Characterization of the whole chloroplast genome of a rare candelabra primrose Primula chrysochlora (Primulaceae)
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TECHNICAL NOTE
Characterization of the whole chloroplast genome of a rare candelabra primrose Primula chrysochlora (Primulaceae) Cai‑Yun Zhang1 · Tong‑Jian Liu2 · Yuan Xu3,4 · Hai‑Fei Yan3,4
Received: 15 December 2016 / Accepted: 28 December 2016 © Springer Science+Business Media Dordrecht 2017
Abstract The complete chloroplast genome (plastome) of Primula chrysochlora is a circular molecule of 151,944 bp and contains a pair of inverted repeats of 25,460 bp which is separated by a large single copy region of 83,953 bp and a small single copy region of 17,801 bp. The plastome encodes 131 genes, including 86 protein-coding genes (PCGs), 37 tRNA genes and eight ribosomal RNA genes. Of these, seven PCGs, seven tRNA genes and four rRNA genes are duplicated in inverted repeats region and 18 genes harbor one or two introns. Based on the SSR analysis, a total of 36 microsatellites with a length of at least 10 bp were detected in the P. chrysochlora genome. A phylogenetic analysis showed that section Proliferae is a monophyletic with high support, and P. chrysochlora is sister to P. poissonii. Keywords Primula chrysochlora · Plastome · Illumina sequencing · Phylogenetic analysis · SSR Electronic supplementary material The online version of this article (doi:10.1007/s12686-016-0678-9) contains supplementary material, which is available to authorized users. * Hai‑Fei Yan [email protected] 1
GuangdongInstitute of Chinese Materia Medica, Guangdong Food and Drug Vocational College, Guangzhou 510520, China
2
College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
3
Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
4
Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650, China
Primula chrysochlora I. B. Balfour & Kingdon-Ward belongs to Sect. Proliferae Pax of Primula L. (Primulaceae) (Hu 1990). The species is confined to Tengchong Xian (Tengyueh) in West Yunnan, China, where it grows in the marshes with altitudes of 1600–1800 m (Smith and Fletcher 1941; Hu 1990). The species is rare in the wild since only two sampling localities were recorded. There is no record about it even having been cultivated until recently. P. chrysochlora resembles its sympatric species P. helodoxa Balf. f., but differs from the latter by lacking copious meal on the scape, the pedicels, and the calyx (Hu 1990). Here we sequenced the complete chloroplast genome of P. chrysochlora using Illumina platform. The genomic information might provide us resources for better understanding the rare candelabra primrose in the future. The methods on the isolation of total genomic DNA, library preparation, Illumina sequencing, cp genome assembly and annotation were followed as described in detailed by Zhang et al. (2016). The annotated plastome sequence of P. chrysochlora has been submitted to GenBank (accession number: KX668
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