宏基因組高通量測序技術能夠引領呼吸感染性疾病邁進精準醫學時代嗎？_Chinese Journal of Respiratory and Critical Care Medicine

Authors：

周永召 ¹ , 陸思芬 ² , 劉丹 ¹ , 范紅 ¹ , 王業 ¹ ,  李為民 ^1,2

1. ;
2. ;

Corresponding?author：

李為民, Email: weimi003@scu.edu.cn

Keywords：

DOI：

10.7507/1671-6205.202202029

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Citation： 周永召, 陸思芬, 劉丹, 范紅, 王業, 李為民. 宏基因組高通量測序技術能夠引領呼吸感染性疾病邁進精準醫學時代嗎？. Chinese Journal of Respiratory and Critical Care Medicine, 2022, 21(2): 137-141. doi: 10.7507/1671-6205.202202029 Copy

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2.	Antimicrobial Resistance Collaborators. Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. Lancet, 2022, 399(10325): 629-655.
3.	Zhang QQ, Ying GG, Pan CG, et al. Comprehensive evaluation of antibiotics emission and fate in the river basins of China: source analysis, multimedia modeling, and linkage to bacterial resistance. Environ Sci Technol, 2015, 49(11): 6772-6782.
4.	Jain S, Self WH, Wunderink RG, et al. Community-acquired pneumonia requiring hospitalization among US adults. N Engl J Med, 2015, 373(5): 415-427.
5.	Rogers GB, Wesselingh S. Precision respiratory medicine and the microbiome. Lancet Respir Med, 2016, 4(1): 73-82.
6.	Chiu CY, Miller SA. Clinical metagenomics. Nat Rev Genet, 2019, 20(6): 341-355.
7.	Li N, Cai Q, Miao Q, et al. High‐throughput metagenomics for identification of pathogens in the clinical settings. Small Methods, 2021, 5(1): 2000792.
8.	宏基因組分析和診斷技術在急危重癥感染應用專家共識組. 宏基因組分析和診斷技術在急危重癥感染應用的專家共識. 中華急診醫學雜志, 2019, 28(2): 151-155.
9.	宏基因組學測序技術在中重癥感染中的臨床應用共識專家組, 中國研究型醫院學會膿毒癥與休克專業委員會, 中國微生物學會微生物毒素專業委員會, 深圳市醫學會重癥醫學專業委員會. 宏基因組學測序技術在中重癥感染中的臨床應用專家共識(第一版). 中華危重病急救醫學, 2020, 32(5): 531-536.
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11.	中華醫學會檢驗醫學分會. 高通量宏基因組測序技術檢測病原微生物的臨床應用規范化專家共識. 中華檢驗醫學雜志, 2020, 43(12): 1181-1195.
12.	中華醫學會檢驗醫學分會臨床微生物學組, 中華醫學會微生物學與免疫學分會臨床微生物學組, 中國醫療保健國際交流促進會臨床微生物與感染分會. 宏基因組高通量測序技術應用于感染性疾病病原檢測中國專家共識. 中華檢驗醫學雜志, 2021, 44(2): 107-120.
13.	中華醫學會神經病學分會感染性疾病與腦脊液細胞學學組. 中樞神經系統感染性疾病的腦脊液宏基因組學第二代測序應用專家共識. 中華神經科雜志, 2021, 54(12): 1234-1240.
14.	中華醫學會檢驗醫學分會. 宏基因組測序病原微生物檢測生物信息學分析規范化管理專家共識. 中華檢驗醫學雜志, 2021, 44(9): 799-807.
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16.	中華醫學會呼吸病學分會. 中國成人社區獲得性肺炎診斷和治療指南(2016年版). 中華結核和呼吸雜志, 2016, 39(4): 253-279.
17.	Xie G, Zhao B, Wang X, et al. Exploring the Clinical utility of metagenomic next-generation sequencing in the diagnosis of pulmonary infection. Infect Dis Ther, 2021, 10(3): 1419-1435.
18.	Wu X, Li Y, Zhang M, Li M, et al. Etiology of severe community-acquired pneumonia in adults based on metagenomic next-generation sequencing: a prospective multicenter study. Infect Dis Ther, 2020, 9(4): 1003-1015.
19.	鄒曉輝, 曹彬. 呼吸道感染病原學診斷年度進展2021. 中華結核和呼吸雜志, 2022, 45(1): 78-82.
20.	李冰, 繆青, 金文婷, 等. 宏基因二代測序技術對厭氧菌感染精準化診斷的臨床價值. 中華醫院感染學雜志, 2019, 29(13): 1927-1930, 1953.
21.	肖華, 周晨, 蔡峰, 等. NGS檢出微小微單胞菌肺炎1例及文獻復習. 中國實驗診斷學, 2021, 25(2): 232-235.
22.	沈凌, 田賢江, 梁榮章, 等. 鸚鵡熱衣原體肺炎48例臨床特征分析. 中華結核和呼吸雜志, 2021, 44(10): 886-891.
23.	王艷泓, 邱玉英, 唐健, 等. 結合宏基因組二代測序診斷的八例鸚鵡熱患者臨床分析. 中國呼吸與危重監護雜志, 2021, 20(7): 472-478.
24.	Li N, Li S, Tan W, Wang H, et al. Metagenomic next-generation sequencing in the family outbreak of psittacosis: first reported family outbreak of psittacosis in China under COVID-19. Emerg Microbes Infect, 2021, 10(1): 1-31.
25.	孫雯雯, 顧瑾, 范琳. 宏基因組二代測序對不同類型結核病的診斷價值. 中華結核和呼吸雜志, 2021, 44(2): 96-100.
26.	Clsa B, Peng HC, Pjta B, et al. Clinical metagenomic sequencing for diagnosis of pulmonary tuberculosis. J Infect, 2020, 81(4): 567-574.
27.	Liu X, Chen Y, Ouyang H, et al. Tuberculosis diagnosis by metagenomic next-generation sequencing on bronchoalveolar lavage fluid: a cross-sectional analysis. Int J Infect Dis, 2021, 104: 50-57.
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37.	卓惠長, 林建東, 尤彥菁. 基于宏基因組學的二代測序技術快速診斷腎移植術后單純皰疹病毒性肺炎1例并文獻復習. 福建醫科大學學報, 2020, 54(1): 59-61.
38.	張甜, 陳名武, 張曉光, 等. 基于宏基因組二代測序技術的兒童重癥腺病毒7型肺炎20例病例系列報告. 中國循證兒科雜志, 2020, 15(2): 130-134.
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1. Bassetti M, Poulakou G, Ruppe E, et al. Antimicrobial resistance in the next 30 years, humankind, bugs and drugs: a visionary approach. Intensive Care Med, 2017, 43(1): 1464-1475.
2. Antimicrobial Resistance Collaborators. Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. Lancet, 2022, 399(10325): 629-655.
3. Zhang QQ, Ying GG, Pan CG, et al. Comprehensive evaluation of antibiotics emission and fate in the river basins of China: source analysis, multimedia modeling, and linkage to bacterial resistance. Environ Sci Technol, 2015, 49(11): 6772-6782.
4. Jain S, Self WH, Wunderink RG, et al. Community-acquired pneumonia requiring hospitalization among US adults. N Engl J Med, 2015, 373(5): 415-427.
5. Rogers GB, Wesselingh S. Precision respiratory medicine and the microbiome. Lancet Respir Med, 2016, 4(1): 73-82.
6. Chiu CY, Miller SA. Clinical metagenomics. Nat Rev Genet, 2019, 20(6): 341-355.
7. Li N, Cai Q, Miao Q, et al. High‐throughput metagenomics for identification of pathogens in the clinical settings. Small Methods, 2021, 5(1): 2000792.
8. 宏基因組分析和診斷技術在急危重癥感染應用專家共識組. 宏基因組分析和診斷技術在急危重癥感染應用的專家共識. 中華急診醫學雜志, 2019, 28(2): 151-155.
9. 宏基因組學測序技術在中重癥感染中的臨床應用共識專家組, 中國研究型醫院學會膿毒癥與休克專業委員會, 中國微生物學會微生物毒素專業委員會, 深圳市醫學會重癥醫學專業委員會. 宏基因組學測序技術在中重癥感染中的臨床應用專家共識(第一版). 中華危重病急救醫學, 2020, 32(5): 531-536.
10. 《中華傳染病雜志》編輯委員會. 中國宏基因組學第二代測序技術檢測感染病原體的臨床應用專家共識. 中華傳染病雜志, 2020, 38(11): 681-689.
11. 中華醫學會檢驗醫學分會. 高通量宏基因組測序技術檢測病原微生物的臨床應用規范化專家共識. 中華檢驗醫學雜志, 2020, 43(12): 1181-1195.
12. 中華醫學會檢驗醫學分會臨床微生物學組, 中華醫學會微生物學與免疫學分會臨床微生物學組, 中國醫療保健國際交流促進會臨床微生物與感染分會. 宏基因組高通量測序技術應用于感染性疾病病原檢測中國專家共識. 中華檢驗醫學雜志, 2021, 44(2): 107-120.
13. 中華醫學會神經病學分會感染性疾病與腦脊液細胞學學組. 中樞神經系統感染性疾病的腦脊液宏基因組學第二代測序應用專家共識. 中華神經科雜志, 2021, 54(12): 1234-1240.
14. 中華醫學會檢驗醫學分會. 宏基因組測序病原微生物檢測生物信息學分析規范化管理專家共識. 中華檢驗醫學雜志, 2021, 44(9): 799-807.
15. 中華醫學會呼吸病學分會感染學組. 中國成人醫院獲得性肺炎與呼吸機相關性肺炎診斷和治療指南(2018年版). 中華結核和呼吸雜志, 2018, 41(4): 255-280.
16. 中華醫學會呼吸病學分會. 中國成人社區獲得性肺炎診斷和治療指南(2016年版). 中華結核和呼吸雜志, 2016, 39(4): 253-279.
17. Xie G, Zhao B, Wang X, et al. Exploring the Clinical utility of metagenomic next-generation sequencing in the diagnosis of pulmonary infection. Infect Dis Ther, 2021, 10(3): 1419-1435.
18. Wu X, Li Y, Zhang M, Li M, et al. Etiology of severe community-acquired pneumonia in adults based on metagenomic next-generation sequencing: a prospective multicenter study. Infect Dis Ther, 2020, 9(4): 1003-1015.
19. 鄒曉輝, 曹彬. 呼吸道感染病原學診斷年度進展2021. 中華結核和呼吸雜志, 2022, 45(1): 78-82.
20. 李冰, 繆青, 金文婷, 等. 宏基因二代測序技術對厭氧菌感染精準化診斷的臨床價值. 中華醫院感染學雜志, 2019, 29(13): 1927-1930, 1953.
21. 肖華, 周晨, 蔡峰, 等. NGS檢出微小微單胞菌肺炎1例及文獻復習. 中國實驗診斷學, 2021, 25(2): 232-235.
22. 沈凌, 田賢江, 梁榮章, 等. 鸚鵡熱衣原體肺炎48例臨床特征分析. 中華結核和呼吸雜志, 2021, 44(10): 886-891.
23. 王艷泓, 邱玉英, 唐健, 等. 結合宏基因組二代測序診斷的八例鸚鵡熱患者臨床分析. 中國呼吸與危重監護雜志, 2021, 20(7): 472-478.
24. Li N, Li S, Tan W, Wang H, et al. Metagenomic next-generation sequencing in the family outbreak of psittacosis: first reported family outbreak of psittacosis in China under COVID-19. Emerg Microbes Infect, 2021, 10(1): 1-31.
25. 孫雯雯, 顧瑾, 范琳. 宏基因組二代測序對不同類型結核病的診斷價值. 中華結核和呼吸雜志, 2021, 44(2): 96-100.
26. Clsa B, Peng HC, Pjta B, et al. Clinical metagenomic sequencing for diagnosis of pulmonary tuberculosis. J Infect, 2020, 81(4): 567-574.
27. Liu X, Chen Y, Ouyang H, et al. Tuberculosis diagnosis by metagenomic next-generation sequencing on bronchoalveolar lavage fluid: a cross-sectional analysis. Int J Infect Dis, 2021, 104: 50-57.
28. Sims D, Sudbery I, Ilott NE, et al. Sequencing depth and coverage: key considerations in genomic analyses. Nat Rev Genet, 2014, 15(2): 121-132.
29. Schlaberg, Robert, Chiu, et al. Validation of metagenomic next-generation sequencing tests for universal pathogen detection. Arch Pathol Lab Med, 2017, 141(6): 776-786.
30. 賈建超, 賈建敏, 劉姿, 等. 宏基因組學二代測序技術對重癥肺炎真菌感染診斷價值. 中華實用診斷與治療雜志, 2020, 34(10): 1023-1025.
31. Jiang J, Bai L, Yang W, et al. Metagenomic next-generation sequencing for the diagnosis of Pneumocystis jirovecii pneumonia in non-HIV-infected patients: a retrospective study. Infect Dis Ther, 2021, 10(3): 1733-1745.
32. Zhan Y, Xu T, He F, et al. Clinical evaluation of a metagenomics-based assay for pneumonia management. Front Microbiol, 2021, 12: 751073.
33. 單玉璋, 蘇逸, 姚雨濛, 等. 宏基因二代測序技術輔助診斷波氏假阿利什霉肺部感染1例報告. 中國臨床醫學, 2020, 27(4): 572-574.
34. Ren LL, Wang YM, Wu ZQ, et al. Identification of a novel coronavirus causing severe pneumonia in human: a descriptive study. Chin Med J, 2020, 133(9): 1015-1024.
35. Ai JW, Zhang Y, Zhang HC, et al. Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned. Emerg Microbes Infect, 2020, 9(1): 597-600.
36. Qian YY, Wang HY, Zhou Y, et al. Improving pulmonary infection diagnosis with metagenomic next generation sequencing. Front Cell Infect Microbiol, 2021, 10: 567615.
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宏基因組高通量測序在肺部感染診療中的應用研究進展

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宏基因組高通量測序技術能夠引領呼吸感染性疾病邁進精準醫學時代嗎？

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