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We narrowed to 23 results for: trna

Showing: 1 - 20 of 23 results

  1. Back to Bacteria: CRISPR gRNA Multiplexing Using tRNAs

    Type
    Blog Post
    Published
    June 2, 2015, 6:06 p.m.
    ...polycistronic glycine tRNA-gRNA genes (PTGs) in the forms tRNA-gRNA and tRNA-gRNA-tRNA, with short 5’ spacer...U)tail in tRNA-gRNA constructs or a 1-4 base tail from the second tRNA in the tRNA-gRNA-tRNA constructs...by the tRNA processing machinery present in almost every living organism. Precursor, or pre-tRNAs are cleaved...conserved cellular machinery to process gRNAs. Hijacking tRNA processing to make gRNAs In a recently published...eukaryotes (E in bacteria), and only a few elements of tRNAs are necessary for recognition and cleavage. This... compromising cleavage efficiency. In addition, tRNAs contain internal transcriptional elements that enhance...increasing the levels of gRNA expression. Since tRNAs are among the most abundant molecules in a cell,...

  2. Plasmids 101: Codon usage bias

    Type
    Blog Post
    Published
    Sept. 27, 2018, 1:09 p.m.
    ...produce tRNAs that recognize different codons, modify the tRNAs correctly, and charge the tRNAs with the...charged tRNAs may be produced at a lower rate than proteins encoded by highly abundant, charged tRNAs. For...abundant, charged tRNAs but will stall at regions calling for low abundance, poorly charged tRNAs. When the ribosome... by producing and charging specific tRNA pools. For example, tRNAs used in genes encoding amino acid biosynthetic...codons, it only needs to produce a subset of charged tRNAs and therefore may need fewer resources for the entire.... coli preferentially upregulates production of tRNAs that recognize codons found in highly expressed ...mixture of codons with highly and poorly charged tRNAs, different regions of the protein may be translated...

  3. DAP arrays for multiplex gene editing

    Type
    Blog Post
    Published
    July 7, 2022, 1:15 p.m.
    ...multiplex CRISPR screening.   Using tRNAs Luckily, a fun feature of tRNA was fully unleashed by the Gao Lab... human cysteine tRNA stood out from their initial testing. It outperformed other tRNA candidates (either...array, DAP arrays use tRNA itself, as short as 75-nt, to both drive and process the tRNA-gRNA arrays, which...applications when repetitive tRNA sequences must be avoided, different tRNAs with optimized 5’ leader sequences...system to minimal size. To do so, they harnessed the tRNA processing mechanism, which is conserved in all ..., a single array encoding the tandemly assembled tRNA-gRNAs is placed downstream of a lengthy promoter... the individual gRNAs are released by endogenous tRNA processing machineries, specifically, RNaseZ and...

  4. Using Phosphoserine to Study Protein Phosphorylation

    Type
    Blog Post
    Published
    June 23, 2016, 2:30 p.m.
    ...phosphoserine-tRNA synthetase that serves as an intermediate on the path to the formation of cysteinyl-tRNA (4)....incorporate phosphoserine A Sep-tRNA synthetase, which charges this tRNA with phosphoserine A specialized... Sep-tRNA synthetase, and EF-Sep – an optimized elongation factor that accepts Sep-charged tRNAs during..., Tong, et al. "Cysteinyl‐tRNA formation: the last puzzle of aminoacyl‐tRNA synthesis." FEBS letters 462.3...archea: these organisms lacked a classic cysteinyl tRNA synthetase, despite abundant incorporation of cysteine...). The discovery of a phosphoserine (Sep)-tRNA synthetase enabled researchers to create an orthogonal ...components required for translation (Figure 1): A tRNA that recognizes a specific ‘open’ codon and utilizes...

  5. To Codon Optimize or Not: That is the Question

    Type
    Blog Post
    Published
    Nov. 12, 2020, 2:15 p.m.
    ... 61 possible tRNAs. Cells however, may not express all 61 of these tRNAs and those tRNAs that are expressed... protein synthesis relies on transfer RNAs (tRNAs). tRNAs bind to and deliver amino acids to the ribosome...translation by different tRNAs, including those that exhibit wobble base-pairing (a tRNA that can recognize ...into the growing polypeptide chain. One part of the tRNA contains the anticodon,  a three nucleotide sequence...complementary to the mRNA sequence. The 3’ end of  the tRNA binds the amino acid that corresponds to the anticodon...Mauro and Chappell, 2014). Due to this variation in tRNA expression, the codons that encode a protein may...synthesis. A ribosome interacts with mRNA and charged tRNAs to build a peptide. Image from Mariana Ruiz Villarreal...

  6. GCE4All: Making Genetic Code Expansion Accessible

    Type
    Blog Post
    Published
    June 15, 2023, 1:15 p.m.
    ...for uptake by the cells. Second, you’ll need tRNAs and tRNA synthetases specific to the ncAA and orthogonal...are also used. Note that some systems have the tRNA, tRNA synthetase, and/or a biosynthetic pathway for... each of the three factors: the ncAA, the tRNA, and the tRNA synthetases. And, naturally, rarely are the...the noncanonical amino acid in the media and the tRNAs and synthetase introduced to the bacteria using ...

  7. Special Delivery: Fluorophore Targeting for FRET Studies

    Type
    Blog Post
    Published
    July 19, 2016, 2:30 p.m.
    ...Davis, 2015). By using a novel aminoacyl tRNA synthetase/tRNA pair, a researcher can lure the ribosome...substantial: Plasmid tRNA Synthetase Expression Host pMAH-POLY Polyspecific aminoacyl-tRNA Synthetase Mammalian...can site-specifically label it with finesse using tRNA suppression technology (Fig. 1) (Dumas, Lercher,...into a desired site. During translation, the novel tRNA/unnatural amino acid finds the UAG codon in the ...incorporation of the attached fluorophore. However, since tRNA suppression competes with natural chain termination... addition, a major overhaul of the cell’s native tRNA synthetases is required and thus far, this method...coli and Xenopus oocytes, mainly). Nevertheless, tRNA suppression plasmids are available from depositing...

  8. Reaching out to China: Canton Nucleic Acids Forum (CNAF) 2015

    Type
    Blog Post
    Published
    Dec. 1, 2015, 3:30 p.m.
    ... understanding complex regulation of and by tRNAs and tRNA-derived RNAs. Stay tuned for big developments...Dr. Lowe talked about his work on the 500+ human tRNA genes and, until now, we've overlooked regulatory...muck up northern blot results and we didn’t give tRNAs much thought. High throughput transcriptome sequencing...project consortium did not do a good job of seeing tRNAs because they contain “hard stop” mutations. New ...

  9. Hot Plasmids and Viral Preps - May 2021

    Type
    Blog Post
    Published
    May 18, 2021, 1:15 p.m.
    ...aminoacyl tRNA synthetases By Kate Harten Recombinant antibodies targeting fourteen aminoacyl tRNA synthetases... SARS-CoV-2 Recombinant antibodies for aminoacyl tRNA synthetases Nanocompartments for yeast bioproduction...conformation. Because many aaRSs exist within a multi-tRNA synthetase complex, the team investigated whether...by generating antibodies for additional aminoacyl tRNA synthetases.     Figure 2: Specific binding...

  10. Multiplex Genome Editing with CRISPR-Cpf1

    Type
    Blog Post
    Published
    May 9, 2017, 2:12 p.m.
    ...of multiple gRNAs (i.e. Csy4 cleavage sequence, tRNAs, multiple individual promoters).  spCas9 and its...or the inclusion of processing signals, such at tRNAs, to process the array into functional crRNAs. Pro-Tip...sequences that allow for array processing, i.e. tRNAs or Csy4 cleavage sites. This eliminates bulk from...

  11. Hot Plasmids Spring 2024

    Type
    Blog Post
    Published
    May 23, 2024, 1:15 p.m.
    ...with internal barcodes (iBARs), multiplexed using tRNAs, within the lentiviral 3’ long terminal repeats ...internal barcode and separated multiple sgRNAs with tRNAs, which are cleaved out of the RNA transcript by ...endogenous processing enzymes (Figure 1). To ensure this tRNA processing only occurs on the RNA polymerase III...

  12. CRISPR 101: Multiplex Expression of gRNAs

    Type
    Blog Post
    Published
    Sept. 10, 2020, 11:45 a.m.
    ... gRNAs are flanked by glycine tRNAs to create polycistronic glycine tRNA-gRNA (PTG) constructs. Eukaryotic...Eukaryotic RNases P and Z recognize the tRNA sequences, cleave them, and release the gRNAs. PTGs are assembled...multiplex editing capability with the endogenous tRNA-processing system.” Proceedings of the National ...

  13. CRISPR-mediated Plant Base Editors

    Type
    Blog Post
    Published
    Jan. 3, 2019, 1:35 p.m.
    ...protein, they created a mutant library of E. coli tRNA adenosine deaminases (ecTadA), fused it with dCas9...expression system. We use a single polycistronic tRNA-gRNA (PTG) gene system to clone multiple protospacers...multiplex editing capability with the endogenous tRNA-processing system." Proceedings of the National ...

  14. The Fluorescent Vegetables in Aptamer Soup

    Type
    Blog Post
    Published
    Jan. 29, 2019, 2:27 p.m.
    ...instability at 37°C (Ouellet et al., 2016) and requires a tRNA scaffold to improve its stability in vivo. However... uniquely transcribed by RNA Polymerase III (5S, tRNA and U6) and measuring Corn fluorescence by flow ...

  15. Optogenetics + CRISPR, Using Light to Control Genome Editing

    Type
    Blog Post
    Published
    Sept. 3, 2020, 12:15 p.m.
    ...Cas9, the group used an engineered pyrrolysyl tRNA/tRNA synthetase pair which would add the PCK upon reaching...site-specific incorporation of amino acids using pyrrolysl tRNA synthetase, read this article). The group first ...

  16. What's New in CRISPR - Spring 2019

    Type
    Blog Post
    Published
    March 21, 2019, 12:47 p.m.
    ...developed a new plant base editor from an evolved tRNA adenosine deaminase that is fused to a nicking Cas9...

  17. What's New in CRISPR - December 2019

    Type
    Blog Post
    Published
    Dec. 17, 2019, 2:37 p.m.
    ...activation-induced cytidine deaminase (AID) and an engineered tRNA adenosine deaminase (TadA) to a catalytically impaired...

  18. Plasmids 101: Protein Expression

    Type
    Blog Post
    Published
    June 7, 2018, 1:17 p.m.
    ...machinery. These include ribosomes, RNA polymerase, tRNAs, ribonucleotides and amino acids. Cell-free expression...
Showing: 1 - 20 of 23 results