RAD21 and KIAA0196 at 8q24 are amplified and overexpressed in prostate cancer

To detect genes that are overexpressed in prostate cancer, a subtracted cDNA library was first constructed from the PC-3 cell line and subsequently screened by using cDNA microarray hybridization. Sixty-eight genes were found to be overexpressed (ratio>3) in PC-3. Half of these genes were in chromosomal regions, which, using comparative genomic hybridization, we previously showed to be gained in PC-3. Subsequently, the expression and copy number of selected genes were studied by quantitative RT-PCR and fluorescence in situ hybridization in prostate cancer cell lines, xenografts, and clinical tumor specimens of benign prostate hyperplasia and untreated as well as hormone-refractory prostate carcinomas. Two genes from chromosomal region 8q24-RAD21 and KIAA0196-showed increased expression in clinical prostate carcinomas and were also amplified in 30-40% of xenografts and hormone-refractory tumors. In addition, the expression of KIAA0196 was significantly (P=0.0051) higher in tumors with the gene amplification than in those without it. The data suggest that KIAA0196 and possibly RAD21 are putative target genes for the common amplification of 8q23-24 in prostate cancer.     

肝癌组织差异表达基因cDNA序列的筛选与鉴定

目的：筛选并鉴定肝癌组织特异表达基因。方法：通过菌落原位杂交技术筛选用抑制消减杂交法构建肝癌与癌旁肝组织差异表达基因消减cDNA文库，用PCR方法进一步筛选出有插入片段的阳性克隆，将阳性克隆进行DNA测序和同源性比较分析，用Northern印迹方法对新的cDNA序列进行初步鉴定。结果：从消减文库中随机挑取的100个白色克隆中筛选出13个阳性克隆，DNA测序获得11个不同的cDNA序列；同源性比较分析表明，6个cDNA片段与在基因高度同源，5个cDNA片段为新的序列。其长度大于300bp的3个新序列，Norther印迹证实它都来源于肝癌组织。结论：用抑制消减杂交方法构建的肝癌差异表达基因消减cDNA文库富含肝癌特异表达基因，经验证的3个新的cDNA序列可能为肝癌特异的基因序列。     

A novel component of the ubiquitin pathway, ubiquitin carboxyl extension protein 1 is overexpressed in prostate cancer

Prostate cancer is among the most common tumors in industrialized nations. However, little is known about the molecular events underlying its development. In the present study we used suppressive subtraction hybridization (SSH) in combination with laser-assisted microdissection in order to compare gene expression between prostate carcinoma and the normal prostate proper. Both are mixed tissues which consist of an epithelial and a stromal compartment. We first compared mRNA (cDNA) expression by SSH and then used real-time quantitative RT-PCR analysis of microdissected tissue probes in order to verify differential expression of subtracted cDNA clones. We also used differentially expressed cDNAs for the synthesis of radiolabelled riboprobes in order to attribute differential expression to specific cell types in tissue sections by in situ hybridization. Using this approach we found an up-regulation of ubiquitin carboxyl extension protein 1 (UBCEP-1) mRNA in prostate carcinoma cells compared to the normal glandular epithelium of the prostate proper. UBCEP-1 mediated ubiquitin chain elongation may promote prostate carcinoma development by increasing via the proteasome pathway the degradation of proteins which are involved in growth inhibition or apoptosis.     

Improved subtractive suppression hybridization combined with high density cDNA array screening identifies differentially expressed viral and cellular genes

Suppression subtractive hybridization (SSH) combines normalization and suppression PCR effect step in a single cycle to isolate differentially expressed genes in two cDNA samples. The PCR suppression effect is mediated by long inverted terminal repeats. The efficiency of the restriction enzyme digestion and the adapter ligation are crucial in the success of the SSH. We modified the original SSH protocol in order to improve the efficiency of the subtraction. A magnetic bead based separation step has been included after the ligation step, to purify the successfully ligated fraction of the tester. EBV(NEO) infected Akata(-) Burkitt's lymphoma cell line was compared with the EBV(-) Akata(-) cell line to isolate differentially expressed genes with the improved SSH protocol. Some 44 cDNA clones that showed the greatest differences in expression have been sequenced. Of them, 20 showed more than 3-fold difference in expression. Seven of the 20 genes were EBV genes. To quantitate the expression levels, high density nylon cDNA array hybridization was optimized. Statistical analysis of the data revealed that the spotting of the arrayer is exceptionally reproducible, which makes the comparison of the hybridization of parallel filters possible.     

骨质疏松症骨组织cDNA差减文库的构建

目的构建人抑制差减文库,为筛选骨质疏松骨相关基因奠定基础。方法分别从正常骨和骨质疏松症骨组织分离mRNA并反转录成cDNA,酶切后骨质疏松cDNA分成两组,分别与不同的接头连接。经过两轮差减杂交和两次抑制性PCR后得到两者之间差异表达的cDNA挑取克隆进行PCR扩增鉴定。结果成功地构建了骨质疏松相关的的差减cDNA文库,获得的正、反向差减文库分别含652、345个重组子;插入片段的平均大小为526bp。结论该差减cDNA文库的建立为进一步在分子水平上阐明骨质疏松症的分子机制奠定了基础。     

应用抑制性消减杂交技术鉴定肿瘤转移抑制相关基因

目的 克隆与肿瘤转移抑制相关的基因，探讨成骨肉瘤转移的分子机理。方法 采用抑制性消减杂交技术构建了人成骨肉瘤低转移细胞株SOSP－9607的消减文库，对部分克隆进行了测序和同源性分析，用Northern杂交及后转录PCR技术证实了克隆的表达情况。结果 在低转移细胞株SOSP－9607中高表达的克隆中有2个克隆与人端粒结合因子2（telomeric repeat binding factor 2,TERF2)同源。Northern杂交及反转录PCR证实这个基因只在低转移细胞中表达，而在高转移人成骨肉瘤细胞株SOSP－M和裸鼠肺转移结节中均未表达。结论 TERF2可能在维持肿瘤细胞自身相对稳定、抑制骨肉瘤演进中起重要作用。     

大鼠小脑部分表达序列标签的鉴定

目的:为了获取大鼠小脑特异表达的cDNA序列,筛选新的EST基因片段,以便进一步获取有意义的cDNA全基因。方法:以大鼠大脑、脑干mRNA逆转录cDNA作为driver(驱动)cDNA,大鼠小脑mRNA逆转录cDNA作为tester(测试)cDNA,经消减杂交法,消除与大脑及脑干相同的cDNA,并富集低丰度基因,从而获得大鼠小脑特异表达基因片段,以及低表达基因片段,克隆制备成大鼠小脑特异表达cDNA文库。结果:共挑选出32个阳性克隆质粒,测序得到34个不同基因片段的序列。最后用反Northern杂交去除假阳性,筛选出8个有意义的差异表达cDNA基因片段。同时,将测序结果与Genbank进行同源性比较,发现13个新的EST序列,并申请获得基因序列号(AW288461-AW288474)。结论:抑制消减杂交法是一种筛选特异表达基因的有效方法。本结果可为研究脑功能的分子机制提供有益的资料。     

Profiling of differential gene expression in activated, allergen-specific human Th2 cells

Th2 cells play a pivotal role in the pathogenesis of allergic diseases, including asthma, but the molecular basis of the Th1/Th2 dichotomy and the precise molecular pathways leading to Th2-dominant immune responses are still unclear. To this end, we have combined suppression subtractive hybridization (SSH) and high throughput analysis of cDNA arrays spotted with IMAGE clones to determine the profile of differential gene expression in human allergen-specific Th2 cells. Allergen-stimulated Th2 cells were used as the tester, and either resting Th2 cells or stimulated Th1 cells were used as the driver. SSH was used to equalize different mRNA levels and remove common sequences between the tester and the driver. Comparison of cDNA arrays probed with subtracted tester and non-subtracted driver provided a profile of Th2-selective gene expression. Analysis of 77 sequence-confirmed and differentially expressed genes in Th2 cells showed predominant EST sequences, representing 80% of sequences analyzed. The pattern of gene expression in 19 selected sequences was further analyzed in additional Th1 and Th2 clones. A total of 15 sequences showed predominant expression in Th2 cells, while the remaining four EST sequences showed no detectable amplification signal. The database containing Th2-selective genes will further our understanding of Th2 cell function and the genetic basis of allergic diseases.     

Inhibition of prostate cancer cell colony formation by the flavonoid quercetin correlates with modulation of specific regulatory genes

The natural product quercetin is a flavonoid found in many fruits and vegetables. Previous research has shown that quercetin has antitumor, anti-inflammatory, antiallergic, and antiviral activities. In the present investigation we studied the effect of quercetin on the ability of prostate cancer cell lines with various degrees of aggressive potential to form colonies in vitro. Specifically, we examined the molecular mechanisms underlying this effect, including the expression of cell cycle and tumor suppressor genes as well as oncogenes. We observed that quercetin at concentrations of 25 and 50 micro M significantly inhibited the growth of the highly aggressive PC-3 prostate cancer cell line and the moderately aggressive DU-145 prostate cancer cell line, whereas it did not affect colony formation by the poorly aggressive LNCaP prostate cancer cell line or the normal fibroblast cell line BG-9. Using the gene array methodology, we found that quercetin significantly inhibited the expression of specific oncogenes and genes controlling G(1), S, G(2), and M phases of the cell cycle. Moreover, quercetin reciprocally up-regulated the expression of several tumor suppressor genes. In conclusion, our results demonstrate that the antitumor effects of quercetin directly correlate with the aggressive potential of prostate cancer cells and that the mechanism(s) of quercetin-mediated antitumor effects may involve up-regulation of tumor suppressor genes and reciprocal down-regulation of oncogenes and cell cycle genes. The results of these studies provide a scientific basis for the potential use of flavonoids as nutraceuticals in the chemoprevention of cancer.     

鞘糖脂微结构域1相关磷酸化蛋白基因的筛选及其对转移性前列腺癌细胞生物学行为的影响

目的 筛选肿瘤转移相关新基因,探讨鞘精脂微结构域1相关磷酸化蛋白基因(PAG1)转染对人前列腺癌细胞系PC-3M的高转移亚系PC-3M-1E8体外生物学行为的影响.方法 利用PC-3M高转移亚系PC-3M-1E8、低转移亚系PC-3M-284,人肺巨细胞痛细胞系(PG)高转移亚系PG-BE1和低转移亚系PG-LH7 cDNA制作4张基因芯片,筛选出PC-3M和PG高、低转移亚系共同差异表达基因.对在两个转移亚系共同表达下调的PAG1基因做进一步研究,采用即时定量PCR及Western blot验证PAG1在PC-3M细胞系中的表达.构建pcDNA3.0-PAG1真核表达载体,稳定转染PC-3M-1E8细胞.MTT比色实验及软琼脂集落形成实验检测肿瘤细胞体外增殖能力;流式细胞术检测肿瘤细胞周期及凋亡;Matrigel穿膜实验检测肿瘤细胞体外侵袭能力.结果 基因芯片初步筛选出PC-3M高、低转移亚系差异表达基因共327个,上调基因123个,下调基因204个.PG高、低转移亚系差异表达基因共281个,上调基因167个,下调基因114个.PC-3M与PG高转移亚系共同表达下调基因9个、上调基因8个.即时定量PCR及Western blot证实PAG1在PC-3M高转移亚系中表达低于低转移亚系.MTT比色及软琼脂集落形成实验显示转染pcDNA3.0-PAG1组细胞增殖速度明显低于转染空载体组和未转染组(均P<0.05).细胞周期检测转染pcDNA3.0-PAG1组比转染空载体组和未转染组处于G_0～G_1期的细胞百分数明显增加(P<0.05).转染pcDNA3.0-PAG1组与转染空载体组和未转染组相比凋亡细胞百分率无显著差异(P>0.05).体外穿膜侵袭实验结果表明转染pcDNA3.0-PAG1组比转染空载体组和未转染组穿膜细胞数目明显减少,分别为(35.1±4.9)、(127.6±6.6)和(135.0±5.0)个(P<0.05).结论 利用同一母系来源的高、低转移亚系制作基因芯片可以摒除转移无关基因的干扰,筛选出差异表达的肿瘤转移相关基因.PAG1基因稳定转染能抑制人前列腺癌高转移亚系PC-3M-1E8细胞的体外增殖能力和侵袭能力,PAG1基因可能是一个潜在的肿瘤增殖、侵袭和转移的抑制基因.     

Liprin-alpha2 gene,protein tyrosine phosphatase LAR interacting protein related gene,is downregulated by androgens in the human prostate cancer cell line LNCaP

Prostate cancer is one of the most common neoplasms in the USA and Europe. We used differential display PCR (DD-PCR) to identify androgen-regulated genes in prostate cancer. The RNA of LNCaP cells treated with dihydrotestosterone (DHT) was analyzed for differentially expressed genes. Using DD-PCR, we identified a down-regulated cDNA fragment by DHT in LNCaP cells. This fragment was cloned and expressions of this fragment in prostate cancer cell lines were analyzed by RT-PCR. Sequence analysis revealed that a cDNA fragment is identical to protein tyrosine phosphatase LAR related gene, liprin-alpha2. liprin-alpha2 was downregulated by dihydrotestosterone (DHT) in LNCaP cells in a time- and androgen concentration-dependent manner. Downregulation by DHT was not inhibited by the protein synthesis inhibitor cycloheximide. This liprin-alpha2 gene was not expressed in androgen independent prostate cancer cell lines PC-3 and DU-145 at the mRNA level. And also, we first revealed here that liprin-alpha2 mRNA is expressed in LNCaP cells as well as human prostate cancer tissues and normal prostate tissues. These data suggest that liprin-alpha2 might play a role in androgen responsive human prostate cancer cell line as well as human prostate cells, and the loss of this gene expression might be associated with the androgen independent characteristics of prostate cancer.     

High-resolution array comparative genomic hybridization of chromosome arm 8q: evaluation of genetic progression markers for prostate cancer

Copy number increase of 8q has previously been shown to be associated with a poor clinical outcome and tumor recurrence in patients with prostate cancer. In this study, a detailed genomic analysis of 8q was performed of archival primary and metastatic prostatic adenocarcinomas (n = 22), and prostate cancer xenografts (n = 9), and cell lines (n = 3). We performed array comparative genomic hybridization (aCGH) using a whole chromosome arm contig array consisting of 702 8q-specific BAC clones. Five regions of frequent copy number increase were identified, i.e. at chromosome bands 8q21.13 (81-82 Mb), 8q22.1 (94-96 Mb), 8q22.2-3 (101-103 Mb), 8q24.13 (124-126 Mb), and 8q24.21 (127-129 Mb), the most distal region containing the MYC oncogene. MYC and 13 genes of the other four regions with putative relevance to cancer were selected. Two additional genes were derived from high-level amplifications detected by 8q aCGH analysis of prostate cancer xenograft PC339. Quantitative RT-PCR of these 16 genes was performed in a series of 26 prostate specimens, including normal tissue (n = 5), fresh-frozen adenocarcinoma (n = 7), cancer xenograft (n = 9), and cancer cell line material (n = 2). Three of the 16 genes were significantly overexpressed in cancer compared with that in normal prostate tissue, i.e. PDP, located at 8q22.1 (95 Mb), PABPC1 located at 8q22.3 (102 Mb), and KIAA0196 located at 8q24.13 (126 Mb). These genes can be considered putative progression markers for prostate cancer.     

淡色库蚊性别差异表达cDNA文库的构建和分析

目的为探讨媒介与病原、媒介与宿主的相互作用，建立传播疾病的淡色库蚊性别差异表达cDNA文库。从而筛选阻断疾病传播的疫苗候选分子。方法以淡色库蚊雌蚊成蚊为检测方（Tester）、雄蚊成蚊为驱动方（Driver），进行正向抑制性消减杂交；以雄蚊成蚊为Tester、雌蚊成蚊为Driver，进行反向抑制性消减杂交。将获得的正向抑制性消减杂交产物克隆入pGEM-T easy vector，并以菌液PCR扩增鉴定插入片段。随机抽取100个阳性克隆进行DNA序列分析，并将所得ESTs序列进行在线BLAST分析。结果从100个阳性克隆中测得98个ESTs序列，在测定的序列中与已知基因具有同源性的有57个，其余41个ESTs与已知基因不具有同源性。结论抑制性消减杂交技术建立雌蚊特异性基因文库，发现了淡色库蚊雌蚊新的ESTs序列，为性别相关基因的功能及性别调控。探讨媒介与病原、媒介与宿主的相互作用及其筛选传播阻断疫苗候选分子的研究奠定了基础。     

抑制性消减杂交技术筛选重组IFNβ下调HepG2细胞靶基因

目的利用抑制性消减杂交（SSH）技术构建重组干扰素β（IFNβ）刺激人肝癌细胞系HepG2差异表达基因的cDNA消减文库，筛选IFNβ下凋HepG2相关基因。方法重组IFNβ2000U／ml刺激对数生长期HepG2细胞，以生理盐水作用的HepG2细胞为阴性对照；制备细胞裂解液，从中提取mRNA并逆转录为cDNA，经Rsa Ⅰ酶切后将实验组cDNA分成两份，分别与两种不同的接头连接，再与对照组cDNA进行两次消减杂交及两次抑制性PCR，将产物与T／A载体连接，构建cDNA消减文库，并转染大肠埃希菌进行文库扩增，随机挑选克隆PCR后进行测序及同源性分析。结果成功构建重组IFNβ刺激HepG2细胞差异表达基因的cDNA消减文库。文库扩增后，得到58个阳性克隆，进行菌落PCR分析，均得到200～1000bp插入片段。随机挑选其中35个插入片段测序，并通过生物信息学分析，结果共获得12种编码基因。结论应用SSH技术成功构建了IFNβ刺激HepG2细胞差异表达基因的cDNA消减文库，为进一步了解IFNβ在肝细胞内的免疫调节机制提供了依据。