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Genomic MRI - a Public Resource for Studying Sequence Patterns within Genomic DNA
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Genomic resources for the study of echinoderm development and evolution.

Gregory A Cary1, R Andrew Cameron1, Veronica F Hinman1

  • 1Department of Biological Sciences, Carnegie Mellon University, Mellon Institute, Pittsburgh, PA, United States.

Methods in Cell Biology
|April 6, 2019
PubMed
Summary

Echinoderm embryos are key models for studying evolution and development. This chapter reviews echinoderm genomic data and methods for analyzing transcriptomes and functional genomics, essential for evolutionary developmental biology research.

Keywords:
Brittle starEchinodermExpressionGene regulatory networkGenomeSea cucumberSea starSea urchin

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Area of Science:

  • * Developmental Biology
  • * Evolutionary Biology
  • * Genomics

Background:

  • * Echinoderms serve as crucial models for investigating biological processes, particularly in developmental biology and evolutionary studies.
  • * Echinoderm embryos are extensively used to understand molecular and cellular mechanisms of development and their evolutionary modifications.
  • * Genomic analysis is fundamental for modern research on echinoderm development and evolution, including gene set querying and functional genomics.

Purpose of the Study:

  • * To provide an overview of the current status of genomic data for echinoderms.
  • * To discuss methodological considerations for analyzing echinoderm genomic datasets.
  • * To guide researchers in utilizing and interpreting genomic data for evolutionary developmental biology.

Main Methods:

  • * Review of existing echinoderm genomic datasets.
  • * Methodological considerations for transcriptome analysis.
  • * Approaches for functional genomics experiments, including identification of cis-regulatory sequences.

Main Results:

  • * Highlights the essential role of genomic data in modern echinoderm research.
  • * Identifies the necessity for researchers to understand the nature and limitations of available genomic data.
  • * Provides practical methodological insights for common genomic analyses.

Conclusions:

  • * Genomic data are indispensable for advancing our understanding of echinoderm development and evolution.
  • * Researchers must be aware of the characteristics and constraints of echinoderm genomic resources.
  • * Effective analysis of transcriptome and functional genomics data is critical for future discoveries in the field.