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. 2010 Mar 16:11:177.
doi: 10.1186/1471-2164-11-177.

Phylogenetic analysis of fungal ABC transporters

Andriy Kovalchuk  1 , Arnold J M Driessen
Affiliations

Phylogenetic analysis of fungal ABC transporters

Andriy Kovalchuk et al. BMC Genomics. .

Abstract

Background: The superfamily of ABC proteins is among the largest known in nature. Its members are mainly, but not exclusively, involved in the transport of a broad range of substrates across biological membranes. Many contribute to multidrug resistance in microbial pathogens and cancer cells. The diversity of ABC proteins in fungi is comparable with those in multicellular animals, but so far fungal ABC proteins have barely been studied.

Results: We performed a phylogenetic analysis of the ABC proteins extracted from the genomes of 27 fungal species from 18 orders representing 5 fungal phyla thereby covering the most important groups. Our analysis demonstrated that some of the subfamilies of ABC proteins remained highly conserved in fungi, while others have undergone a remarkable group-specific diversification. Members of the various fungal phyla also differed significantly in the number of ABC proteins found in their genomes, which is especially reduced in the yeast S. cerevisiae and S. pombe.

Conclusions: Data obtained during our analysis should contribute to a better understanding of the diversity of the fungal ABC proteins and provide important clues about their possible biological functions.

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Figures

Figure 1
Figure 1
Predicted topology and domain organization of different subfamilies of fungal ABC proteins. NBD, nucleotide-binding domain; NTE, N-terminal extension; TMS, transmembrane segment. Modified after [14].
Figure 2
Figure 2
The scheme illustrating phylogenetic positions of the analyzed fungal species. The scheme is based on the analysis performed by [41]. Letters next to the species names indicate their life style. Saprophytic species are shown with S, animal pathogens with A, and plant pathogens with P.
Figure 3
Figure 3
Phylogenetic tree of fungal ABC-A proteins. Predicted amino acid sequences of analyzed proteins were aligned, and the alignment was used to generate a phylogenetic tree using the neighbour-joining method. Numbers next to the branching points indicate the relative support from 500 replicates. Analysis was performed with MEGA 4.0.2 software package.
Figure 4
Figure 4
Phylogenetic tree of fungal full-length ABC-B proteins. The tree was generated as described in the legend to the Figure 3.
Figure 5
Figure 5
Phylogenetic tree of fungal half-size ABC-B proteins. The tree was generated as described in the legend to the Figure 3.
Figure 6
Figure 6
Phylogenetic tree of fungal ABC-C proteins. The tree was generated as described in the legend to the Figure 3. A. nidulans transporters clustered with secondary metabolism genes are marked with asterisks.
Figure 7
Figure 7
Phylogenetic tree of fungal ABC-D proteins. The tree was generated as described in the legend to the Figure 3.
Figure 8
Figure 8
Phylogenetic tree of fungal ABC-E and ABC-F proteins. The tree was generated as described in the legend to the Figure 3.
Figure 9
Figure 9
Phylogenetic tree of fungal ABC-G proteins. The tree was generated as described in the legend to the Figure 3.
Figure 10
Figure 10
Phylogenetic tree of unclassified fungal ABC proteins. The tree was generated as described in the legend to the Figure 3.
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