中华微生物学和免疫学杂志
中華微生物學和免疫學雜誌
중화미생물학화면역학잡지
CHINESE JOURNAL OF MICROBIOLOGY AND IMMUNOLOGY
2011年
5期
421-424
,共4页
高国辉%齐云玲%孙倩%宋智健%宋玉龙%李劲松%王慧利%包其郁%丁力
高國輝%齊雲玲%孫倩%宋智健%宋玉龍%李勁鬆%王慧利%包其鬱%丁力
고국휘%제운령%손천%송지건%송옥룡%리경송%왕혜리%포기욱%정력
大肠杆菌%质粒%解离后致死基因%单核苷酸多态性
大腸桿菌%質粒%解離後緻死基因%單覈苷痠多態性
대장간균%질립%해리후치사기인%단핵감산다태성
Escherichia coli%Plasmid%Host killing genes%Single nucleotide polymorphisms
目的 通过对来自不同年份大肠杆菌质粒DNA序列进行高通最测序,从质粒基因组水平分析大肠杆菌质粒DNA所携带的解离后致死基因的种类、数量以及多态性.方法 收集4年临床分离非重复的320株大肠杆菌.菌株分为两个部分,碱裂解法提取全部质粒DNA,Solexa测序获得大规模的短序列.采用比较基因组学方法分析两个样本所含的解离后致死基因类型及丰度的差异,研究解离后致死基因存在的核苷酸多态位点.结果 测序法获得两批数据,E1短序列总数为11 077 768,可以定位到参照序列上为5019(0.045%).E2短序列总数为9 377 792,可以定位到参照序列上是4952(0.053%).两个样本中共有9个解离后致死基因型,其中hok基因丰度最高.5个基因型共发现29个单核苷酸多态性(SNPs)位点,约33%为非同义突变.同一个位点的A、G二核苷酸多态现象常见.结论 已知的大肠杆菌解离后致死基因的9个基因型,在温州地区分离的大肠杆菌质粒上均有发现,其中hok基因出现频率最高,共5个基因型存在多态性.
目的 通過對來自不同年份大腸桿菌質粒DNA序列進行高通最測序,從質粒基因組水平分析大腸桿菌質粒DNA所攜帶的解離後緻死基因的種類、數量以及多態性.方法 收集4年臨床分離非重複的320株大腸桿菌.菌株分為兩箇部分,堿裂解法提取全部質粒DNA,Solexa測序穫得大規模的短序列.採用比較基因組學方法分析兩箇樣本所含的解離後緻死基因類型及豐度的差異,研究解離後緻死基因存在的覈苷痠多態位點.結果 測序法穫得兩批數據,E1短序列總數為11 077 768,可以定位到參照序列上為5019(0.045%).E2短序列總數為9 377 792,可以定位到參照序列上是4952(0.053%).兩箇樣本中共有9箇解離後緻死基因型,其中hok基因豐度最高.5箇基因型共髮現29箇單覈苷痠多態性(SNPs)位點,約33%為非同義突變.同一箇位點的A、G二覈苷痠多態現象常見.結論 已知的大腸桿菌解離後緻死基因的9箇基因型,在溫州地區分離的大腸桿菌質粒上均有髮現,其中hok基因齣現頻率最高,共5箇基因型存在多態性.
목적 통과대래자불동년빈대장간균질립DNA서렬진행고통최측서,종질립기인조수평분석대장간균질립DNA소휴대적해리후치사기인적충류、수량이급다태성.방법 수집4년림상분리비중복적320주대장간균.균주분위량개부분,감렬해법제취전부질립DNA,Solexa측서획득대규모적단서렬.채용비교기인조학방법분석량개양본소함적해리후치사기인류형급봉도적차이,연구해리후치사기인존재적핵감산다태위점.결과 측서법획득량비수거,E1단서렬총수위11 077 768,가이정위도삼조서렬상위5019(0.045%).E2단서렬총수위9 377 792,가이정위도삼조서렬상시4952(0.053%).량개양본중공유9개해리후치사기인형,기중hok기인봉도최고.5개기인형공발현29개단핵감산다태성(SNPs)위점,약33%위비동의돌변.동일개위점적A、G이핵감산다태현상상견.결론 이지적대장간균해리후치사기인적9개기인형,재온주지구분리적대장간균질립상균유발현,기중hok기인출현빈솔최고,공5개기인형존재다태성.
Objective To investigate the genotypes of host killing genes and their single nucleotide polymorphisms (SNPs). Methods Three hundred and twenty strains of Escherichia coli that collected from the First Affiliated Hospital of Wenzhou Medical College were analyzed. The first sample ( E1 ) contains 160 strains isolated during the years from 2002 to 2003. The second sample (E2) contains 160 strains covering the years from 2008 to 2009. The plasmids of Escherichia coli were extracted by alkaline lysis method. Solexa/Illumina sequencing technology was used to sequence plasmids metagenome. Solexa Genome Analysis System and Soap programs were used to analyze gene distribution, SNPs and lineage-specific mutations. Results 11 077 768 reads were generated and 0. 045% of them can map to the reference sequences from El sample. Whereas 9 377 792 reads were generated and 0. 053% of which mapped to the reference from E2 sample. There are nine host killing genes identified in the two samples, of which hok gene is the most prevalent. A total of 29 SNP sites dispersed in five genes of the two samples. Approximately 33% of them were non-synonymous mutations. One position of A and G is the most prevalent polymorphism. Conclusion The known nine genotypes of host killing genes were all identified in plasmids of Escherichia coli in Wenzhou. hok gene showed the highest frequency. There were SNPs in five genotypes.