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Insights into the existence of isomeric plastomes in Cupressoideae (Cupressaceae)

文章来源:  |  发布时间:2017-08-09  |  作者:陈斯云  |  浏览次数:  |  【打印】 【关闭

 

Insights into the existence of isomeric plastomes in Cupressoideae (Cupressaceae).

Qu Xiao-Jian, Wu Chung-Shien, Chaw Shu-Miaw, Yi Ting-Shuang*.

Genome Biol Evol. 2017 Apr 14. doi: 10.1093/gbe/evx071

https://www.ncbi.nlm.nih.gov/pubmed/28431152

Abstract:

The cypress family (Cupressaceae) possesses highly rearranged plastomes that lack a pair of large inverted repeats typically found in land plants. A few cypress species have been reported to contain isomeric plastomes, but whether the existence of isomeric plastomes is ubiquitous in the family remains to be investigated with a broader taxon sampling. In this study, we sequenced the complete plastomes of ten species in Cupressoideae, the largest cypress subfamily. Cupressoideae showed relatively accelerated rates of substitutions at both nonsynonymous and synonymous sites as compared with other subfamilies of Cupressaceae. Our PCR and read mapping analyses together suggested the existence of isomeric plastomes in eight of the ten sequenced Cupressoideae species. The isomeric plastomes were also detected in 176 individuals from nine wild populations of four Cupressoideae species. Within Calocedrus macrolepis, we discovered a new type of isomeric plastomes that was likely derived from homologous recombination mediated by an 11-bp repeat. We conclude that isomeric plastomes are commonly present in Cupressoideae, thereby contributing to increased plastomic complexity.

KEYWORDS:

Cupressaceae; Cupressoideae; isomeric plastomes; plastomic complexity; repeat


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