Characteristics of Complete Chloroplast Genome and Phylogenetic Analysis of Rhodiola himalensis (Crassulaceae)

doi:10.7525/j.issn.1673-5102.2022.04.010

Abstract

Abstract:

The complete chloroplast genome of Rhodiola himalensis was sequenced， assembled and annotated using high-throughput sequencing technology， and R. himalensis was used as material， an endemic medical species to the Qinghai-Tibet Plateau. The results showed that the complete chloroplast genome of R. himalensis was 151 074 bp in length with a GC content of 37.8%. It had a typical tetrad structure with a long single copy region， a short single copy region and a pair of inverted repeat regions， and the sequence length of them was 82 309， 17 017 and 25 875 bp， respectively. The complete chloroplast genome encoded 130 genes， including 86 protein coding genes， 37 tRNA genes and seven rRNA genes. Based on the chloroplast genome of R. himalensis， a total of 25 513 codons was detected， among which the largest proportion of codons was Leu. In the IRa and IRb regions of R. himalensis， the gene of rps19 and ycf1 was deletion， and the gene of trnH in LSC region was contraction. And R. himalensis and R. sacra had the closest genetic relationship were also found. Besides， the variation frequency of single nucleotide polymorphism（SNP） was the highest within the SSC region. The complete chloroplast genome of R. himalensis was reported， assembled， annotated and analyzed， which could provide the theoretical basis for the study of genetic diversity and rational development and utilization of R. himalensis in the future.

Key words: chloroplast genome, phylogeny, simple sequence repeat, boundary analysis of IR region, Rhodiola himalensis

CLC Number:

Q949.4

Yu ZHANG, Xu SU, Yuping LIU, Tao LIU, Changyuan ZHENG, Dandan SU, Yanan WANG, Ting LÜ. Characteristics of Complete Chloroplast Genome and Phylogenetic Analysis of Rhodiola himalensis (Crassulaceae)[J]. Bulletin of Botanical Research, 2022, 42(4): 602-612.

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