Click here to close Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly. We suggest using a current version of Chrome, FireFox, or Safari.
Biology (Basel) 2019 Aug 24;83:. doi: 10.3390/biology8030061.
Show Gene links Show Anatomy links

Microsyntenic Clusters Reveal Conservation of lncRNAs in Chordates Despite Absence of Sequence Conservation.

Herrera-Úbeda C , Marín-Barba M , Navas-Pérez E , Gravemeyer J , Albuixech-Crespo B , Wheeler GN , Garcia-Fernàndez J .

Homologous long non-coding RNAs (lncRNAs) are elusive to identify by sequence similarity due to their fast-evolutionary rate. Here we develop LincOFinder, a pipeline that finds conserved intergenic lncRNAs (lincRNAs) between distant related species by means of microsynteny analyses. Using this tool, we have identified 16 bona fide homologous lincRNAs between the amphioxus and human genomes. We characterized and compared in amphioxus and Xenopus the expression domain of one of them, Hotairm1, located in the anterior part of the Hox cluster. In addition, we analyzed the function of this lincRNA in Xenopus, showing that its disruption produces a severe headless phenotype, most probably by interfering with the regulation of the Hox cluster. Our results strongly suggest that this lincRNA has probably been regulating the Hox cluster since the early origin of chordates. Our work pioneers the use of syntenic searches to identify non-coding genes over long evolutionary distances and helps to further understand lncRNA evolution.

PubMed ID: 31450588
PMC ID: PMC6784235
Article link: Biology (Basel)
Grant support: [+]

Species referenced: Xenopus
Genes referenced: en2 hoxa1 hoxa4 hoxa5 hoxa6 hoxa7 otx2 st18
GO keywords: head development
Morpholinos: hbg1 cMO1

Article Images: [+] show captions
References [+] :
Albuixech-Crespo, Origin and evolution of the chordate central nervous system: insights from amphioxus genoarchitecture. 2017, Pubmed