Reading the evolution of compartmentalization in the ribosome assembly toolbox : the YRG protein family

Autoren

Pablo Mier
Antonio J Perez-Pulido
Emmanuel G Reynaud
Miguel A Andrade-Navarro

Autoren-URL

https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000391844200042&DestLinkType=FullRecord&DestApp=WOS_CPL

DOI

10.1371/journal.pone.0169750

Externe Identifier

Clarivate Analytics Document Solution ID: EH5WR
PubMed Identifier: 28072865

ISSN

1932-6203

Ausgabe der Veröffentlichung

1

Zeitschrift

PLOS ONE

Artikelnummer

ARTN e0169750

Datum der Veröffentlichung

2017

Status

Published

Titel

Reading the Evolution of Compartmentalization in the Ribosome Assembly Toolbox: The YRG Protein Family

Sub types

Article

Ausgabe der Zeitschrift

12

Data source: Web of Science (Lite)

Autoren

Pablo Mier
Antonio J Pérez-Pulido
Emmanuel G Reynaud
Miguel A Andrade-Navarro

DOI

10.1371/journal.pone.0169750

Editoren

Michael Schubert

eISSN

1932-6203

Ausgabe der Veröffentlichung

1

Zeitschrift

PLOS ONE

Sprache

en

Online publication date

2017

Paginierung

e0169750 - e0169750

Status

Published online

Herausgeber

Public Library of Science (PLoS)

Herausgeber URL

http://dx.doi.org/10.1371/journal.pone.0169750

Datum der Datenerfassung

2018

Titel

Reading the Evolution of Compartmentalization in the Ribosome Assembly Toolbox: The YRG Protein Family

Ausgabe der Zeitschrift

12

Data source: Crossref

Abstract

Reconstructing the transition from a single compartment bacterium to a highly compartmentalized eukaryotic cell is one of the most studied problems of evolutionary cell biology. However, timing and details of the establishment of compartmentalization are unclear and difficult to assess. Here, we propose the use of molecular markers specific to cellular compartments to set up a framework to advance the understanding of this complex intracellular process. Specifically, we use a protein family related to ribosome biogenesis, YRG (YlqF related GTPases), whose evolution is linked to the establishment of cellular compartments, leveraging the current genomic data. We analyzed orthologous proteins of the YRG family in a set of 171 proteomes for a total of 370 proteins. We identified ten YRG protein subfamilies that can be associated to six subcellular compartments (nuclear bodies, nucleolus, nucleus, cytosol, mitochondria, and chloroplast), and which were found in archaeal, bacterial and eukaryotic proteomes. Our analysis reveals organism streamlining related events in specific taxonomic groups such as Fungi. We conclude that the YRG family could be used as a compartmentalization marker, which could help to trace the evolutionary path relating cellular compartments with ribosome biogenesis.

Addresses

Institute of Molecular Biology (IMB), Faculty of Biology, Johannes-Gutenberg University of Mainz, Mainz, Germany.

Autoren

Pablo Mier
Antonio J Pérez-Pulido
Emmanuel G Reynaud
Miguel A Andrade-Navarro

DOI

10.1371/journal.pone.0169750

eISSN

1932-6203

Externe Identifier

PubMed Identifier: 28072865
PubMed Central ID: PMC5224878

Open access

true

ISSN

1932-6203

Ausgabe der Veröffentlichung

1

Zeitschrift

PloS one

Schlüsselwörter

Ribosomes
Animals
GTP Phosphohydrolases
Archaeal Proteins
Bacterial Proteins
Fungal Proteins
Evolution, Molecular
Cell Compartmentation
Protein Transport

Sprache

eng

Medium

Electronic-eCollection

Online publication date

2017

Open access status

Open Access

Paginierung

e0169750

Datum der Veröffentlichung

2017

Status

Published

Publisher licence

CC BY

Datum der Datenerfassung

2017

Titel

Reading the Evolution of Compartmentalization in the Ribosome Assembly Toolbox: The YRG Protein Family.

Sub types

research-article
Journal Article

Ausgabe der Zeitschrift

12

Files

https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0169750&type=printable https://europepmc.org/articles/PMC5224878?pdf=render

Data source: Europe PubMed Central

Abstract

Reconstructing the transition from a single compartment bacterium to a highly compartmentalized eukaryotic cell is one of the most studied problems of evolutionary cell biology. However, timing and details of the establishment of compartmentalization are unclear and difficult to assess. Here, we propose the use of molecular markers specific to cellular compartments to set up a framework to advance the understanding of this complex intracellular process. Specifically, we use a protein family related to ribosome biogenesis, YRG (YlqF related GTPases), whose evolution is linked to the establishment of cellular compartments, leveraging the current genomic data. We analyzed orthologous proteins of the YRG family in a set of 171 proteomes for a total of 370 proteins. We identified ten YRG protein subfamilies that can be associated to six subcellular compartments (nuclear bodies, nucleolus, nucleus, cytosol, mitochondria, and chloroplast), and which were found in archaeal, bacterial and eukaryotic proteomes. Our analysis reveals organism streamlining related events in specific taxonomic groups such as Fungi. We conclude that the YRG family could be used as a compartmentalization marker, which could help to trace the evolutionary path relating cellular compartments with ribosome biogenesis.

Date of acceptance

2016

Autoren

Pablo Mier
Antonio J Pérez-Pulido
Emmanuel G Reynaud
Miguel A Andrade-Navarro

Autoren-URL

https://www.ncbi.nlm.nih.gov/pubmed/28072865

DOI

10.1371/journal.pone.0169750

eISSN

1932-6203

Externe Identifier

PubMed Central ID: PMC5224878

Ausgabe der Veröffentlichung

1

Zeitschrift

PLoS One

Schlüsselwörter

Animals
Archaeal Proteins
Bacterial Proteins
Cell Compartmentation
Evolution, Molecular
Fungal Proteins
GTP Phosphohydrolases
Protein Transport
Ribosomes

Sprache

eng

Country

United States

Paginierung

e0169750

PII

PONE-D-16-28352

Datum der Veröffentlichung

2017

Status

Published online

Datum, an dem der Datensatz öffentlich gemacht wurde

2017

Titel

Reading the Evolution of Compartmentalization in the Ribosome Assembly Toolbox: The YRG Protein Family.

Sub types

Journal Article

Ausgabe der Zeitschrift

12

Data source: PubMed

Author's licence

CC-BY

Autoren

Pablo Mier
Antonio J Pérez-Pulido
Emmanuel G Reynaud
Miguel Andrade

Hosting institution

Universitätsbibliothek Mainz

Sammlungen

DFG-OA-Publizieren (2012 - 2017)

Resource version

Published version

DOI

10.1371/journal.pone.0169750

Funding acknowledgements

DFG, Open Access-Publizieren Universität Mainz / Universitätsmedizin

File(s) embargoed

false

Open access

true

ISSN

1932-6203

Ausgabe der Veröffentlichung

1

Zeitschrift

PLoS one

Schlüsselwörter

570 Biowissenschaften
570 Life sciences

Sprache

eng

Notes

Andrade, Miguel veröffentlicht unter: Andrade-Navarro, Miguel A.

Open access status

Open Access

Paginierung

e0169750

Datum der Veröffentlichung

2017

Public URL

https://openscience.ub.uni-mainz.de/handle/20.500.12030/7994

Herausgeber

PLoS

Herausgeber URL

http://dx.doi.org/10.1371/journal.pone.0169750

Datum der Datenerfassung

2022

Datum, an dem der Datensatz öffentlich gemacht wurde

2022

Zugang

Public

Titel

Reading the evolution of compartmentalization in the ribosome assembly toolbox : the YRG protein family

Ausgabe der Zeitschrift

12

Files

reading_the_evolution_of_comp-20220925160040501.pdf

Data source: OPENSCIENCE.UB

Reading the evolution of compartmentalization in the ribosome assembly toolbox : the YRG protein family

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Files

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