular metabolic processes such as calcium ion balance, cytoskeleton mRNAs, and protein synthesis. A few sequences were homologous to immune system-related (allergens) genes and two were similar to motifs of the sex-lethal gene of Drosophila. A large number of EST sequences were similar to domains of the EF-hand superfamily (Ca2+ binding motif and FRQ protein domain of myosin light chains). Single or multiple SSRs with three or more repeats were found in approximately 61 % of the 179 nuclear sequences. Primer sets were designed from 28 sequences representing 19 known or putative genes and tested for polymorphism (EST-SSR marker) in a small test panel containing 16 individuals. Ten (53%) of the 19 putative or unknown function genes were polymorphic, 4 monomorphic, and 3 either failed to satisfactorily amplify genomic DNA or the allele amplification conditions need to be further optimized. Five polymorphic ESTs were genotyped with the entire reference mapping family, two of them (actin, accession #CX535973 and shrimp allergen arginine kinase, accession #CX535999) did not amplify with all offspring of the IRMF panel suggesting presence of null alleles, and three of them amplified in most of the IRM F offspring and were used for linkage analysis. EF-hand motif of myosin light chain (accession #CX535935) was placed in ShrimpMap's linkage group 7, whereas ribosomal protein S5 (accession #CX535957) and troponin I (accession #CX535976) remained unassigned. Results indicate that (a) a large number of ESTs isolated from this cDNA library are similar to cytoskeleton mRNAs and may reflect a normal pathway of the cellular response after im infection with WSSV, and (b) primers flanking single or multiple SSRs with three or more repeats from shrimp ESTs could be an efficient approach to develop polymorphic markers useful for linkage mapping. Work is underway to map additional SSR-containing ESTs from this and other cDNA libraries as a plausible strategy to increase marker density in ShrimpMap.

滤食性贝类养殖活动对海域生态系统的影响及生态容量评估

滤食性贝类以水体中的浮游植物和有机碎屑为主要食物，养殖海域的初级生产力水平、水动力学特性等生态环境因子的差异，不仅直接影响养殖贝类的产量，而且也与贝类养殖活动对生态环境的压力密切相关。由于养殖的种类、密度、方式及养殖海域的特性不同，关于贝类对生态环境的影响往往有不同的结果。本文以我国北方大连獐子岛扇贝底播海区和荣成桑沟湾贝类筏式养殖区为研究对象，采用现场调查、室内受控实验及生态数值模型模拟方法，分析研究了滤食性贝类对海域生态系统的影响，对这两个海域贝类养殖的生态容量进行了初步的评价。 主要结果： 1. 獐子岛海域底播贝类养殖活动对该海域生态系统的影响较小。非参数统计—符号检验的结果显示，养殖区与非养殖区之间的溶解性无机氮、磷酸盐浓度、氮磷摩尔比及浮游植物群落结构没有统计学上的差异（p>0.05）。但是从变化的趋势上来看，贝类养殖活动对水域环境的某些参数有一定程度的影响。例如，獐子岛底播贝类养殖海域的溶解性无机氮以氨氮为主，可能与贝类的代泄活动有关；不论是叶绿素浓度，还是网采浮游植物的生物量都是贝类高密度养殖区<贝类低密度养殖区<非养殖区（7月份除外），这种趋势可能与贝类的摄食压力有关。 桑沟湾各环境指标表现出明显的区域性。除春季外，非养殖区的DIN浓度高于各养殖区。在春季和冬季，贝类区的磷酸盐浓度显著降低；而硅酸盐浓度在夏季和秋季显著增大。综合分析DIN、PO4-P及SiO3-Si三个参数的四季变化，海带区、贝藻区及贝类区发生显著性变异的概率分别为25%，42%和50%，贝类区的变异较大。浮游植物、小型浮游动物的生物多样性指数都是以非养殖区为最高，贝类区的多样性指数最低。尤其是浮游动物的丰度，贝类区显著低于非养殖区。 2. 利用挪威的MOM (Modelling-Ongrowing fish farms-Monitoring)评价系统，评价了桑沟湾长期大规模的贝藻筏式养殖活动对底质环境的压力。在桑沟湾设10个取样站位，共获得66个底泥样品。比较了MOM－B评价系统的3组参数的季节变化特性。结果显示，底质条件属于1级，说明桑沟湾贝藻长期大规模的养殖活动对底质环境的压力较低。结合桑沟湾的环境及养殖特点，分析了压力较低的原因。 3. 经计算，2006年中国海水养殖的贝类和藻类使用浅海生态系统的碳可达396万吨，并通过收获从海中移出至少136.9万吨的碳。从1995年至2006年，养殖大型藻类和贝类累计移出的碳分别约为365万吨和893万吨，总计达1258万吨。证明了浅海的贝类和藻类养殖活动直接或间接地使用了大量的海洋碳，提高了浅海生态系统吸收大气CO2的能力。 4. 采用模拟现场生物沉积法测定了虾夷扇贝的滤水率、摄食率等生理指标及其与贝类个体大小、水温的关系。虾夷扇贝单位个体的滤水率与组织干重的关系符合幂函数方程CR=a×DWb，b值在0.45～0.65范围内；水温对虾夷扇贝滤水率的影响极其显著(p<0.01)，温度（T）与滤水率（CR）呈抛物线的关系：CR=-0.0009T2+0.0188T-0.0306，水温为10℃时，虾夷扇贝的滤水率、摄食较大。 5. 采用模拟现场流水法测定了3种滤食性贝类的食物选择性。紫贻贝、长牡蛎及栉孔扇贝分别对直径4m, 6m 和 8m颗粒的保留效率达到最大值；对小颗粒（直径2m）的保留效率分别为17%, 19% 和 8％。栉孔扇贝对食物数量和质量浓度的变化相对敏感，随着数量浓度的增加，栉孔扇贝倾向于摄食较大的颗粒；随着颗粒食物质量浓度的增加，倾向于摄食较小的颗粒。 6. 獐子岛海域四个航次的调查结果显示，叶绿素浓度在1.23～2.85mg.m-3范围内，均值为1.78±0.57 mg.m-3；初级生产力的变化范围为30.4～117.0 mg C. m-2.d-1，平均值为76.6±41.9 mg C. m-2.d-1。通过虾夷扇贝生物量断面调查，获得了虾夷扇贝的壳高频率分布情况，7月份的众数值出现在100 mm，10月份壳高的众数值为80 mm。利用以上测定的虾夷扇贝的滤水率等基本生物学特性，结合虾夷扇贝的年产量、海域面积和有关的水文状况等数据，计算了滤水效率、摄食压力、调节比率3个食物限制性指标参数，全年的均值分别为0.048, 0.31和 0.16，都小于1，说明目前该海域虾夷扇贝的养殖量未达到养殖容量。 7. 利用STELLA软件，建立的桑沟湾贝藻养殖的数值模型，模拟了叶绿素a浓度及氮磷营养盐的周年变化情况，及其对贝类养殖生物量变化的响应。以叶绿素a浓度为指标，初步探讨了桑沟湾贝类的生态容量。

渤海海底埋藏黄土及沿海出露黄土的成因

本文分析了我国内陆黄土以及东部沿渤海黄土的分布特点，重新分析了渤海自西向东大量地质钻孔以及大量海底的浅地层剖面记录，第一次发现并确定了全新世海相层下面的埋藏黄土的存在。将第二海相地层之上的埋藏黄土与沿岸的出露的马兰期黄土上部进行对比，研究表明，渤海海底埋藏黄土与沿岸出露黄土具有时代一致，同一类型，同一成因的特点。提出了沿渤海马兰期黄土的近源沉积及分布关系，建立了沿渤海黄土成因的扇型分布模式。

AFLP-based genetic linkage maps of the Pacific oyster Crassostrea gigas Thunberg

Amplified fragment length polymorphisms (AFLPs) were used for genome mapping in the Pacific Oyster Crassostrea gigas Thunberg. Seventeen selected primer combinations produced 1106 peaks, of which 384 (34.7%) were polymorphic in a backcross family. Among the polymorphic markers, 349 were segregating through either the female or the male parent. Chi-square analysis indicated that 255 (73.1%) of the markers segregated in a Mendelian ratio, and 94 (26.9%) showed significant (P < 0.05) segregation distortion. Separate genetic linkage maps were constructed for the female and male parents. The female framework map consisted of 119 markers in 11 linkage groups, spanning 1030.7 cM, with an average interval of 9.5 cM per marker. The male map contained 96 markers in 10 linkage groups, covering 758.4 cM, with 8.8 cM per marker. The estimated genome length of the Pacific oyster was 1258 cM for the female and 933 cM for the male, and the observed coverage was 82.0% for the female map and 81.3% for the male map. Most distorted markers were deficient for homozygotes and closely linked to each other on the genetic map, suggesting the presence of major recessive deleterious genes in the Pacific oyster.

Determination of free fatty acids in bryophyte plants and soil by HPLC with fluorescence detection and identification by online MS

A method for the determination of long and short chain free fatty acids (FFAs), using 1-[2-(ptoluenesulfonate)-ethyll-2-phenylimidazole-[4,5-f-9,10-phenanthrene (TSPP) as labeling reagent, has been developed. Identification of FFA derivatives was carried out by HPLC-MS with atmospheric pressure chemical ionization (APCI) in positive ion mode. Gradient elution on an Agilent Eclipse XDB-C-8 column gave good separation of the derivatives. Excellent linear responses were observed and good compositional data could be obtained from as little as 200 mg of bryophyte plants and soil samples. Facile TSPP derivatization coupled with HPLC-APCI-MS analysis allowed the development of a highly sensitive method for the quantitative analysis of trace level of FFAs from biological and natural environmental samples.

地球化学场的多重分形分析与分解

Geochemical and Geophysical anomaly play an important role in mineral exploration，their spatial structure character include singularity and self－similar。The singularity of an anomaly reflects the enrichment characters of the geochemical element ,The anomaly separation by multifractal model is useful in mineral anomaly assessment。In recent years, The continuous multifractal mode of the geochemical fields was studied ,it can be separated into the simple continuous multifractal mode and the high concentration multifractal mode, and the C－A、C－D、 S－A、MSDV、W－A method to decompose the anomaly were presented。Those are succeeded in interpretation of Geochemical and Geophysical anomaly。 This study makes a summarization to these method， we present a multifractal method based on wavelet transform to analyze the multifractal fields 。The singularity and spectrum are calculated through tracing the wavelet maximum modulus in different measure，and then the fields can be decomposed by the characters of the singularity。 It is demonstrated to be useful in interpretation of Au anomaly in Gekou－Shicheng region Rushang Shandong Province 。 Based on the multifractal theory , Using the concentration—area（C—A）method ,We study two geochemical fields in Chifeng area , Inner Mongolia。The results show that the geochemical fields have three different multifractal modes。Based on these ,we discuss the enrichment mode of the geochemical elements and their distributions in space and get the anomaly lower limit ,then the geochemical backgrounds、regional anomalies and local anomalies are distinguished

Laser photoacoustic detection allows in planta detection of nitric oxide in tobacco following challenge with avirulent and virulent pseudomonas syringae pathovars

Luis A.J. Mur, I. Edi Santosa, Lucas J.J. Laarhoven, Nicholas J. Holton, Frans J.M. Harren and Aileen R. Smith (2005). Laser photoacoustic detection allows in planta detection of nitric oxide in tobacco following challenge with avirulent and virulent pseudomonas syringae pathovars. Plant Physiology, 138(3), 1247-1258. Sponsorship: BBSRC / EU RAE2008

Evolução da estrutura urbana de Viana do Castelo

Dissertação de Mestrado apresentada à Universidade Fernando Pessoa como parte dos requisitos para obtenção do grau de Mestre em Arquitectura e Urbanismo.

Casa colombiana: café sabor esencial, Bogotá, diciembre 2003.

33 hojas : ilustraciones.