Isolation and sequencing of the HMG domain of ten Sox genes from Odorrana schmackeri (Amphibia: Anura)

Wang, Ning; Wang, Jing Jing; Jia, Rui; Xu, Jin W.; Nie, Liu W.

doi:10.1590/s1984-46702009000100017

Cited by 1 publication

(2 citation statements)

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“…Based on genealogical relationships, the synonymous and nonsynonymous substitution rates (Ks and Ka) between duplicated Sox genes were calculated using the modified KaKs_Calculator 2.0 version (Wang et al, 2009a). The Z test was also performed using MEGA5.0 to detect deviation from neutrality of those duplicated genes.…”

Section: Evolutionary Analysis Of Sox Sequencesmentioning

confidence: 99%

“…It has been shown HMG boxes can be used to identify Sox genes without scrutinizing the entire sequence (Bowles et al, 2000;Hett and Ludwig, 2005). Noticeably, most of Sox genes appear to have been duplicated in amphibians and teleost fishes such as Odorrana schmackeri (Wang et al, 2009b), Danio rerio and Takifugu rubripes (Koopman et al, 2004). This might be the results of the partition of ancestral subfunctions and have exhibited some hints of important mechanism leading to the preservation of multiple gene copies (Force et al, 1999).…”

Section: Introductionmentioning

confidence: 99%

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Isolation and sequencing of the HMG domains of fifteen Sox genes from Hyla sanchiangensis, and analysis of the evolutionary behaviors of Sox duplicated copies based on bioinformatics

Chen¹,

Qiao²,

Chen³

et al. 2012

Afr. J. Microbiol. Res.

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Sox gene is a large gene family which encodes transcription factors and contains a HMG box that is responsible for a variety of developmental processes. In the present study, we obtained fifteen clones representing Sox gene HMG-boxes from male and female Hyla sanchiangensis, distributed as Sox1, Sox2, Sox3, Sox4, Sox11, and Sox33. The sequences analysis indicated that Sox1 and Sox4 have two duplicated copies, respectively, Sox2 has three duplications and Sox11 has six different copies. Furthermore, the amino acid of Sox1, Sox2, Sox4 and Sox11 duplicated copies has been exchanged indicating that the gene functional selection might be necessary for Sox gene duplicated process. Phylogenetic analysis was carried out and suggested that HMG domain-encoding sequences are members of the SoxB and SoxC groups. The topologies implied that the duplicated Sox genes might evolve independently in H. sanchiangensis. Substitution rate showed that the evolutionary behaviors of Sox duplicated copies are dissymmetry, which would cause two parallel evolutionary patterns at the molecular level. One is the duplicated genes were suffering from a period of relaxed selection and caused the asymmetric evolutionary rate in one copy, then accelerated gene evolution. Another is that the Sox duplicated genes experienced identical selection constraints and had no greater genetic diversity. In this case, we proposed that all Sox genes in H. sanchiangensis obtained in this examination are under strong purifying selection, and duplicated Sox genes evolved independently.

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Section: Evolutionary Analysis Of Sox Sequencesmentioning

confidence: 99%