Evolution of a microbial nitrilase gene family: a comparative and environmental genomics study

doi:10.1186/1471-2148-5-42

BMC Evolutionary Biology
Volume 5

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Research article

Evolution of a microbial nitrilase gene family: a comparative and environmental genomics study

Mircea Podar , Jonathan R Eads and Toby H Richardson

Diversa Corporation, 4955 Directors Place, San Diego, CA 92131 USA

author email corresponding author email

BMC Evolutionary Biology 2005, 5:42doi:10.1186/1471-2148-5-42


Published:	6 August 2005

Additional files

Additional file 1:

Protein neighbor-joining tree for nitrilase genes from cultivated bacteria and from environmental samples. The environmental sequences are represented by GenBank accession numbers and gene names for those derived from Robertson et al, 2004. The Sargasso Sea sequences are shaded.

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Additional file 2:

Maximum likelihood phylogenetic trees for genes that belong to the Nit1C clusters identified in known bacterial species, in the context of their respective protein families. Numbers represent bootstrap support (for major clades only). The Nit1C ORF sequences are shaded.

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Additional file 3:

Maximum likelihood phylogenetic trees for two genes associated with nitrilases after the subfamily 1 cluster transition event, in the context of their respective larger protein families. The nitrilase associated genes are shaded. Numbers represent bootstrap support (for major clades only).

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Additional files 4:

Alignment of nitrilase amino acid sequences from cultivated bacteria (used to generate the tree in Figure 1)

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Additional files 5:

Alignment of nitrilase amino acid sequences used to generate the tree in Figure 3.

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Additional file 6:

Alignment of DNA sequences of nitrilase genes used to test for positive selection and to generate the tree in Figure 4.

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