Open Access Highly Accessed Research article

Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018

Shiyuan Hu12, Huajun Zheng3, Yang Gu12, Jingbo Zhao1, Weiwen Zhang4, Yunliu Yang12, Shengyue Wang3, Guoping Zhao13, Sheng Yang12* and Weihong Jiang12*

Author Affiliations

1 Key Laboratory of Synthetic Biology, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

2 Research Center of Industrial Biotechnology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

3 Shanghai-MOST Key Laboratory of Health and Disease Genomics, Chinese National Human Genome Center at Shanghai, Shanghai, 200032, China

4 Center for Ecogenomics, Biodesign Institute, Arizona State University, Tempe, Arizona 85287-6501, USA

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BMC Genomics 2011, 12:93  doi:10.1186/1471-2164-12-93

Published: 2 February 2011

Additional files

Additional file 1:

Genome finishing procedures of EA 2018. The file describes the genome finishing process including gap closure, weak regions and homopolymer sites verification.

Format: PDF Size: 165KB Download file

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Additional file 2:

Weak region verification primers. The file lists the primers used in genome weak region verification procedure.

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Additional file 3:

Variation places between EA 2018 and ATCC 824 verification primers. This file lists the verification primers for all of the indels sites and SNVs sites found between EA 2018 and ATCC 824.

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Additional file 4:

Deletion and insertion sites. The file lists a total of 46 deletion sites and 26 insertion sites between EA 2018 and ATCC 824.

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Additional file 5:

SNV sites. The file lists 440 single nucleotide variations between EA 2018 and ATCC 824.

Format: XLS Size: 48KB Download file

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Additional file 6:

Protein variations. The file shows the protein sequence variations affected by deletion, insertion or SNVs between EA 2018 and ATCC 824.

Format: XLS Size: 60KB Download file

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Additional file 7:

Predicted promoter variations. The file shows the predicted promoter variations between EA 2018 and ATCC 824.

Format: XLS Size: 22KB Download file

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Additional file 8:

DNA array data. The file lists the complete set of DNA array data of EA 2018 versus ATCC 824.

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Additional file 9:

The scheme of targeted gene disruption using group II intron. The file displays the gene disruption procedure using group II intron.

Format: PDF Size: 141KB Download file

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Additional file 10:

Targeted gene disruption and verification primers. The file lists the primers for retargeting the RNA portion of the intron for C. acetobutylicum CAC2613 gene disruption and for identifying the insertion mutant..

Format: PDF Size: 7KB Download file

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