Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants

Lucero, Leandro; Bazin, Jeremie; Rodriguez Melo, Johan; Ibañez, Fernando; Crespi, Martín D.; Ariel, Federico

doi:10.3390/genes11020207

Open AccessArticle

Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants

by

Leandro Lucero

¹,

Jeremie Bazin

²,

Johan Rodriguez Melo

³,

Fernando Ibañez

³

,

Martín D. Crespi

^2,*

and

Federico Ariel

^1,*

¹

Instituto de Agrobiotecnología del Litoral, Universidad Nacional del Litoral, CONICET, FBCB, Centro Científico Tecnológico CONICET Santa Fe, Colectora Ruta Nacional No 168 km. 0, Paraje El Pozo, Santa Fe 3000, Argentina

²

CNRS, INRA, Institute of Plant Sciences Paris-Saclay IPS2, Universite Paris Sud, Universite Evry, Universite Paris-Diderot, Sorbonne Paris-Cite, Universite Paris-Saclay, 91405 Orsay, France

³

Instituto de Investigaciones Agrobiotecnológicas, CONICET, Universidad Nacional de Río Cuarto, Río Cuarto 5800, Argentina

^*

Authors to whom correspondence should be addressed.

Genes 2020, 11(2), 207; https://doi.org/10.3390/genes11020207

Submission received: 5 December 2019 / Revised: 24 January 2020 / Accepted: 30 January 2020 / Published: 18 February 2020

(This article belongs to the Special Issue Genetic Evolution of Root Nodule Symbioses)

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Abstract

RNA-Binding Protein 1 (RBP1) was first identified as a protein partner of the long noncoding RNA (lncRNA) ENOD40 in Medicago truncatula, involved in symbiotic nodule development. RBP1 is localized in nuclear speckles and can be relocalized to the cytoplasm by the interaction with ENOD40. The two closest homologs to RBP1 in Arabidopsis thaliana were called Nuclear Speckle RNA-binding proteins (NSRs) and characterized as alternative splicing modulators of specific mRNAs. They can recognize in vivo the lncRNA ALTERNATIVE SPLICING COMPETITOR (ASCO) among other lncRNAs, regulating lateral root formation. Here, we performed a phylogenetic analysis of NSR/RBP proteins tracking the roots of the family to the Embryophytes. Strikingly, eudicots faced a reductive trend of NSR/RBP proteins in comparison with other groups of flowering plants. In Medicago truncatula and Lotus japonicus, their expression profile during nodulation and in specific regions of the symbiotic nodule was compared to that of the lncRNA ENOD40, as well as to changes in alternative splicing. This hinted at distinct and specific roles of each member during nodulation, likely modulating the population of alternatively spliced transcripts. Our results establish the basis to guide future exploration of NSR/RBP function in alternative splicing regulation in different developmental contexts along the plant lineage.

Keywords: lncRNA ENOD40; RBP1; nuclear speckle RNA-binding proteins; symbiotic nodule development; alternative splicing; evolution; legumes

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MDPI and ACS Style

Lucero, L.; Bazin, J.; Rodriguez Melo, J.; Ibañez, F.; Crespi, M.D.; Ariel, F. Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants. Genes 2020, 11, 207. https://doi.org/10.3390/genes11020207

AMA Style

Lucero L, Bazin J, Rodriguez Melo J, Ibañez F, Crespi MD, Ariel F. Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants. Genes. 2020; 11(2):207. https://doi.org/10.3390/genes11020207

Chicago/Turabian Style

Lucero, Leandro, Jeremie Bazin, Johan Rodriguez Melo, Fernando Ibañez, Martín D. Crespi, and Federico Ariel. 2020. "Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants" Genes 11, no. 2: 207. https://doi.org/10.3390/genes11020207

APA Style

Lucero, L., Bazin, J., Rodriguez Melo, J., Ibañez, F., Crespi, M. D., & Ariel, F. (2020). Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants. Genes, 11(2), 207. https://doi.org/10.3390/genes11020207

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Evolution of the Small Family of Alternative Splicing Modulators Nuclear Speckle RNA-Binding Proteins in Plants

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