Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates
The gain and loss of genes encoding transcription factors is of importance to understanding the evolution of gene regulatory complexity. The basic helix-loop-helix (bHLH) genes encode a large superfamily of transcription factors. We systematically classify the bHLH genes from five mollusc, two annel...
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ftchinacasciocas:oai:ir.qdio.ac.cn:337002/143092 2023-05-15T15:58:51+02:00 Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates Bao, Yongbo Xu, Fei Shimeld, Sebastian M. 2017-04-01 http://ir.qdio.ac.cn/handle/337002/143092 https://doi.org/10.1093/gbe/evx047 英语 eng GENOME BIOLOGY AND EVOLUTION Bao, Yongbo,Xu, Fei,Shimeld, Sebastian M. Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates[J]. GENOME BIOLOGY AND EVOLUTION,2017,9(4):869-886. http://ir.qdio.ac.cn/handle/337002/143092 doi:10.1093/gbe/evx047 Bhlh Gene Mollusc Annelid Transcription Factor Gene Duplication Article 期刊论文 2017 ftchinacasciocas https://doi.org/10.1093/gbe/evx047 2022-06-27T05:38:10Z The gain and loss of genes encoding transcription factors is of importance to understanding the evolution of gene regulatory complexity. The basic helix-loop-helix (bHLH) genes encode a large superfamily of transcription factors. We systematically classify the bHLH genes from five mollusc, two annelid and one brachiopod genomes, tracing the pattern of bHLH gene evolution across these poorly studied Phyla. In total, 56-88 bHLH genes were identified in each genome, with most identifiable as members of previously described bilaterian families, or of new families we define. Of such families only one, Mesp, appears lost by all these species. Additional duplications have also played a role in the evolution of the bHLH gene repertoire, with many new lophotrochozoan-, mollusc-, bivalve-, or gastropod-specific genes defined. Using a combination of transcriptome mining, RT-PCR, and in situ hybridization we compared the expression of several of these novel genes in tissues and embryos of the molluscs Crassostrea gigas and Patella vulgata, finding both conserved expression and evidence for neofunctionalization. We also map the positions of the genes across these genomes, identifying numerous gene linkages. Some reflect recent paralog divergence by tandem duplication, others are remnants of ancient tandem duplications dating to the lophotrochozoan or bilaterian common ancestors. These data are built into a model of the evolution of bHLH genes in molluscs, showing formidable evolutionary stasis at the family level but considerable within-family diversification by tandem gene duplication. Article in Journal/Newspaper Crassostrea gigas Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR Genome Biology and Evolution 9 4 869 886 |
institution |
Open Polar |
collection |
Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR |
op_collection_id |
ftchinacasciocas |
language |
English |
topic |
Bhlh Gene Mollusc Annelid Transcription Factor Gene Duplication |
spellingShingle |
Bhlh Gene Mollusc Annelid Transcription Factor Gene Duplication Bao, Yongbo Xu, Fei Shimeld, Sebastian M. Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
topic_facet |
Bhlh Gene Mollusc Annelid Transcription Factor Gene Duplication |
description |
The gain and loss of genes encoding transcription factors is of importance to understanding the evolution of gene regulatory complexity. The basic helix-loop-helix (bHLH) genes encode a large superfamily of transcription factors. We systematically classify the bHLH genes from five mollusc, two annelid and one brachiopod genomes, tracing the pattern of bHLH gene evolution across these poorly studied Phyla. In total, 56-88 bHLH genes were identified in each genome, with most identifiable as members of previously described bilaterian families, or of new families we define. Of such families only one, Mesp, appears lost by all these species. Additional duplications have also played a role in the evolution of the bHLH gene repertoire, with many new lophotrochozoan-, mollusc-, bivalve-, or gastropod-specific genes defined. Using a combination of transcriptome mining, RT-PCR, and in situ hybridization we compared the expression of several of these novel genes in tissues and embryos of the molluscs Crassostrea gigas and Patella vulgata, finding both conserved expression and evidence for neofunctionalization. We also map the positions of the genes across these genomes, identifying numerous gene linkages. Some reflect recent paralog divergence by tandem duplication, others are remnants of ancient tandem duplications dating to the lophotrochozoan or bilaterian common ancestors. These data are built into a model of the evolution of bHLH genes in molluscs, showing formidable evolutionary stasis at the family level but considerable within-family diversification by tandem gene duplication. |
format |
Article in Journal/Newspaper |
author |
Bao, Yongbo Xu, Fei Shimeld, Sebastian M. |
author_facet |
Bao, Yongbo Xu, Fei Shimeld, Sebastian M. |
author_sort |
Bao, Yongbo |
title |
Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
title_short |
Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
title_full |
Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
title_fullStr |
Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
title_full_unstemmed |
Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates |
title_sort |
phylogenetics of lophotrochozoan bhlh genes and the evolution of lineage-specific gene duplicates |
publishDate |
2017 |
url |
http://ir.qdio.ac.cn/handle/337002/143092 https://doi.org/10.1093/gbe/evx047 |
genre |
Crassostrea gigas |
genre_facet |
Crassostrea gigas |
op_relation |
GENOME BIOLOGY AND EVOLUTION Bao, Yongbo,Xu, Fei,Shimeld, Sebastian M. Phylogenetics of Lophotrochozoan bHLH Genes and the Evolution of Lineage-Specific Gene Duplicates[J]. GENOME BIOLOGY AND EVOLUTION,2017,9(4):869-886. http://ir.qdio.ac.cn/handle/337002/143092 doi:10.1093/gbe/evx047 |
op_doi |
https://doi.org/10.1093/gbe/evx047 |
container_title |
Genome Biology and Evolution |
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9 |
container_issue |
4 |
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869 |
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886 |
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1766394623795658752 |