PhaeoNet: A Holistic RNAseq-Based Portrait of Transcriptional Coordination in the Model Diatom Phaeodactylum tricornutum - Archive ouverte HAL Accéder directement au contenu
Article Dans Une Revue Frontiers in Plant Science Année : 2020

PhaeoNet: A Holistic RNAseq-Based Portrait of Transcriptional Coordination in the Model Diatom Phaeodactylum tricornutum

Ouardia Ait-Mohamed
  • Fonction : Auteur
Anna M G Novák Vanclová
  • Fonction : Auteur
Nathalie Joli
  • Fonction : Auteur
Yue Liang
  • Fonction : Auteur
Xue Zhao
  • Fonction : Auteur
Auguste Genovesio
Chris Bowler
Richard G Dorrell

Résumé

Transcriptional coordination is a fundamental component of prokaryotic and eukaryotic cell biology, underpinning the cell cycle, physiological transitions, and facilitating holistic responses to environmental stress, but its overall dynamics in eukaryotic algae remain poorly understood. Better understanding of transcriptional partitioning may provide key insights into the primary metabolism pathways of eukaryotic algae, which frequently depend on intricate metabolic associations between the chloroplasts and mitochondria that are not found in plants. Here, we exploit 187 publically available RNAseq datasets generated under varying nitrogen, iron and phosphate growth conditions to understand the co-regulatory principles underpinning transcription in the model diatom Phaeodactylum tricornutum. Using WGCNA (Weighted Gene Correlation Network Analysis), we identify 28 merged modules of co-expressed genes in the P. tricornutum genome, which show high connectivity and correlate well with previous microarray-based surveys of gene co-regulation in this species. We use combined functional, subcellular localization and evolutionary annotations to reveal the fundamental principles underpinning the transcriptional co-regulation of genes implicated in P. tricornutum chloroplast and mitochondrial metabolism, as well as the functions of diverse transcription factors underpinning this co-regulation. The resource is publically available as PhaeoNet, an advanced tool to understand diatom gene co-regulation.
Fichier principal
Vignette du fichier
Ait Mohamed et al., 2020.pdf (5.73 Mo) Télécharger le fichier
Origine : Fichiers éditeurs autorisés sur une archive ouverte
Loading...

Dates et versions

hal-02997835 , version 1 (10-11-2020)

Identifiants

Citer

Ouardia Ait-Mohamed, Anna M G Novák Vanclová, Nathalie Joli, Yue Liang, Xue Zhao, et al.. PhaeoNet: A Holistic RNAseq-Based Portrait of Transcriptional Coordination in the Model Diatom Phaeodactylum tricornutum. Frontiers in Plant Science, 2020, 11, ⟨10.3389/fpls.2020.590949⟩. ⟨hal-02997835⟩
24 Consultations
29 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More