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Int. J. Mol. Sci. 2018, 19(5), 1419; https://doi.org/10.3390/ijms19051419

Sequencing, Characterization, and Comparative Analyses of the Plastome of Caragana rosea var. rosea

Key Laboratory of Bioactive Substances and Resource Utilization of Chinese Herbal Medicine from Ministry of Education, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing 100193, China
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Received: 23 April 2018 / Revised: 6 May 2018 / Accepted: 7 May 2018 / Published: 9 May 2018
(This article belongs to the Special Issue Chloroplast)
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Abstract

To exploit the drought-resistant Caragana species, we performed a comparative study of the plastomes from four species: Caragana rosea, C. microphylla, C. kozlowii, and C. Korshinskii. The complete plastome sequence of the C. rosea was obtained using the next generation DNA sequencing technology. The genome is a circular structure of 133,122 bases and it lacks inverted repeat. It contains 111 unique genes, including 76 protein-coding, 30 tRNA, and four rRNA genes. Repeat analyses obtained 239, 244, 258, and 246 simple sequence repeats in C. rosea, C. microphylla, C. kozlowii, and C. korshinskii, respectively. Analyses of sequence divergence found two intergenic regions: trnI-CAU-ycf2 and trnN-GUU-ycf1, exhibiting a high degree of variations. Phylogenetic analyses showed that the four Caragana species belong to a monophyletic clade. Analyses of Ka/Ks ratios revealed that five genes: rpl16, rpl20, rps11, rps7, and ycf1 and several sites having undergone strong positive selection in the Caragana branch. The results lay the foundation for the development of molecular markers and the understanding of the evolutionary process for drought-resistant characteristics. View Full-Text
Keywords: Caragana; Caragana rosea var. rosea; plastome; comparative genomics; molecular markers Caragana; Caragana rosea var. rosea; plastome; comparative genomics; molecular markers
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Jiang, M.; Chen, H.; He, S.; Wang, L.; Chen, A.J.; Liu, C. Sequencing, Characterization, and Comparative Analyses of the Plastome of Caragana rosea var. rosea. Int. J. Mol. Sci. 2018, 19, 1419.

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