利用蛋白质同源性搜索检验细菌预测基因的起始位点

Examining Start Sites of Predicted Bacterial Genes Through Protein Homology Search

摘要:

细菌基因组中基因密度高、结构相对简单,基因预测可以达到较高的准确度。细菌基因预测的一个重要问题是难以准确判断基因起始位点,目前应用最广的基因组自动注释方法给出的结果中,占总数约1/5的基因的起始位点有分歧,尚无利用基因结构的统计特征改进起始位点预测的有效方法。通过蛋白质同源性搜索,为推断起始位点提供新的线索。对氧化葡萄糖酸杆菌Gluconobacter oxydans 621H全基因组的分析表明,这种方法可以实质性改善起始位点预测结果。

Abstract:

Due to high density and relatively simple structure,genes in bacterial genomes can be predicted with high accuracy.An important remaining issue in bacterial gene prediction is to precisely identify the gene start sites.At present,the most widely used automatic genome annotation pipelines result in the disagreed prediction of start sites for about 1/5 of the total genes.There is no effective method available to improve the start site prediction by using statistical characteristics of gene structure.This manuscript attempts to find new clues for the deduced start sites through protein homology search.Our analysis of the genome of Gluconobacter oxydans 621H shows that this method can substantially improve the start site prediction.