The complete chloroplast genome of <i>Prunus phaeosticta</i> (Hance) Maxim. (Rosaceae) and its phylogenetic implications

Wu, Jiaqi; Wang, Yi; Sun, Ping; Sun, Zhuo; Shen, Jian-Sheng

doi:10.1080/23802359.2022.2163841

Cited by 3 publications

(4 citation statements)

References 17 publications

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“…The genus Prunus consists of more than 250 species, most of which present many high ornamental and economic values for their owers and leafs, which are loved by people all over the world [1][2][3]. They have great potential for development and application, the research on this economically important group is becoming more and more extensive [4][5]. P. Cistena is a hybrid of P. cerasifera and P. jamasakura, which has purplish red or dark purplish red leaves and light pink owers.…”

Section: Introductionmentioning

confidence: 99%

“…Chloroplasts are unique organelles of green plants and play a crucial role in photosynthesis, amino acid synthesis, and carbon sequestration [5][6][7]. The chloroplast genomes of higher plants are characterized by a quadripartite structure typically consisting of two inverted repeats (IRs) with a length of 20-28 kb, separated by a large single-copy (LSC) region with a length of 80-90 kb and a small single-copy (SSC) region with a length of 16-27 kb, exhibiting highly conserved gene content and order [8][9][10].…”

Section: Introductionmentioning

confidence: 99%

“…More and more studies have shown that variation in chloroplast genomes provides effective information that can be used to resolve phylogenetic relationships at different levels for species identi cation [14][15][16][17]. The chloroplast genomes of many species of the Prunus genus have been sequenced, including P. pseudocerasus [2], P. campanulata [3] and P. phaeosticta [5], etc. The molecular structures and phylogenetic relationships of 20 Prunus subgenus Cerasus species were comparative analyzed based on complete chloroplast genomes [4].…”

Section: Introductionmentioning

confidence: 99%

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Complete chloroplast genome sequences of the ornamental plant Prunus Cistena and comparative and phylogenetic analyses with its closely related species

Feng

Zhao

An³

et al. 2023

Preprint

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Background Prunus Cistena is an excellent color leaf configuration tree for urban landscaping in the world, which has purplish red leaves, light pink flowers, plant shape and high ornamental value. Genomic resources for P. Cistena are scarce, and a clear phylogenetic and evolutionary history for this species has yet to be elucidated. Here, we sequenced and analyzed the complete chloroplast (cp) genome of P. Cistena and compared it with related species of Prunus genus based on chloroplast genome.Results The complete chloroplast genome of P. Cistena was 157,935 bp in length, which had a typical tetrad structure. The overall GC content was 36.72%, while IR regions displayed a higher GC content than LSC and SSC regions. It encoded 130 genes, including 85 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The ycf3 and clpP genes had two introns; the longest intron was trnK-UUU gene in the LSC region. There were 253 SSRs, and the mononucleotide SSRs were the most abundant. The chloroplast sequences and gene arrangements of P. Cistena were conserved, which overall structure and gene order were similar to other Prunus species. The atpE, ccsA, petA, rps8 and matK gene had significant positive selection in Prunus species. P. Cistena had a close evolutionary relationship with the P. jamasakura. The coding region and IR region were more conserved than noncoding region, and the cpDNA sequences highly conserved throughout the genus Prunus.Conclusions The current genomic datasets provide valuable information for further species identification, evolution, and phylogenetic research of genus Prunus.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Complete chloroplast genome sequences of the ornamental plant Prunus Cistena and comparative and phylogenetic analyses with its closely related species

Feng

Zhao

An³

et al. 2023

Preprint

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“…With improvements in sequencing technology, the complete cp genome of Nicotiana tabacum was obtained for the first time in 1986 [17]. More recently, the cp genomes of Prunus cerasus (sour cherry) [18], P. phaeosticta (dark-spotted cherry) [19], P. kansuensis (Chinese bush peach) [20], and P. japonica (Japanese bush cherry) [21] were sequenced and analyzed, and their phylogenetic positions and genetic relationships were determined.…”

Section: Introductionmentioning

confidence: 99%

Sequencing and Phylogenetic Analysis of the Chloroplast Genome of Three Apricot Species

Yi,

Bao,

et al. 2023

Genes

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The production and quality of apricots in China is currently limited by the availability of germplasm resource characterizations, including identification at the species and cultivar level. To help address this issue, the complete chloroplast genomes of Prunus armeniaca L., P. sibirica L. and kernel consumption apricot were sequenced, characterized, and phylogenetically analyzed. The three chloroplast (cp) genomes ranged from 157,951 to 158,224 bp, and 131 genes were identified, including 86 protein-coding genes, 37 rRNAs, and 8 tRNAs. The GC content ranged from 36.70% to 36.75%. Of the 170 repetitive sequences detected, 42 were shared by all three species, and 53–57 simple sequence repeats were detected with AT base preferences. Comparative genomic analysis revealed high similarity in overall structure and gene content as well as seven variation hotspot regions, including psbA-trnK-UUU, rpoC1-rpoB, rpl32-trnL-UAG, trnK-rps16, ndhG-ndhI, ccsA-ndhD, and ndhF-trnL. Phylogenetic analysis showed that the three apricot species clustered into one group, and the genetic relationship between P. armeniaca and kernel consumption apricot was the closest. The results of this study provide a theoretical basis for further research on the genetic diversity of apricots and the development and utilization of molecular markers for the genetic engineering and breeding of apricots.

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Complete chloroplast genome sequences of the ornamental plant Prunus cistena and comparative and phylogenetic analyses with its closely related species

Feng,

Zhao,

et al. 2023

BMC Genomics

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Background Prunus cistena is an excellent color leaf configuration tree for urban landscaping in the world, which has purplish red leaves, light pink flowers, plant shape and high ornamental value. Genomic resources for P. cistena are scarce, and a clear phylogenetic and evolutionary history for this species has yet to be elucidated. Here, we sequenced and analyzed the complete chloroplast genome of P. cistena and compared it with related species of the genus Prunus based on the chloroplast genome. Results The complete chloroplast genome of P. cistena is a 157,935 bp long typical tetrad structure, with an overall GC content of 36.72% and higher GC content in the in the inverted repeats (IR) regions than in the large single-copy (LSC) and small single-copy (SSC) regions. It contains 130 genes, including 85 protein-coding genes, 37 tRNA genes, and 8 rRNA genes. The ycf3 and clpP genes have two introns, with the longest intron in the trnK-UUU gene in the LSC region. Moreover, the genome has a total of 253SSRs, with the mononucleotide SSRs being the most abundant. The chloroplast sequences and gene arrangements of P. cistena are highly conserved, with the overall structure and gene order similar to other Prunus species. The atpE, ccsA, petA, rps8, and matK genes have undergone significant positive selection in Prunus species. P. cistena has a close evolutionary relationship with P. jamasakura. The coding and IR regions are more conserved than the noncoding regions, and the chloroplast DNA sequences are highly conserved throughout the genus Prunus. Conclusions The current genomic datasets provide valuable information for further species identification, evolution, and phylogenetic research of the genus Prunus.

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The complete chloroplast genome of Prunus phaeosticta (Hance) Maxim. (Rosaceae) and its phylogenetic implications

Cited by 3 publications

References 17 publications

Complete chloroplast genome sequences of the ornamental plant Prunus Cistena and comparative and phylogenetic analyses with its closely related species

Complete chloroplast genome sequences of the ornamental plant Prunus Cistena and comparative and phylogenetic analyses with its closely related species

Sequencing and Phylogenetic Analysis of the Chloroplast Genome of Three Apricot Species

Complete chloroplast genome sequences of the ornamental plant Prunus cistena and comparative and phylogenetic analyses with its closely related species

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