Abstract
ATP-binding cassette (ABC) transporters constitute a large, diverse, and ubiquitous superfamily that is involved in a broad range of processes. The completion of genome sequencing provides an opportunity to understand the phylogenetic history of the ABC transporter superfamily among Rosaceae species. This study identified a total of 1323 ABC transporter genes from nine Rosaceae genomes: 191 from Malus domestica, 174 from Pyrus communis, 138 from Prunus persica, 118 from Prunus avium, 141 from Prunus dulcis, 122 from Fragaria vesca, 98 from Rubus occidentalis, 162 from Prunus mume, and 179 from Rosa chinensis. Their chemical characterization, phylogenetic analysis, chromosomal localization, gene structure, gene duplication, and tissue-specific expression were studied. Their subcellular localization, transmembrane structures, and protein motifs were predicted. All the ABC transporter genes were grouped into eight subfamilies on the basis of their phylogenetic relationships and structural features. Furthermore, cis-element and expression analysis of 10 potential phytohormone transporters in MdABCG subfamily genes were also performed. Loss of the W-box in the promoter region of MdABCG28 was found to reduce the gene expression level and was linked to the dwarfing phenotype in apple rootstocks. MdABCG28 overexpression promoted shoot growth of atabcg14 mutants in Arabidopsis.
Highlights
The ATP-binding cassette (ABC) transporter superfamily comprises both membrane-bound transporters and soluble proteins
To identify and study ABC transporter superfamilies within the Rosaceae genome, Arabidopsis members were used as query in basic local alignment search tool of protein (BLASTp) to search for homologues
A total of 1323 ABC transporter genes were identified from nine Rosaceae species: 191 from the apple genome (M. domestica), 174 from the European pear genome (P. communis), 138 from the peach genome (P. persica), 118 from the sweet cherry genome (P. avium), 141 from the almond genome (P. dulcis), 122 from the woodland strawberry genome (F. vesca), 98 from the black raspberry genome (R. occidentalis), 162 from the mei genome (P. mume), and 179 from the rose genome (R. chinensis)
Summary
The ATP-binding cassette (ABC) transporter superfamily comprises both membrane-bound transporters and soluble proteins. ABC transporters are defined as having ABCs, which are known as nucleotide-binding domains (NBDs), and contain several highly conserved motifs, including the Walker A and B sequences, the ABC signature motif, the H loop, and the Q loop [2]. In addition to NBDs, ABC transporters contain transmembrane domains (TMDs), each consisting of several hydrophobic α-helices. The subfamily G of the ABC transporter (ABCG) is markedly expanded in plants, with 131 members in Arabidopsis. The expansion of this ABCG transporter appears to be related to the functional diversification of specific taxa
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