摘要
【目的】探究尖孢镰刀菌(Fusarium oxysporum)全基因组的密码子使用模式,分析影响其密码子组成和编码特性的因素。【方法】以F.oxysporum全基因组数据为试验材料,利用CodonW、R等软件分析密码子偏好性及其影响因素。【结果】共得到18125条符合分析要求的序列;F.oxysporum的平均GC含量为51.46%,ENC值为24.31~61.00,且共有94.41%的ENC值大于45。亮氨酸和丙氨酸占比较高,分别为8.86%和8.29%;色氨酸和半胱氨酸占比较低,分别仅为1.61%和1.34%。F.oxysporum拥有33个高频密码子、19个最优密码子、密码子主要以G/C结尾;密码子基本参数相关性分析表明,GC1和GC2相关性极显著(P<0.01),GC3与ENC的相关性最强(P<0.01)。【结论】尖孢镰刀菌(Fusarium oxysporum)全基因组密码子偏好性主要受自然选择作用影响,同时GC3与ENC相关性最强;33个高频密码子和19个最优密码子主要以G/C结尾。
【Objective】To explore the codon usage pattern of Fusarium oxysporum genome-wide and to assess the factors influencing the codon composition and coding characteristics.【Methods】Using software CodonW and R to analyze the codon preference and its influencing factors on genome-wide data from F.oxysporum.【Results】A total of 18125 sequences was obtained.The average GC content of F.oxysporum was 51.46%.The ENC value ranged from 24.31 to 61.00,and 94.41%of the ENC values were more than 45.Leucine and Alanine were the major amino acids,and accounted for 8.86%and 8.29%respectively.While Tryptophan and Cysteine accounted for only 1.61%and 1.34%respectively.F.oxysporum had 33 high-frequency codons and 19 optimal codons,with the majority of the codons ending in G/C.The correlation study of basic codon parameters revealed that the correlation between GC1 and GC2 was extreme significant(P<0.01),while the correlation between GC3 and ENC was the strongest(P<0.01).【Conclusion】Natural selection is the primary factor influencing the codon preference of Fusarium oxysporum.The correlation between GC3 and ENC was the strongest.33 high-frequency codons and 19 optimal codons primarily ending in G/C.
作者
路景诗
赵远征
王东
李晓杰
彭静文
张龙梅
张晓明
LU Jingshi;ZHAO Yuanzheng;WANG Dong;LI Xiaojie;PENG Jingwen;ZHANG Longmei;ZHANG Xiaoming(Inner Mongolia Agricultural University,Hohhot 010018,China;Inner Mongolia Academy of Agricultural and Animal Husbandry Sciences,Hohhot 010031,China;Inner Mongolia Agricultural and Animal Husbandry Technology Extension Center,Hohhot 010011,China)
出处
《北方农业学报》
2022年第4期11-17,共7页
Journal of Northern Agriculture
基金
国家自然科学基金专项项目(M2042002)
内蒙古科技重大专项(zdzx2018049)
内蒙古大学生创新创业训练计划项目(202010129016)
内蒙古自治区自然科学基金项目(2021BS03008)。
