Additional file 5.
Comparison of sequence annotation following de novo transcriptome assemblies produced by Newbler v2.3 and Newbler v2.5.3. During manuscript preparation, a new version of Newbler became available (v2.5). To address the concern of a potential underperformance of Newbler v2.3 in the case of our data set, we repeated the assembly and annotation with the latest available Newbler assembler (v2.5.3) and compared the results to the assembly with Newbler v2.3. We found the total number of assembled bases with Newbler v2.5.3 (10.5 Mb) decreased by almost 20% when compared with the number of assembled bases with Newbler v2.3 (12.9 Mb), suggesting that for our dataset Newbler v2.5.3 performed with more stringent assembly conditions. The observed differences did not affect our identification of BMP signaling components in E. balteatus as these genes were all identified by Blast and subsequent manual assembly.
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Lemke et al. BMC Genomics 2011 12:278 doi:10.1186/1471-2164-12-278