Analysis of hippocampal gene expression profile of Alzheimer's disease model rats using genome chip bioinformatics

In this study, an Alzheimer＇s disease model was established in rats through stereotactic injection of condensed amyloid beta 1-40 into the bilateral hippocampus, and the changes of gene expression profile in the hippocampus of rat models and sham-operated rats were compared by genome expression profiling analysis. Results showed that the expression of 50 genes was significantly up-regulated （fold change 〉 2）, while 21 genes were significantly down-regulated in the hippocampus of Alzheimer＇s disease model rats （fold change 〈 0.5） compared with the sham-operation group. The differentially expressed genes are involved in many functions, such as brain nerve system development, neuronal differentiation and functional regulation, cellular growth, differentiation and apoptosis, synaptogenesis and plasticity, inflammatory and immune responses, ion channels/transporters, signal transduction, cell material/energy metabolism. Our findings indicate that several genes were abnormally expressed in the metabolic and signal transduction pathways in the hippocampus of amyloid beta 1 40-induced rat model of Alzheimer＇s disease, thereby affecting the hippocampal and brain functions.

Gene expression in rat mesenchymal stem cells following treatment with natural cerebrolysin-containing serum Validation of a whole genome microarray technique

BACKGROUND： Natural cerebrolysin （NC）, a Chinese herbal drug for the treatment of Alzheimer＇s disease （AD）, induces mesenchymal stem cell （MSC） differentiation into neuron-like cells, with low toxicity. But the mechanisms involved in NC effects on MSCs remain poorly understood. OBJECTIVE： We used a whole genome microarray technique to further investigate the molecular, genetic, and pharmacodynamic mechanisms of NC on MSC gene expression profiles. DESIGN, TIME AND SETTING： A parallel, controlled, in vitro experiment was performed at the First Affiliated Hospital of Shenzhen University, Shenzhen Institute of Integrated Chinese and Western Medicine, China, between September 2006 and October 2008. MATERIALS： NC was provided by Shenzhen Institute of Integrated Chinese and Western Medicine China. It was predominantly composed of Renshen （Radix Ginseng）, Tianma （Rhizoma Gastrodiae） and Yinxingye （Ginkgo Leaf） and prepared by conventional water extractJon technology. Twelve adult, male, New Zealand rabbits were included, six of which underwent intragastric administration of NC extract for 1 month to create NC-containing serum. METHODS： Bone marrow was collected from the tibia and femur of Sprague Dawley rats, aged 6 8 months old. Rat MSCs were isolated and purified by the whole bone marrow adherence method. After in vitro culture, MSCs from passage 4 were treated with NC-containing serum for 48 hours, and total RNA was extracted. Gene expression in MSCs was analyzed using Affymetrix whole genome microarray analysis. MAIN OUTCOME MEASURES： Differentially expressed genes in NC serum-treated MSCs. RESULTS： NC treated MSCs displayed 46 differentially expressed genes, 22 with upregulated expression （fold change 〉 2） and 24 with downregulated expression （fold change 〈 -2）. Differentially expressed genes participated in neuronal growth, differentiation, and function, cell growth, differentiation, proliferation, apoptosis, signal transduction, substance/energy metabolism, ion transport, and immune responses. NC treatment changed levels of transforming growth factor β/ bone morphogenetic proteins, Hedgehog, Bmp, and Wntsignaling pathways, which regulate nerve cell differentiation, development and function, as well as learning and memory; Ras, G protein- coupled receptor signal pathways that are related to cell growth, proliferation, and apoptosis; and mitogen-activated protein kinase kinase kinase signaling cascades. CONCLUSION： NC can regulate gene expression for many signal transduction pathways related to nerve cell differentiation, development and function, learning and memory function, as well as regulation of cell growth, differentiation, proliferation, or apoptosis to mediate the genetic effects of NC treatment on AD.

Microarray analysis of gene expression profiles in the bovine mammary gland during lactation

Mammary glands undergo functional and metabolic changes during virgin,lactation and dry periods.A total of 122 genes were identified as differentially expressed,including 79 up-regulated and 43 down-regulated genes during lactation compared with virgin and dry periods.Gene ontology analysis showed the functional classification of the up-regulated genes in lactation,including transport,biosynthetic process,signal transduction,catalytic activity,immune system process,cell death,and positive regulation of the developmental process.Microarray data clarified molecular events in bovine mammary gland lactation.

8种猪呼吸道和繁殖障碍病病原体GeXP检测方法的建立

【目的】建立了一种同时鉴别H1、H3亚型猪流感、猪繁殖与呼吸障碍综合征、猪瘟、猪日本乙型脑炎、猪圆环病毒病、猪细小病毒病和猪伪狂犬病8种病毒性呼吸道和繁殖障碍病病原体的GeXP高通量检测方法。【方法】根据这8种病原体的基因保守序列,设计并合成了9对特异性引物,在每对特异性引物的5＇端均加上一段通用引物,形成特异性嵌合引物。运用GeXP单重PCR方法,以单一病毒cDNA/DNA为模板验证引物的可行性;建立GeXP多重PCR方法,以单一病毒cDNA/DNA模板、阳性cDNA/DNA混合模板验证GeXP多重检测体系的特异性和准确性;将含猪圆环病毒、猪细小病毒和猪伪狂犬病病毒靶基因的克隆质粒及体外转录的RNA（H1、H3亚型猪流感、猪繁殖与呼吸障碍综合征、猪瘟、猪日本乙型脑炎）分别梯度稀释为10^3,10^2,10^1拷贝/μl,运用GeXP多重PCR方法进行单一病原体灵敏度分析;根据单一病原体的灵敏度分析结果,优化各对特异性嵌合引物的工作浓度,将含有体外转录好的6种RNA模板和3种克隆质粒等量混合,将混合物梯度稀释为10^4,10^3,10^2,10^1拷贝/μl,运用GeXP多重PCR方法分析同时检测8种病原体的灵敏度。运用建立好的GeXP多重检测体系对23份临床样品进行检测,并与常规单重PCR进行比较,对该GeXP多重检测体系的临床应用进行评价。【结果】基于GeXP系统的单重PCR检测体系和GeXP多重PCR检测体系均能扩增出特异性片段,验证了引物的可行性、GeXP多重检测体系的特异性和准确性;GeXP多重检测体系的单一病原模板灵敏度分析结果显示,多重检测体系对单一病原体检测的下限均为10-1拷贝/μl;GeXP多重检测体系在8种病原体同时检测的灵敏度分析结果显示,多重检测体系可在10^3拷贝/μl水平可同时检测到8种病原体;比较GeXP多重PCR检测方法和常规PCR方法对临床样品的检测结果,两种检测方法的检测结果相符。【结论】成功建立了基于GeXP系统的多重PCR检测体系,可以同时检测8种猪呼吸道和繁殖障碍性疾病病原体;本研究建立的同时鉴别8种猪呼吸道和繁殖障碍性疾病病原体的GeXP检测方法具有高通量、特异性强和灵敏度高的特点,为猪病毒性呼吸道和繁殖障碍性疾病的分子诊断提供了新型的检测方法。

9种鸭病毒病GeXP多重PCR检测方法的建立及其应用

旨在建立一种能够同时鉴别H5、H7和H9亚型禽流感病毒、基因A型鸭甲肝病毒、鸭坦布苏病毒、鸭瘟病毒、减蛋综合征病毒、新城疫病毒、鸭圆环病毒、番鸭呼肠孤病毒和番鸭细小病毒9种常见鸭病毒病的GeXP多重PCR检测方法。根据这些病原体在GenBank上公布的保守基因序列,设计合成了12对特异性GeXP引物。用单一病毒或混合病毒样品的cDNA/DNA模板优化反应条件,同时以其他常见鸭病病原体及鸭组织器官核酸为对照,验证所建立的GeXP方法的特异性和准确性。以106至101拷贝·μL-1梯度稀释的克隆质粒或体外转录RNA来检测GeXP方法的敏感性。随机选取不同浓度的模板(103和107拷贝·μL-1)进行干扰性试验,并与单一病原体为模板的GeXP多重PCR的检测结果比较。最后用该方法检测150份临床样品,与普通PCR方法的结果作比较,所有阳性结果样品均进行测序,进一步验证所建立的GeXP检测方法的可靠性。结果显示,单重或多重模板的GeXP检测均能特异性扩增出相应片段,不能扩增其他常见鸭病病原体,并且可在103拷贝·μL-1水平上同时特异地检测出9种鸭病原体。GeXP干扰性试验结果显示,当3种不同浓度的模板组合时,本试验所建立的方法依然可同时检测出所有病原体,与单重检测比较,未影响其检出。比较GeXP多重PCR方法和普通PCR方法对150份临床样品的检测结果,结果显示GeXP方法更为敏感与准确。笔者建立的同时鉴别9种鸭病毒病的GeXP多重PCR检测方法,具有高通量、特异性强和灵敏度高的特点,为混合感染的鸭病毒病临床样品提供了快速分子诊断新方法。

Effect of Tiantai No.1(天泰1号)on Gene Expression Profiles in Hippocampus of Alzheimer's Disease Rats by Bioinformatic Analysis

Objective： To study the effect of Tiantai No. 1 （天泰1号） on gene expression profile in hippocampus of Alzheimer＇s disease （AD） rat, molecular genetic target points of the effect of this drug were defined, its molecular genetic pharmacodynamic mechanism of anti-AD was further explored at molecular gene level, and a scientific basis was provided for its clinical availability and promotion. Methods： Thirty male Sprague- Dawley rats were divided into three groups with 10 rats per group： sham-operation group, model group and Tiantai No. 1 group. Sterile surgical procedure was applied, the model group with bilateral hippocampal injection of Aβ21-40 was established, and normal saline was used instead of Aβ1-40 in the sham-operation group. One week after the models was made, rats were administered by gastric lavage once every day for three consecutive weeks. The rats of the sham-operation group and the model group were daily fed with purified water by lavage; the rats of the Tiantai No.1 group treated group were administered with Tiantai No.1 by lavage. Total RNAs of hippocampus tissues were extracted with Trizol, the changes of hippocampus gene expression profiles in the above throe groups were analyzed by using Affymetrix rat whole genome expression profile microarray. Results： Microarray analysis showed that, compared with the sham-operation group, the hippocampus of the model group had 50 up-regulated genes with significant difference （fold change 〉2）, and 21 down-rogulated genes with significant difference （fold change 〈0.5）; compared with the hippocampus of the model group, the hippocampus of the Tiantai No. 1 group was found to have 5 up-regulated genes with significant difference （fold change 〉2） and 20 down-regulated genes with significant difference （fold change 〈0.5）. The functions of differonUally expressed genes of the groups were involved in nervous system＇s development, neuronic differentiation and function-regulation, cellular growth and differentiation and apoptosis, synaptic occurrence and plasticity, inflammation and immune response, ion channels/transporters, cellular signal transduction, cellular material/energy metabolism and so on. Conclusion： Tiantai No. 1 can regulate hippocampal function, and further regulate the brain function of animals in multiple gene target points by a number of ways.

7种食源性致病菌GeXP多重PCR检测方法的建立及其应用

本研究旨在建立一种能够同时鉴别包括大肠杆菌O157:H7、沙门菌、空肠弯曲菌、单核细胞增生李斯特菌、霍乱弧菌、副溶血弧菌和金黄色葡萄球菌7种常见食源性致病菌的GeXP多重PCR检测方法。根据这些致病菌在GenBank上公布的保守基因序列,设计合成了7对特异性GeXP引物。用单一或混合细菌样品的DNA模板优化反应条件,设置对照组,构建重组质粒,随机组合不同浓度的样品,验证所建立的GeXP方法的特异性、敏感性和准确性。最后用该方法检测120份临床样品,进一步验证所建立的GeXP检测方法的准确性和可靠性。结果显示,单一或混合模板的GeXP检测均能特异性出现相应清晰峰值,可在10~3拷贝·μL^-1水平上同时特异地检测出7种细菌病原体,不同浓度模板混合时,本试验所建立的方法依然可检测出对应病原体。检测120份临床样品,GeXP多重PCR阳性率为2.50%(3/120)~15.83%(19/120),普通PCR阳性率为2.50%(3/120)~15.00%(18/120),GeXP多重PCR多检出8份阳性,表明GeXP方法更为敏感与准确。本研究建立的同时鉴别7种食源性致病菌的GeXP多重PCR检测方法,具有高通量、特异性强和敏感性高的特点,为食源性常见致病菌感染或混合感染提供了快速分子诊断方法。

A transgenic pig model expressing a CMV-ZsGreen1 reporter across an extensive array of tissues

Since genetic engineering of pigs can benefit both biomedicine and agriculture,selecting a suitable gene promoter is critically important.The cytomegalovirus(CMV)promoter,which can robustly drive ubiquitous transgene expression,is commonly used at present,yet recent reports suggest tissue-specific activity in the pig.The objective of this study was to quantify ZsGreen1 protein(in lieu of CMV promoter activity)in tissues from pigs harboring a CMV-ZsGreen1 transgene with a single integration site.Tissue samples(n=35)were collected from neonatal hemizygous(n=3)and homozygous(n=3)piglets and ZsGreen1 abundance was determined via immunoblotting.ZsGreen1 was detected in all tissues,except hypothalamus,kidney cortex and oviduct.The expression patterns of homozygous and hemizygous piglets were similar(P>0.05).However,quantification revealed that ZsGreen1 protein levels were tissue-specific.Within neural/endocrine tissues,ZsGreen1 abundance was highest in the anterior pituitary gland,intermediate in the cerebellum and lowest in the cerebrum,spinal cord and posterior pituitary(P<0.05).In the digestive system,ZsGreen1 was more abundant in the salivary gland than esophagus,stomach,pancreas,duodenum,jejunum,ileum,spleen,colon,gallbladder and liver(P<0.05).Interestingly,ZsGreen1 amounts also differed within an organ(i.e.,the right ventricle had 3-fold higher levels than the other heart chambers;P<0.05).These results provide useful information for the use of the CMV promoter to drive transgene expression in the pig.Moreover,this swine model represents a novel resource of ZsGreen1-labeled organs and a valuable tool to advance genome editing research.

全基因组水平白花草木樨TCP基因家族的鉴定及在干旱胁迫下表达模式分析

草木樨是我国北方地区重要的饲料与绿肥豆科作物,在我国草牧业发展和生态经济建设中具有重要作用。干旱胁迫是影响草木樨分布和产量的重要因素,筛选和鉴定调控草木樨响应干旱胁迫的基因对解析草木樨抗旱生物学研究具有重要意义。TCP(teosinte branches1/cycloidea/pro-liferating cell factory)是一类植物特有的转录因子,在调控植物响应干旱胁迫过程中具有重要作用,但目前该基因家族在草木樨中的分布以及响应干旱胁迫的生物学功能未见报道。本研究以白花草木樨为对象,利用生物信息学方法在全基因组水平对TCP基因家族进行系统鉴定,并对其基因结构、系统进化、染色体定位以及干旱胁迫下表达模式进行了分析。结果表明,白花草木樨含有18个MaTCP基因,不均匀地分布在6条染色体上。系统进化表明,18个MaTCP基因可以分为TCP-P和TCP-C两大亚家族,其中TCP-P仅包含PCF分支,而TCP-C包含CYC/TB1与CIN两个分支。这些基因都含有高度保守的bHLH结构域,同亚家族中的成员具有相似的保守基序与基因结构,但在bHLH结构域中TCP-P亚家族相较于TCP-C亚家族少4个氨基酸。通过分析白花草木樨响应干旱胁迫的转录组数据,共鉴定出2个可能与干旱胁迫有关的MaTCP基因(MaTCP2和MaTCP15)。qRT-PCR结果进一步表明,PEG模拟干旱胁迫处理后,在白花草木樨根部,MaTCP2基因表达量显著上升;在叶片部分,两基因的表达量在第3 h时均出现峰值,进一步确定了两基因在白花草木樨中具有响应干旱胁迫的表达模式。该研究可为后期深入解析草木樨响应干旱胁迫理论以及通过基因工程技术创制高抗旱草木樨新种质奠定基础。

伤寒沙门菌基因组DNA芯片的制备与基因表达谱分析应用

伤寒沙门菌是一种具有鞭毛的革兰阴性人类肠道致病菌,也是一种重要的原核生物研究用模式菌.基因组芯片能够系统、全面且高效地观察生物的基因表达及进行基因组结构比较.利用伤寒沙门菌现有的全基因组序列,以Ty2菌株的基因组为基准,选取CT18菌株和z66阳性菌株的特异性蛋白编码基因,设计特异性引物,经PCR有效扩增出4201个基因,产物纯化后点样于多聚赖氨酸玻片制备伤寒沙门菌基因组DNA芯片,并验证了芯片样点位次与效果.通过对基因表达谱分析的各种条件进行优化,建立相应的表达谱分析方法,并用于比较伤寒沙门菌野生株在高渗、低渗条件下的基因表达差异,结果与以前的报道基本一致.结果表明,成功建立了伤寒沙门菌基因组DNA芯片及表达谱分析方法,可为有关伤寒沙门菌基因表达调控及致病性机理、进化和基因多样性等方面的深入研究提供有效的技术支持.

基因芯片技术在微生物学研究中的应用

近年来 ,基因芯片技术的诞生使得在一个实验中就可以同时对成千上万个基因进行转录水平的表达和DNA同源性分析成为可能。该项技术已被应用于揭示许多微生物体的转录表达和基因组的差异 ,随着越来越多的微生物基因组全序列测定的完成 ,基因芯片正逐渐成为许多微生物学研究领域中的一项常规技术。归纳了该技术在微生物生理 ,致病性 ,流行病学 ,生态 ,进化 ,代谢工程及发酵优化等研究中的应用。

基因表达系列分析法(SAGE)的改进及其在植物功能基因组研究中的应用

基因表达系列分析方法(SAGE)是一种新的基因表达分析方法,与基因芯片技术一样具有高通量的特点,可测定特定组织的基因表达水平,在全基因组水平上同时定量检测数万个基因表达模式;可在未知目的基因的前提下,分析来自一个细胞的全部转录本信息;对已知或未知基因表达进行定性和定量分析。目前,虽然在疾病、发育、细胞凋亡、药物筛选等多个领域已有利用SAGE方法进行的研究,但该方法在植物功能基因组研究中的应用相对较少。本文主要综述了该方法在RNA用量、PCR循环次数、SAGE效能和可靠性、标签长度和未知标签分析等方面的改进及其在植物中构建SAGE文库、筛选新基因、基因表达图谱分析等方面的应用,从而为其在植物功能基因组研究中的进一步应用提供理论参考。

表达谱基因芯片技术及其在动物基因组研究中的应用

将对表达谱基因芯片的原理、分类、技术流程、优点和在动物基因组研究中的应用以及存在问题作一综述,并对其应用前景进行展望。

六种基因表达谱数据筛选差异表达基因方法的比较

目的比较SAM方法、Bonferroni校正法、BH法等6种基因表达谱数据筛选差异表达基因的方法,探讨了各种方法的筛选效果。方法采用6种待比较的方法处理不同样本量和方差条件下的模拟数据,比较筛选结果与模拟设定的差异,计算相应的考核指标,探讨6种方法筛选差异表达基因的效果。结果Bonferroni校正法、Sidak校正法和Hochberg法可将FWER、FDR控制在很低的水平,但是筛选出的差异表达基因数比较少;成组t检验方法筛选的差异表达基因数最多,但是不能有效地控制FWER、FDR水平,筛选出的差异表达基因假阳性数过多;相同样本量和方差条件下,SAM方法和BH法筛选差异表达基因数、假阳性数、FWER和FDR均相差不大,均筛选出较多的差异表达基因,且控制了多重检验错误率。结论SAM方法适用于基因表达谱数据筛选差异表达基因的数据分析。

整合数字基因表达谱与全基因组关联分析鉴定猪血液性状候选基因

【目的】整合数字基因表达谱与全基因组关联分析鉴定白色杜洛克×二花脸F_2资源群体的血液性状候选基因。【方法】白色杜洛克×二花脸F_2资源群体在(240±3)d屠宰,收集血液于抗凝管中进行血常规检测。利用Illumina 60K SNP芯片对1 020头F_2资源群体进行基因分型。剔除基因型检出率<90%和孟德尔错误检出率>5%的个体。检出率<95%、次等位基因频率<5%、哈代-温伯格检验(HWE)P<5×10^(-6)、与性染色体连锁疑似常染色体的SNP被筛除。利用Illumina GA II测序仪测序对502头F_2资源群体的肝脏进行数字基因表达谱测序。测序得到的原始数据经过滤获得清洁标签后与参考标签数据库比对,将能唯一比对到参考基因序列的清洁标签数量进行标准化处理以获得标准化的基因表达量。每个转录本的表达水平进一步转化为lg2值。在少于20%的个体中表达的转录本被滤去。表型性状和基因表达性状使用R程序包中Gen ABEL内polygentic功能进行性别、批次和亲缘关系的校正。其残差使用R程序包中斯皮尔曼系数评估基因表达水平与表型数据的关联性,设定保守阈值P<5×10^(-4)时调整多重检验。将检测到的表达数量性状位点(eQTL)及其对应基因根据其位置相对照的关系进行绘图。搜寻前期GWAS最高点5.0 Mb区域内eQTL结合GWAS结果进行综合分析。Gene Ontology&KEGG pathway富集分析使用在线工具DAVID。基因共表达网络使用在线工具Gene MANIA进行构建。【结果】白色杜洛克×二花脸F_2资源群体中502个个体的20 108个肝脏转录本通过了质检。当P<5×10^(-4)时鉴别到与血红蛋白(HGB)、红细胞数目(RBC)、红细胞压积(HCT)、平均红细胞体积(MCV)、平均红细胞血红蛋白含量(MCH)和白细胞数目(WBC)关联的转录本共259个。有34个转录本与一个以上表型关联。用上述血细胞性状关联的转录本进行eQTL定位,当阈值P<10^(-5)时得到304个eQTL,每个转录本映射到1—6个eQTL,其中有35个顺式eQTL,120个反式eQTL。MCH和MCV的顺式eQTL位置重叠位于8号染色体。7号染色体存有数量最多的eQTL,其中多数为反式eQTL。通过eQTL定位确定了KIT为候选基因。Gene Ontology&KEGG pathway富集分析鉴别到与红细胞性状相关的基因KIT、PSEN2和TFRC,与白细胞性状相关的基因THBS1和CYR61。通过整合前期GWAS数据及eQTL定位并建立基因共表达网络,鉴定到与白细胞性状相关的基因RPS10。【结论】利用基于白色杜洛克×二花脸F_2资源群体的eQTL定位并结合前期GWAS数据,鉴别到与红细胞性状相关的基因KIT、PSEN2和TFRC,与白细胞性状相关的基因THBS1、CYR61和RPS10。

生物芯片──二十一世纪革命性的技术

Biochip is a kind of minimized and integrated analyzer for molecular biology and biochemistry. Advances in biochip technology enable massive parallel mining of biological data, with biochips providing hybridizationbased expression monitoring, polymorphism detection and genotyping on a genomic scale. Microarrays may soon permit the expression analysis of the entire human genome in a single reaction. These ’genome chips’ will provide access to key areas of human health, including disease diagnosis, drug discovery, toxicology, etc. Microarray technology is rapidly becoming a central platform for functional genomics. Development of biochips is to immigrate the eatire analysis process of biochemical reactions and establish the micro total analytical system or lab-on-a-chip.

应用基因表达谱芯片从抗脱落凋亡肺癌A549细胞中筛选转移相关基因

背景与目的正常上皮或内皮细胞脱离细胞外基质会发生脱落凋亡,但肿瘤细胞可不依赖细胞基质生长而不发生凋亡,这一现象被称为抗脱落凋亡,目前国内外相关研究均认为抗脱落凋亡是肿瘤发生转移的始动环节。本实验旨在比较抗脱落凋亡及正常贴壁生长肺腺癌A549细胞基因组表达差异,从中筛选肺癌转移相关基因。方法利用多聚羟乙基甲基丙烯酸树脂处理培养皿,致细胞无法贴壁生长,建立抗脱落凋亡肺癌A549细胞系;利用北京博奥生物芯片公司的人类V2.0全基因组寡核苷酸微阵列芯片,检测其与正常贴壁生长A549细胞的基因表达差异性,筛选肺癌转移相关基因。结果共得到表达差异的基因745个,从中筛选出63个与肺癌转移密切相关的基因。结论成功建立抗脱落凋亡肺癌A549细胞系并筛选出转移相关差异表达基因,为进一步研究肺癌转移相关信号转导通路及其它相关研究提供依据。

植物功能基因组学研究进展

植物基因组研究已经由以全基因组测序为目标的结构基因组学转向以基因功能鉴定为目标的功能基因组学研究。本文简要介绍了植物功能基因组的主要研究方法,如基因表达系列分析法、表达序列标签法、差异表达谱基因芯片法、蛋白质组学分析法以及生物信息学等及其研究现状,并展望了植物功能基因组学的应用前景。

汉族和高加索人糖尿病肾病肾小球全基因组表达数据分析

目的:观察中国汉族和高加索糖尿病肾病(DN)患者肾小球内差异表达基因和发生调节的分子信号通路的异同。方法:分别选取中国汉族DN患者29例和正常对照5例,高加索DN患者21例及正常对照35例,微分离肾小球进行全基因组数据表达检测,分析不同人种DN患者与正常对照相比出现差异表达的基因;分析两个人种DN患者肾小球内与估算的肾小球滤过率(eGFR)变化相关的表达基因;比较差异表达基因与eGFR变化相关基因在两个人群中的异同。结果:(1)中国汉族DN患者肾小球中有565个基因存在差异表达,高加索DN患者肾小球中有775个基因存在差异表达;(2)比较分析提示,有200个基因在两个人种均存在差异表达。分子通路分析提示,共有13条信号通路在两个人种中均发生调节,其中大部分为免疫炎症反应相关性通路;(3)中国汉族人群中有225个基因与eGFR明显相关;而在高加索人群中有293个基因与eGFR明显相关。比较分析提示,共有CRISPLD2、SPON1、LUM等55个基因在两个人种中均与eGFR水平明显相关。结论:通过比较分析中国汉族人群和高加索人群DN患者肾小球全基因组表达谱的异同发现,免疫炎症通路在不同人种DN的发生发展中均发挥重要作用。同时,我们还证实了55个与DN患者肾功能改变明显相关的基因,可作为判断DN患者疾病进展分子标志物的候选基因进行研究验证。

植物响应低磷胁迫的功能基因组研究进展

磷对植物的生长发育起着重要的作用,但土壤有效磷含量不足已成为世界范围内制约作物产量和品质提高的重要因素。植物在遭受低磷胁迫时,体内会形成适应性机制,因此解析调控植物对低磷胁迫适应性的分子机制也成为科学领域的一大热点。从功能基因组的角度,包括磷胁迫诱导的差异基因表达谱、差异基因的功能类别、基因调控网络、非编码RNA以及植物激素参与的植物耐低磷调控机制等方面综述了近年来植物响应低磷胁迫的分子机制。