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R8508
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关键词:'R8508'
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Alexis J Rovner et al.
Nature, 518(7537), 89-93 (2015-01-22)
Genetically modified organisms (GMOs) are increasingly used in research and industrial systems to produce high-value pharmaceuticals, fuels and chemicals. Genetic isolation and intrinsic biocontainment would provide essential biosafety measures to secure these closed systems and enable safe applications of GMOs
Leo C K Wan et al.
Nucleic acids research, 41(12), 6332-6346 (2013-04-27)
The universally conserved Kae1/Qri7/YgjD and Sua5/YrdC protein families have been implicated in growth, telomere homeostasis, transcription and the N6-threonylcarbamoylation (t(6)A) of tRNA, an essential modification required for translational fidelity by the ribosome. In bacteria, YgjD orthologues operate in concert with
Premal Shah et al.
Cell, 153(7), 1589-1601 (2013-06-26)
Deep sequencing now provides detailed snapshots of ribosome occupancy on mRNAs. We leverage these data to parameterize a computational model of translation, keeping track of every ribosome, tRNA, and mRNA molecule in a yeast cell. We determine the parameter regimes
Keshab Rijal et al.
Gene, 556(1), 35-50 (2014-12-03)
Suppressor tRNAs bear anticodon mutations that allow them to decode premature stop codons in metabolic marker gene mRNAs, that can be used as in vivo reporters of functional tRNA biogenesis. Here, we review key components of a suppressor tRNA system
Rushia Turner et al.
RNA (New York, N.Y.), 19(12), 1857-1863 (2013-10-22)
Estimating the reactivity of 2'-hydroxyl groups along an RNA chain of interest aids in the modeling of the folded RNA structure; flexible loops tend to be reactive, whereas duplex regions are generally not. Among the most useful reagents for probing
Jungwook Kim et al.
BMC structural biology, 13, 5-5 (2013-04-27)
Methylaminomethyl modification of uridine or 2-thiouridine (mnm5U34 or mnm5s2U34) at the wobble position of tRNAs specific for glutamate, lysine and arginine are observed in Escherichia coli and allow for specific recognition of codons ending in A or G. In the
Structural biology: RNA exerts self-control.
Bhaskar Chetnani et al.
Nature, 500(7462), 279-280 (2013-07-31)
Cheng-Ye Wang et al.
Zoological science, 30(7), 570-576 (2013-07-09)
The Japanese pine sawyer, Monochamus alternatus Hope, 1842, an important forest pest, mainly occurs in Far East. It is the main vector of pine wood nematode Bursaphelenchus xylophilus, which causes pine wilt disease. We determined the complete mitochondrial genome coding
Ewa Morawiec et al.
Gene, 526(1), 16-22 (2013-05-10)
Maf1 is a negative regulator of RNA polymerase III (Pol III) in yeast. Maf1-depleted cells manifest elevated tRNA transcription and inability to grow on non-fermentable carbon source, such as glycerol. Using genomic microarray approach, we examined the effect of Maf1
C Grunau et al.
Nucleic acids research, 29(13), E65-E65 (2001-07-04)
Bisulfite genomic sequencing is the method of choice for the generation of methylation maps with single-base resolution. The method is based on the selective deamination of cytosine to uracil by treatment with bisulfite and the sequencing of subsequently generated PCR
Tek N Lamichhane et al.
Molecular and cellular biology, 33(15), 2918-2929 (2013-05-30)
tRNA isopentenyltransferases (Tit1) modify tRNA position 37, adjacent to the anticodon, to N6-isopentenyladenosine (i6A37) in all cells, yet the tRNA subsets selected for modification vary among species, and their relevance to phenotypes is unknown. We examined the function of i6A37
Jungwook Kim et al.
Nature, 498(7452), 123-126 (2013-05-17)
The identification of novel metabolites and the characterization of their biological functions are major challenges in biology. X-ray crystallography can reveal unanticipated ligands that persist through purification and crystallization. These adventitious protein-ligand complexes provide insights into new activities, pathways and
Md Tauqeer Alam et al.
Gene, 539(1), 44-49 (2014-02-11)
The whale shark (Rhincodon typus) is the largest extant species of fish, belonging to the order Orectolobiformes. It is listed as a "vulnerable" species on the International Union for Conservation of Nature (IUCN)'s Red List of Threatened Species, which makes
Manuel Neeb et al.
Journal of medicinal chemistry, 57(13), 5554-5565 (2014-06-24)
Drug molecules should remain uncharged while traveling through the body and crossing membranes and should only adopt charged state upon protein binding, particularly if charge-assisted interactions can be established in deeply buried binding pockets. Such strategy requires careful pKa design
T Winckler
Die Pharmazie, 68(7), 467-473 (2013-08-09)
Almost 25 years ago, Theo Dingermann published the discovery of a new mobile genetic element in the unicellular microbe Dictyostelium discoideum in the journal Science. An interesting property of this new molecular parasite, the Dictyostelium Repetitive Element (DRE), was that
Xiangyun Wu et al.
Gene, 533(1), 439-446 (2013-10-03)
In contrast to the extreme conservation of nuclear-encoded tRNAs, organization of the mitochondrial (mt) tRNA gene family in invertebrates is highly dynamic and rapidly evolving. While gene duplication and loss, gene isomerism, recruitment, and rearrangements have occurred sporadically in several
Shuxian Liu et al.
Gene, 547(1), 136-144 (2014-06-27)
The complete mitochondrial genome (mitogenome) of a female flightless geometrid moth Apocheima cinerarius was found to be 15,722 bp in length, containing 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes, and a control region.
Karen Yap et al.
Molecular cell, 72(3), 525-540 (2018-10-16)
Functions of many long noncoding RNAs (lncRNAs) depend on their ability to interact with multiple copies of specific RNA-binding proteins (RBPs). Here, we devised a workflow combining bioinformatics and experimental validation steps to systematically identify RNAs capable of multivalent RBP
Wei Wan et al.
Biochimica et biophysica acta, 1844(6), 1059-1070 (2014-03-19)
The genetic incorporation of the 22nd proteinogenic amino acid, pyrrolysine (Pyl) at amber codon is achieved by the action of pyrrolysyl-tRNA synthetase (PylRS) together with its cognate tRNA(Pyl). Unlike most aminoacyl-tRNA synthetases, PylRS displays high substrate side chain promiscuity, low
Kai-Jun Zhang et al.
Gene, 533(1), 100-109 (2013-10-15)
The white-backed planthopper (WBPH), Sogatella furcifera (Horváth), is one of the most destructive pests of rice crops in many Asian countries. Using long-PCR and shotgun library methods, we sequenced the entire mitochondrial genomes (mt-genomes) of two WBPH individuals. Total lengths
Cem Albayrak et al.
Nucleic acids research, 41(11), 5949-5963 (2013-04-17)
We describe a new cell-free protein synthesis (CFPS) method for site-specific incorporation of non-natural amino acids (nnAAs) into proteins in which the orthogonal tRNA (o-tRNA) and the modified protein (i.e. the protein containing the nnAA) are produced simultaneously. Using this
Fu-Jung Lin et al.
PLoS genetics, 9(5), e1003516-e1003516 (2013-05-30)
Mouse Ikbkap gene encodes IKAP--one of the core subunits of Elongator--and is thought to be involved in transcription. However, the biological function of IKAP, particularly within the context of an animal model, remains poorly characterized. We used a loss-of-function approach
Małgorzata Cieśla et al.
Biochimica et biophysica acta, 1843(6), 1103-1110 (2014-03-01)
Yeast Fba1 (fructose 1,6-bisphosphate aldolase) is a glycolytic enzyme essential for viability. The overproduction of Fba1 enables overcoming of a severe growth defect caused by a missense mutation rpc128-1007 in a gene encoding the C128 protein, the second largest subunit
Yang Zhou et al.
Nucleic acids research, 41(11), 5669-5678 (2013-04-23)
The conserved pre-mRNA retention and splicing (RES) complex, which in yeast consists of Bud13p, Snu17p and Pml1p, is thought to promote nuclear retention of unspliced pre-mRNAs and enhance splicing of a subset of transcripts. Here, we find that the absence
Keiichiro Hiratsu et al.
Molecular genetics and genomics : MGG, 288(12), 707-715 (2013-10-25)
The factors maintaining genomic integrity, which have been studied in detail in other species, have yet to be investigated in plants. Recent progress in gene-silencing technology has made it possible to produce transgenic plants with loss-of-function phenotypes for the effective
Eikan Mishima et al.
Journal of the American Society of Nephrology : JASN, 25(10), 2316-2326 (2014-05-17)
Tissue damage by oxidative stress is a key pathogenic mechanism in various diseases, including AKI and CKD. Thus, early detection of oxidative tissue damage is important. Using a tRNA-specific modified nucleoside 1-methyladenosine (m1A) antibody, we show that oxidative stress induces
Jinwei Zhang et al.
Nature, 500(7462), 363-366 (2013-07-31)
In Gram-positive bacteria, T-box riboswitches regulate the expression of aminoacyl-tRNA synthetases and other proteins in response to fluctuating transfer RNA aminoacylation levels under various nutritional states. T-boxes reside in the 5'-untranslated regions of the messenger RNAs they regulate, and consist
Daniel W Thomson et al.
Nucleic acids research, 43(1), 470-481 (2014-12-03)
High-throughput sequencing reveals an abundance of microRNA-sized fragments derived from larger non-coding RNAs. Roles for these small RNAs in gene silencing are suggested by their co-precipitation with Argonaute, the microRNA effector protein, though the extent to which they suppress gene
Eleni Kyriakou et al.
Gene, 540(1), 78-85 (2014-02-25)
Species of the genus Mytilus carry two mitochondrial genomes in obligatory coexistence; one transmitted though the eggs (the F type) and one through the sperm (the M type). We have studied the 3' and 5' ends of rRNA and tRNA
Thomas D Grant et al.
Journal of molecular biology, 425(14), 2480-2493 (2013-04-16)
Eukaryotic glutaminyl-tRNA synthetase (GlnRS) contains an appended N-terminal domain (NTD) whose precise function is unknown. Although GlnRS structures from two prokaryotic species are known, no eukaryotic GlnRS structure has been reported. Here we present the first crystallographic structure of yeast
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