[關(guān)鍵詞]
[摘要]
目的 為探究黃芩屬藥用植物葉綠體基因組密碼子的使用偏好性及其影響因素，為黃芩屬藥用植物遺傳育種、資源保護(hù)等研究提供理論依據(jù)。方法 從美國國家生物技術(shù)信息中心（NCBI）數(shù)據(jù)庫中下載了16種黃芩屬藥用植物的葉綠體基因組，使用Codon W 1.4.2及CUSP和SPSS 27等軟件對16種黃芩屬藥用植物葉綠體基因的編碼區(qū)（CDS）序列密碼子偏好性進(jìn)行分析。結(jié)果 16種黃芩屬藥用植物的葉綠體基因組編碼區(qū)的同義密碼子和最優(yōu)密碼子使用偏好性一致，都是以A/U結(jié)尾，高頻密碼子有UUA、AGA。PR2-plot、中性圖和ENC-plot的結(jié)果顯示16種黃芩屬藥用植物葉綠體基因組的密碼子使用偏好性同時(shí)受到自然選擇和內(nèi)部堿基突變的影響，但自然選擇是葉綠體基因組密碼子偏好性形成的主導(dǎo)因素。結(jié)論 16種黃芩屬藥用植物的葉綠體基因組密碼子偏好A/U結(jié)尾，與其他因素相比自然選擇是其密碼子偏好形成的主導(dǎo)因素。
[Key word]
[Abstract]
Objective To explore the codon usage bias of chloroplast genomes of medicinal plants in the genus Scutellaria and its affecting factors, provide a theoretical basis for subsequent genetic breeding and resources protection studies of Scutellaria medicinal plants.MethodsThe chloroplast genomes of 16 Scutellaria medicinal plants were downloaded from the NCBI database, and the coding sequences (CDS) codon preferences of the chloroplast genes of the 16 Scutellaria medicinal plants were analyzed using Codon W 1.4.2 and the software CUSP and SPSS 27. Results The synonymous codons and optimal codons of chloroplast genome coding region of 16 Scutellaria medicinal plants in usage bias were consistent, all ending in A/U, and the high-frequency codons were UUA and AGA. The results of PR2-plot, neutral map, and ENC-plot showed that the codon usage bias in the chloroplast genomes of the 16 Scutellaria medicinal plants were affected by both natural selection and internal base mutations, but natural selection was the dominating factor in the formation of codon bias in the chloroplast genomes. Conclusion The chloroplast genomes of 16 Scutellaria medicinal plants have codon preferences for A/U endings, and natural selection is the dominant factor in the formation of their codon preferences compared with other factors.
[中圖分類號(hào)]
R286.12
[基金項(xiàng)目]
國家重點(diǎn)研發(fā)計(jì)劃項(xiàng)目(2017YFC1701701);國家中醫(yī)藥管理局科技司"中藥質(zhì)量保障與創(chuàng)新發(fā)展項(xiàng)目"(2024002845);河北省省級科技計(jì)劃資助(H2024423018,22326418D);河北省二期現(xiàn)代農(nóng)業(yè)產(chǎn)業(yè)技術(shù)體系創(chuàng)新團(tuán)隊(duì)(HBCT2023080201,HBCT2023080205);河北中醫(yī)藥大學(xué)大學(xué)生創(chuàng)新項(xiàng)目(s202414432021,s202414432050);河北省中醫(yī)藥管理局科研計(jì)劃項(xiàng)目(2023351)
