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

Lijuan Feng,

Guopeng Zhao,

Mengmeng An

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: May 24, 2023

Abstract 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 P. are scarce, a clear phylogenetic evolutionary history this species yet to be elucidated. Here, we sequenced analyzed complete chloroplast (cp) genome of compared it with related genus based on genome. Results The was 157,935 bp length, had typical tetrad structure. overall GC content 36.72%, while IR regions displayed higher than LSC SSC regions. It encoded 130 genes, including 85 protein-coding 37 tRNA 8 rRNA genes. ycf3 clpP genes two introns; longest intron trnK-UUU gene region. There were 253 SSRs, mononucleotide SSRs most abundant. sequences arrangements conserved, structure order similar other species. atpE , ccsA petA r ps8 matK significant positive selection close relationship jamasakura . coding region more conserved noncoding region, cpDNA highly throughout Conclusions current genomic datasets provide valuable information further identification, evolution, research

Language: Английский

Chloroplast Genome Sequencing and Comparative Analysis of Six Medicinal Plants of Polygonatum DOI Creative Commons

Jinchen Yao,

Z. -X. Zheng,

Tao Xu

et al.

Ecology and Evolution, Journal Year: 2025, Volume and Issue: 15(1)

Published: Jan. 1, 2025

ABSTRACT The genus Polygonatum boasts abundant germplasm resources and comprises numerous species. Among these, medicinal plants of this genus, which have a long history, garnered attention scholars. This study sequenced analyzed the chloroplast genomes six species ( P. zanlanscianense , kingianum sibiricum cyrtonema filipes odoratum respectively) to explore their interspecific relationships. sequence length (154, 578–155, 807 bp) genome structure were conserved among species, with typical tetrad structure. 127–131 genes contained in genomes, 84–85 are protein‐coding genes, 37–38 transfer RNA 6–8 ribosomal genes. 64–76 simple repeats (SSRs) 36–62 repetitive sequences. Codon bias patterns tended use codons ending A/T. In 30 types RSCU > 1, 93.3% ended A/T Twenty‐one highly variable plastid regions identified plants. Furthermore, phylogenetic analysis encompassing these 53 other revealed that clustered together on one clade, whereas formed separate clades. Notably, emerged as standalone our tree reinforces classification forming monophyly. provides novel basis for intragenus taxonomy DNA barcoding molecular identification within

Language: Английский

Citations

1
Vegetative propagation of Polygonatum cirrhifolium (Wall.) Royle through rhizome cuttings DOI
Riya Gupta, Neelu Lodhiyal, L. S. Lodhiyal

et al.

Journal of Applied Research on Medicinal and Aromatic Plants, Journal Year: 2025, Volume and Issue: unknown, P. 100626 - 100626

Published: Jan. 1, 2025

Language: Английский

Citations

0
Plastome Sequences Uncover the Korean Endemic Species Polygonatum grandicaule (Asparagaceae) as Part of the P. odoratum Complex DOI Open Access

Joonhyung Jung,

Hyuk-Jin Kim,

Joo‐Hwan Kim

et al.

Genes, Journal Year: 2025, Volume and Issue: 16(4), P. 398 - 398

Published: March 29, 2025

Background/Objectives: Polygonatum grandicaule Y.S.Kim, B.U.Oh & C.G.Jang (Asparagaceae Juss.), a Korean endemic species, has been described based on its erect stem, tubular perianth shape, and pedicel length. However, taxonomic status remains unclear due to limited molecular data. Methods: This study presents the complete plastid genomes (plastomes) of two P. individuals close relative, odoratum (Mill.) Druce var. thunbergii (C.Morren Decne.) H.Hara. Results: The plastomes, ranging from 154,578 154,579 base pairs (bp), are identical those falcatum A.Gray, odoratum, another infundiflorum C.G.Jang. All contain 78 protein-coding genes (PCGs), 30 tRNA genes, four rRNA except for pseudogene infA. Phylogenetic analyses using PCGs whole intergenic spacer (IGS) regions strongly support three sections within Mill. show that variety nested falcatum, grandicaule, infundiflorum. Conclusions: Given genomic variation phylogenetic relationships, we propose treating as part complex, despite their morphological differences. offers valuable putative markers species identification supports application plastome-based super-barcoding in morphologically diverse genus Polygonatum.

Language: Английский

Citations

0
Comparative genomics and phylogenetic analysis of six Malvaceae species based on chloroplast genomes DOI Creative Commons

Yiwang Zhong,

Beibei Bai,

Yangyang Sun

et al.

BMC Plant Biology, Journal Year: 2024, Volume and Issue: 24(1)

Published: Dec. 26, 2024

Abstract The Malvaceae family, comprising 9 subfamilies and 4,225 species, includes economically significant taxa, such as Ceiba pentandra , Gossypium ekmanianum stephensii Kokia drynarioides Talipariti hamabo Durio zibethinus . Chloroplast (cp) genome research is crucial for elucidating the evolutionary divergence species identification within this family. In study, we assembled annotated cp genomes of six conducting comprehensive comparative genomic phylogenomic analyses. range from 160,495 to 163,970 bp in size, with 125–129 genes annotated. Notable differences were observed IR (inverted repeat) regions, SSR analysis revealed that has highest number specific variation sites. Among uniquely exhibits more palindromic repeats than forward repeats. Seven highly mutated regions identified, offering potential markers identification. Phylogenetic reconstruction using maximum likelihood method two primary clades Malvaceae: Byttneriina Malvadendrina. Within Malvadendrina, subfamily Helicteroideae represents earliest divergence, followed by Sterculioideae. This study provides a robust phylogenetic framework valuable insights into classification history species.

Language: Английский

Citations

2
Evaluating DNA barcoding using cpDNA matK and rbcL for species identification and phylogenetic analysis of Prunus armeniaca L. (Rosaceae) genotypes DOI
Emre Sevindik, Yunus Korkom, Zehra Tuğba Murathan

et al.

Genetic Resources and Crop Evolution, Journal Year: 2023, Volume and Issue: 71(5), P. 1825 - 1835

Published: Sept. 25, 2023

Language: Английский

Citations

6
Phylogenomics and divergence pattern of Polygonatum (Asparagaceae: Polygonateae) in the north temperate region DOI Creative Commons
Y.-H. Qin, Menghua Zhang,

Chu-Yun Yang

et al.

Molecular Phylogenetics and Evolution, Journal Year: 2023, Volume and Issue: 190, P. 107962 - 107962

Published: Nov. 4, 2023

Language: Английский

Citations

6
Complete Chloroplast Genome of Crassula aquatica: Comparative Genomic Analysis and Phylogenetic Relationships DOI Open Access
Kyu Park, OGyeong Son

Genes, Journal Year: 2024, Volume and Issue: 15(11), P. 1399 - 1399

Published: Oct. 30, 2024

(L.) Schonl. is a very small annual plant growing along riverbanks. Chloroplast (cp) genomes, crucial for photosynthesis, are highly conserved and play key role in understanding evolution. In this study, we conducted cp genome analysis of

Language: Английский

Citations

1
Complete chloroplast genome sequences of the ornamental plant Prunus cistena and comparative and phylogenetic analyses with its closely related species DOI Creative Commons

Lijuan Feng,

Guopeng Zhao,

Mengmeng An

et al.

BMC Genomics, Journal Year: 2023, Volume and Issue: 24(1)

Published: Dec. 5, 2023

Abstract 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 P. are scarce, a clear phylogenetic evolutionary history this species yet to be elucidated. Here, we sequenced analyzed complete chloroplast genome of compared it with related genus based on genome. Results The 157,935 bp long typical tetrad structure, overall GC content 36.72% higher inverted repeats (IR) regions than large single-copy (LSC) small (SSC) regions. It contains 130 genes, including 85 protein-coding 37 tRNA 8 rRNA genes. ycf3 clpP genes have two introns, longest intron trnK-UUU gene LSC region. Moreover, total 253SSRs, mononucleotide SSRs being most abundant. sequences arrangements highly conserved, structure order similar other species. atpE , ccsA petA rps8 matK undergone significant positive selection close relationship jamasakura . coding IR more conserved noncoding regions, DNA throughout Conclusions current genomic datasets provide valuable information further identification, evolution, research

Language: Английский

Citations

3
The complete chloroplast genomes of Polygonatum hunanense , P. verticillatum , and P. caulialatum and their phylogenetic positions DOI Creative Commons

Qing-Dong Ma,

Hong‐Jing Zhang,

Yan-Ran Qi

et al.

Mitochondrial DNA Part B, Journal Year: 2024, Volume and Issue: 9(6), P. 720 - 724

Published: June 2, 2024

H.H. Liu & B.Z. Wang (2021) and

Language: Английский

Citations

0
The complete plastid genome of Polygonatum gracile P. Y. Li (Asparagaceae): characterization and phylogeny DOI Creative Commons

Wen-ping Cheng,

Jianmin Chen, Mingying Zhang

et al.

Mitochondrial DNA Part B, Journal Year: 2024, Volume and Issue: 9(11), P. 1473 - 1478

Published: Oct. 30, 2024

P. Y. Li is a perennial rhizomatous medicinal herb endemic to China with recognized value. Here, the first complete plastid genome of

Language: Английский

Citations

0