Found programs:
Authors:Li Xinyue; Wang Peng; Chen Fangzhou; Mu Xiaofei; Lu Xiuhui; He Jiaqi; Zheng Yali; Zhou Dongsheng; Yin Zhe
Keywords:mobile element;plasmid;comparative genomics
DOI:10.19405/j.cnki.issn1000-1492.2023.08.003
〔Abstract〕 Objective To analyze the genome structure and genetic characteristics of IncpGRT1plasmids fromPseudomonas, and elucidate its potential transmission risk. Methods The genomic DNA of the clinical isolate 15420352 was extracted after purification and preservation of the strain, and then the whole genome was sequenced, and then the type of the plasmid was identified. Sequence annotation and comparison of the backbone region and the accessory modules were performed on all five same type sequenced plasmids, including one plasmid p420352-strA in this study and four from GenBank. The plasmids were annotated byRAST,Plasmidfinder,Blast,ResFinder, andISfinder. The ORFs of the plasmid were annotated and drug resistance genes were found. Results All five plasmids were classified as new IncpGRT1type plasmids. The IncpGRT1backbone genes or gene loci were in all five plasmids, and they contained an auxiliary replicon besides the primary IncpGRT1replicon. Five IncpGRT1plasmids carried at least three different accessory modules, including thesrpregion, themsrregion, and a Tn5053family transposon. Three resistance genesstrA,strB, andmerwere obtained in these plasmids, which were involved in resistance to two categories of antibiotics and heavy metals. We also found that these plasmids carried at least one virulence genemsrand five key transporterssrp,emrE,mod,phn,andlpt, which could improve the environmental adaptability of the strains. Conclusion The IncpGRT1plasmids have become the important vector for the accumulation and spread of some drug resistance genes and virulence genes inPseudomonas, and have improved the environmental adaptability of the strain.