Leveraging massively parallel reporter assays for evolutionary questions

Journal article


Gallego Romero, Irene and Lea, Amanda J.. (2023). Leveraging massively parallel reporter assays for evolutionary questions. Genome Biology. 24(1), p. Article 26. https://doi.org/10.1186/s13059-023-02856-6
AuthorsGallego Romero, Irene and Lea, Amanda J.
Abstract

A long-standing goal of evolutionary biology is to decode how gene regulation contributes to organismal diversity. Doing so is challenging because it is hard to predict function from non-coding sequence and to perform molecular research with non-model taxa. Massively parallel reporter assays (MPRAs) enable the testing of thousands to millions of sequences for regulatory activity simultaneously. Here, we discuss the execution, advantages, and limitations of MPRAs, with a focus on evolutionary questions. We propose solutions for extending MPRAs to rare taxa and those with limited genomic resources, and we underscore MPRA’s broad potential for driving genome-scale, functional studies across organisms.

Year2023
JournalGenome Biology
Journal citation24 (1), p. Article 26
PublisherBiomed Central Ltd
ISSN1474-760X
Digital Object Identifier (DOI)https://doi.org/10.1186/s13059-023-02856-6
PubMed ID36788564
Scopus EID2-s2.0-85148086045
PubMed Central IDPMC9926830
Open accessPublished as ‘gold’ (paid) open access
Page range1-18
FunderVanderbilt University
Searle Scholars Program
National Institutes of Health (NIH), United States of America
Australian Research Council (ARC)
Publisher's version
License
File Access Level
Open
Output statusPublished
Publication dates
Online14 Feb 2023
Publication process dates
Accepted17 Jan 2023
Deposited03 Apr 2025
ARC Funded ResearchThis output has been funded, wholly or partially, under the Australian Research Council Act 2001
Grant IDR35GM147267
DP200101552
Additional information

© The Author(s) 2023.

This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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