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RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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miRTil: An Extensive Repository for Nile Tilapia microRNA Next Generation Sequencing Data.

Luiz Augusto Bovolenta1, Danillo Pinhal2, Marcio Luis Acencio3

  • 1Department of Biophysics and Pharmacology, Institute of Biosciences of Botucatu, São Paulo State University-UNESP, Botucatu SP CEP:18618-689, Brazil.

Cells
|July 26, 2020
PubMed
Summary
This summary is machine-generated.

A new database, miRTil, offers comprehensive information on Nile Tilapia microRNAs (miRNAs) and their targets. This resource aids in understanding fish genetics and improving aquaculture productivity through biotechnological approaches.

Keywords:
Nile tilapiadatabasemicroRNAmicroRNA expression profilemicroRNA target predictionpost-transcriptional regulation

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Area of Science:

  • Aquaculture
  • Genomics
  • Bioinformatics

Background:

  • Nile tilapia is a globally significant cultivated fish and a model for evolutionary research.
  • Biotechnological methods, particularly microRNAs (miRNAs), are crucial for enhancing aquaculture traits.
  • A centralized resource for Nile Tilapia miRNA data is needed for research and data analysis.

Purpose of the Study:

  • To create a comprehensive, open repository for Nile Tilapia microRNA (miRNA) information.
  • To integrate experimental and in silico data for miRNAs in Nile Tilapia.
  • To facilitate the analysis of RNA sequencing data and support trait selection in aquaculture.

Main Methods:

  • Development of the miRTil database, an open repository for Nile Tilapia miRNAs.
  • Inclusion of data from experimental and in silico approaches.
  • Integration of miRNA structure, genomic context, predicted targets, expression profiles, and 5p/3p arm usage.

Main Results:

  • The miRTil database contains 734 mature miRNAs from 11 tissues and 5 developmental stages.
  • It provides detailed information on miRNA characteristics and expression patterns.
  • A network of 4936 predicted targets and 19,580 interactions is included.

Conclusions:

  • The miRTil database serves as a valuable reference for Nile Tilapia miRNA research.
  • It supports the interpretation of RNA sequencing data and aids in selecting economically important traits.
  • This resource advances biotechnological applications in Nile Tilapia aquaculture.