A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes

Susanne M D Goldberg; Justin Johnson; Dana Busam; Tamara Feldblyum; Steve Ferriera; Robert Friedman; Aaron Halpern; Hoda Khouri; Saul A. Kravitz; Federico M. Lauro; Kelvin Li; Yu Hui Rogers; Robert Strausberg; Granger Sutton; Luke Tallon; Torsten Thomas; Eli Venter; Marvin Frazier; J. Craig Venter

doi:10.1073/pnas.0604351103

A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes

Susanne M D Goldberg^*, Justin Johnson, Dana Busam, Tamara Feldblyum, Steve Ferriera, Robert Friedman, Aaron Halpern, Hoda Khouri, Saul A. Kravitz, Federico M. Lauro, Kelvin Li, Yu Hui Rogers, Robert Strausberg, Granger Sutton, Luke Tallon, Torsten Thomas, Eli Venter, Marvin Frazier, J. Craig Venter

^*Corresponding author for this work

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

217 Citations (Scopus)

Abstract

Since its introduction a decade ago, whole-genome shotgun sequencing (WGS) has been the main approach for producing cost-effective and high-quality genome sequence data. Until now, the Sanger sequencing technology that has served as a platform for WGS has not been truly challenged by emerging technologies. The recent introduction of the pyrosequencing-based 454 sequencing platform (454 Life Sciences, Branford, CT) offers a very promising sequencing technology alternative for incorporation in WGS. In this study, we evaluated the utility and cost-effectiveness of a hybrid sequencing approach using 3730xl Sanger data and 454 data to generate higher-quality lower-cost assemblies of microbial genomes compared to current Sanger sequencing strategies alone.

Original language	English
Pages (from-to)	11240-11245
Number of pages	6
Journal	Proceedings of the National Academy of Sciences of the United States of America
Volume	103
Issue number	30
DOIs	https://doi.org/10.1073/pnas.0604351103
Publication status	Published - 25 Jul 2006
Externally published	Yes

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10.1073/pnas.0604351103

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Goldberg, S. M. D., Johnson, J., Busam, D., Feldblyum, T., Ferriera, S., Friedman, R., Halpern, A., Khouri, H., Kravitz, S. A., Lauro, F. M., Li, K., Rogers, Y. H., Strausberg, R., Sutton, G., Tallon, L., Thomas, T., Venter, E., Frazier, M., & Venter, J. C. (2006). A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes. Proceedings of the National Academy of Sciences of the United States of America, 103(30), 11240-11245. https://doi.org/10.1073/pnas.0604351103

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abstract = "Since its introduction a decade ago, whole-genome shotgun sequencing (WGS) has been the main approach for producing cost-effective and high-quality genome sequence data. Until now, the Sanger sequencing technology that has served as a platform for WGS has not been truly challenged by emerging technologies. The recent introduction of the pyrosequencing-based 454 sequencing platform (454 Life Sciences, Branford, CT) offers a very promising sequencing technology alternative for incorporation in WGS. In this study, we evaluated the utility and cost-effectiveness of a hybrid sequencing approach using 3730xl Sanger data and 454 data to generate higher-quality lower-cost assemblies of microbial genomes compared to current Sanger sequencing strategies alone.",

author = "Goldberg, {Susanne M D} and Justin Johnson and Dana Busam and Tamara Feldblyum and Steve Ferriera and Robert Friedman and Aaron Halpern and Hoda Khouri and Kravitz, {Saul A.} and Lauro, {Federico M.} and Kelvin Li and Rogers, {Yu Hui} and Robert Strausberg and Granger Sutton and Luke Tallon and Torsten Thomas and Eli Venter and Marvin Frazier and Venter, {J. Craig}",

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Goldberg, SMD, Johnson, J, Busam, D, Feldblyum, T, Ferriera, S, Friedman, R, Halpern, A, Khouri, H, Kravitz, SA, Lauro, FM, Li, K, Rogers, YH, Strausberg, R, Sutton, G, Tallon, L, Thomas, T, Venter, E, Frazier, M & Venter, JC 2006, 'A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes', Proceedings of the National Academy of Sciences of the United States of America, vol. 103, no. 30, pp. 11240-11245. https://doi.org/10.1073/pnas.0604351103

A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes. / Goldberg, Susanne M D; Johnson, Justin; Busam, Dana et al.
In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 103, No. 30, 25.07.2006, p. 11240-11245.

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

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AU - Friedman, Robert

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A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes

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