Open Access Research article

Polyphyletic origin of the genus Physarum (Physarales, Myxomycetes) revealed by nuclear rDNA mini-chromosome analysis and group I intron synapomorphy

Satish CR Nandipati1, Kari Haugli1, Dag H Coucheron1, Edward F Haskins2 and Steinar D Johansen1*

Author Affiliations

1 RNA and Transcriptomics group, Department of Medical Biology, Faculty of Health Sciences, University of Tromsø, MH-building Breivika, N-9037, Tromsø, Norway

2 Department of Biology, University of Washington, Seattle, Washington, USA

For all author emails, please log on.

BMC Evolutionary Biology 2012, 12:166  doi:10.1186/1471-2148-12-166

Published: 31 August 2012

Additional files

Additional file 1:

Figure S1. ML phylogenetic tree of Mycetozoa isolates and associated amoebozoa based on the SSU data set. The analysis was based on the alignment of 1028 nucleotide positions from 26 isolates (Table 1). The evolution model is TPM2uf + I + G. Tree reconstructions using NJ, MP, ML, or BAY resulted in essential identical tree topologies. Bootstrap values (> 50%) of 2000 replications are shown at the internal nodes (NJ/MP/ML). Node of high statistical support (bootstrap values of 100%) is indicated by red circle. BAY analysis consists of 1,000,000 generations with trees sampled every 100 generations. Branches with BAY posterior probabilities of 1.0 are represented as thick black lines.

Format: EPS Size: 419KB Download file

Open Data

Additional file 2:

Table S1. Key features of group I introns distribution in selected mycetozoan and associated amoebozoan isolates.

Format: PDF Size: 81KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

Table S2. Key features of group I introns distribution in Didymiaceae isolates.

Format: PDF Size: 84KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

Table S3. Key features of group I introns distribution in Physaraceae isolates.

Format: PDF Size: 84KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 5:

Figure S2. Alignment of the Physarales SSU/LSU data set.

Format: PDF Size: 161KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 6:

Figure S3. Alignment of the Didymiaceae LSU data set.

Format: PDF Size: 105KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 7:

Figure S4. Alignment of the Physaraceae LSU data set.

Format: PDF Size: 86KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 8:

Table S4. Geographic origin, classification and culturing of the myxomycete isolates.

Format: PDF Size: 108KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data