Abstract：
:The development of genetic switches and their integrated forms (genetic circuits) with desired specifications/functions is key for success in synthetic biology. Due to the difficulty in rational design, genetic switches and circuits with desirable specifications are mostly obtained by directed evolution. Based on a virus-derived nucleotide kinase as a single-gene dual selector, we constructed a robust, efficient and stringent selection system for genetic switches. This method exhibited unprecedented enrichment efficacy (>30,000-fold) of functional switches from non-functional ones in a single selection cycle. In addition, negative (OFF) selection was exceptionally stringent, allowing the rapid and efficient selection of non-leaky from leaky circuits.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Tashiro Y,Fukutomi H,Terakubo K,Saito K,Umeno Ddoi
10.1093/nar/gkq1070subject
Has Abstractpub_date
2011-02-01 00:00:00pages
e12issue
3eissn
0305-1048issn
1362-4962pii
gkq1070journal_volume
39pub_type
杂志文章abstract：:CENP-A and CENP-B are major components of centromeric chromatin. CENP-A is the histone H3 variant, which forms the centromere-specific nucleosome. CENP-B specifically binds to the CENP-B box DNA sequence on the centromere-specific repetitive DNA. In the present study, we found that the CENP-A nucleosome more stably re...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv405
更新日期：2015-05-26 00:00:00
abstract：:Chicken-erythrocyte inner histone tetramer has been complexed with several natural and synthetic DNA duplexes by salt-gradient dialysis at various protein/DNA ratios. The resulting complexes, in low-ionic-strength buffer, have been examined by electron microscopy, circular dichroism, and thermal denaturation. Electron...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.10.3603
更新日期：1978-10-01 00:00:00
abstract：:The final step in the maturation of paramyxoviruses, orthomyxoviruses and viruses of several other families, entails the budding of the viral nucleocapsid through the plasma membrane of the host cell. Many medically important viruses, such as influenza, parainfluenza, respiratory syncytial virus (RSV) and Ebola, can f...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm246
更新日期：2007-01-01 00:00:00
abstract：:We report the extended database and data mining resources newly released in the H-Invitational Database (H-InvDB; http://www.h-invitational.jp/). H-InvDB is a comprehensive annotation resource of human genes and transcripts, and consists of two main views and six sub-databases. The latest release of H-InvDB (release 6...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp1020
更新日期：2010-01-01 00:00:00
abstract：:Saccharomyces cerevisiae Pif1 (ScPif1) is known as an ATP-dependent DNA helicase that plays critical roles in a number of important biological processes such as DNA replication, telomere maintenance and genome stability maintenance. Besides its DNA helicase activity, ScPif1 is also known as a single-stranded DNA (ssDN...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz541
更新日期：2019-08-22 00:00:00
abstract：:VL30 genetic elements constitute a murine multicopy gene family that is retrovirus-like, despite the lack of sequence homology with any known retrovirus. Over one hundred copies of VL30 units are dispersed throughout the mouse genome. We report here that the mouse genome also contains 'solo' VL30 long terminal repeats...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.5.2273
更新日期：1984-03-12 00:00:00
abstract：:UNITE (https://unite.ut.ee/) is a web-based database and sequence management environment for the molecular identification of fungi. It targets the formal fungal barcode-the nuclear ribosomal internal transcribed spacer (ITS) region-and offers all ∼1 000 000 public fungal ITS sequences for reference. These are clustere...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky1022
更新日期：2019-01-08 00:00:00
abstract：:An R-loop is a DNA:RNA hybrid formed during transcription when a DNA duplex is invaded by a nascent RNA transcript. R-loops accumulate in nucleoli during RNA polymerase I (RNAP I) transcription. Here, we report that mammalian RNase H1 enriches in nucleoli and co-localizes with R-loops in cultured human cells. Co-migra...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx710
更新日期：2017-10-13 00:00:00
abstract：:To explain biochemical and genetic data on spontaneous nucleotide replacements in nucleic acid biosynthesis all the 8 mispairs in normal tautomeric forms have been considered. Possible B-conformations of DNA fragments containing each of such mispairs incorporated between Watson-Crick pairs have been found using comput...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/13.1.141
更新日期：1985-01-11 00:00:00
abstract：:PAHdb (http://www.mcgill.ca/pahdb ) is a curated relational database (Fig. 1) of nucleotide variation in the human PAH cDNA (GenBank U49897). Among 328 different mutations by state (Fig. 2) the majority are rare mutations causing hyperphenylalaninemia (HPA) (OMIM 261600), the remainder are polymorphic variants without...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.1.220
更新日期：1998-01-01 00:00:00
abstract：:Dimerization of HIV-1 genomic RNA is an essential step of the viral cycle, initiated at a conserved stem-loop structure which forms a 'kissing complex' involving loop-loop interactions (dimerization initiation site, DIS). A 19mer RNA oligonucleotide (DIS-19) has been synthesized which forms a stable symmetrical dimer ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.15.3567
更新日期：1998-08-01 00:00:00
abstract：:The active 3D conformation of the spliceosome's catalytic U2/U6 RNA core is stabilised by a network of secondary and tertiary RNA interactions, but also depends on spliceosomal proteins for its formation. To determine the contribution towards splicing of specific RNA secondary and tertiary interactions in the U2/U6 RN...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky966
更新日期：2018-12-14 00:00:00
abstract：:We describe the synthesis of 2'-O-methyl, 2'-O-ethyl oligoribonucleotides and phosphorothioate oligodeoxyribonucleotides and demonstrate their utility as inhibitors of the in vitro U7 snRNP-dependent mRNA processing event. These 2'-O-modified compounds were designed to possess the binding affinity of an RNA molecule t...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/19.10.2629
更新日期：1991-05-25 00:00:00
abstract：:DNA and RNA guanine-quadruplexes (G4s) are stabilized by several cations, in particular by potassium and sodium ions. Generally, potassium stabilizes guanine-quartet assemblies to a larger extent than sodium; in this article we report about a higher-order G4 structure more stable in sodium than in potassium. Repeats o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw003
更新日期：2016-04-07 00:00:00
abstract：:The -1 ribosomal frameshifting requires the existence of an in cis RNA slippery sequence and is promoted by a downstream stimulator RNA. An atypical RNA pseudoknot with an extra stem formed by complementary sequences within loop 2 of an H-type pseudoknot is characterized in the severe acute respiratory syndrome corona...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki731
更新日期：2005-07-29 00:00:00
abstract：:A 34 base-pair (bp) fragment spanning sequences -154 to -120 of the promoter of the CHO1 gene (structural gene for phosphatidylserine synthase) from the yeast Saccharomyces cerevisiae has been shown to place transcription of a promoter-less Escherichia coli lacZ gene under control of the phospholipid precursors inosit...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/20.6.1411
更新日期：1992-03-25 00:00:00
abstract：:The 'druggable genome' encompasses several protein families, but only a subset of targets within them have attracted significant research attention and thus have information about them publicly available. The Illuminating the Druggable Genome (IDG) program was initiated in 2014, has the goal of developing experimental...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw1072
更新日期：2017-01-04 00:00:00
abstract：:A precursor of modified nucleoside Q isolated from E. coli methyl-deficient tRNA was determined to be 7-(aminomethyl)-7-deazaguanosine. The structure was deduced by means of its chromatographic and electrophoretic mobilities, and UV and mass spectra, in addition to comparison with the synthesized authentic compound. T...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.7.2289
更新日期：1978-07-01 00:00:00
abstract：:Various antitumor drugs stabilize DNA topoisomerase II-DNA transient covalent complexes. The complexes distribution along pBR322 DNA was shown previously to depend upon the nature of the drug (Tewey et al. (1984) Science 226, 466-468). The position in pBR322 of DNA cleavage by calf DNA topoisomerase II for 115 such si...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/19.11.2861
更新日期：1991-06-11 00:00:00
abstract：:Recognition of genomic binding sites by transcription factors can occur through base-specific recognition, or by recognition of variations within the structure of the DNA macromolecule. In this article, we investigate what information can be retrieved from local DNA structural properties that is relevant to transcript...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1071
更新日期：2011-01-01 00:00:00
abstract：:A cross index is presented for using the improved selectivity offered by the Hung and Wensink (Nucl. Acids Res. 12, 1863-1874, 1984) method of partially filling in 5'-extensions produced by type II restriction endonucleases. After this treatment, DNA fragments which normally cannot be ligated to one another, can be jo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.8.3199
更新日期：1987-04-24 00:00:00
abstract：:SV40 DNA form I is expressed efficiently after its injection into the nuclei of Xenopus laevis oocytes, resulting in the synthesis of RNA and protein products of both viral late and early transcription units. However it was observed that injection of SV40 genes cloned into pBR322 or related plasmids yielded vastly red...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.4.1579
更新日期：1987-02-25 00:00:00
abstract：:We have isolated and characterized a S. pombe promoter using a functional heterologous gene product assay. Random S. pombe genomic fragments were cloned upstream from the promoterless 'lacZ gene and tested in vivo for their efficiency to promote expression of the beta-galactosidase protein in the fission yeast. An eff...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.17.8603
更新日期：1988-09-12 00:00:00
abstract：:MLL, the trithorax ortholog, is a well-characterized histone 3 lysine 4 methyltransferase that is crucial for proper regulation of the Hox genes during embryonic development. Chromosomal translocations, disrupting the Mll gene, lead to aggressive leukemia with poor prognosis. However, the functions of MLL in cellular ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku458
更新日期：2014-07-01 00:00:00
abstract：:A soluble enzyme system that specifically initiates lambda dv plasmid DNA replication at a bacteriophage lambda replication origin [Wold et al. (1982) Proc. Natl. Acad. Sci. USA 79, 6176-6180] is also capable of replicating the single-stranded circular chromosomes of phages M13 and phi X174 to a duplex form. This chai...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.7.3069
更新日期：1984-04-11 00:00:00
abstract：:We have adapted a method for making libraries of mutations in any specific gene for use in the fission yeast Schizosaccharomyces pombe . This elegant and simple method consists of PCR amplification of the gene of interest, followed by co-transformation of fission yeast with the PCR fragment and a linearized plasmid ve...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.20.4783
更新日期：1998-10-15 00:00:00
abstract：:The Zebrafish Information Network (ZFIN, http://zfin.org), the model organism database for zebrafish, provides the central location for curated zebrafish genetic, genomic and developmental data. Extensive data integration of mutant phenotypes, genes, expression patterns, sequences, genetic markers, morpholinos, map po...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm956
更新日期：2008-01-01 00:00:00
abstract：:Small inverted repeats (small palindromes) on plasmids have been shown to mediate a recombinational rearrangement event in Escherichia coli leading to the formation of inverted dimers (giant palindromes). This recombinational rearrangement event is efficient and independent of RecA and RecBCD. In this report, we propo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/25.15.3009
更新日期：1997-08-01 00:00:00
abstract：:A phage-display library of random peptides is a combinatorial experimental technique that can be harnessed for studying antibody-antigen interactions. In this technique, a phage peptide library is scanned against an antibody molecule to obtain a set of peptides that are bound by the antibody with high affinity. This s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl975
更新日期：2007-01-01 00:00:00
abstract：:We updated the plant transcription factor (TF) database to version 2.0 (PlantTFDB 2.0, http://planttfdb.cbi.pku.edu.cn) which contains 53,319 putative TFs predicted from 49 species. We made detailed annotation including general information, domain feature, gene ontology, expression pattern and ortholog groups, as well...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1141
更新日期：2011-01-01 00:00:00
