Detection of minor drug-resistant populations by parallel allele-specific sequencing

Fangping Cai; Haifeng Chen; Charles B. Hicks; John A. Bartlett; Jun Zhu; Feng Gao

doi:10.1038/nmeth995

Detection of minor drug-resistant populations by parallel allele-specific sequencing

Fangping Cai, Haifeng Chen, Charles B. Hicks, John A. Bartlett, Jun Zhu, Feng Gao

Research output: Contribution to journal › Article › peer-review

57 Scopus citations

Abstract

We developed a highly sensitive parallel allele-specific sequencing (PASS) assay to simultaneously analyze a large number of viral genomes and detect minor drug-resistant populations at ∼0.1-0.01% levels. Using this assay on samples from individuals infected with human immunodeficiency viruses (HIV), we successfully detected and quantified minor populations of drug-resistant viruses and performed linkage analysis of multiple-drug resistance mutations. This assay may serve as a useful tool to study drug resistance in HIV and other infectious agents.NOTE: In the supplementary information initially published online to accompany this article, the image for patient 200371 in Supplementary Figure 6 was incorrect. This panel was replaced. The error has been corrected online.

Original language	English
Pages (from-to)	123-125
Number of pages	3
Journal	Nature Methods
Volume	4
Issue number	2
DOIs	https://doi.org/10.1038/nmeth995
State	Published - Feb 2007
Externally published	Yes

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title = "Detection of minor drug-resistant populations by parallel allele-specific sequencing",

abstract = "We developed a highly sensitive parallel allele-specific sequencing (PASS) assay to simultaneously analyze a large number of viral genomes and detect minor drug-resistant populations at ∼0.1-0.01% levels. Using this assay on samples from individuals infected with human immunodeficiency viruses (HIV), we successfully detected and quantified minor populations of drug-resistant viruses and performed linkage analysis of multiple-drug resistance mutations. This assay may serve as a useful tool to study drug resistance in HIV and other infectious agents.NOTE: In the supplementary information initially published online to accompany this article, the image for patient 200371 in Supplementary Figure 6 was incorrect. This panel was replaced. The error has been corrected online.",

author = "Fangping Cai and Haifeng Chen and Hicks, {Charles B.} and Bartlett, {John A.} and Jun Zhu and Feng Gao",

note = "Funding Information: We thank Z. Camacho, A. Meade, B. Fee and X. Cao for their excellent technical assistance, J. Kirchherr for artwork, K. McGee for help in obtaining samples and clinical data, and B. Haynes for critical reading of the manuscript. This work was supported by grants from the US National Institutes of Health (RO1 GM 065057 to F.G. and K24 AI 01744 to J.A.B.), AIDS Clinical Trials Group (AI 136156 to J.A.B.), International Studies of AIDS-associated Co-infections (U01 AI062563 to J.A.B.), and Center for AIDS Research (P30 AI64518 to J.A.B. and F.G.).",

year = "2007",

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doi = "10.1038/nmeth995",

language = "English",

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journal = "Nature Methods",

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AU - Cai, Fangping

AU - Chen, Haifeng

AU - Hicks, Charles B.

AU - Bartlett, John A.

AU - Zhu, Jun

AU - Gao, Feng

N1 - Funding Information: We thank Z. Camacho, A. Meade, B. Fee and X. Cao for their excellent technical assistance, J. Kirchherr for artwork, K. McGee for help in obtaining samples and clinical data, and B. Haynes for critical reading of the manuscript. This work was supported by grants from the US National Institutes of Health (RO1 GM 065057 to F.G. and K24 AI 01744 to J.A.B.), AIDS Clinical Trials Group (AI 136156 to J.A.B.), International Studies of AIDS-associated Co-infections (U01 AI062563 to J.A.B.), and Center for AIDS Research (P30 AI64518 to J.A.B. and F.G.).

PY - 2007/2

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AB - We developed a highly sensitive parallel allele-specific sequencing (PASS) assay to simultaneously analyze a large number of viral genomes and detect minor drug-resistant populations at ∼0.1-0.01% levels. Using this assay on samples from individuals infected with human immunodeficiency viruses (HIV), we successfully detected and quantified minor populations of drug-resistant viruses and performed linkage analysis of multiple-drug resistance mutations. This assay may serve as a useful tool to study drug resistance in HIV and other infectious agents.NOTE: In the supplementary information initially published online to accompany this article, the image for patient 200371 in Supplementary Figure 6 was incorrect. This panel was replaced. The error has been corrected online.

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Detection of minor drug-resistant populations by parallel allele-specific sequencing

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