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Protist.guru: A Comparative Transcriptomics Database for Protists.

Erielle Marie Fajardo Villanueva¹, Peng Ken Lim¹, Jolyn Jia Jia Lim¹

¹School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551, Singapore.

Journal of Molecular Biology

|April 7, 2022

Summary

This summary is machine-generated.

Protists, or microbial eukaryotes, are crucial to ecosystems but understudied. A new online database, protist.guru, uses gene expression data to uncover their biological functions and pathways.

Keywords:

co-expression comparative expression function protist

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Area of Science:

Microbial Ecology
Genomics
Bioinformatics

Background:

Molecular and genomic data have advanced microbial ecology, revealing microbial diversity and ecosystem roles.
Microbial eukaryotes, or protists, remain largely neglected despite their ecological significance.
Gaps in understanding protist biology hinder comprehensive microbial ecosystem studies.

Purpose of the Study:

To address the knowledge gap in microbial eukaryote biology.
To develop an online database, protist.guru, for analyzing protist gene expression data.
To facilitate the identification of genes and pathways in protists.

Main Methods:

Utilized gene expression data from 17 diverse protist species.
Developed protist.guru, an online database with tools for co-expressed gene identification.
Implemented functions for analyzing gene families and co-expression clusters enriched for biological functions.

Main Results:

Successfully created protist.guru, a comprehensive online resource for protist gene expression analysis.
Demonstrated the database's utility in identifying genes involved in essential pathways, exemplified by secondary carotenoid synthesis in *Haematococcus lacustris*.
Generated co-expression networks and provided access to expression matrices and sample annotations.

Conclusions:

Protist.guru serves as a valuable resource for protistologists and researchers in microbial ecology.
The database is expected to catalyze new discoveries and deepen insights into microbial eukaryote biological processes.
Facilitates functional genomics and pathway analysis in understudied microbial eukaryotes.