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Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida

Selenoproteins that contain selenocysteine (Sec) are found in all kingdoms of life. Although they constitute a small proportion of the proteome, selenoproteins play essential roles in many organisms. In photosynthetic eukaryotes, selenoproteins have been found in algae but are missing in land plants...

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Autores principales: Liang, Hongping, Wei, Tong, Xu, Yan, Li, Linzhou, Kumar Sahu, Sunil, Wang, Hongli, Li, Haoyuan, Fu, Xian, Zhang, Gengyun, Melkonian, Michael, Liu, Xin, Wang, Sibo, Liu, Huan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6627142/
https://www.ncbi.nlm.nih.gov/pubmed/31226841
http://dx.doi.org/10.3390/ijms20123020
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author Liang, Hongping
Wei, Tong
Xu, Yan
Li, Linzhou
Kumar Sahu, Sunil
Wang, Hongli
Li, Haoyuan
Fu, Xian
Zhang, Gengyun
Melkonian, Michael
Liu, Xin
Wang, Sibo
Liu, Huan
author_facet Liang, Hongping
Wei, Tong
Xu, Yan
Li, Linzhou
Kumar Sahu, Sunil
Wang, Hongli
Li, Haoyuan
Fu, Xian
Zhang, Gengyun
Melkonian, Michael
Liu, Xin
Wang, Sibo
Liu, Huan
author_sort Liang, Hongping
collection PubMed
description Selenoproteins that contain selenocysteine (Sec) are found in all kingdoms of life. Although they constitute a small proportion of the proteome, selenoproteins play essential roles in many organisms. In photosynthetic eukaryotes, selenoproteins have been found in algae but are missing in land plants (embryophytes). In this study, we explored the evolutionary dynamics of Sec incorporation by conveying a genomic search for the Sec machinery and selenoproteins across Archaeplastida. We identified a complete Sec machinery and variable sizes of selenoproteomes in the main algal lineages. However, the entire Sec machinery was missing in the Bangiophyceae-Florideophyceae clade (BV) of Rhodoplantae (red algae) and only partial machinery was found in three species of Archaeplastida, indicating parallel loss of Sec incorporation in different groups of algae. Further analysis of genome and transcriptome data suggests that all major lineages of streptophyte algae display a complete Sec machinery, although the number of selenoproteins is low in this group, especially in subaerial taxa. We conclude that selenoproteins tend to be lost in Archaeplastida upon adaptation to a subaerial or acidic environment. The high number of redox-active selenoproteins found in some bloom-forming marine microalgae may be related to defense against viral infections. Some of the selenoproteins in these organisms may have been gained by horizontal gene transfer from bacteria.
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spelling pubmed-66271422019-07-19 Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida Liang, Hongping Wei, Tong Xu, Yan Li, Linzhou Kumar Sahu, Sunil Wang, Hongli Li, Haoyuan Fu, Xian Zhang, Gengyun Melkonian, Michael Liu, Xin Wang, Sibo Liu, Huan Int J Mol Sci Article Selenoproteins that contain selenocysteine (Sec) are found in all kingdoms of life. Although they constitute a small proportion of the proteome, selenoproteins play essential roles in many organisms. In photosynthetic eukaryotes, selenoproteins have been found in algae but are missing in land plants (embryophytes). In this study, we explored the evolutionary dynamics of Sec incorporation by conveying a genomic search for the Sec machinery and selenoproteins across Archaeplastida. We identified a complete Sec machinery and variable sizes of selenoproteomes in the main algal lineages. However, the entire Sec machinery was missing in the Bangiophyceae-Florideophyceae clade (BV) of Rhodoplantae (red algae) and only partial machinery was found in three species of Archaeplastida, indicating parallel loss of Sec incorporation in different groups of algae. Further analysis of genome and transcriptome data suggests that all major lineages of streptophyte algae display a complete Sec machinery, although the number of selenoproteins is low in this group, especially in subaerial taxa. We conclude that selenoproteins tend to be lost in Archaeplastida upon adaptation to a subaerial or acidic environment. The high number of redox-active selenoproteins found in some bloom-forming marine microalgae may be related to defense against viral infections. Some of the selenoproteins in these organisms may have been gained by horizontal gene transfer from bacteria. MDPI 2019-06-20 /pmc/articles/PMC6627142/ /pubmed/31226841 http://dx.doi.org/10.3390/ijms20123020 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Liang, Hongping
Wei, Tong
Xu, Yan
Li, Linzhou
Kumar Sahu, Sunil
Wang, Hongli
Li, Haoyuan
Fu, Xian
Zhang, Gengyun
Melkonian, Michael
Liu, Xin
Wang, Sibo
Liu, Huan
Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title_full Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title_fullStr Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title_full_unstemmed Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title_short Phylogenomics Provides New Insights into Gains and Losses of Selenoproteins among Archaeplastida
title_sort phylogenomics provides new insights into gains and losses of selenoproteins among archaeplastida
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6627142/
https://www.ncbi.nlm.nih.gov/pubmed/31226841
http://dx.doi.org/10.3390/ijms20123020
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