Comparative and evolutionary analysis of chloroplast genomes from five rare Styrax species DOI Creative Commons
Hao-Zhi Zheng, Peng Gong, Liyuan Zhao

et al.

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: May 7, 2025

Abstract Background Styrax , a vital raw material for shipbuilding, construction, perfumes, and drugs, represents the largest most diverse genus in Styracaceae. However, there is relative scarcity of research on particularly evolution genetics. Therefore, this study conducted comparative evolutionary analyses chloroplast genomes five rare species ( S. argentifolius buchananii chrysocarpus finlaysonianus rhytidocarpus ). Results The results indicated that, despite high levels conservation genome structure among these species, specific mutation hotspot regions exist, involving expansion contraction IR region. Additionally, evidence positive selection was detected eight genes atpB ccsA ndhD petA rbcL rpoC1 ycf1 ycf2 ), which may be associated with adaptive response to environmental changes. Phylogenetic analysis revealed conflicts between trees constructed based coding sequences complete several were similar previous phylogenetic studies. Conclusion This underscores importance increasing sample sizes enhance accuracy provides new perspective understanding species. These findings are not only important sustainable use but also provide valuable insights plant ecology within genus.

Language: Английский

Sixteen New Complete Plastid Genomes in the Tribe Loteae (Leguminosae): Structure and Phylogenetic Analysis DOI Creative Commons
Tahir H. Samigullin, Yu. O. Kopylov-Guskov, O. V. Nikitina

et al.

Plants, Journal Year: 2025, Volume and Issue: 14(4), P. 618 - 618

Published: Feb. 18, 2025

The tribe Loteae (Papilioniodeae-Leguminosae), according to plastid data, belongs the Robinioid clade, which also includes tribes Robinieae and Sesbanieae. contains 16 genera about two hundred seventy-five species, of genomes five species have been studied date. main objectives our study were obtain new information on genome structure representatives in order assess variability reconstruct phylogenetic relationships within Loteae. We performed sequencing, assembly, structural analyses genomes. All assembled plastomes showed a quadripartite with an overall length ranging from 150,069 152,206 bp relative stability inverted repeat borders. demonstrated full collinearity; most variable sites found petN-trnC rps16-accD spacers LSC region ycf1 gene SSC. inferred attained maximal support Hippocrepis lineage separated first, followed by Coronilla Anthyllis; Lotus is sister group clade Acmispon + Ornithopus. In this study, completely resolved representing backbone phylogeny produced. obtained results that are structurally conservative contrast closely related

Language: Английский

Citations

0
Comparative and Phylogenetic Analysis of the Chloroplast Genomes of Four Wild Species of the Genus Prunus DOI Open Access

Max Cui,

Chenxi Liu, Xiumei Yang

et al.

Genes, Journal Year: 2025, Volume and Issue: 16(3), P. 239 - 239

Published: Feb. 20, 2025

Background: Prunus armeniaca, divaricata, tianshanica, and domestica are valuable ancient tree species that have persisted since the end of Tertiary period within Tianshan wild fruit forest. However, evolutionary relationships among in forest long posed a challenge. Methods: We sequenced assembled chloroplast genomes P. incorporated genome data for comparative analysis to elucidate their phylogenetic positions genus Prunus. Results: The lengths these ranged from 157,395 bp 158,090 bp, with total 130 131 genes annotated, comprising 85 86 protein-coding genes, 8 rRNA 35 36 tRNA genes. Notably, four predominantly used high-frequency codons ending A/U. Additionally, we identified 300 simple repetitive sequences 166 across species. mutation sites were mainly found non-coding regions, seven regions high frequency identified. revealed five branches: subgenus Armeniaca, Microcerasus, Prunus, Amygdalus, Cerasus. estimated deviation time crown group is roughly 61.41 million years ago. Conclusions: This study provides exhaustive genetic evidence classification systematic establishes crucial foundation subsequent research into diversity history genus.

Language: Английский

Citations

0
Comparative and evolutionary analysis of chloroplast genomes from five rare Styrax species DOI Creative Commons
Hao-Zhi Zheng, Peng Gong, Liyuan Zhao

et al.

BMC Genomics, Journal Year: 2025, Volume and Issue: 26(1)

Published: May 7, 2025

Abstract Background Styrax , a vital raw material for shipbuilding, construction, perfumes, and drugs, represents the largest most diverse genus in Styracaceae. However, there is relative scarcity of research on particularly evolution genetics. Therefore, this study conducted comparative evolutionary analyses chloroplast genomes five rare species ( S. argentifolius buchananii chrysocarpus finlaysonianus rhytidocarpus ). Results The results indicated that, despite high levels conservation genome structure among these species, specific mutation hotspot regions exist, involving expansion contraction IR region. Additionally, evidence positive selection was detected eight genes atpB ccsA ndhD petA rbcL rpoC1 ycf1 ycf2 ), which may be associated with adaptive response to environmental changes. Phylogenetic analysis revealed conflicts between trees constructed based coding sequences complete several were similar previous phylogenetic studies. Conclusion This underscores importance increasing sample sizes enhance accuracy provides new perspective understanding species. These findings are not only important sustainable use but also provide valuable insights plant ecology within genus.

Language: Английский

Citations

0