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. 2020 Feb 18;12(4):325–344. doi: 10.1093/gbe/evaa031

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© The Author(s) 2020. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 6. — —(A) Gene number profile of predicted CAZYmes family proteins in Paraburkholderia terrae DSM 17804^T, Paraburkholderia hospita DSM 17164^T, and Paraburkholderia caribensis DSM 13236^T, next to fungiphilic strains BS001, BS007, BS110, and BS437. Color code based on the strain is indicated. Number of genes is indicated by the dot size. (B) Hierarchical cluster analysis based on CAZyme gene number for P. terrae DSM 17804^T, P. hospita DSM 17164^T, P. caribensis DSM 13236^T, strains BS001, BS007, BS110, and BS437. B. cenocapacia J2315 was used as an outgroup. (C) Phylogenetic analysis of GH3 type proteins across all strains, and the top hits of PSI-BLASTP. The tree was built with RAxML using amino acid substitution model PROTGAMMA, default matrix setting (Dayhoff) and hill-climbing algorithm, with bootstrap value of 1,000 replicates. Bootstrap confidence values ≥ 70% are indicated. Purple box represents the proposed “species-cluster,” and red triangles indicate the type strains.