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Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
Published on: May 9, 2017
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Comparative analysis of whole flower transcriptomes in the Zingiberales
Ana Maria R Almeida1, Alma Piñeyro-Nelson2, Roxana B Yockteng3,4
1Department of Biological Sciences, California State University, Hayward, Hayward, CA, United States of America.
Peerj
|August 30, 2018
Summary
Next-generation sequencing (NGS) enabled flower transcriptome analysis in Zingiberales. This study identified shared and unique genes, offering insights into floral development evolution in this monocot order.
Area of Science:
- Evolutionary Biology
- Genomics
- Molecular Biology
Background:
- Next-generation sequencing (NGS) provides genomic-scale data for non-model organisms without reference genomes.
- Understanding flower development evolution in Zingiberales is crucial for plant biology.
Purpose of the Study:
- To investigate the evolution of molecular mechanisms in Zingiberales flower development.
- To compare floral transcriptomes across exemplar species in the Zingiberales order.
Main Methods:
- Whole flower transcriptome libraries were analyzed using a comparative approach.
- De novo assembly was employed to identify coding genes across species.
- Focus was placed on identifying shared, order-specific, and lineage-specific genes.
Main Results:
- Identified 4,153 coding genes shared across all analyzed floral transcriptomes.
- Discovered 1,748 genes specific to the Zingiberales order.
- Found lineage-specific genes in ginger (666), banana (2,001), and the outgroup Dichorisandra thyrsiflora (2,686).
Conclusions:
- Lineage-specific genes may underlie unique floral diversification mechanisms in Zingiberales.
- Comparative transcriptome analysis reveals conserved and unique molecular processes in floral development.
- Future research on non-coding RNAs could uncover further complexity in Zingiberales floral evolution.
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