Fig 1.
Phylogenetic tree of tomato ABC proteins.
The 154 ABC proteins identified were subjected to phylogenetic analysis. Subfamily names (ABCA-I, except ABCH) correspond to the mammalian ABC transporter nomenclature. Tomato ABC proteins not clustered in ABCA-ABCG subfamilies are ABCIs. The scale indicated in the figure shows 10% divergence between protein sequences.
Table 1.
Inventory of tomato ABC proteins with their in silico gene expression profiles.
Fig 2.
Phylogenetic tree of plant ABCA subfamily.
ABCAs of tomato and Arabidopsis were subjected to phylogenetic analysis. Tomato ABCAs are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 5% divergence between protein sequences.
Fig 3.
Phylogenetic tree of plant ABCB subfamily.
ABCBs of tomato, Arabidopsis, barley (HvMDR2: BAC53613), wheat (TaMDR1: BAB85651), Coptis japonica (CjMDR1: BAB62040) and Chlamydomonas reinhardtii (CrCds1: AAQ19846) were subjected to phylogenetic analysis. Tomato ABCBs are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 5% divergence between protein sequences.
Fig 4.
Phylogenetic tree of plant ABCC subfamily.
ABCCs of tomato, Arabidopsis, rice (OsABCC13: Os03g0142800), maize (ZmMRP3: AAT37905, ZmMRP4: ABS81429), wheat (TaMRP1: AAL47686) and grape (VvABCC1: AGC23330) were subjected to phylogenetic analysis. Tomato ABCCs are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 5% divergence between protein sequences.
Fig 5.
Phylogenetic tree of plant ABCD, ABCE and ABCF subfamilies.
ABCDs, ABCEs and ABCFs of tomato and Arabidopsis were subjected to phylogenetic analysis. Tomato ABC proteins are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 10% divergence between protein sequences.
Fig 6.
Phylogenetic tree of plant full-size ABCGs.
ABCGs of tomato, Arabidopsis, rice (OsABCG31: Os01g0177900, OsPDR9: Os01g0609300), wheat (Lr34: ACN41354), barley (HvABCG31: NP_001237697), soybean (GmPDR12: NP_001237697), cucumber (CsPDR8: ACU82514, CsPDR12: ACU82515), Nicotiana plumbaginifolia (NpPDR1: Q949G3, NpPDR2: CAH40786), N. tabacum (NtPDR1: AGN95757, NtPDR3: CAH39853), petunia (PaPDR1: AFA43816), potato (StPDR2: AEB65936), periwinkle (CrTPT2: KC511771) and duckweed (SpTUR2: CAA94437) were subjected to phylogenetic. Tomato ABCGs are shown in red. Physiological functions and references are indicated. Details on the functions are reviewed in [83,84]. The scale indicated in the figure shows 10% divergence between protein sequences.
Fig 7.
Phylogenetic tree of plant half-size ABCGs.
ABCGs of tomato, Arabidopsis and cotton (GhWBC1: AAP80385) were subjected to phylogenetic analysis phylogenetic analysis. Tomato ABCGs are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 10% divergence between protein sequences.
Fig 8.
Phylogenetic tree of plant ABCI subfamily.
ABCIs of tomato and Arabidopsis were subjected to phylogenetic analysis. Tomato ABCIs are shown in red. Physiological functions and references are indicated. The scale indicated in the figure shows 10% divergence between protein sequences.
Fig 9.
Gene expression analysis of selected ABC transporters in various tomato organs and tissues.
RT-sqPCR analysis for selected tomato ABC transporters was performed using RNA extracted from the indicated organ or tissue and gene-specific primers (amplicons ~ 200 bp). Respective cDNA-containing plasmid was used as control. The ubiquitin gene was used as a constitutively expressed control gene. DAP: days after pollination.