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

Paps, J and Holland, PWH and Shimeld, SM (2012) 'A genome-wide view of transcription factor gene diversity in chordate evolution: Less gene loss in amphioxus?' Briefings in Functional Genomics, 11 (2). 177 - 186. ISSN 2041-2649

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Abstract

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. © The Author 2012. Published by Oxford University Press. All rights reserved.

Item Type: Article
Subjects: Q Science > QH Natural history > QH301 Biology
Q Science > QH Natural history > QH426 Genetics
Q Science > QL Zoology
Divisions: Faculty of Science and Health > Biological Sciences, School of
Depositing User: Jordi Paps Montserrat
Date Deposited: 03 Nov 2015 16:23
Last Modified: 17 Aug 2017 17:32
URI: http://repository.essex.ac.uk/id/eprint/15094

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