Diversity and evolution of chitin synthases in oomycetes (Straminipila: Oomycota)

Published: 09-04-2019| Version 1 | DOI: 10.17632/wfj4pb58rm.1
Contributors:
Stefan Klinter,
Vincent Bulone,
Lars Arvestad

Description

Files S1A–C. Relevant sequence details of the additional 26 oomycete CHSs released after initial dataset collection. The files contain the full-length CHS sequences (A), the sequences spanning CHS motifs a–h (B), and sequences spanning the MIT domain (C) separated into CHS clades (A and B) or according to the MIT prediction method (C) as indicated in the sequence identifier. Files S2A–C. Alignments of full-length CHSs including the additional 26 oomycete CHSs. The files contain the alignments for full-length CHSs from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S3A–C. ML phylogenetic trees of full-length CHSs including the additional 26 oomycete CHSs. The files contain the phylogenies in Newick format for full-length CHSs from Clustal Omega (A), MAFFT (B) and MUSCLE (C). File S4. Full-length CHS sequences. The file contains the full-length CHS sequences separated into CHS clades as indicated in the sequence identifier. File S5. Sequences of CHS motifs. The file contains the sequences spanning CHS motifs a–h separated into CHS clades as indicated in the sequence identifier. Files S6A and B. MIT domain sequences. FileS6A contains the sequences spanning the MIT domain according to the used prediction method, and the five sequences of the VPS4 outgroup representing eukaryotic non-CHS MIT domains, as indicated in the sequence identifier. FileS6B contains those sequences spanning the MIT domain according to the prediction by Pfam that differ in the alternative alignment using MUSCLE as compared to Clustal Omega and MAFFT. Files S7A–C. Alignments of full-length CHSs. The files contain the alignments for full-length CHSs from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S8A–C. Alignments of CHS motifs. The files contain the alignments for sequences spanning CHS motifs a–h from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S9A–C. Alignments of MIT domains. The files contain the alignments for the MIT domain from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S10A–C. ML phylogenetic trees of full-length CHSs. The files contain the phylogenies in Newick format for full-length CHSs from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S11A–C. ML phylogenetic trees of CHS motifs. The files contain the phylogenies in Newick format for sequences spanning CHS motifs a–h from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S12A–C. ML phylogenetic trees of MIT domains. The files contain the phylogenies in Newick format for the MIT domain from Clustal Omega (A), MAFFT (B) and MUSCLE (C). Files S13A and B. Species trees used to generate Fig. S5. FileS13A and FileS13B contain the species tree presented in the left and right panel. Files S14A–C. Alignments used to generate Fig. S10. The files contain the alignments from Clustal Omega (A), MAFFT (B) and MUSCLE (C) for the MIT domain and its upstream region of the Pfam seed.

Files