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Open AccessArticle

Characterization and Expression Analysis of the Ca2+/Cation Antiporter Gene Family in Tomatoes

1
Graduate School of Agricultural Science, Tohoku University, Aoba-ku, Sendai 980-8572, Japan
2
Faculty of Life and Environmental Science, Shimane University, Matsue 690-8504, Japan
*
Authors to whom correspondence should be addressed.
Plants 2020, 9(1), 25; https://doi.org/10.3390/plants9010025
Received: 31 October 2019 / Revised: 17 December 2019 / Accepted: 18 December 2019 / Published: 23 December 2019
(This article belongs to the Special Issue Plant Bioinformatics)
The Ca2+/cation antiporter (CaCA) superfamily plays an important role in the regulation of the essential element Ca2+ and cation concentrations. Characterization and expression analyses of CaCA superfamily genes were performed in the tomato (Solanum lycopersicum) as a representative of dicotyledonous plants and fruit crops. Sixteen CaCA candidate genes were found and identified as tomato CaCA, SlCaCA, by a domain search. In a phylogenetic analysis of the SlCaCA superfamily, the 16 genes were classified into SlCAX, SlNCL, SlCCX, and SlMHX families. Among them, Solyc12g011070, belonging to the SlCAX family, had four splice variants, three of which were predicted to be nonfunctional because of a lack of important motifs. EF-hand domains were only found in SlNCL, in addition to consensus Na_Ca_ex domains, and the region containing EF-hand domains was characteristically long in some members of SlNCL. Furthermore, four genes of the SlCCX family were found to be intronless. As for intracellular localization, one SlCCX member was predicted to be localized to the plasma membrane, while other SlCCXs, SlCAXs, and SlMHXs were predicted to be localized to the vacuolar membrane. The expression patterns of SlCaCAs in various organs, including during several developmental stages of fruit, were classified into four groups. Genes involved in each of the SlCAX, SlNCL, and SlCCX gene families were categorized into three or four groups according to expression patterns, suggesting role sharing within each family. The main member in each subfamily and the members with characteristic fruit expression patterns included genes whose expression was regulated by sugar or auxin and that were highly expressed in a line having metabolite-rich fruit. View Full-Text
Keywords: Solanum lycopersicum; Solanaceae; CaCA superfamily; Ca2+/Cation antiporter Solanum lycopersicum; Solanaceae; CaCA superfamily; Ca2+/Cation antiporter
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Amagaya, K.; Shibuya, T.; Nishiyama, M.; Kato, K.; Kanayama, Y. Characterization and Expression Analysis of the Ca2+/Cation Antiporter Gene Family in Tomatoes. Plants 2020, 9, 25.

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