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Gene Expression Profiling of Infecting Microbes Using a Digital Bar-coding Platform
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Transcriptomic profiling identifies novel transcripts, isomorphs, and noncoding RNAs in Paracoccidioides

Fabiano B Menegidio1, David Aciole Barbosa1, Valquíria C Alencar1,2

  • 1Núcleo Integrado de Biotecnologia, Universidade de Mogi das Cruzes (UMC), Brazil.

Medical Mycology
|July 22, 2020
PubMed
Summary

This study reveals that most genes in Paracoccidioides brasiliensis are transcribed, with many showing alternative forms. Researchers also found novel transcripts, including long noncoding RNAs, expanding our understanding of this fungal pathogen.

Keywords:
Paracoccidioides brasiliensislncRNAsncRNAtranscription isomorphstranscriptome

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Area of Science:

  • Mycology
  • Genomics
  • Molecular Biology

Background:

  • Paracoccidioides brasiliensis is a pathogenic fungus causing paracoccidioidomycosis (PCM).
  • Understanding its transcriptome is crucial for developing targeted therapies.
  • Previous transcriptomic data for P. brasiliensis is limited.

Purpose of the Study:

  • To perform comprehensive transcriptomic profiling of Paracoccidioides brasiliensis using RNA-seq.
  • To characterize the in vivo transcriptome and identify novel transcripts.
  • To investigate gene expression and alternative splicing in P. brasiliensis.

Main Methods:

  • RNA sequencing (RNA-seq) was employed for transcriptomic profiling.
  • Analysis focused on identifying transcribed genes, alternative isomorphs, and novel transcripts.
  • Bioinformatic tools were used to map and analyze sequencing data.

Main Results:

  • Approximately 75% of annotated P. brasiliensis genes are transcribed in vivo.
  • Around 19% of transcribed genes exhibit alternative isomorphs, indicating complex gene regulation.
  • 627 novel transcripts were identified, including 114 coding transcripts and 513 noncoding RNAs (ncRNAs), with 203 long noncoding RNAs (lncRNAs).

Conclusions:

  • The study provides a detailed characterization of the P. brasiliensis transcriptome.
  • The findings highlight the complexity of gene expression and regulation in this fungus.
  • The identification of novel transcripts, particularly lncRNAs, opens new avenues for research into P. brasiliensis pathogenesis and control.