A genome-wide view of transcription factor gene diversity in chordate evolution: less gene loss in amphioxus?

被引:34
作者
Paps, Jordi
Holland, Peter W. H.
Shimeld, Sebastian M. [1 ,2 ]
机构
[1] Univ Oxford, Dept Zool, Oxford OX1 3PS, England
[2] Univ Oxford Balliol Coll, Oxford OX1 3BJ, England
基金
欧洲研究理事会;
关键词
Homeobox; Fox; Pax; Sox; T-box; T-BOX GENES; DEVELOPMENTALLY RELEVANT GENES; CIONA-INTESTINALIS; PAX GENE; EXPRESSION; FAMILY; FOX; CLASSIFICATION; CONSERVATION; DATABASE;
D O I
10.1093/bfgp/els012
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Previous studies of gene diversity in the homeobox superclass have shown that the Florida amphioxus Branchiostoma floridae has undergone remarkably little gene family loss. Here we use a combined BLAST and HMM search strategy to assess the family level diversity of four other transcription factor superclasses: the Paired/Pax genes, Tbx genes, Fox genes and Sox genes. We apply this across genomes from five chordate taxa, including B. floridae and Ciona intestinalis, plus two outgroup taxa. Our results show scattered gene family loss. However, as also found for homeobox genes, B. floridae has retained all ancient Pax, Tbx, Fox and Sox gene families that were present in the common ancestor of living chordates. We conclude that, at least in terms of transcription factor gene complexity, the genome of amphioxus has experienced remarkable stasis compared to the genomes of other chordates.
引用
收藏
页码:177 / 186
页数:10
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