Phylogenomic analyses of KCNA gene clusters in vertebrates: why do gene clusters stay intact?

doi:10.1186/1471-2148-7-139

BMC Evolutionary Biology

Volume 7

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Research article

Phylogenomic analyses of KCNA gene clusters in vertebrates: why do gene clusters stay intact?

Simone Hoegg and Axel Meyer

Lehrstuhl für Zoologie und Evolutionsbiologie, Department of Biology, University of Konstanz, 78457 Konstanz, Germany

author email corresponding author email

BMC Evolutionary Biology 2007, 7:139doi:10.1186/1471-2148-7-139


Published:	15 August 2007

Additional files

Additional file 1:

Maximum likelihood tree of KCNA3/6. The dataset included 42 species of which ten were outgroup sequences (KCNA4) and had a total length of 378 amino acid positions. The model applied was JTT + I + G (pinv = 0.35, a = 0.61). Values in the front are bootstrap percentages as obtained from 500 bootstrap replicates. Posterior probabilities as obtained by MrBayes 3.1.1 [59](100 000 generations) are indicated with asterisks. (** = 100% PP, * = 99–95% PP)

Format: JPEG Size: 441KB Download file

Additional file 2:

Maximum Likelihood tree of KCNA1/2. The dataset included 49 species of which ten were outgroup sequences (KCNA4) and had a total length of 449 amino acid positions. The model applied was JTT + I + G (pinv = 0.37, a = 0.61). Values in the front are bootstrap percentages as obtained from 500 bootstrap replicates. Posterior probabilities as obtained by MrBayes 3.1.1 [59](100 000 generations) are indicated with asterisks. (** = 100% PP, * = 99–95% PP)

Format: JPEG Size: 516KB Download file

Additional file 3:

Maximum likelihood tree of KCNA5/10. The dataset included 39 species of which ten were outgroup sequences (KCNA4) and had a total length of 360 amino acid positions. The model applied was JTT + I + G (pinv = 0.42, a = 0.81). Values in the front are bootstrap percentages as obtained from 500 bootstrap replicates. Posterior probabilities as obtained by MrBayes 3.1.1 [59](100 000 generations) are indicated with asterisks. (** = 100% PP, * = 99–95% PP)

Format: JPEG Size: 445KB Download file

Additional file 4:

Accession numbers of nucleotide sequences, including those newly determined for this study that were analyzed in this study.

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Additional file 5:

List of all footprint cliques (FCs) with more than two sequences as obtained by Tracker. For each clique, the relative position in regards to genes is given as well as the nucleotide position within the sequences.

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