The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis.
Rho GTPases are important members of the Ras superfamily, which represents the largest signaling protein family in eukaryotes, and function as key molecular switches in converting and amplifying external signals into cellular responses. Although numerous analyses of Rho family genes have been report...
Published in: | PLOS ONE |
---|---|
Main Authors: | , , , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
Public Library of Science (PLoS)
2015
|
Subjects: | |
Online Access: | https://doi.org/10.1371/journal.pone.0143932 https://doaj.org/article/bc52ecb0e8d5477c8e36fe43c04200d0 |
id |
ftdoajarticles:oai:doaj.org/article:bc52ecb0e8d5477c8e36fe43c04200d0 |
---|---|
record_format |
openpolar |
spelling |
ftdoajarticles:oai:doaj.org/article:bc52ecb0e8d5477c8e36fe43c04200d0 2023-05-15T15:58:59+02:00 The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. Xue Li Ruijia Wang Xiaogang Xun Wenqian Jiao Mengran Zhang Shuyue Wang Shi Wang Lingling Zhang Xiaoting Huang Xiaoli Hu Zhenmin Bao 2015-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0143932 https://doaj.org/article/bc52ecb0e8d5477c8e36fe43c04200d0 EN eng Public Library of Science (PLoS) http://europepmc.org/articles/PMC4669188?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0143932 https://doaj.org/article/bc52ecb0e8d5477c8e36fe43c04200d0 PLoS ONE, Vol 10, Iss 12, p e0143932 (2015) Medicine R Science Q article 2015 ftdoajarticles https://doi.org/10.1371/journal.pone.0143932 2022-12-31T12:10:50Z Rho GTPases are important members of the Ras superfamily, which represents the largest signaling protein family in eukaryotes, and function as key molecular switches in converting and amplifying external signals into cellular responses. Although numerous analyses of Rho family genes have been reported, including their functions and evolution, a systematic analysis of this family has not been performed in Mollusca or in Bivalvia, one of the most important classes of Mollusca.In this study, we systematically identified and characterized a total set (Rho, Rac, Mig, Cdc42, Tc10, Rnd, RhoU, RhoBTB and Miro) of thirty Rho GTPase genes in three bivalve species, including nine in the Yesso scallop Patinopecten yessoensis, nine in the Zhikong scallop Chlamys farreri, and twelve in the Pacific oyster Crassostrea gigas. Phylogenetic analysis and interspecies comparison indicated that bivalves might possess the most complete types of Rho genes in invertebrates. A multiple RNA-seq dataset was used to investigate the expression profiles of bivalve Rho genes, revealing that the examined scallops share more similar Rho expression patterns than the oyster, whereas more Rho mRNAs are expressed in C. farreri and C. gigas than in P. yessoensis. Additionally, Rho, Rac and Cdc42 were found to be duplicated in the oyster but not in the scallops. Among the expanded Rho genes of C. gigas, duplication pairs with high synonymous substitution rates (Ks) displayed greater differences in expression.A comprehensive analysis of bivalve Rho GTPase family genes was performed in scallop and oyster species, and Rho genes in bivalves exhibit greater conservation than those in any other invertebrate. This is the first study focusing on a genome-wide characterization of Rho GTPase genes in bivalves, and the findings will provide a valuable resource for a better understanding of Rho evolution and Rho GTPase function in Bivalvia. Article in Journal/Newspaper Crassostrea gigas Pacific oyster Directory of Open Access Journals: DOAJ Articles Pacific Rho ENVELOPE(-63.000,-63.000,-64.300,-64.300) PLOS ONE 10 12 e0143932 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Medicine R Science Q |
spellingShingle |
Medicine R Science Q Xue Li Ruijia Wang Xiaogang Xun Wenqian Jiao Mengran Zhang Shuyue Wang Shi Wang Lingling Zhang Xiaoting Huang Xiaoli Hu Zhenmin Bao The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
topic_facet |
Medicine R Science Q |
description |
Rho GTPases are important members of the Ras superfamily, which represents the largest signaling protein family in eukaryotes, and function as key molecular switches in converting and amplifying external signals into cellular responses. Although numerous analyses of Rho family genes have been reported, including their functions and evolution, a systematic analysis of this family has not been performed in Mollusca or in Bivalvia, one of the most important classes of Mollusca.In this study, we systematically identified and characterized a total set (Rho, Rac, Mig, Cdc42, Tc10, Rnd, RhoU, RhoBTB and Miro) of thirty Rho GTPase genes in three bivalve species, including nine in the Yesso scallop Patinopecten yessoensis, nine in the Zhikong scallop Chlamys farreri, and twelve in the Pacific oyster Crassostrea gigas. Phylogenetic analysis and interspecies comparison indicated that bivalves might possess the most complete types of Rho genes in invertebrates. A multiple RNA-seq dataset was used to investigate the expression profiles of bivalve Rho genes, revealing that the examined scallops share more similar Rho expression patterns than the oyster, whereas more Rho mRNAs are expressed in C. farreri and C. gigas than in P. yessoensis. Additionally, Rho, Rac and Cdc42 were found to be duplicated in the oyster but not in the scallops. Among the expanded Rho genes of C. gigas, duplication pairs with high synonymous substitution rates (Ks) displayed greater differences in expression.A comprehensive analysis of bivalve Rho GTPase family genes was performed in scallop and oyster species, and Rho genes in bivalves exhibit greater conservation than those in any other invertebrate. This is the first study focusing on a genome-wide characterization of Rho GTPase genes in bivalves, and the findings will provide a valuable resource for a better understanding of Rho evolution and Rho GTPase function in Bivalvia. |
format |
Article in Journal/Newspaper |
author |
Xue Li Ruijia Wang Xiaogang Xun Wenqian Jiao Mengran Zhang Shuyue Wang Shi Wang Lingling Zhang Xiaoting Huang Xiaoli Hu Zhenmin Bao |
author_facet |
Xue Li Ruijia Wang Xiaogang Xun Wenqian Jiao Mengran Zhang Shuyue Wang Shi Wang Lingling Zhang Xiaoting Huang Xiaoli Hu Zhenmin Bao |
author_sort |
Xue Li |
title |
The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
title_short |
The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
title_full |
The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
title_fullStr |
The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
title_full_unstemmed |
The Rho GTPase Family Genes in Bivalvia Genomes: Sequence, Evolution and Expression Analysis. |
title_sort |
rho gtpase family genes in bivalvia genomes: sequence, evolution and expression analysis. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2015 |
url |
https://doi.org/10.1371/journal.pone.0143932 https://doaj.org/article/bc52ecb0e8d5477c8e36fe43c04200d0 |
long_lat |
ENVELOPE(-63.000,-63.000,-64.300,-64.300) |
geographic |
Pacific Rho |
geographic_facet |
Pacific Rho |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
PLoS ONE, Vol 10, Iss 12, p e0143932 (2015) |
op_relation |
http://europepmc.org/articles/PMC4669188?pdf=render https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0143932 https://doaj.org/article/bc52ecb0e8d5477c8e36fe43c04200d0 |
op_doi |
https://doi.org/10.1371/journal.pone.0143932 |
container_title |
PLOS ONE |
container_volume |
10 |
container_issue |
12 |
container_start_page |
e0143932 |
_version_ |
1766394775730126848 |