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Basic chloroplast genome characterization of Phalaenopsis stobartiana (Orchidaceae) from China.

ABSTRACT: Phalaenopsis stobartiana Reichenbach f. 1877 is mainly distributed in Yunnan province of China and has a high ornamental and breeding value. Here, we reported the chloroplast genome of P. stobartiana. The length of the chloroplast genome was 145,900 bp, encoding 120 genes. The average GC content was 36.8%. Phylogenetic analysis revealed that P. stobartiana and P. wilsonii are closely related. The chloroplast genome could be used for further phylogenetic research, and provide molecular data for future genetic protection and breeding programs.

SUBMITTER: Cao YH

PROVIDER: S-EPMC8788351 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

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Basic chloroplast genome characterization of Phalaenopsis stobartiana (Orchidaceae) from China.

Cao Ying-Hui YH Hu Mei-Juan MJ Tong Yan Y Zhang Yan-Ping YP Zheng Rui-Yue RY Zhao Kai K Peng Dong-Hui DH Zhou Yu-Zhen YZ

Mitochondrial DNA. Part B, Resources 20220124 1

Phalaenopsis stobartiana Reichenbach f. 1877 is mainly distributed in Yunnan province of China and has a high ornamental and breeding value. Here, we reported the chloroplast genome of P. stobartiana. The length of the chloroplast genome was 145,900 bp, encoding 120 genes. The average GC content was 36.8%. Phylogenetic analysis revealed that P. stobartiana and P. wilsonii are closely related. The chloroplast genome could be used for further phylogenetic research, and ...[more]

PMID: 35087948

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Project description:BackgroundThe taxonomy and infrageneric delimitation of Phalaenopsis Blume has been significantly disputed due to some overlapping morphological features between species related, which needed further evidence for clarification. The structural characterization of complete chloroplast genomes of P. storbatiana and P. wilsonii were analyzed and compared with those of related taxa to provide a better understanding of their genomic information on taxonomy and phylogeny.ResultsIt was shown that chloroplast genomes of Phalaenopsis storbatiana and P. wilsonii had a typical quadripartite structure with conserved genome arrangements and moderate divergence. The chloroplast genomes of P. storbatiana and P. wilsonii were 145,885 bp and 145,445 bp in length, respectively, and shared a similar GC content of 36.8%. Gene annotations of two species revealed 109 single-copy genes consistently. In addition, 20 genes duplicated in the inverted regions, 16 genes each possessed one or more introns, and five ndh (NA (D)H dehydrogenase) genes were observed in both. Comparative analysis of the total cp genomes of P. storbatiana and P. wilsonii with those of other six related Phalaenopsis species confirmed the stable sequence identity for coding and non-coding regions and higher sequence variation in SC regions than IR regions. Most of their protein-coding genes had a high degree of codon preference. Moreover, 45 genes were discovered with significantly positive selection. However, different amplifications in IR regions were observed in these eight species. Phylogenetic analysis based on CDS from 60 species representing main clades in Orchidaceae indicated that Phalaenopsis species including P. stobartiana and P. wilsonii formed a monophyletic clade with high bootstrap nested in tribe Vandeae of Epidendroideae, which was consistent with those from previous studies.ConclusionsThe results could provide insight into understanding the plastome evolution and phylogenetic relationships of Phalaenopsis.

Dataset Information

Basic chloroplast genome characterization of Phalaenopsis stobartiana (Orchidaceae) from China.

Publications

Basic chloroplast genome characterization of <i>Phalaenopsis stobartiana</i> (Orchidaceae) from China.

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