IDT publications

Peer-reviewed articles published by IDT scientists. Filter using one or more categories to focus on specific topics.

159 Citations found

Li MA, Amaral PP, Cheung P, Bergmann JH, Kinoshita M, Kalkan T, Ralser M, Robson S, von Meyenn F, Paramor M, Yang F, Chen C, Nichols J, Spector DL, Kouzarides T, He L, Smith A. (2017) A lncRNA fine tunes the dynamics of a cell state transition involving Lin28, let-7 and de novo DNA methylation. Elife, 6 : e23468.
Choi YJ, Lin CP, Risso D, Chen S, Kim TA, Tan MH, Li JB, Wu Y, Chen C, Xuan Z, Macfarlan T, Peng W, Lloyd KC, Kim SY, Speed TP, He L. (2017) Deficiency of microRNA miR-34a expands cell fate potential in pluripotent stem cells. Science, 355 : eaag1927.

The authors of this paper describe Easi-CRISPR, a robust and efficient strategy for targeted DNA cassette insertion in mice. The international consortium of 7 research teams injected mouse zygotes with long single-stranded DNA donors (Megamer Single-Stranded DNA Fragments) and pre-assembled Cas9 ribonucleoprotein complexes (Alt-R crRNA, tracrRNA, and Cas9 nuclease), and obtained successful knock-in at 13 loci.

Potts AH, Vakulskas CA, Pannuri A, Yakhnin H, Babitzke P, Romeo T. (2017) Global role of the bacterial post-transcriptional regulator CsrA revealed by integrated transcriptomics. Nat Commun, 8 : 1596.

In order to operate the International Space Station (ISS) National Laboratory more like an Earth-based lab, NASA has developed a molecular biology suite for microgravity conditions called WetLab-2. WetLab-2 is composed of tools, reagents, and methods, which allow on-orbit processing of biological samples and real-time gene expression analysis in space.

This paper describes the results from the WetLab-2 validation experiments. Specifically, qPCR was performed on a concentration series of DNA calibration standards, and RT-qPCR with ZEN Double-Quenched Probes was conducted on RNA that had been extracted and purified (on-orbit) from frozen E. Coli and mouse liver tissue.

Lennox KA, Vakulskas CA, Behlke MA. (2017) Non-nucleotide modification of anti-miRNA oligonucleotides. Methods Mol Biol, 1517 : 51–69.
Flenker KS, Burghardt EL, Dutta N, Burns WJ, Grover JM, Kenkel EJ, Weaver TM, Mills J, Kim H, Huang L, Owczarzy R, Musselman CA, Behlke MA, Ford B, McNamara JO 2nd. (2017) Rapid detection of urinary tract infections via bacterial nuclease activity. Mol Ther, 25 : 1353–1362.
Jacobi AM, Rettig GR, Turk R, Collingwood MA, Zeiner SA, Quadros RM, Harms DW, Bonthuis PJ, Gregg C, Ohtsuka M, Gurumurthy CB, Behlke MA. (2017) Simplified CRISPR tools for efficient genome editing and streamlined protocols for their delivery into mammalian cells and mouse zygotes. Methods, 121–122 : 16–28.

Research scientists from IDT and the Gurumurthy lab (University of Nebraska Medical Center) describe methods for genome editing with ribonucleoprotein RNP complexes, which contain chemically-modified, synthetic guide RNAs and recombinant Cas9 protein. RNP delivery methods are described for lipofection and electroporation in mammalian cells, as well as microinjection in murine zygotes, either with or without addition of single-stranded HDR template DNA.

Falabella M, Sun L, Barr J, Pena AZ, Kershaw EE, Gingras S, Goncharova EA, Kaufman BA. (2017) Single-step qPCR and dPCR detection of diverse CRISPR-Cas9 gene editing events in vivo. G3 (Bethesda), 7 : 3533–3542.
Robertson KA, Hsieh WY, Forster T, Blanc M, Lu H, Crick PJ, Yutuc E, Watterson S, Martin K, Griffiths SJ, Enright AJ, Yamamoto M, Pradeepa MM, Lennox KA, Behlke MA, Talbot S, Haas J, Dölken L, Griffiths WJ, Wang Y, Angulo A, Ghazal P. (2016) An interferon regulated microRNA provides broad cell-intrinsic antiviral immunity through multihit host-directed targeting of the sterol pathway. PLoS Biol, 14 : e1002364.
Pépin G, Ferrand J, Höning K, Jayasekara WS, Cain JE, Behlke MA, Gough DJ, G Williams BR, Hornung V, Gantier MP. (2016) Cre-dependent DNA recombination activates a STING-dependent innate immune response. Nucleic Acids Res, 44 : 5356–5364.
Rocha CS, Lundin KE, Behlke MA, Zain R, El Andaloussi S, Smith CI. (2016) Four novel splice-switch reporter cell lines: distinct impact of oligonucleotide chemistry and delivery vector on biological activity. Nucleic Acid Ther, 26 : 381–391.
Begin-Lavallee V, Midavaine E, Dansereau MA, Tetreault P, Longpre JM, Jacobi AM, Rose SD, Behlke MA, Beaudet N, Sarret P. (2016) Functional inhibition of chemokine receptor CCR2 by dicer-substrate-siRNA prevents pain development. Mol Pain, 12 : 1–16.
Behlke MA, Jacobi AM, Collingwood MA, Schubert MS, Rettig GR, and Turk R . (2016) Genome editing using the Alt-R system with Cas9 protein. Experimental Medicine, Extra Edition (Japan), 34 : 205–210.
Banks JC, Clark JA, Nield P, Staton J-AL, Wagner, E. (2016) Haplotyping cryptic Adélie penguin taxa using low-cost, high-resolution melt curves. New Zea Journ Zool, 43 : 163–170.
Lennox KA, Behlke, MA. (2016) Mini-review on current strategies to knockdown long non-coding RNAs. J Rare Dis Res Treat , 1 : 66–70.
Zhao D, Yang Y, Qu N, Chen M, Ma Z, Krueger CJ, Behlke MA, Chen AK. (2016) Single-molecule detection and tracking of RNA transcripts in living cells using phosphorothioate-optimized 2′-O-methyl RNA molecular beacons. Biomaterials, 100 : 172–183.
Ramachandran S, Osterhaus SR, Parekh KR, Jacobi AM, Behlke MA, McCray PB Jr. (2016) SYVN1, NEDD8, and FBXO2 regulate δ508-CFTR ubiquitin-mediated proteasomal degradation. J Biol Chem, 291 : 25489–25504.
Pauli A, Montague TG, Lennox KA, Behlke MA, Schier AF. (2015) Antisense oligonucleotide-mediated transcript knockdown in Zebrafish. PLoS One, 10 : e0139504.
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