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Bacterial Genome Annotation

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Microbial Systems Biology

Part of the book series: Methods in Molecular Biology ((MIMB,volume 881))

Abstract

Annotation of prokaryotic sequences can be separated into structural and functional annotation. Structural annotation is dependent on algorithmic interrogation of experimental evidence to discover the physical characteristics of a gene. This is done in an effort to construct accurate gene models, so understanding function or evolution of genes among organisms is not impeded. Functional annotation is dependent on sequence similarity to other known genes or proteins in an effort to assess the function of the gene. Combining structural and functional annotation across genomes in a comparative manner promotes higher levels of accurate annotation as well as an advanced understanding of genome evolution. As the availability of bacterial sequences increases and annotation methods improve, the value of comparative annotation will increase.

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Acknowledgments

We thank all members of the B6 Genome Science group for their contributions to the establishment of standardized methods, development of software and processes, and genome projects described in this chapter. This study was supported in part by the US Department of Energy Joint Genome Institute through the Office of Science of the US Department of Energy under Contract No. DE-AC02-05CH11231 and grants from NIH (Y1-DE-6006-02), the US Department of Homeland Security under contract number HSHQDC08X00790, the US Defense Threat Reduction Agency under contract numbers B104153I and B084531I, and LANL Laboratory-Directed Research and Development under grant number (20110051DR).

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Authors and Affiliations

  1. Bioscience Division, Los Alamos National Laboratory, Los Alamos, NM, USA

    Nicholas Beckloff, Shawn Starkenburg, Tracey Freitas & Patrick Chain

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  1. Nicholas Beckloff
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  2. Shawn Starkenburg
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  3. Tracey Freitas
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  4. Patrick Chain
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Correspondence to Patrick Chain .

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Editors and Affiliations

  1. Physics & Life Sciences Directorate, Biosciences & Biotechnology Div., Lawrence Livermore National Laboratory, East Avenue 7000, Livermore, 94551, California, USA

    Ali Navid

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Beckloff, N., Starkenburg, S., Freitas, T., Chain, P. (2012). Bacterial Genome Annotation. In: Navid, A. (eds) Microbial Systems Biology. Methods in Molecular Biology, vol 881. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-61779-827-6_16

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  • DOI: https://doi.org/10.1007/978-1-61779-827-6_16

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  • Publisher Name: Humana Press, Totowa, NJ

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