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| 利用高通量测序快速检测疑似感染患者体内未知病原体 | |
| 引用本文： | 李建彬,庄璐,安小平,米志强,范华昊,李存,陈斌,刘玮,鲍一丹,罗征秀,刘恩梅,方祥,童贻刚.利用高通量测序快速检测疑似感染患者体内未知病原体[J].生物信息学,2011,9(4). |
| 作者姓名： | 李建彬 庄璐 安小平 米志强 范华昊 李存 陈斌 刘玮 鲍一丹 罗征秀 刘恩梅 方祥 童贻刚 |
| 作者单位： | 1. 军事医学科学院微生物流行病研究所,病原微生物生物安全国家重点实验室,北京100071;华南农业大学食品学院,广州510642 2. 华南农业大学食品学院,广州,510642 3. 重庆医科大学儿童医院,重庆,400012 |
| 基金项目： | 国家自然科学基金，国家高技术研究发展863计划，病原微生物生物安全国家重点实验室课题 |
| 摘 要： | 采用第二代高通量测序技术从复杂的疑似感染患者组织标本中直接快速检测未知病原体.方法:取临床和实验室均不能确诊的病人血液和淋巴组织,进行病毒DNA和RNA的提取,直接用于第二代高通量测序,将测序结果用于生物信息学分析,与本地化的病毒核酸数据库进行比对,寻找潜在的病毒序列.结果:生物信息学分析显示,3901条序列reads与人内源性病毒K113同源；当使用K113特异性引物对经过Dnasel处理的患者和正常个体进行荧光定量RT - PCR时,发现在患者体内K113病毒基因的表达远远高于正常个体,提示该患者可能存在K113病毒的感染.结论:第二代高通量测序可能用于快速检测未知病原体. |
| 关 键 词： | 高通量测序 未知病原体检测 内源性病毒K113 |
Rapid detection of potential new pathogens in patient using high -throughput sequencing |
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| LI Jian-bin,ZHUANG Lu,AN Xiao-ping,MI Zhi-qiang,FAN Hua-hao,LI Cun,CHEN Bin,LIU Wei,BAO Yi-dan,LUO Zheng-xiu,LIU En-mei,FANG Xiang,TONG Yi-gang.Rapid detection of potential new pathogens in patient using high -throughput sequencing[J].China Journal of Bioinformation,2011,9(4). | |
| Authors: | LI Jian-bin ZHUANG Lu AN Xiao-ping MI Zhi-qiang FAN Hua-hao LI Cun CHEN Bin LIU Wei BAO Yi-dan LUO Zheng-xiu LIU En-mei FANG Xiang TONG Yi-gang |
| Institution: | LI Jian-bin1,3,ZHUANG Lu1,AN Xiao-ping1,MI Zhi-qiang1,FAN Hua-hao1,LI Cun1,CHEN Bin1,LIU Wei1,BAO Yi-dan3,LUO Zheng-xiu2,LIU En-mei2,FANG Xiang3,TONG Yi-gang1 (1.State Key Laboratory of Pathogen and Biosecurity,Institute of Microbiology and Epidemiology,Academy of Military Medical Science,Beijing 100071,China,2.Children's Hospital of Chongqing Medical University,Chongqing 400012,3.College of Food Science,South China Agricultural University,Guangzhou 510642,China) |
| Abstract: | To direct detect potential pathogens in suspect patient tissues with next generation sequencing.Methods:DNA and RNA samples were prepared from tissues of a patient who is suspected of infection but the clinical and laboratory diagnosis is not available to confirm the infection.The DNA and RNA (converted into cDNA) samples were directly subjected to next-generation sequencing.The sequencing data were cleaned with fastx-toolkits softwarepackage and then analyzed with BLAST using locally adopted virus nucleoti... |
| Keywords: | high-throughput sequencing detection of unknown pathogens endogenous K113 virus |
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