| Phylogenetic analysis of Asiatic species in the tropical genus Beilschmiedia (Lauraceae) | |
Zhu, Wen; Ma, Jurong1,2; Tan, Yunhong3,4 ; Song, Yu1,2; Xin, Peiyao
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| 2025 | |
| Source Publication | BMC GENOMICS
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| ISSN | 1471-2164 |
| Volume | 26Issue:1Pages:- |
| Abstract | The tropial genus Beilschmiedia, comprising over 250 species worldwide, includes approximately 40 species distributed in the northern tropical forests of Asia. However, the phylogenetic relationships among these Asiatic Beilschmiedia species remain incompletely understood. In this study, we sequenced and assembled complete chloroplast genomes from six Asiatic Beilschmiedia species, including five from China and one from Indonesia. The genomes range in size from 158,275 to 158,620 bp and exhibit a typical quadripartite structure, similar to other basal Lauraceae species. We identified 116 to 122 simple sequence repeats (SSRs) and 19 to 28 dispersed repeats within the genomes. The relative synonymous codon usage (RSCU) of 79 protein-coding genes exhibited minimal variation. Notably, the boundary genes rpl23 and ycf1 displayed varying degrees of expansion and contraction, along with incomplete replication phenomena. Using a sliding window approach, we constructed a coalescent tree with ASTRAL software to analyze the phylogenetic relationships. The resulting main topology was highly consistent with the Maximum Likelihood (ML) and Bayesian inference (BI) analyses, clearly dividing the Asiatic core Beilschmiedia into two distinct groups: Group A and Group B. Group A showed an extremely low nucleotide diversity (pi) value of 0.00063, while Group B exhibited 2.79-fold higher diversity. The highly variable regions trnS-trnG and rpl32-trnL are proposed as molecular markers for distinguishing between Groups A and B. Furthermore, we identified seven additional highly variable regions: ndhF, ndhF-rpl32, rpl2, rpl2-trnH, rpl32, rps15-ycf1, and ycf1. These regions may serve as potential molecular markers for the Asiatic Beilschmiedia species. These findings provide new insights into the phylogenetic relationships among Asiatic Beilschmiedia species, highlighting the potential of specific molecular markers in future research. |
| Keyword | Beilschmiediineae Chloroplast genome Comparative genomics Phylogenetic relationship Candidate barcode |
| Subject Area | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| DOI | 10.1186/s12864-025-11354-x |
| Indexed By | SCI |
| Language | 英语 |
| WOS ID | WOS:001439604600001 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | https://ir.xtbg.ac.cn/handle/353005/14708 |
| Collection | 2012年后新成立研究组 |
| Affiliation | 1.Southwest Forestry Univ, Engn Technol Res Ctr, Natl Forestry & Grassland Adm Southwest Landscape, Kunming 650224, Yunnan, Peoples R China 2.Guangxi Normal Univ, Key Lab Ecol Rare & Endangered Species & Environm, Minist Educ, Guilin 541004, Guangxi, Peoples R China 3.Guangxi Normal Univ, Guangxi Key Lab Landscape Resources Conservat & Su, Guilin 541004, Guangxi, Peoples R China 4.Chinese Acad Sci, Southeast Asia Bioaffiliationers Res Inst, Mengla 666303, Yunnan, Peoples R China 5.Chinese Acad Sci, Ctr Integrat Conservat, Xishuangbanna Trop Bot Garden, Mengla 666303, Yunnan, Peoples R China |
| Recommended Citation GB/T 7714 | Zhu, Wen,Ma, Jurong,Tan, Yunhong,et al. Phylogenetic analysis of Asiatic species in the tropical genus Beilschmiedia (Lauraceae)[J]. BMC GENOMICS,2025,26(1):-. |
| APA | Zhu, Wen,Ma, Jurong,Tan, Yunhong,Song, Yu,&Xin, Peiyao.(2025).Phylogenetic analysis of Asiatic species in the tropical genus Beilschmiedia (Lauraceae).BMC GENOMICS,26(1),-. |
| MLA | Zhu, Wen,et al."Phylogenetic analysis of Asiatic species in the tropical genus Beilschmiedia (Lauraceae)".BMC GENOMICS 26.1(2025):-. |
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