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Related Experiment Video

Updated: Jul 31, 2025

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Transcriptomic Analysis of C. elegans RNA Sequencing Data Through the Tuxedo Suite on the Galaxy Project

Published on: April 8, 2017

CrusTome: a transcriptome database resource for large-scale analyses across Crustacea.

Jorge L Pérez-Moreno¹, Mihika T Kozma¹, Danielle M DeLeo²

¹Department of Biology, Colorado State University, Fort Collins, CO 80523, USA.

G3 (Bethesda, Md.)

|May 2, 2023

Summary

This summary is machine-generated.

CrusTome is a new database of crustacean transcriptomes, offering valuable data for evolutionary and ecological research. This resource enhances understanding of diverse species and their genetic makeup.

Keywords:

Arthropoda BLAST RNA-seq bioinformatics crustaceans cryptochrome phylogenetics

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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms

Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms

Published on: May 9, 2017

Area of Science:

Genomics and Bioinformatics
Evolutionary Biology
Marine Biology

Background:

Nontraditional model organisms, like crustaceans, possess vast unexplored genomic and transcriptomic data.
Limited availability of genomic and transcriptomic resources hinders research in diverse taxa.
Crustaceans are ecologically significant and economically important but underrepresented in sequence databases.

Purpose of the Study:

To develop and present CrusTome, a comprehensive, publicly available transcriptome database for crustaceans.
To provide a robust resource for evolutionary, ecological, and functional studies using genomic and transcriptomic data.
To demonstrate the utility of CrusTome through phylogenetic analysis of cryptochrome/photolyase proteins.

Main Methods:

Assembly of 201 mRNA transcriptomes (189 crustaceans, 12 ecdysozoans).
Inclusion of 30 previously unpublished crustacean transcriptomes.
Database formatted for BLAST and DIAMOND for sequence similarity searches and orthology assignments.

Main Results:

Creation of CrusTome, a multispecies, multitissue transcriptome database.
Database suitable for high-throughput analyses and phylogenetic inference.
Phylogenetic analysis revealed insights into the evolution of cryptochrome/photolyase proteins in crustaceans.

Conclusions:

CrusTome serves as an evolving, publicly accessible resource for diverse biological studies.
The database facilitates comparative genomics and evolutionary research across crustacean species.
CrusTome empowers researchers to explore the genetic underpinnings of crustacean diversity and function.