Identification and Characterization of a Class of MALAT1-like Genomic Loci.

TitleIdentification and Characterization of a Class of MALAT1-like Genomic Loci.
Publication TypeJournal Article
Year of Publication2017
AuthorsZhang B, Mao YS, Diermeier SD, Novikova IV, Nawrocki EP, Jones TA, Lazar Z, Tung C-S, Luo W, Eddy SR, Sanbonmatsu KY, Spector DL
JournalCell Rep
Volume19
Issue8
Pagination1723-1738
Date Published2017 05 23
ISSN2211-1247
KeywordsAnimals, Base Sequence, Cell Nucleus, Genetic Loci, Genome, Human, Humans, Lizards, Male, Nucleic Acid Conformation, Organ Specificity, RNA, Long Noncoding, RNA, Small Interfering, Spermatocytes
Abstract

<p>The MALAT1 (Metastasis-Associated Lung Adenocarcinoma Transcript 1) gene encodes a noncoding RNA that is processed into a long nuclear retained transcript (MALAT1) and a small cytoplasmic tRNA-like transcript (mascRNA). Using an RNA sequence- and structure-based covariance model, we identified more than 130 genomic loci in vertebrate genomes containing the MALAT1 3' end triple-helix structure and its immediate downstream tRNA-like structure, including 44 in the green lizard Anolis carolinensis. Structural and computational analyses revealed a co-occurrence of components of the 3' end module. MALAT1-like genes in Anolis carolinensis are highly expressed in adult testis, thus we named them testis-abundant long noncoding RNAs (tancRNAs). MALAT1-like loci also produce multiple small RNA species, including PIWI-interacting RNAs (piRNAs), from the antisense strand. The 3' ends of tancRNAs serve as potential targets for the PIWI-piRNA complex. Thus, we have identified an evolutionarily conserved class of long noncoding RNAs (lncRNAs) with similar structural constraints, post-transcriptional processing, and subcellular localization and a distinct function in spermatocytes.</p>

DOI10.1016/j.celrep.2017.05.006
Alternate JournalCell Rep
PubMed ID28538188
PubMed Central IDPMC5505346
Grant ListP01 CA013106 / CA / NCI NIH HHS / United States
P30 CA045508 / CA / NCI NIH HHS / United States
R01 GM042694 / GM / NIGMS NIH HHS / United States