Inconsistencies in the published rabbit ribosomal rRNAs: a proposal for uniformity in sequence and site numbering
- Swastik De1,
- Michelle Zhou2,
- Zuben P Brown1,
- Raymond N Burton-Smith3,
- Yaser Hashem4,
- Tatyana Pestova5,
- Christopher U.T. Hellen5 and
- Joachim Frank1,6
- 1 Columbia University;
- 2 Irvington High School, Irvington, NY 10533, USA;
- 3 Exploratory Center for Life and Living Systems;
- 4 Institut Europeen de Chimie et Biologie, U1212 Inserm, Universite de Bordeaux, Pessac, France;
- 5 Department of Cell Biology, SUNY Downstate Medical Center, Brooklyn, NY, USA
- ↵* Corresponding author; email: jf2192{at}cumc.columbia.edu
Abstract
Examination of all publicly available Oryctolagus cuniculus (rabbit) ribosome cryo-EM structures reveals numerous confusing inconsistencies. First, there are a plethora of single nucleotide differences among the various rabbit 28S and 18S rRNA structures. Second, two nucleotides are absent from the NCBI Reference Sequence for the 18S rRNA gene. Moving forward, we propose using the Broad Institute's rabbit whole genome shotgun sequence and numbering to reduce modeling ambiguity and improve consistency between ribosome models.
Keywords
- Received October 22, 2024.
- Accepted February 24, 2025.
- Published by Cold Spring Harbor Laboratory Press for the RNA Society
This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.
