Next Article in Journal
Design, Synthesis, Antibacterial, Antifungal and Anticancer Evaluations of Novel β-Pinene Quaternary Ammonium Salts
Next Article in Special Issue
CAF Proteins Help SOT1 Regulate the Stability of Chloroplast ndhA Transcripts
Previous Article in Journal
Biological Control of Leaf Blight Disease Caused by Pestalotiopsis maculans and Growth Promotion of Quercus acutissima Carruth Container Seedlings Using Bacillus velezensis CE 100
Previous Article in Special Issue
PARN-like Proteins Regulate Gene Expression in Land Plant Mitochondria by Modulating mRNA Polyadenylation
 
 
Search for Articles:
Title / Keyword
Author / Affiliation / Email
Journal
Article Type
 
 
Advanced Search
 
Section
Special Issue
Volume
Issue
Number
Page
 
Journals
IJMS
Volume 22
Issue 20
10.3390/ijms222011297
ijms-logo
Submit to this Journal Review for this Journal Propose a Special Issue
► Article Menu

Article Menu

share Share announcement Help format_quote Cite question_answer Discuss in SciProfiles
first_page
settings
Order Article Reprints
Font Type:
Arial Georgia Verdana
Font Size:
Aa Aa Aa
Line Spacing:
Column Width:
Background:
Article

Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing

by
Marine Guilcher
1,2,
Arnaud Liehrmann
1,2,3,
Chloé Seyman
3,
Thomas Blein
1,2,
Guillem Rigaill
1,2,3,
Benoit Castandet
1,2 and
Etienne Delannoy
1,2,*
1
Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, CNRS, INRAE, Université Evry, 91405 Orsay, France
2
Institute of Plant Sciences Paris-Saclay (IPS2), Université de Paris, CNRS, INRAE, 91405 Orsay, France
3
Laboratoire de Mathématiques et de Modélisation d’Evry (LaMME), Université d’Evry-Val-d’Essonne, UMR CNRS 8071, ENSIIE, USC INRAE, 91000 Evry, France
*
Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2021, 22(20), 11297; https://doi.org/10.3390/ijms222011297
Submission received: 29 August 2021 / Revised: 8 October 2021 / Accepted: 11 October 2021 / Published: 19 October 2021
(This article belongs to the Special Issue Post-transcriptional Regulation in Plant Organelles)
Browse Figures
Review Reports Versions Notes

Abstract

Plastid gene expression involves many post-transcriptional maturation steps resulting in a complex transcriptome composed of multiple isoforms. Although short-read RNA-Seq has considerably improved our understanding of the molecular mechanisms controlling these processes, it is unable to sequence full-length transcripts. This information is crucial, however, when it comes to understanding the interplay between the various steps of plastid gene expression. Here, we describe a protocol to study the plastid transcriptome using nanopore sequencing. In the leaf of Arabidopsis thaliana, with about 1.5 million strand-specific reads mapped to the chloroplast genome, we could recapitulate most of the complexity of the plastid transcriptome (polygenic transcripts, multiple isoforms associated with post-transcriptional processing) using virtual Northern blots. Even if the transcripts longer than about 2500 nucleotides were missing, the study of the co-occurrence of editing and splicing events identified 42 pairs of events that were not occurring independently. This study also highlighted a preferential chronology of maturation events with splicing happening after most sites were edited.
Keywords: Arabidopsis thaliana; plastid; co-maturation; post-transcriptional; nanopore Arabidopsis thaliana; plastid; co-maturation; post-transcriptional; nanopore

Share and Cite

MDPI and ACS Style

Guilcher, M.; Liehrmann, A.; Seyman, C.; Blein, T.; Rigaill, G.; Castandet, B.; Delannoy, E. Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing. Int. J. Mol. Sci. 2021, 22, 11297. https://doi.org/10.3390/ijms222011297

AMA Style

Guilcher M, Liehrmann A, Seyman C, Blein T, Rigaill G, Castandet B, Delannoy E. Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing. International Journal of Molecular Sciences. 2021; 22(20):11297. https://doi.org/10.3390/ijms222011297

Chicago/Turabian Style

Guilcher, Marine, Arnaud Liehrmann, Chloé Seyman, Thomas Blein, Guillem Rigaill, Benoit Castandet, and Etienne Delannoy. 2021. "Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing" International Journal of Molecular Sciences 22, no. 20: 11297. https://doi.org/10.3390/ijms222011297

APA Style

Guilcher, M., Liehrmann, A., Seyman, C., Blein, T., Rigaill, G., Castandet, B., & Delannoy, E. (2021). Full Length Transcriptome Highlights the Coordination of Plastid Transcript Processing. International Journal of Molecular Sciences, 22(20), 11297. https://doi.org/10.3390/ijms222011297

Note that from the first issue of 2016, this journal uses article numbers instead of page numbers. See further details here.

Article Metrics

Back to TopTop