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VTC proteins of arbuscular mycorrhizal fungi

Citation

Saito, Katsuharu; Cuc, Nguyen; Ezawa, Tatsuhiro (2022), VTC proteins of arbuscular mycorrhizal fungi, Dryad, Dataset, https://doi.org/10.5061/dryad.ghx3ffbp7

Abstract

Polyphosphate polymerizing and depolymerizing reactions of VTC4 protein in an arbuscular mycorrhizal fungus

Arbuscular mycorrhizal (AM) fungi form symbiotic associations with land plants and supply soil minerals including phosphorus to their hosts. AM fungi accumulate polyphosphate (polyP), a linear phosphate polymer, in their mycelia, which functions in phosphorus storage and translocation. In the budding yeast Saccharomyces cerevisiae, it has been demonstrated that the vacuolar transporter chaperone 4 (VTC4) protein, a subunit of the VTC complex, is responsible for polyP synthesis. Here, we conducted a comprehensive survey of VTC proteins in AM fungal genomes. The genomes of eight AM fungal species encode VTC1, VTC2, and VTC4.

Methods

Amino acid sequences of AM fungal VTCs were obtained by blastp searches using protein queries from S. cerevisiae (https://www.yeastgenome.org) against AM fungal genome databases. Amino acid sequences were aligned using ClustalW with some manual adjustment. Maximum-likelihood tree inference and bootstrapping with 100 replicates was performed with RAxML-NG version 1.0.1 (Kozlov et al., 2019) using the LG+I+G amino acid substitution model. The best-fitted evolutionary model was identified using ModelTest-NG version 0.1.3 (Darriba et al., 2020). A tree was visualized and annotated with the iTOL platform version 5.7 (Letunic & Bork, 2019).

Usage Notes

C-terminal region of VTC proteins - alignment
Alignment of amino acid sequences of C-terminal sequences containing Duf202 domain of VTC1, VTC2, and VTC4 in eight AM fungal species and the budding yeast Saccharomyces cerevisiae.
C-terminal_region_alignment.fas

C-terminal region of VTC proteins - ML tree
Maximum likelihood tree of C-terminal sequences containing Duf202 domain of VTC1, VTC2, and VTC4 in eight AM fungal species and the budding yeast Saccharomyces cerevisiae. 
C-terminal_region_ML.tre 

Whole region of VTC proteins - alignment
Alignment of amino acid sequences of whole sequences of VTC2 and VTC4 in eight AM fungal species and the budding yeast Saccharomyces cerevisiae.
whole_region_alignment.fas

Whole region of VTC proteins - ML tree
Maximum likelihood tree of whole sequences of VTC2 and VTC4 in eight AM fungal species and the budding yeast Saccharomyces cerevisiae.
whole_region_ML.tre