Publications
Publications
Supporting the scientific spirit of transparency, the Stowers Institute for Medical Research makes the data underlying its scientific publications freely accessible to the scientific community. Access to original, unprocessed data allows other scientists to validate and extend findings made by Stowers researchers.
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Codon optimality influences homeostatic gene expression in zebrafish
DeVore ML, Bazzini AA. G3 (Bethesda). 2024 doi: 10.1093/g3journal/jkae247.
Protein profiling of zebrafish embryos unmasks regulatory layers during early embryogenesis
da Silva Pescador G, Baia Amaral D, Varberg JM, Zhang Y, Hao Y, Florens L, Bazzini AA. Cell Rep. 2024;43:114769.
Zika virus non-coding RNAs antagonize antiviral responses by PKR-mediated translational arrest
Pallares HM, Gonzalez Lopez Ledesma MM, Oviedo-Rouco S, Castellano LA, Costa Navarro GS, Fernandez-Alvarez AJ, D'Andreiz MJ, Aldas-Bulos VD, Alvarez DE, Bazzini AA, Gamarnik AV. Nucleic Acids Res. 2024;52:11128-11147.
Dengue virus preferentially uses human and mosquito non-optimal codons
Castellano L, McNamara R, Pallares H, Gamamik AV, Alvarez D, Bazzini A. 2024.
miR-430 regulates zygotic mRNA during zebrafish embryogenesis
Baia Amaral D, Egidy R, Perera A, Bazzini AA. Genome Biol. 2024;25:74.
iCodon customizes gene expression based on the codon composition
Diez M, Medina-Munoz SG, Castellano LA, da Silva Pescador G, Wu Q, Bazzini AA. Sci Rep. 2022;12:12126 doi: 10.1038/s41598-022-15526-7.
Optimized CRISPR-RfxCas13d system for RNA targeting in zebrafish embryos
Hernandez-Huertas L, Kushawah G, Diaz-Moscoso A, Tomas-Gallardo L, Moreno-Sanchez I, da Silva Prescador G, Bazzini AA, Moreno-Mateos MA. STAR-Protocol. 2022;3:101058. doi: 10.1016/j.xpro.2021.101058..
Crosstalk between codon optimality and cis-regulatory elements dictates mRNA stability
Medina-Munoz SG, Kushawah G, Castellano LA, Diez M, DeVore ML, Salazar MJB, Bazzini AA. [published ahead of print January 7 2021]. Genome Biol. 2021;22:14. doi: 10.1186/s13059-020-02251-5.
CRISPR-Cas13d Induces Efficient mRNA Knockdown in Animal Embryos
Kushawah G, Hernandez-Huertas L, Abugattas-Nunez Del Prado J, Martinez-Morales JR, DeVore ML, Hassan H, Moreno-Sanchez I, Tomas-Gallardo L, Diaz-Moscoso A, Monges DE, Guelfo JR, Theune WC, Brannan EO, Wang W, Corbin TJ, Moran AM, Sanchez Alvarado A, Malaga-Trillo E, Takacs CM, Bazzini AA, Moreno-Mateos MA. Dev Cell. 2020;54:805-817 e807.
Translation of small downstream ORFs enhances translation of canonical main open reading frames
Wu Q, Wright M, Gogol MM, Bradford WD, Zhang N, Bazzini AA. EMBO J. 2020;39:e104763. doi: 104710../embj.2020104763.
Translation affects mRNA stability in a codon-dependent manner in human cells
Wu Q, Medina SG, Kushawah G, DeVore ML, Castellano LA, Hand JM, Wright M, Bazzini AA. eLife. 2019;8:e45396. doi: 45310.47554/eLife.45396.
Translation and mRNA Stability Control
Wu Q, Bazzini AA. [published ahead of print April 1 2023]. Annu Rev Biochem 2023.
Casting CRISPR-Cas13d to fish for microprotein functions in animal development
Treichel AJ, Bazzini AA. iScience. 2022;25:105547 doi: 10.1016/j.isci.2022.105547.
Standardized annotation of translated open reading frames
Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF, Yang YT, Alba MM, Aspden JL, Baranov PV, Bazzini AA, Bruford E, Martin MJ, Calviello L, Carvunis AR, Chen J, Couso JP, Deutsch EW, Flicek P, Frankish A, Gerstein M, Hubner N, Ingolia NT, Kellis M, Menschaert G, Moritz RL, Ohler U, Roucou X, Saghatelian A, Weissman JS, van Heesch S. Nat Biotechnol. 2022;40:994-999.
Systems to study codon effect on post-transcriptional regulation of gene expression
Wu Q, Bazzini AA. Methods.2018;137:82-89.
Poly(A) tails: longer is not always better
Castellano LA, Bazzini AA. Nat Struct Mol Biol. 2017;24:1010-1011.
When LIN41 Comes to a Fork in the Road, It Takes BOTH Paths: Translational Repression OR mRNA Decay, Depending on the Target Site Position
Hand JM, Bazzini AA. Mol Cell.2017;65:375-377.
