PUBLICATION
Strategies for Genetic Inactivation of Long Noncoding RNAs in Zebrafish
- Authors
- Lavalou, P., Eckert, H., Damy, L., Constanty, F., Majello, S., Bitetti, A., Graindorge, A., Shkumatava, A.
- ID
- ZDB-PUB-190507-8
- Date
- 2019
- Source
- RNA (New York, N.Y.) 25(8): 897-904 (Journal)
- Registered Authors
- Bitetti, Angelo, Eckert, Hélène, Graindorge, Antoine, Majello, Sara, Shkumatava, Alena
- Keywords
- CRISPR-Cas9, hypomorph, long noncoding RNAs, polyA signal, zebrafish
- MeSH Terms
-
- Animals
- CRISPR-Cas Systems
- Gene Expression Regulation
- Gene Knock-In Techniques
- Gene Silencing*
- Organ Specificity
- RNA, Long Noncoding/genetics*
- Sequence Deletion
- Transcription Initiation Site
- Zebrafish/genetics*
- PubMed
- 31043511 Full text @ RNA
Citation
Lavalou, P., Eckert, H., Damy, L., Constanty, F., Majello, S., Bitetti, A., Graindorge, A., Shkumatava, A. (2019) Strategies for Genetic Inactivation of Long Noncoding RNAs in Zebrafish. RNA (New York, N.Y.). 25(8):897-904.
Abstract
The number of annotated long noncoding RNAs (lncRNAs) continues to grow, however their functional characterization in model organisms has been hampered by the lack of reliable genetic inactivation strategies. While partial or full deletions of lncRNA loci disrupt lncRNA expression, they do not permit the formal association of a phenotype with the encoded transcript. Here, we examined several alternative strategies for generating lncRNA null alleles in zebrafish and found that they often resulted in unpredicted changes to lncRNA expression. Removal of the transcriptional start sites (TSSs) of lncRNA genes resulted in hypomorphic mutants due to the usage of either constitutive or tissue-specific alternative TSSs. Deletions of short, deeply conserved lncRNA regions can also lead to overexpression of truncated transcripts. By contrast, a knock-in of a polyadenylation signal enabled complete inactivation of malat1, the most abundant vertebrate lncRNA. In summary, lncRNA null alleles require extensive in vivo validation and we propose insertion of transcription termination sequences as the most reliable approach to generate lncRNA-deficient zebrafish.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping