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目的验证核糖体结合部位(RBS)定位的可靠性。方法选取了鼠疫菌基因组中一个具有特征性的板块,采用传统及RBS方法确定其中含有的编码序列(CDS)数量,比较其一致性,并通过对10株不同来源的鼠疫菌全基因组序列的比较,确定突变发生的位置及对CDS的影响,从而判断RBS基因判定方法的可靠性。结果利用RBS定位鼠疫菌起始板块中的蛋白质编码序列,CO92序列在该板块范围内共标注了47个基因的CDS,按本研究的方法可发现74个CDS,其中与原标注完全相符24个,部分相符8个。发现9个CDS具有多个翻译起点。发现42个新CDS,多编码不足100个氨基酸的短肽。分析了10株鼠疫菌的突变,以判断突变对CDS的影响。在该板块范围内共出现SNP及插入或缺失突变36处,按原CO92基因标注,这些突变对12个CDS发生影响,但按照RBS的标注方法,受到影响的CDS减少至9个,还有3个CDS减轻了影响的程度。结论 RBS可以成为认定基因确实存在的最重要指标,但目前尚不能取代以马尔科夫模型为基础的基因标注方法。
Objective To verify the reliability of ribosome binding site (RBS) localization. Methods A plaque was selected from the genome of Yersinia pestis. The number of coding sequences (CDS) contained in the genome of Y. pestis was determined by traditional and RBS methods, and their identities were compared. By comparing the genome sequences of 10 strains of Y. pestis , Determine the location of the mutation and the impact on CDS, to determine the reliability of RBS gene determination method. Results Using RBS to locate the protein coding sequence of Yersinia pestis, the CO92 sequence was co-labeled with CDS of 47 genes within the range of the plate. According to the method, 74 CDS were found, of which 24 , Partially consistent with 8. Nine CDSs were found to have multiple translation starting points. Forty-two new CDSs were found, encoding short peptides of less than 100 amino acids. Ten strains of Y. pestis were analyzed to determine the effect of the mutation on CDS. A total of 36 SNPs and insertions or deletions were found within the range of the plate. According to the CO92 gene annotation, these mutations affected 12 CDSs. However, according to the RBS labeling method, the number of CDS affected was reduced to 9 and 3 The CDS mitigates the impact. Conclusions RBS can be the most important indicator of the existence of identified genes, but it can not replace the method of gene annotation based on Markov model.