首页 > 最新文献

DNA Sequence最新文献

英文 中文
The Tata-Less Promoter of VP1, A Plant Gene Controlling Seed Germination 控制种子萌发的植物基因VP1的无tata启动子
Pub Date : 2001-01-01 DOI: 10.3109/10425170109047563
F. Carrari, Nicolás Frankel, D. Lijavetzky, R. Benech-Arnold, R. Sánchez, N. Iusem
Vp1 is a seed-specific gene involved in the control of dormancy and germination. We here present the complete sequence of the sorghum vp1 promoter/enhancer region highlighting its main features, especially the lack of canonical TATA and CAAT boxes and the presence of elements responsive to abscisic acid and light. The region closest to the start of transcription is highly homologous to the partial proximal sequence reported for the maize vp1 promoter. This region is interrupted by a 57-nt stretch containing 14 CT microsatellite repeats. We observed a poor overall homology to the promoter from abi3 gene, the Arabidopsis counterpart bearing a similar coding sequence. However, there exists a high degree of homology (89%) between a TATA-rich 103-bp stretch of the sorghum vp1 promoter located about 700 nt upstream of the startpoint and miniature inverted transposable elements (MITEs) interspersed within the sorghum seed-specific kafirin cluster. This sorghum MITE-like element displays considerable homology (68%) to the TATA-less promoter from the sorghum NADP-malate dehydrogenase gene and lesser similarity to the Tourist, Pilgrim and Batuta MITEs previously identified within the promoter from the maize Abp1 (auxin-binding protein) gene.
Vp1是一个种子特异性基因,参与控制休眠和发芽。我们在此展示了高粱vp1启动子/增强子区域的完整序列,突出了其主要特征,特别是缺乏典型的TATA和CAAT盒,以及存在对脱落酸和光响应的元件。最接近转录起始的区域与报道的玉米vp1启动子的部分近端序列高度同源。该区域被包含14个CT微卫星重复序列的57 nt延伸所中断。我们观察到与abi3基因启动子的整体同源性较差,拟南芥对应基因具有相似的编码序列。然而,位于起点上游约700 nt的富含tata的高粱vp1启动子的103 bp片段与分布在高粱种子特异性kafirin簇中的微型倒转座元件(MITEs)之间存在高度同源性(89%)。这种高粱类线粒体元件与高粱nadp -苹果酸脱氢酶基因的TATA-less启动子具有相当大的同源性(68%),与先前在玉米Abp1(生长素结合蛋白)基因启动子中发现的Tourist、Pilgrim和Batuta MITEs的相似性较小。
{"title":"The Tata-Less Promoter of VP1, A Plant Gene Controlling Seed Germination","authors":"F. Carrari, Nicolás Frankel, D. Lijavetzky, R. Benech-Arnold, R. Sánchez, N. Iusem","doi":"10.3109/10425170109047563","DOIUrl":"https://doi.org/10.3109/10425170109047563","url":null,"abstract":"Vp1 is a seed-specific gene involved in the control of dormancy and germination. We here present the complete sequence of the sorghum vp1 promoter/enhancer region highlighting its main features, especially the lack of canonical TATA and CAAT boxes and the presence of elements responsive to abscisic acid and light. The region closest to the start of transcription is highly homologous to the partial proximal sequence reported for the maize vp1 promoter. This region is interrupted by a 57-nt stretch containing 14 CT microsatellite repeats. We observed a poor overall homology to the promoter from abi3 gene, the Arabidopsis counterpart bearing a similar coding sequence. However, there exists a high degree of homology (89%) between a TATA-rich 103-bp stretch of the sorghum vp1 promoter located about 700 nt upstream of the startpoint and miniature inverted transposable elements (MITEs) interspersed within the sorghum seed-specific kafirin cluster. This sorghum MITE-like element displays considerable homology (68%) to the TATA-less promoter from the sorghum NADP-malate dehydrogenase gene and lesser similarity to the Tourist, Pilgrim and Batuta MITEs previously identified within the promoter from the maize Abp1 (auxin-binding protein) gene.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"36 1","pages":"107 - 114"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87553238","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 13
Short Communication:Nucleotide Sequence of the Porcine 60S Ribosomal Protein L35 cDNA 短通讯:猪60S核糖体蛋白L35 cDNA的核苷酸序列
Pub Date : 2001-01-01 DOI: 10.3109/10425170109084472
T. Horibe, M. Kikuchi
The cDNA encoding the 60S ribosomal protein L35 was cloned from the porcine liver cDNA library using the N-terminal fragment coding region of human protein disulfide isomerase as the probe.
以人蛋白二硫异构酶n端片段编码区为探针,从猪肝脏cDNA文库中克隆出60S核糖体蛋白L35。
{"title":"Short Communication:Nucleotide Sequence of the Porcine 60S Ribosomal Protein L35 cDNA","authors":"T. Horibe, M. Kikuchi","doi":"10.3109/10425170109084472","DOIUrl":"https://doi.org/10.3109/10425170109084472","url":null,"abstract":"The cDNA encoding the 60S ribosomal protein L35 was cloned from the porcine liver cDNA library using the N-terminal fragment coding region of human protein disulfide isomerase as the probe.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"30 1","pages":"443 - 445"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72999609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
M13 Cloning of Mung Bean Nuclease Digested PCR Fragments as a Means of Gap Closure Within A/T-rich, Genome Sequencing Projects 绿豆核酸酶酶切PCR片段的M13克隆及其在富含a / t基因组测序项目中的缺口闭合方法
Pub Date : 2001-01-01 DOI: 10.3109/10425170109084459
M. Quail
Obtaining the complete DNA sequence of a genome is often not straightforward. After standard shotgun sequencing strategies have been employed there are often gaps remaining and these can be the most intractable regions, frequently containing repeat sequences, “uncloneable” sequences and/or regions of potential secondary structure or differential base composition. In genomes with a high A/T content, such as Plasmodium falciparum and Dictyostelium discoideum, solving these gaps is a particularly difficult problem as the sequences concerned are “fragile” and easily denatured, commonly uncloneable and have a paucity of good oligonucleotide priming sites. Reported here is a simple, yet reliable method for determining the sequence of A/T-rich gap-spanning PCR products. This method relies on the slippage of the specificity of mung bean nuclease so that it digests A/T-rich double-stranded DNA into a set of deletion fragments that can then be cloned into M13, sequenced and the original sequence assembled therefrom.
获得基因组的完整DNA序列通常不是直截了当的。在采用标准的鸟枪测序策略后,通常会留下空白,这些空白可能是最棘手的区域,通常包含重复序列,“不可克隆”序列和/或潜在的二级结构或差异碱基组成区域。在高a /T含量的基因组中,如恶性疟原虫和盘状盘基骨菌,解决这些缺口是一个特别困难的问题,因为相关序列是“脆弱”的,容易变性,通常不可克隆,并且缺乏良好的寡核苷酸引物位点。本文报道了一种简单而可靠的方法来确定富含a / t的gap-span PCR产物的序列。该方法依靠绿豆核酸酶特异性的滑动,将富含A/ t的双链DNA消化成一组缺失片段,然后将其克隆到M13中,测序并由此组装原始序列。
{"title":"M13 Cloning of Mung Bean Nuclease Digested PCR Fragments as a Means of Gap Closure Within A/T-rich, Genome Sequencing Projects","authors":"M. Quail","doi":"10.3109/10425170109084459","DOIUrl":"https://doi.org/10.3109/10425170109084459","url":null,"abstract":"Obtaining the complete DNA sequence of a genome is often not straightforward. After standard shotgun sequencing strategies have been employed there are often gaps remaining and these can be the most intractable regions, frequently containing repeat sequences, “uncloneable” sequences and/or regions of potential secondary structure or differential base composition. In genomes with a high A/T content, such as Plasmodium falciparum and Dictyostelium discoideum, solving these gaps is a particularly difficult problem as the sequences concerned are “fragile” and easily denatured, commonly uncloneable and have a paucity of good oligonucleotide priming sites. Reported here is a simple, yet reliable method for determining the sequence of A/T-rich gap-spanning PCR products. This method relies on the slippage of the specificity of mung bean nuclease so that it digests A/T-rich double-stranded DNA into a set of deletion fragments that can then be cloned into M13, sequenced and the original sequence assembled therefrom.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"111 1","pages":"355 - 359"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74486386","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Molecular Cloning and Sequence Analysis of a Human Untranslated Alu-Containing RNA 人非翻译含铝RNA的分子克隆及序列分析
Pub Date : 2001-01-01 DOI: 10.3109/10425170109042055
S. Kwok, I. Daskal
A cDNA, designated LNX1, has been identified by subtractive hybridization on the basis that it is expressed in normal human prostate but not in LNCaP cells. Sequence analysis revealed that it contained two Alu repetitive sequences but no long open reading frame. Hence, it belongs to a class of untranslated Alu-containing RNAs. LNX1 is expressed in most tissues. It is encoded by a single copy gene, which is localized on human chromosome 14.
在LNCaP细胞中不表达,而在正常人前列腺中表达,通过减法杂交鉴定出LNX1 cDNA。序列分析显示,该序列包含两个Alu重复序列,但没有长开放阅读框。因此,它属于一类未翻译的含铝rna。LNX1在大多数组织中表达。它由位于人类第14号染色体上的单个复制基因编码。
{"title":"Molecular Cloning and Sequence Analysis of a Human Untranslated Alu-Containing RNA","authors":"S. Kwok, I. Daskal","doi":"10.3109/10425170109042055","DOIUrl":"https://doi.org/10.3109/10425170109042055","url":null,"abstract":"A cDNA, designated LNX1, has been identified by subtractive hybridization on the basis that it is expressed in normal human prostate but not in LNCaP cells. Sequence analysis revealed that it contained two Alu repetitive sequences but no long open reading frame. Hence, it belongs to a class of untranslated Alu-containing RNAs. LNX1 is expressed in most tissues. It is encoded by a single copy gene, which is localized on human chromosome 14.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"16 1","pages":"85 - 89"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74771700","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Comparison of the Coding Sequence of the Platelet-activating Factor Receptor Gene in Three Species 三种动物血小板活化因子受体基因编码序列的比较
Pub Date : 2001-01-01 DOI: 10.3109/10425170109024998
Wensheng Yang, J. Diehl, W. Roudebush
The actions of platelet-activating factor (PAF, 1-0-alkyl-2-acetyl-sn-glycero-3-phosphocholine) are mediated through the PAF receptor (PAFr), which is a member of G-protein coupled superfamily of receptors. Our laboratory has data showing PAF has a role(s) in reproduction in domestic animals. Porcine, bovine and caprine PAFr genes cloned in BAC vectors were sequenced. Each PAFr coding sequence (cds) in these three species is 1029 nucleotides long and contains no intervening sequences. The deduced amino acid sequences (AAS) appear to contain seven putative transmembrane domains with an extracellular N-terminus in each species. There is a common glycosylation site at the fourth asparagine residue of N-terminus. In the tail of each deduced amino acid sequence, five to six serines and five threonine residues could act as phosphorylation sites, which play an important role in rapid receptor desensitization. The degree of homology of the three species is from 89 to 96% in nucleotide sequences (NtS), and 87–96% in identities (I) and 94–97% in positives (P) in amino acid sequences (AAS). The degree of homology with human, guinea pig, mouse and rat is 84–87, 82–88 and 83–88% in NtS, 77–84 (I) or 85–90 (P), 77–84 (I) or 85–90 (P) and 75–83 (I) or 87–90% (P) in AAS for caprine, bovine and pig, respectively. Southern blotting results suggested that the PAFr gene exists as a single copy in the genome of pig.
血小板活化因子(PAF, 1-0-烷基-2-乙酰- asn -甘油-3-磷酸胆碱)的作用是通过PAF受体(PAFr)介导的,PAF受体是g蛋白偶联受体超家族的成员。我们实验室的数据显示PAF在家畜的繁殖中起作用。对BAC载体上克隆的猪、牛和羊PAFr基因进行了测序。这三个物种的每个PAFr编码序列(cds)长1029个核苷酸,不包含中间序列。推导出的氨基酸序列(AAS)似乎包含七个假定的跨膜结构域,每个物种都有一个细胞外n端。在n端第四个天冬酰胺残基上有一个共同的糖基化位点。在每个推导出的氨基酸序列尾部,有5 ~ 6个丝氨酸和5个苏氨酸残基可以作为磷酸化位点,在受体快速脱敏中起重要作用。核苷酸序列(NtS)的同源性为89 ~ 96%,氨基酸序列(AAS)的同源性为87 ~ 96%,阳性序列(P)的同源性为94 ~ 97%。与人、豚鼠、小鼠和大鼠的NtS同源度分别为84 ~ 87、82 ~ 88和83 ~ 88%,与羊、牛和猪的AAS同源度分别为77 ~ 84 (I)或85 ~ 90 (P), 77 ~ 84 (I)或85 ~ 90 (P), 75 ~ 83 (I)或87 ~ 90% (P)。Southern印迹结果表明,PAFr基因在猪基因组中以单拷贝的形式存在。
{"title":"Comparison of the Coding Sequence of the Platelet-activating Factor Receptor Gene in Three Species","authors":"Wensheng Yang, J. Diehl, W. Roudebush","doi":"10.3109/10425170109024998","DOIUrl":"https://doi.org/10.3109/10425170109024998","url":null,"abstract":"The actions of platelet-activating factor (PAF, 1-0-alkyl-2-acetyl-sn-glycero-3-phosphocholine) are mediated through the PAF receptor (PAFr), which is a member of G-protein coupled superfamily of receptors. Our laboratory has data showing PAF has a role(s) in reproduction in domestic animals. Porcine, bovine and caprine PAFr genes cloned in BAC vectors were sequenced. Each PAFr coding sequence (cds) in these three species is 1029 nucleotides long and contains no intervening sequences. The deduced amino acid sequences (AAS) appear to contain seven putative transmembrane domains with an extracellular N-terminus in each species. There is a common glycosylation site at the fourth asparagine residue of N-terminus. In the tail of each deduced amino acid sequence, five to six serines and five threonine residues could act as phosphorylation sites, which play an important role in rapid receptor desensitization. The degree of homology of the three species is from 89 to 96% in nucleotide sequences (NtS), and 87–96% in identities (I) and 94–97% in positives (P) in amino acid sequences (AAS). The degree of homology with human, guinea pig, mouse and rat is 84–87, 82–88 and 83–88% in NtS, 77–84 (I) or 85–90 (P), 77–84 (I) or 85–90 (P) and 75–83 (I) or 87–90% (P) in AAS for caprine, bovine and pig, respectively. Southern blotting results suggested that the PAFr gene exists as a single copy in the genome of pig.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"1 1","pages":"239 - 251"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76164521","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 9
Characterization of a Processed Pseudogene of Human ΨHSP40 on Chromosome 2q32 人2q32染色体ΨHSP40加工假基因的鉴定
Pub Date : 2001-01-01 DOI: 10.3109/10425170109025006
M. Hata, K. Kagotani, K. Okumura, M. Seto, K. Ohtsuka
A pseudogene for the human Hsp40 gene has been characterized (ΨHSP40). The pseudogene sequence shows 90% similarity to the human Hsp40 mRNA at the nucleotide level. No introns were found in the region corresponding to the human Hsp40 cDNA, and two direct repeats flank this same region. Because of these features, the pseudogene can be classified as a processed pseudogene. ΨHSP40 was assigned to chromosome 2q32 by in situ hybridization. This is the first report of a pseudogene for a member of the DnaJ (Hsp40) family protein gene.
人类Hsp40基因的假基因已被鉴定(ΨHSP40)。假基因序列在核苷酸水平上与人类Hsp40 mRNA有90%的相似性。在与人类Hsp40 cDNA对应的区域未发现内含子,在同一区域两侧有两个直接重复序列。由于这些特征,伪基因可以被归类为加工伪基因。ΨHSP40通过原位杂交被分配到染色体2q32上。这是首次报道的DnaJ (Hsp40)家族蛋白基因的假基因。
{"title":"Characterization of a Processed Pseudogene of Human ΨHSP40 on Chromosome 2q32","authors":"M. Hata, K. Kagotani, K. Okumura, M. Seto, K. Ohtsuka","doi":"10.3109/10425170109025006","DOIUrl":"https://doi.org/10.3109/10425170109025006","url":null,"abstract":"A pseudogene for the human Hsp40 gene has been characterized (ΨHSP40). The pseudogene sequence shows 90% similarity to the human Hsp40 mRNA at the nucleotide level. No introns were found in the region corresponding to the human Hsp40 cDNA, and two direct repeats flank this same region. Because of these features, the pseudogene can be classified as a processed pseudogene. ΨHSP40 was assigned to chromosome 2q32 by in situ hybridization. This is the first report of a pseudogene for a member of the DnaJ (Hsp40) family protein gene.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"1 1","pages":"293 - 297"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"80076989","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Characterisation of a cDNA Encoding Chick Eukaryotic Translation Initiation Factor-2β 鸡真核翻译起始因子-2β cDNA编码的鉴定
Pub Date : 2001-01-01 DOI: 10.3109/10425170109042051
Kyra J. Sneesby, D. Crane, W. Murrell
A full length cDNA for the β subunit of chick (Gallus gallus) eukaryotic translation initiation factor-2 is described. This cDNA was isolated by screening a chick cDNA library with a probe derived via differential display of developing chick heart tissue. Up-regulated expression of eIF-2β mRNA was confirmed by reverse Northern dot blot analysis. eIF-2β, together with eIF-2α and eIF-2γ, comprise subunits of a complex that promotes the binding of methionyl-tRNA to ribosomes during the initiation of protein translation. The nucleotide sequence of the chick eIF-2β cDNA predicts a protein of 334 amino acids that has 95%, 93%, 56% and 37% sequence identity with rabbit, human, drosophila and yeast eIF-2β, respectively. The deduced eIF-2p protein contains a number of functional motifs and domains consistent with the putative function of this protein; these include a potential C2-C2 zinc-finger binding domain, three polylysine regions, and three acidic regions.
报道了鸡(Gallus Gallus)真核翻译起始因子-2 β亚基的全长cDNA。利用发育中的鸡心脏组织差异展示探针筛选鸡cDNA文库,分离得到该cDNA。反向Northern dot blot分析证实eIF-2β mRNA表达上调。eIF-2β与eIF-2α和eIF-2γ组成一个复合物的亚基,在蛋白质翻译的起始阶段促进蛋氨酸- trna与核糖体的结合。鸡eIF-2β cDNA的核苷酸序列预测了一个334个氨基酸的蛋白,分别与兔、人、果蝇和酵母的eIF-2β序列具有95%、93%、56%和37%的一致性。推导出的eIF-2p蛋白含有许多与该蛋白假定功能一致的功能基序和结构域;这些区域包括一个潜在的C2-C2锌指结合区域,三个聚赖氨酸区域和三个酸性区域。
{"title":"Characterisation of a cDNA Encoding Chick Eukaryotic Translation Initiation Factor-2β","authors":"Kyra J. Sneesby, D. Crane, W. Murrell","doi":"10.3109/10425170109042051","DOIUrl":"https://doi.org/10.3109/10425170109042051","url":null,"abstract":"A full length cDNA for the β subunit of chick (Gallus gallus) eukaryotic translation initiation factor-2 is described. This cDNA was isolated by screening a chick cDNA library with a probe derived via differential display of developing chick heart tissue. Up-regulated expression of eIF-2β mRNA was confirmed by reverse Northern dot blot analysis. eIF-2β, together with eIF-2α and eIF-2γ, comprise subunits of a complex that promotes the binding of methionyl-tRNA to ribosomes during the initiation of protein translation. The nucleotide sequence of the chick eIF-2β cDNA predicts a protein of 334 amino acids that has 95%, 93%, 56% and 37% sequence identity with rabbit, human, drosophila and yeast eIF-2β, respectively. The deduced eIF-2p protein contains a number of functional motifs and domains consistent with the putative function of this protein; these include a potential C2-C2 zinc-finger binding domain, three polylysine regions, and three acidic regions.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"261 1","pages":"59 - 65"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91326275","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
Human BAC Contig Covering the Deleted Region in Pancreatic Cancer at 12q21 人类BAC序列覆盖胰腺癌12q21缺失区域
Pub Date : 2001-01-01 DOI: 10.3109/10425170109041339
E. Youssef, K. Kaneko, T. Yatsuoka, Y. Hayashi, M. Hoshi, A. Horii, T. Furukawa
In sporadic human primary pancreatic cancer tissues, loss of heterozygosity is frequently observed in the 1-cM region between D12S81 and D12S1719 at 12q21. Loss of this chromosome arm is known to be associate with a poor prognosis in pancreatic cancer patients. Herein we report a complete contig of human bacterial artificial chromosome (BAC) clones covering the deleted region. The region was covered by 21 BAC clones in a minimum tiling path. The clones were confirmed to exist at 12q21 by fluorescence In situ hybridization. We identified novel 40 sequence tagged sites and mapped 10 expressed sequence tags in this region. The BAC contig reported here provides an avenue for determining the complete nucleotide sequence and mining putative tumor suppressor genes in the deleted region of pancreatic cancer at 12q21.
在散发性人原发性胰腺癌组织中,在12q21的D12S81和D12S1719之间的1-cM区域经常观察到杂合性缺失。已知这条染色体臂的缺失与胰腺癌患者预后不良有关。在这里,我们报告了一个完整的人类细菌人工染色体(BAC)克隆组覆盖缺失区域。在最小平铺路径上,该区域被21个BAC克隆覆盖。通过荧光原位杂交证实该克隆存在于12q21位点。我们发现了40个新的序列标记位点,并在该区域绘制了10个表达的序列标记。本文报道的BAC序列为确定胰腺癌12q21缺失区域的完整核苷酸序列和挖掘推定的肿瘤抑制基因提供了途径。
{"title":"Human BAC Contig Covering the Deleted Region in Pancreatic Cancer at 12q21","authors":"E. Youssef, K. Kaneko, T. Yatsuoka, Y. Hayashi, M. Hoshi, A. Horii, T. Furukawa","doi":"10.3109/10425170109041339","DOIUrl":"https://doi.org/10.3109/10425170109041339","url":null,"abstract":"In sporadic human primary pancreatic cancer tissues, loss of heterozygosity is frequently observed in the 1-cM region between D12S81 and D12S1719 at 12q21. Loss of this chromosome arm is known to be associate with a poor prognosis in pancreatic cancer patients. Herein we report a complete contig of human bacterial artificial chromosome (BAC) clones covering the deleted region. The region was covered by 21 BAC clones in a minimum tiling path. The clones were confirmed to exist at 12q21 by fluorescence In situ hybridization. We identified novel 40 sequence tagged sites and mapped 10 expressed sequence tags in this region. The BAC contig reported here provides an avenue for determining the complete nucleotide sequence and mining putative tumor suppressor genes in the deleted region of pancreatic cancer at 12q21.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"28 1","pages":"541 - 546"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"84239169","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Tissue-specific Expression and Splicing of the Rat Polycystic Kidney Disease 1 Gene 大鼠多囊肾病1基因的组织特异性表达和剪接
Pub Date : 2001-01-01 DOI: 10.3109/10425170109084460
Hui Xu, Jianjun Shen, C. Walker, E. Kleymenova
Autosomal dominant polycystic kidney disease (ADPKD) is the most common genetic potentially lethal human disorder and the polycystic kidney disease 1 (Pkdl) gene is accounted for 85-90% of these cases. We have obtained rat Pkdl cDNA sequence and characterized splicing of Pkdl RNA transcripts in normal rat tissues. Our sequence data revealed a high conservation of the Pkdl gene between rat and other species and mapped rat Pkdl to chromosome 10 in “tail-to-tail” orientation to the tuberous sclerosis 2 (Tsc2) gene. Pkdl was found ubiquitously expressed in the normal rat tissues and the brain had a complex pattern of exon 12 splicing. A novel splicing variant lacking entire exon 31, which occurs in rat and mouse but not in humans, was also identified. As the rat appears to be a valuable model for investigating polycystic kidney disease, the characterization of the rat Pkdl gene will help facilitate future studies to elucidate the molecular mechanisms of cystogenesis in this animal model.
常染色体显性多囊肾病(ADPKD)是最常见的遗传性潜在致命性人类疾病,多囊肾病1 (Pkdl)基因占这些病例的85-90%。我们获得了大鼠Pkdl cDNA序列,并对正常大鼠组织中Pkdl RNA转录物的剪接进行了表征。我们的序列数据揭示了Pkdl基因在大鼠和其他物种之间的高度保守性,并将大鼠Pkdl定位在10号染色体上,以“尾对尾”的方向定位到结节性硬化症2 (Tsc2)基因。发现Pkdl在正常大鼠组织中普遍表达,并且大脑具有复杂的外显子12剪接模式。研究人员还发现了一种缺乏整个外显子31的新型剪接变体,这种变体在大鼠和小鼠中存在,但在人类中不存在。由于大鼠似乎是研究多囊肾疾病的有价值的模型,大鼠Pkdl基因的表征将有助于进一步研究多囊肾动物模型中囊发生的分子机制。
{"title":"Tissue-specific Expression and Splicing of the Rat Polycystic Kidney Disease 1 Gene","authors":"Hui Xu, Jianjun Shen, C. Walker, E. Kleymenova","doi":"10.3109/10425170109084460","DOIUrl":"https://doi.org/10.3109/10425170109084460","url":null,"abstract":"Autosomal dominant polycystic kidney disease (ADPKD) is the most common genetic potentially lethal human disorder and the polycystic kidney disease 1 (Pkdl) gene is accounted for 85-90% of these cases. We have obtained rat Pkdl cDNA sequence and characterized splicing of Pkdl RNA transcripts in normal rat tissues. Our sequence data revealed a high conservation of the Pkdl gene between rat and other species and mapped rat Pkdl to chromosome 10 in “tail-to-tail” orientation to the tuberous sclerosis 2 (Tsc2) gene. Pkdl was found ubiquitously expressed in the normal rat tissues and the brain had a complex pattern of exon 12 splicing. A novel splicing variant lacking entire exon 31, which occurs in rat and mouse but not in humans, was also identified. As the rat appears to be a valuable model for investigating polycystic kidney disease, the characterization of the rat Pkdl gene will help facilitate future studies to elucidate the molecular mechanisms of cystogenesis in this animal model.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"18 1","pages":"361 - 366"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72674174","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 11
ADP-Ribosylating Binary Toxin Genes of Clostridium difficile Strain CCUG 20309 艰难梭菌CCUG 20309菌株adp -核糖基化二毒素基因
Pub Date : 2001-01-01 DOI: 10.3109/10425170109047564
Siao-Yun Chang, K. Song
The cdt genes that encode a binary ADP-ribosylating toxin in Clostridium difficile were first characterized from a toxigenic C. difficile strain CD196 in 1997. We report here C. difficile strain CCUG 20309 (ATCC 8864), a strain that produces toxin B but not toxin A, also carry a complete set of cdtA and cdtB genes. These genes were sequenced by cycle sequencing method. The 2 ORFs and the intergenic sequences of these 2 strains have a homology of 99.6 %. Interestingly, 9 extra bases were found within the cdtA gene of strain CCUG 20309 which do not affect the downstream region of the OW. Using the same homologous primers, the highly toxigenic reference strain VPI 10463 was found to carry only parts of the 2 ORFs while a nontoxigenic strain ATCC 8884 does not carry any of the cdt genes. Though it remains to be determined whether these genes are expressed, it is significant that strain CCUG 20309 contains the complete set of cdt genes. We speculate that the putative expressed proteins may contribute to pathogenesis, for example, enterotoxicity, of this unique strain of bacteria.
编码艰难梭菌二adp核糖基化毒素的cdt基因于1997年首次从产毒艰难梭菌菌株CD196中被鉴定出来。我们在这里报道了艰难梭菌CCUG 20309 (ATCC 8864),一种产生毒素B但不产生毒素a的菌株,也携带一整套cdtA和cdtB基因。采用循环测序法对这些基因进行测序。2株的orf序列与基因间序列同源性达99.6%。有趣的是,在菌株CCUG 20309的cdtA基因中发现了9个不影响OW下游区域的额外碱基。使用相同的同源引物,高产毒性参考菌株VPI 10463仅携带部分orf,而非产毒性参考菌株ATCC 8884不携带任何cdt基因。虽然这些基因是否表达尚不清楚,但菌株CCUG 20309包含完整的cdt基因是有意义的。我们推测,假设表达的蛋白质可能有助于致病,例如,肠毒性,这种独特的菌株的细菌。
{"title":"ADP-Ribosylating Binary Toxin Genes of Clostridium difficile Strain CCUG 20309","authors":"Siao-Yun Chang, K. Song","doi":"10.3109/10425170109047564","DOIUrl":"https://doi.org/10.3109/10425170109047564","url":null,"abstract":"The cdt genes that encode a binary ADP-ribosylating toxin in Clostridium difficile were first characterized from a toxigenic C. difficile strain CD196 in 1997. We report here C. difficile strain CCUG 20309 (ATCC 8864), a strain that produces toxin B but not toxin A, also carry a complete set of cdtA and cdtB genes. These genes were sequenced by cycle sequencing method. The 2 ORFs and the intergenic sequences of these 2 strains have a homology of 99.6 %. Interestingly, 9 extra bases were found within the cdtA gene of strain CCUG 20309 which do not affect the downstream region of the OW. Using the same homologous primers, the highly toxigenic reference strain VPI 10463 was found to carry only parts of the 2 ORFs while a nontoxigenic strain ATCC 8884 does not carry any of the cdt genes. Though it remains to be determined whether these genes are expressed, it is significant that strain CCUG 20309 contains the complete set of cdt genes. We speculate that the putative expressed proteins may contribute to pathogenesis, for example, enterotoxicity, of this unique strain of bacteria.","PeriodicalId":11381,"journal":{"name":"DNA Sequence","volume":"2 1","pages":"115 - 120"},"PeriodicalIF":0.0,"publicationDate":"2001-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78516135","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 14
期刊
DNA Sequence
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1