Bioinformatic Analysis of Ixodes ricinus Long Non-Coding RNAs Predicts Their Binding Ability of Host miRNAs
Metadatos
Mostrar el registro completo del ítemEditorial
MDPI
Materia
Ixodes ricinus Ectoparasite-host interactions Host immunity RNA-sequencing lncRNA
Fecha
2022-08-28Referencia bibliográfica
Medina, J.M... [et al.]. Bioinformatic Analysis of Ixodes ricinus Long Non-Coding RNAs Predicts Their Binding Ability of Host miRNAs. Int. J. Mol. Sci. 2022, 23, 9761. [https://doi.org/10.3390/ijms23179761]
Patrocinador
European Commission CZ.02.2.69/0.0/0.0/20_079/0017809; FEDER (Fondo Europeo De Desarrollo Regional-European Regional Development Fund) A-BIO-481-UGR18; Grant Agency of the Czech Republic 19-382 07247S; ERD Funds; project CePaVip OPVVV 384 CZ.02.1.01/0.0/0.0/16_019/0000759Resumen
Ixodes ricinus ticks are distributed across Europe and are a vector of tick-borne diseases.
Although I. ricinus transcriptome studies have focused exclusively on protein coding genes, the last
decade witnessed a strong increase in long non-coding RNA (lncRNA) research and characterization.
Here, we report for the first time an exhaustive analysis of these non-coding molecules in I. ricinus
based on 131 RNA-seq datasets from three different BioProjects. Using this data, we obtained a
consensus set of lncRNAs and showed that lncRNA expression is stable among different studies.
While the length distribution of lncRNAs from the individual data sets is biased toward short
length values, implying the existence of technical artefacts, the consensus lncRNAs show a more
homogeneous distribution emphasizing the importance to incorporate data from different sources to
generate a solid reference set of lncRNAs. KEGG enrichment analysis of host miRNAs putatively
targeting lncRNAs upregulated upon feeding showed that these miRNAs are involved in several
relevant functions for the tick-host interaction. The possibility that at least some tick lncRNAs act as
host miRNA sponges was further explored by identifying lncRNAs with many target regions for a
given host miRNA or sets of host miRNAs that consistently target lncRNAs together. Overall, our
findings suggest that lncRNAs that may act as sponges have diverse biological roles related to the
tick–host interaction in different tissues.