番茄八氢番茄红素合成酶基因的克隆及超量表达载体构建

八氢番茄红素合成酶是植物类胡萝卜素生物合成途径中促进番茄红素合成的关键酶,根据番茄该酶的编码基因序列设计一对引物,通过RT-PCR在番茄中扩增出一个约1500 bp的全长cDNA片段.测序结果表明,此片段包含一个长为1239 bp的完整的编码框,其氨基酸序列与辣椒、向日葵、万寿菊、枸杞、番木瓜、温州蜜柑、拟南芥八氢番茄红素合成酶基因编码的氨基酸序列的一致率分别为88%、75%、75%、74%、73%、73%、7l%.对这个全长片段构建了超量表达载体,酶切检测表明该片段已插入植物表达载体.     

基于人脸局部特征和SVM的表情识别

提出了一种基于人脸局部特征的表情识别方法．首先选取人脸重要的局部特征,对得到的局部特征进行主成分分析,然后用支持向量机（SVM）设计局部特征分类器来确定测试表情图像中局部特征,同时设计支持向量机（SVM）表情分类器,确定表情图像的所属类别．对JAFFE人脸图像数据库进行仿真实验．结果表明,该方法要优于一般的基于整体特征的人脸表情识别方法．     

西瓜八氢番茄红素合成酶基因全长的克隆与表达分析

通过RT-PCR和RACE技术从西瓜果实中克隆八氢番茄红素合成酶（PSY）基因的cDNA全长,用生物信息学方法对其cDNA序列及推测氨基酸序列进行分析,并用实时荧光定量PCR技术研究PSY在不同瓤色西瓜果实发育过程中的表达情况.结果表明,PSY基因cDNA全长1 561 bp（GenBank登录号为KC166870）,其开放阅读框为1 266 bp,编码421个氨基酸.该基因及其推导的氨基酸序列与同为葫芦科的其他植物的PSY及氨基酸序列的同源性分别为87％和91％以上;序列分析显示,PSY氨基酸序列N末端存在转运肽信号序列.不同瓤色西瓜果实发育过程中PSY的表达存在明显差异,红瓤果实中的表达量最高,这表明PSY可能与红瓤果实中积累较多的类胡萝卜素有关;PSY的表达量均高于PSY-A,推测PSY基因主要负责果实中类胡萝卜素的合成.     

运用HSV－tk／ACV系统进行肿瘤基因治疗研究

构建了含ｐｇｋ启动子驱动的ＨＳＶ－ｔｋ基因的反转录病毒载体ｐＬＮＴＫ，将ＨＳＶ－ｔｋ基因转移至人脑胶质瘤ＳＨＧ４４细胞（命名为ＳＨＧＬＮＴＫ）及小鼠黑色素瘤细胞Ｂ１６（命名为Ｂ１６ＬＮＴＫ）．体外实验证实核着类似物ＡＣＶ对ＳＨＧＬＮＴＫ细胞和Ｂ１６ＬＮＴＫ细胞的杀伤敏感性分别高于亲本细胞１０００和４００倍．转ＨＳＶ－ｔｋ基因细胞与亲本细胞按不同比例共培养时，亲本细胞对ＡＣＶ的敏感性明显增高，存在旁观者效应．首次应用人脑胶质瘤细胞株进行裸鼠体内实验，结果表明：ＡＣＶ能完全抑制ＳＨＧＬＮＴＫ细胞在裸小鼠体内肿瘤的形成，对裸小鼠体内已形成的ＳＨＧＬＮＴＫ肿瘤的治疗效果与对照ＳＨＧ４４肿瘤相比，肿瘤体积缩小８０％；用Ｂ１６ＬＮＴＫ细胞接种同系Ｃ５７／ＢＬ小鼠，经ＡＣＶ治疗后，Ｂ１６ＬＮＴＫ组小鼠的肿瘤较对照组Ｂ１６肿瘤小９５％．ＨＳＶ－ＴＫ／ＡＣＶ系统原位基因转移治疗ＳＨＧ荷瘤裸小鼠、Ｂ１６荷瘤小鼠，原位注射病毒悬液／ＡＣＶ治疗组的ＳＨＧ肿瘤、Ｂ１６肿瘤分别较对照组肿瘤小５０％，４３％，原位注射ＰＡ３１７／ＬＮＴＫ细胞，ＡＣＶ治疗的ＳＨＧ肿瘤较对照组肿瘤小９０％，以上实验结果，统计学上差异极显著，Ｐ＜０．０１．实验     

Informix数据库分片策略的大规模应用研究及相关问题的探讨

采用数据库日期分区策略,成功解决了大规模应用中的批量数据清理的问题,对于行宽超过32K,记录数超过200万行的大数据量库表数据的清理操作,处理时间由过去的（4～6）h,缩短到2s钟以内,消除了批量处理过程对生产系统的影响,保证系统实现24h不间断运行。该方案应用透明,方便应用系统的方案改造升级,具有极高的推广价值。     

A Family of Fitness Landscapes Modeled through Gene Regulatory Networks

Fitness landscapes are a powerful metaphor for understanding the evolution of biological systems. These landscapes describe how genotypes are connected to each other through mutation and related through fitness. Empirical studies of fitness landscapes have increasingly revealed conserved topographical features across diverse taxa, e.g., the accessibility of genotypes and “ruggedness”. As a result, theoretical studies are needed to investigate how evolution proceeds on fitness landscapes with such conserved features. Here, we develop and study a model of evolution on fitness landscapes using the lens of Gene Regulatory Networks (GRNs), where the regulatory products are computed from multiple genes and collectively treated as phenotypes. With the assumption that regulation is a binary process, we prove the existence of empirically observed, topographical features such as accessibility and connectivity. We further show that these results hold across arbitrary fitness functions and that a trade-off between accessibility and ruggedness need not exist. Then, using graph theory and a coarse-graining approach, we deduce a mesoscopic structure underlying GRN fitness landscapes where the information necessary to predict a population’s evolutionary trajectory is retained with minimal complexity. Using this coarse-graining, we develop a bottom-up algorithm to construct such mesoscopic backbones, which does not require computing the genotype network and is therefore far more efficient than brute-force approaches. Altogether, this work provides mathematical results of high-dimensional fitness landscapes and a path toward connecting theory to empirical studies.     

A Novel Strategy for Regulating mRNA’s Degradation via Interfering the AUF1’s Binding to mRNA

The study on the mechanism and kinetics of mRNA degradation provides a new vision for chemical intervention on protein expression. The AU enrichment element (ARE) in mRNA 3′-UTR can be recognized and bound by the ARE binding protein (AU-rich Element factor (AUF1) to recruit RNase for degradation. In the present study, we proposed a novel strategy for expression regulation that interferes with the AUF1-RNA binding. A small-molecule compound, JNJ-7706621, was found to bind AUF1 protein and inhibit mRNA degradation by screening the commercial compound library. We discovered that JNJ-7706621 could inhibit the expression of AUF1 targeted gene IL8, an essential pro-inflammatory factor, by interfering with the mRNA homeostatic state. These studies provide innovative drug design strategies to regulate mRNA homeostasis.     

Differential Expression Analysis of Single-Cell RNA-Seq Data: Current Statistical Approaches and Outstanding Challenges

With the advent of single-cell RNA-sequencing (scRNA-seq), it is possible to measure the expression dynamics of genes at the single-cell level. Through scRNA-seq, a huge amount of expression data for several thousand(s) of genes over million(s) of cells are generated in a single experiment. Differential expression analysis is the primary downstream analysis of such data to identify gene markers for cell type detection and also provide inputs to other secondary analyses. Many statistical approaches for differential expression analysis have been reported in the literature. Therefore, we critically discuss the underlying statistical principles of the approaches and distinctly divide them into six major classes, i.e., generalized linear, generalized additive, Hurdle, mixture models, two-class parametric, and non-parametric approaches. We also succinctly discuss the limitations that are specific to each class of approaches, and how they are addressed by other subsequent classes of approach. A number of challenges are identified in this study that must be addressed to develop the next class of innovative approaches. Furthermore, we also emphasize the methodological challenges involved in differential expression analysis of scRNA-seq data that researchers must address to draw maximum benefit from this recent single-cell technology. This study will serve as a guide to genome researchers and experimental biologists to objectively select options for their analysis.     

慈竹CCoAOMT基因的克隆及生物信息学分析

咖啡酰辅酶A-O-甲基转移酶是木质素生物合成过程中的关键酶之一。该研究以慈竹嫩茎为材料,采用RT-PCR及RACE方法,克隆CCoAOMT基因,并对其进行生物信息学分析。结果表明:1个慈竹CCoAOMT基因cDNA全长序列被成功克隆,该序列全长为1 080 bp,含有1个777 bp的读码框,编码了1个包含258个氨基酸的蛋白质,分子质量约为28.861 ku,等电点为5.33,二级结构中α-螺旋占42.25%,β-转角占8.91%,延伸链占15.89%、无规则卷曲占32.95%。对氨基酸多序列比对发现,慈竹与绿竹的CCoAOMT1基因亲缘关系最近,但慈竹CCoAOMT基因编码的氨基酸与绿竹相比,在第10位点上发生了缺失,5个位点发生了变异。慈竹、绿竹、毛竹、玉米CCoAOMT基因编码的氨基酸中都含有1个相对保守的无序化区域。NaC-CoAOMT1基因组织表达结果表明,其在未展开叶、笋上部和中部、茎的上部和中部的表达量较高。笔者将克隆并获得的慈竹木质素合成酶CCoAOMT基因全长序列(GenBank注册号为JF742462)命名为NaCCoAOMT1,分析认为其可能与慈竹木质素生物合成有关。     

基于NMF技术探寻早期AD基因表达调控网络

利用非负矩阵分解(NMF)技术,依据加强算法的稀疏性对患早期阿尔茨海默症(AD)样本的基因表达数据进行分析,提取对疾病早期诊断具有重要意义的显著基因,样本分类实验结果证明了算法的有效性.在此基础上,结合与炎症反应有重要关系的NF-κB等基因初步建立了与早期AD密切相关的基因表达调控网络结构图,为AD致病机理的探询、早期诊断与治疗等提供了有益的途径和方法.