Analysis of Illumina Microbial Assemblies

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Since the emerging of second generation sequencing technologies, the evaluation of different sequencing approaches and their assembly strategies for different types of genomes has become an important undertaken. Next generation sequencing technologies dramatically increase sequence throughput while decreasing cost, making them an attractive tool for whole genome shotgun sequencing. To compare different approaches for de-novo whole genome assembly, appropriate tools and a solid understanding of both quantity and quality of the underlying sequence data are crucial. Here, we performed an in-depth analysis of short-read Illumina sequence assembly strategies for bacterial and archaeal genomes. Different types of Illumina libraries as well ... continued below

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Clum, Alicia; Foster, Brian; Froula, Jeff; LaButti, Kurt; Sczyrba, Alex; Lapidus, Alla et al. May 28, 2010.

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Since the emerging of second generation sequencing technologies, the evaluation of different sequencing approaches and their assembly strategies for different types of genomes has become an important undertaken. Next generation sequencing technologies dramatically increase sequence throughput while decreasing cost, making them an attractive tool for whole genome shotgun sequencing. To compare different approaches for de-novo whole genome assembly, appropriate tools and a solid understanding of both quantity and quality of the underlying sequence data are crucial. Here, we performed an in-depth analysis of short-read Illumina sequence assembly strategies for bacterial and archaeal genomes. Different types of Illumina libraries as well as different trim parameters and assemblers were evaluated. Results of the comparative analysis and sequencing platforms will be presented. The goal of this analysis is to develop a cost-effective approach for the increased throughput of the generation of high quality microbial genomes.

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  • Sequencing, Finishing and Analysis in the Future, Santa Fe, NM, 06/02/10 - 06/04/10

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  • Report No.: LBNL-3671E-Poster
  • Grant Number: DE-AC02-05CH11231
  • DOI: 10.2172/985368 | External Link
  • Office of Scientific & Technical Information Report Number: 985368
  • Archival Resource Key: ark:/67531/metadc1012434

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  • May 28, 2010

Added to The UNT Digital Library

  • Oct. 14, 2017, 8:36 a.m.

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  • Oct. 17, 2017, 5:59 p.m.

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Clum, Alicia; Foster, Brian; Froula, Jeff; LaButti, Kurt; Sczyrba, Alex; Lapidus, Alla et al. Analysis of Illumina Microbial Assemblies, report, May 28, 2010; Berkeley, California. (digital.library.unt.edu/ark:/67531/metadc1012434/: accessed October 22, 2018), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.