RESUMEN
In recent years, 16S rRNA amplicon sequencing technology has been widely used to study human gut microbiota and to detect unknown pathogens in clinical samples. However, its resolution to bacterial population can only reach the relative abundance of genus level, and different factors affect the final bacterial profile, such as sample concentrations, PCR cycle numbers and amplification primers. In order to solve these problems, we developed a quantitative 16S rRNA amplicon sequencing method by combining random tag and internal marker method. The new methods improved the accuracy of human gut microbiota, reduced the impact of experimental operation on the results, and improved the comparability between sequencing and other molecular biological methods.
Asunto(s)
Humanos , Bacterias/genética , Microbioma Gastrointestinal/genética , Secuenciación de Nucleótidos de Alto Rendimiento , Reacción en Cadena de la Polimerasa , ARN Ribosómico 16S/genéticaRESUMEN
Objective To learn about the overall genomic characteristics and population structure of Helicobacterpylori isolated in China.Methods In this study,we used 10 public available genome sequences of H.pylori strains isolated in China,combined with other H.pylori sequences from GenBank,to analyzed the overall genomic characteristics of H.pylori isolated in China.Core genes and strain specific genes were determined for a further function definition.Results A total of 1 203 core genes were found among all sequenced China H.pylori isolates.The number of strain specific genes ranged from 19 to 32.These genes mainly encodes hypothetical proteins which might play an important role in adaption to different hosts.Genomic variation regions were mainly in genes encoding type four secretion systems and restriction modification systems.All the China isolates belong to hpEastAsia group,hspEAsia subgroup.Prophages sequences were found in three China H.pylori strains,carrying key elements required for phage assembly.Conclusion China H.pylori isolates belong to hpEastAsia group,hspEAsia subgroup,and some isolates contain prophages.
RESUMEN
Objective To learn about the overall genomic characteristics and population structure of Helicobacterpylori isolated in China.Methods In this study,we used 10 public available genome sequences of H.pylori strains isolated in China,combined with other H.pylori sequences from GenBank,to analyzed the overall genomic characteristics of H.pylori isolated in China.Core genes and strain specific genes were determined for a further function definition.Results A total of 1 203 core genes were found among all sequenced China H.pylori isolates.The number of strain specific genes ranged from 19 to 32.These genes mainly encodes hypothetical proteins which might play an important role in adaption to different hosts.Genomic variation regions were mainly in genes encoding type four secretion systems and restriction modification systems.All the China isolates belong to hpEastAsia group,hspEAsia subgroup.Prophages sequences were found in three China H.pylori strains,carrying key elements required for phage assembly.Conclusion China H.pylori isolates belong to hpEastAsia group,hspEAsia subgroup,and some isolates contain prophages.