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RNA-seq

RNA-seq

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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Updated: Mar 23, 2026

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons

Published on: August 29, 2014

MICROSATELLITE DEVELOPMENT IN RHODOPHYTA USING HIGH-THROUGHPUT SEQUENCE DATA(1).

Lucía Couceiro¹, Isabel Maneiro¹, Stéphane Mauger¹

¹Área de Ecoloxía, Facultade de Ciencias, Universidade da Coruña, Campus de A Zapateira s/n, 1571-A Coruña, Spain CNRS-UPMC, UMR 7144, Équipe BEDIM, Station Biologique de Roscoff, Place Georges Teissier, F-29682 Roscoff Cedex, FranceÁrea de Ecoloxía, Facultade de Ciencias, Universidade da Coruña, Campus de A Zapateira s/n, 1571-A Coruña, SpainCNRS-UPMC, UMR 7144, Équipe BEDIM, Station Biologique de Roscoff, Place Georges Teissier, F-29682 Roscoff Cedex, FranceÁrea de Ecoloxía, Facultade de Ciencias, Universidade da Coruña, Campus de A Zapateira s/n, 1571-A Coruña, Spain.

Journal of Phycology

|March 30, 2016

Summary

Shotgun genome sequencing successfully identified numerous microsatellite loci in two red algae species, demonstrating its effectiveness for marine algae. These findings offer valuable genetic markers for population studies in previously uncharacterized red algae.

Keywords:

454 sequencing Rhodophyta conservation genetics expressed sequence tags microsatellite development primer design seaweed

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Last Updated: Mar 23, 2026

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High-Throughput Metabolic Profiling for Model Refinements of Microalgae

High-Throughput Metabolic Profiling for Model Refinements of Microalgae

Published on: December 4, 2021

Area of Science:

Marine biology
Genomics
Molecular ecology

Background:

Microsatellite loci are crucial for population genetics.
Shotgun genome sequencing is a powerful tool for identifying these loci in nonmodel organisms.
Its application to marine algae, specifically red algae, was previously unexplored.

Purpose of the Study:

To apply shotgun genome sequencing for identifying microsatellite loci in two red algae species.
To assess the feasibility and effectiveness of next-generation sequencing for red algal genomics.
To develop genetic markers for population studies in these marine algae.

Main Methods:

Utilized the 454 next-generation sequencing (NGS) platform for random genome sampling.
Employed data mining tools to identify perfect microsatellite loci.
Performed primer design and tested a subset of loci for PCR amplification and polymorphism.

Main Results:

Identified thousands of perfect microsatellite loci in Grateloupia lanceola and an undescribed Cruoriaceae member.
Successfully designed primers for over a thousand loci in each species.
Found microsatellite density to be at the lower end compared to land plants and animals, with some loci showing potential for population genetic studies.

Conclusions:

Random genome sequencing is a rapid and effective method for developing microsatellite loci in red algae.
This approach opens new avenues for population genetic research in previously unstudied marine algae.
The identified loci provide valuable resources for conservation and ecological studies of red algae.