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RNA, Antisense (3):
Recent article
RNA, Antisense
Xenobiotica (41)5 2011
Abstract
This chapter provides methods and insights into the use of antisense RNA as a molecular genetic tool. Posttranscriptional inhibition of specific gene expression can be achieved by antisense RNA fragments under control of a conditional promoter. Effective titration of gene expression can cause an app...
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PMID: 18392976
PDF is available here.
PDF is available here.
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Xenobiotica (41)5 2011
Abstract
We provide step-by-step methods on how to utilize synthetic precursor and antisense inhibitor molecules for understanding miRNA function....
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PMID: 18369991
PDF is available here.
PDF is available here.
Abstract
We studied the patterns of small RNAs targeting both strands of suffix in Drosophila ovaries using an RNase protection assay and the analysis of the corresponding RNA sequences from the libraries of total small RNAs. Our results indicate that suffix sense and antisense transcripts are targeted mainl...
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PMID: 21779345
PDF is available here.
PDF is available here.
Abstract
RNA-based pathways that regulate protein expression are much more widespread than previously thought. Regulatory RNAs, including 5' and 3' untranslated regions next to the coding sequence, cis-acting antisense RNAs and trans-acting small non-coding RNAs, are effective regulatory mole...
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PMID: 21079634
PDF is available here.
PDF is available here.
Abstract
We report the current knowledge about the sRNAs of these socioeconomically relevant Gram-positive pathogens, overview the state-of-the-art high-throughput sRNA screening methods and summarize bioinformatics approaches for genome-wide sRNA identification and target prediction. Finally, we discuss the...
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PMID: 21255362
PDF is available here.
PDF is available here.
Abstract
We had blocked the polyamine synthesis pathway using the adenoviral-mediated antisense ODC in some cancer cells such as prostate cancers and colorectal cancers. These researches demonstrated that ODC antisense expression could inhibit tumor cell growth. In order to reach the goal of applying the tar...
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PMID: 19876766
PDF is available here.
PDF is available here.
ISME Journal (4)9 2010
Abstract
We show that in cyanophage S-PM2, this intron is spliced during the entire infection cycle. Furthermore, we report the widespread occurrence of psbA introns in marine metagenomic libraries, and with psbA often adjacent to a homing endonuclease (HE). Bioinformatic analysis of the intergenic region be...
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PMID: 20410936
PDF is available here.
PDF is available here.
Journal of Virology (84)16 2010
Abstract
We have employed a genomewide tiling array to examine the lytic transcriptome of the Kaposi's sarcoma-associated herpesvirus, KSHV. Our results reveal that during lytic growth (but not during latency), there is extensive transcription from noncoding regions, including both intergenic regions and, es...
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PMID: 20534856
PDF is available here.
PDF is available here.
Abstract
Plants have evolved a variety of gene silencing pathways mediated by small RNAs. Mostly 21 or 24 nt in size, these small RNAs repress the expression of sequence homologous genes at the transcriptional, post-transcriptional and translational levels. These pathways, also referred as RNA silencing path...
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PMID: 20331529
PDF is available here.
PDF is available here.
Abstract
We focus on an additional, higher-order role of NATs that is currently emerging. The recent discovery of endogenous siRNAs (short interfering RNAs), as well as NAT-induced transcriptional gene silencing, are key to the proposed novel function of NATs....
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PMID: 20659019
PDF is available here.
PDF is available here.
Abstract
Flowering time is controlled by precision in gene regulation mediated by different pathways. Two Arabidopsis thaliana components of the autonomous flowering pathway, FCA and FPA, function as genetically independent trans-acting regulators of alternative cleavage and polyadenylation. FCA and FPA dire...
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PMID: 20659007
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
|
PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Journal of Bacteriology (192)13 2010
Abstract
We analyzed the secondary structures of the ctRNA and its target and mapped the motifs involved in the complex formed between them. Essential residues for the effective interaction localize at the unpaired 5' end of the antisense molecule and the loop of the target mRNA. In light of our results, we...
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PMID: 20435728
PDF is available here.
PDF is available here.
Abstract
Cytosine DNA methylation, covalent histone modifications, and RNA-mediated gene regulation are the major aspects of epigenetic regulation. Natural antisense transcripts (NATs), as a new member of regulatory RNAs, occur ubiquitously in prokaryote and eukaryote, and play significant roles in physiolog...
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PMID: 20438699
PDF is available here.
PDF is available here.
Abstract
We report a novel finding of an antisense oligonucleotide (ASO) microwalk in which we examined the position-specific role of intronic residues downstream from the 5' splice site (5' ss) of SMN2 exon 7, skipping of which is associated with spinal muscular atrophy (SMA), a leading genetic cause of inf...
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PMID: 20413618
PDF is available here.
PDF is available here.
Abstract
We show by RT-PCR that the previously described Elk1, Elk3/Elk3b/Elk3c and Elk4 mRNAs are expressed in adult dorsal root ganglia (DRG), together with the novel alternatively spliced isoforms Elk1b, Elk3d and Elk4c/Elk4d/Elk4e. These isoforms are also expressed in brain, heart, kidney and testis. In...
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PMID: 20304071
PDF is available here.
PDF is available here.
Nucleic Acids Research (38)11 2010
Abstract
We employed Genomic SELEX, a method to identify protein-binding RNAs encoded in the genome, to search for further regulatory RNAs in Escherichia coli. We used the global regulator protein Hfq as bait, because it can interact with a large number of RNAs, promoting their interaction. The enriched SELE...
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PMID: 20348540
PDF is available here.
PDF is available here.
Nucleic Acids Research (38)11 2010
Abstract
We used exhaustive PSI-BLAST and TBLASTN searches across 774 bacterial genomes to identify homologs of known type I toxins. These searches substantially expanded the collection of predicted type I toxins, revealed homology of the Ldr and Fst toxins, and suggested that type I toxin-antitoxin loci are...
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PMID: 20156992
PDF is available here.
PDF is available here.
Zhonghua Yixue Zazhi (90)20 2010
Abstract
The PcDNA4-asPLB injection group had significantly better systolic cardiac function and diastolic function [LVEF (39.4 +/- 7.8)% vs (30.9 +/- 7.4)%, P < 0.05; dp/dt Max (1545 +/- 127) mm Hg x s(-1) vs (1172 +/- 91) mm Hg x s(-1), P < 0.05)]. Compared with saline injection, the PLB expression was inh...
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PMID: 20646627
PDF is available here.
PDF is available here.
Abstract
We identified 121 potential switchgrass miRNAs, belonging to 44 families, using a well-defined comparative genome-based computational approach. We also identified miRNA clusters and antisense miRNAs in switchgrass expressed sequences tags. These identified miRNAs potentially target 839 protein-codin...
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PMID: 20461402
PDF is available here.
PDF is available here.
Abstract
In the BB7 genotype 1b replicon system, mimics of the polymerase (NS-5B), X and BA regions inhibited replication by more than 90%, 50%, and 60%, respectively. In the JFH-1 genotype 2 infection system, mimics that were only 74% and 46% identical in sequence relative to the corresponding region in JFH...
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PMID: 20440850
PDF is available here.
PDF is available here.
Abstract
We report on the cloning and characterization of a novel B. oleracea PMEI gene, BoPMEI1. Heterologously expressed BoPMEI1 showed PMEI activity. RT-PCR studies of different tissues and promoter-GUS fusions confirmed that BoPMEI1 was specifically expressed in mature pollen grains and pollen tubes. Bas...
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PMID: 20229192
PDF is available here.
PDF is available here.
Metabolic Engineering (12)3 2010
Abstract
We generated a genomic library from sheared Clostridium acetobutylicum ATCC 824 DNA, whereby inserts can be expressed in both directions from the thiolase promoter, P(thl). Serial transfer of library-bearing C. acetobutylicum cultures exposed to increasing butyrate concentrations enriched for insert...
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PMID: 20060060
PDF is available here.
PDF is available here.
Abstract
We investigated this using humanized NOD/SCID IL-2Rgamma(null) (hNSG) mice reconstituted with approximately 4-11% envAS-modified human T-cells. Mice were challenged with HIV-1(NL4-3), which has an env perfectly complementary to envAS, or with HIV-1(BaL), which has a divergent env. No differences wer...
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PMID: 20104212
PDF is available here.
PDF is available here.
Molecular Endocrinology (24)4 2010
Abstract
We have previously reported that elevated fibroblast growth factor-2 (FGF-2) expression is associated with tumor recurrence and reduced survival after surgical resection of esophageal cancer and that these risks are reduced in tumors coexpressing an endogenous antisense (FGF-AS) RNA. In the present...
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PMID: 20197313
PDF is available here.
PDF is available here.
Methods in Molecular Biology (630)630 2010
Abstract
These results are further confirmed using sense and antisense directed primers in first strand synthesis. Results indicate that optimization of the screens requires proper controls to confirm removal of gDNA contamination and to rule out self-priming as a source of first strand products....
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PMID: 20300995
PDF is available here.
PDF is available here.
Plant Physiology (152)3 2010
Abstract
Our data identify OsPHO1;2 as playing a key role in the transfer of Pi from roots to shoots in rice, and indicate that this gene could be regulated by its cis-natural antisense transcripts. Furthermore, phylogenetic analysis of PHO1 homologs in monocotyledons and dicotyledons revealed the emergence...
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PMID: 20081045
PDF is available here.
PDF is available here.
Abstract
We present new configurations of the tetracycline-dependent gene regulation (tet) system for Staphylococcus aureus. To provide improved and expanded modes of control, strains and plasmids were constructed for the constitutive expression of tetR or a variant allele, rev-tetR(r2). The encoded regulato...
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PMID: 19966017
PDF is available here.
PDF is available here.
Abstract
We employed an antisense technology to suppress specifically the expression of COX-2 in adipocytes. Cultured 3T3-L1 preadipocytes were transfected stably with a mammalian expression vector having the full-length cDNA encoding mouse COX-2 oriented in the antisense direction. The cloned transfectants...
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PMID: 19883787
PDF is available here.
PDF is available here.
Hereditas (Beijing) (32)2 2010
Abstract
We speculated that both of sense and antisense transcripts may be sliced to form small RNAs, which is also an important mechanism for NATs to regulate gene expression, such as rasiRNAs in "ping-pong". Experimental and computational analyses have demonstrated the wide-spread occurrence of NATs in a w...
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PMID: 20176555
PDF is available here.
PDF is available here.
Journal of Bacteriology (192)4 2010
Abstract
We predicted 3,597 cis-encoded ncRNAs and validated 13 of them experimentally, including several ncRNAs that are differentially expressed in bacterial hormone-defective mutants....
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PMID: 19966003
PDF is available here.
PDF is available here.
Acta Virologica (54)2 2010
Properties of hepatitis C virus minigenome containing mutated 5'UTR region and luciferase transgene.
Abstract
We designed several cDNA-based HCV-like minigenomes containing different mutations at the 5'UTR of (+)RNA. These (+)RNAs transcribed from the minigenomes in vitro were transfected into HCV replicon cells for producing (-)RNAs with deletions of different stem loops (SL) at the 3'-end. The results sho...
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PMID: 20545439
PDF is available here.
PDF is available here.
Abstract
We present here all of the techniques used to systematically determine if a gene possesses these types of control elements....
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PMID: 20033655
PDF is available here.
PDF is available here.
Abstract
I foot-printings confirmed the ability of the intragenic promoter located approximately 280 bp downstream of ATG to bind RNA polymerase. Primer extension revealed the cDNA of the expected size while Northern blot hybridization assumes the presence of aRNA among cellular RNAs. Relative abundance of a...
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PMID: 20608174
PDF is available here.
PDF is available here.
BMC Plant Biology (10) 2010
Abstract
We used Nicotiana tabacum to investigate the effect on sense strand transcripts of overexpressing a natural chloroplast asRNA, AS5, which is complementary to the region which encodes the 5S rRNA and tRNAArg.
AS5-overexpressing (AS5ox) plants obtained by chloroplast transformation exhibited slower gr...
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PMID: 20920268
PDF is available here.
PDF is available here.
Genome Biology (11)5 2010
Abstract
Our data demonstrate an interface between two distinct groups of regulatory RNAs in the computation of BACE1 gene expression. Moreover, bioinformatics analyses revealed a theoretical basis for many other potential interactions between natural antisense transcripts and miRNAs at the binding sites of...
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PMID: 20507594
PDF is available here.
PDF is available here.
Abstract
We identified human pseudogenes with a trans-NAT to the parental gene in their antisense strand by analysis of the database of expressed sequence tags (ESTs). We found that the mutations that appeared in these trans-NATs after the pseudogene formation do not show the flat distribution that would be...
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PMID: 21047404
PDF is available here.
PDF is available here.
BMC Genomics (11) 2010
Abstract
We used 2D-DiGE proteomics technology to examine the changes in protein expression induced in HeLa cells by UPF1 knockdown. QPCR based validation of the corresponding mRNAs, in response to both UPF1 knockdown and cycloheximide treatment, identified 17 bona fide NMD targets. Most of these were associ...
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PMID: 20946641
PDF is available here.
PDF is available here.
Abstract
Development of the post-hatching conceptus in ruminants involves a period of morphological expansion that is driven by complex interactions between the conceptus and its intrauterine environment. As a result of these interactions, endometrial physiology is altered, leading to establishment of the pr...
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PMID: 20003848
PDF is available here.
PDF is available here.
Abstract
We have identified cytoplasmic P-body components encoded by DHH1, KEM1, LSM1, and PAT1 as cofactors that posttranscriptionally enhance Ty1 retrotransposition. Using fluorescent in situ hybridization and immunofluorescence microscopy, we found that Ty1 mRNA and Gag colocalize to discrete cytoplasmic...
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PMID: 19901074
PDF is available here.
PDF is available here.
Abstract
Transfection with either pU6H1-GFP-siRNA TSPAN1 or pcDNA3.1 antisense TSPAN1 led to an obvious reduction of expression levels of TSPAN1 mRNA and protein in A431 cells, respectively. The proliferation, migration and infiltration of A431 cancer cells were significantly inhibited at 48 hours after tran...
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PMID: 20572588
PDF is available here.
PDF is available here.