Journal of Nucleic Acids最新文献_第5页

miRNA Influences in NRF2 Pathway Interactions within Cancer Models. miRNA影响NRF2通路在癌症模型中的相互作用。

IF 2.3

Journal of Nucleic Acids Pub Date : 2015-01-01 Epub Date: 2015-08-09 DOI: 10.1155/2015/143636

Duncan Ayers, Byron Baron, Therese Hunter

引用次数: 50

Insects' RNA Profiling Reveals Absence of "Hidden Break" in 28S Ribosomal RNA Molecule of Onion Thrips, Thrips tabaci. 昆虫RNA谱分析揭示洋葱蓟马、烟叶蓟马28S核糖体RNA分子不存在“隐性断裂”。

IF 2.3

Journal of Nucleic Acids Pub Date : 2015-01-01 Epub Date: 2015-02-12 DOI: 10.1155/2015/965294

Rosaline Wanjiru Macharia, Fidelis Levi Ombura, Erick Onyango Aroko

{"title":"Insects' RNA Profiling Reveals Absence of \"Hidden Break\" in 28S Ribosomal RNA Molecule of Onion Thrips, Thrips tabaci.","authors":"Rosaline Wanjiru Macharia, Fidelis Levi Ombura, Erick Onyango Aroko","doi":"10.1155/2015/965294","DOIUrl":"https://doi.org/10.1155/2015/965294","url":null,"abstract":"With an exception of aphids, insects' 28S rRNA is thought to harbor a \"hidden break\" which cleaves under denaturing conditions to comigrate with 18S rRNA band to exhibit a degraded appearance on native agarose gels. The degraded appearance confounds determination of RNA integrity in laboratories that rely on gel electrophoresis. To provide guidelines for RNA profiles, RNA from five major insect orders, namely, Diptera, Hemiptera, Thysanoptera, Hymenoptera, and Lepidoptera, was compared under denaturing and nondenaturing conditions. This study confirmed that although present in most of insect's RNA, the \"hidden break\" is absent in the 28S rRNA of onion thrips, Thrips tabaci. On the other hand, presence of \"hidden break\" was depicted in whiteflies' 28S rRNA despite their evolutionary grouping under same order with aphids. Divergence of 28S rRNA sequences confirms variation of both size and composition of gap region among insect species. However, phylogeny reconstruction does not support speciation as a possible source of the hidden break in insect's 28S rRNA. In conclusion, we show that RNA from a given insect order does not conform to a particular banding profile and therefore this approach cannot be reliably used to characterize newly discovered species. ","PeriodicalId":16575,"journal":{"name":"Journal of Nucleic Acids","volume":"2015 ","pages":"965294"},"PeriodicalIF":2.3,"publicationDate":"2015-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2015/965294","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"33008563","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 17

In Vitro Selection of a Single-Stranded DNA Molecular Recognition Element against Clostridium difficile Toxin B and Sensitive Detection in Human Fecal Matter. 抗艰难梭菌毒素B单链DNA分子识别元件的体外筛选及在人粪便中的敏感检测。

IF 2.3

Journal of Nucleic Acids Pub Date : 2015-01-01 Epub Date: 2015-02-05 DOI: 10.1155/2015/808495

Ka Lok Hong, Eamonn Maher, Ryan M Williams, Letha J Sooter

引用次数: 6

The Globular State of the Single-Stranded RNA: Effect of the Secondary Structure Rearrangements. 单链 RNA 的球状状态：二级结构重排的影响。

IF 2.3

Journal of Nucleic Acids Pub Date : 2015-01-01 Epub Date: 2015-08-09 DOI: 10.1155/2015/295264

Zareh A Grigoryan, Armen T Karapetian

引用次数: 0

Analysis of Nucleotide Sequences of the 16S rRNA Gene of Novel Escherichia coli Strains Isolated from Feces of Human and Bali Cattle. 人类和巴厘牛粪便分离的新型大肠杆菌16S rRNA基因序列分析。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-09-09 DOI: 10.1155/2014/475754

I Wayan Suardana

引用次数: 45

In vitro selection of a single-stranded DNA molecular recognition element specific for bromacil. 对溴嘧啶特异性单链 DNA 分子识别元件的体外选择。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-10-23 DOI: 10.1155/2014/102968

Ryan M Williams, Amanda R Kulick, Srilakshmi Yedlapalli, Louisa Battistella, Cyrus J Hajiran, Letha J Sooter

引用次数: 0

Effects of stability of base pairs containing an oxazolone on DNA elongation. 含恶唑酮碱基对稳定性对DNA延伸的影响。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-12-07 DOI: 10.1155/2014/178350

Masayo Suzuki, Kazuya Ohtsuki, Katsuhito Kino, Teruhiko Kobayashi, Masayuki Morikawa, Takanobu Kobayashi, Hiroshi Miyazawa

{"title":"Effects of stability of base pairs containing an oxazolone on DNA elongation.","authors":"Masayo Suzuki, Kazuya Ohtsuki, Katsuhito Kino, Teruhiko Kobayashi, Masayuki Morikawa, Takanobu Kobayashi, Hiroshi Miyazawa","doi":"10.1155/2014/178350","DOIUrl":"https://doi.org/10.1155/2014/178350","url":null,"abstract":"The nucleoside 2,2,4-triamino-5(2H)-oxazolone (Oz) can result from oxidative damage to guanine residues in DNA. Despite differences among the three polymerases (Pol β, KF exo(-), and Pol η) regarding nucleotide incorporation patterns opposite Oz, all three polymerases can incorporate guanine opposite Oz. Based on ab initio calculations, we proposed a structure for a stable Oz:G base pair. Here, to assess the stability of each Oz-containing base pair (Oz:G, Oz:A, Oz:C, and Oz:T) upon DNA replication, we determined the efficiency of Pol β-, KF exo(-)-, or Pol η-catalyzed primer extension beyond each base pair. With each polymerase, extension beyond Oz:G was more efficient than that beyond Oz:A, Oz:C, or Oz:T. Moreover, thermal denaturation studies revealed that the T m value for the duplex containing Oz:G was significantly higher than those obtained for duplexes containing Oz:A, Oz:C, or Oz:T. Therefore, the results from ab initio calculations along with those from DNA replication assays and thermal denaturation experiments supported the conclusion that Oz:G is the most stable of the Oz-containing base pairs. ","PeriodicalId":16575,"journal":{"name":"Journal of Nucleic Acids","volume":"2014 ","pages":"178350"},"PeriodicalIF":2.3,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2014/178350","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32965296","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 9

Erratum to "Analysis of Nucleotide Sequences of the 16S rRNA Gene of Novel Escherichia coli Strains Isolated from Feces of Human and Bali Cattle". 《从人类和巴厘牛粪便中分离的新型大肠杆菌16S rRNA基因核苷酸序列分析》的勘误。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-12-29 DOI: 10.1155/2014/412942

I Wayan Suardana

引用次数: 8

Discovery of Novel Leaf Rust Responsive microRNAs in Wheat and Prediction of Their Target Genes. 小麦叶锈病新反应microrna的发现及其靶基因的预测。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-08-12 DOI: 10.1155/2014/570176

Dhananjay Kumar, Dharmendra Singh, Pulkit Kanodia, Kumble Vinod Prabhu, Manish Kumar, Kunal Mukhopadhyay

{"title":"Discovery of Novel Leaf Rust Responsive microRNAs in Wheat and Prediction of Their Target Genes.","authors":"Dhananjay Kumar, Dharmendra Singh, Pulkit Kanodia, Kumble Vinod Prabhu, Manish Kumar, Kunal Mukhopadhyay","doi":"10.1155/2014/570176","DOIUrl":"https://doi.org/10.1155/2014/570176","url":null,"abstract":"MicroRNAs are endogenous small noncoding RNAs which play critical roles in gene regulation. Few wheat (Triticum aestivum L.) miRNA sequences are available in miRBase repertoire and knowledge of their biological functions related to biotic stress is limited. We identified 52 miRNAs, belonging to 19 families, from next-generation transcriptome sequence data based on homology search. One wheat specific novel miRNA was identified but could not be ascribed or assigned to any known miRNA family. Differentially expressed 22 miRNAs were found between susceptible and resistant wheat near-isogenic lines inoculated with leaf rust pathogen Puccinia triticina and compared with mock inoculated controls. Most miRNAs were more upregulated in susceptible NIL compared to resistant NIL. We identified 1306 potential target genes for these 52 miRNAs with vital roles in response to stimuli, signaling, and diverse metabolic and cellular processes. Gene ontology analysis showed 66, 20, and 35 target genes to be categorized into biological process, molecular function, and cellular component, respectively. A miRNA-mediated regulatory network revealed relationships among the components of the targetome. The present study provides insight into potential miRNAs with probable roles in leaf rust pathogenesis and their target genes in wheat which establish a foundation for future studies. ","PeriodicalId":16575,"journal":{"name":"Journal of Nucleic Acids","volume":"2014 ","pages":"570176"},"PeriodicalIF":2.3,"publicationDate":"2014-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1155/2014/570176","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32633957","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 29

Selective Evolution of Ligands by Exponential Enrichment to Identify RNA Aptamers against Shiga Toxins. 用指数富集方法鉴定抗志贺毒素RNA适体的配体选择进化。

IF 2.3

Journal of Nucleic Acids Pub Date : 2014-01-01 Epub Date: 2014-04-15 DOI: 10.1155/2014/214929

Sreerupa Challa, Saul Tzipori, Abhineet Sheoran

引用次数: 14