Figure 1.
Phylogenetic tree of Vitis ABC proteins.
The amino sequences of all Vitis ABC proteins were aligned using the ClustalW program and were subjected to phylogenetic analysis by the distance with neighbor-joining method. The reliabilities of each branch point, as assessed by the analysis of 1000 computer-generated trees (bootstrap replicates), were in excess of 90%, except for those discussed in the text. The Human Genome Organization (HUGO) nomenclature was used, and the abbreviations of ABC proteins are as follows: ATH, ABC-two-homolog; ATM, ABC transporter of mitochondria; GCN, general control non-repressible; MDR, multi-drug resistance; MRP, multi-drug resistance–associated protein; NAP, non-intrinsic ABC protein; PDR, pleiotropic drug resistance; PMP, peroxisomal membrane protein; RLI, RNase L inhibitor; SMC, structural maintenance of chromosome; TAP, transporter associated with antigen processing; WBC, white-brown complex. ATH belongs to the ABCA subfamily; MDR, TAP, and ATM belong to the ABCB subfamily; MRP belongs to the ABCC subfamily; PMP belongs to the ABCD subfamily; RLI belongs to the ABCE subfamily; GCN belongs to the ABCF subfamily; and WBC belongs to the ABCG subfamily, as described in the text.
Figure 2.
Phylogenetic relationship of Arabidopsis and Vitis ABCA (ATH) proteins.
The amino acid sequences of all Arabidopsis ABCA (ATH) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCA2 (NP_190357.2), AtABCA3 (NP_190358.2), AtABCA4 (NP_190359.4), AtABCA5 (NP_190360.2), AtABCA6 (NP_190361.2), AtABCA7 (NP_190362.2), AtABCA8 (NP_190363.3), AtABCA9 (NP_200981.1), AtABCA10 (NP_200982.1), AtABCA11 (NP_200977.1) and AtABCA12 (NP_200978.1). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 3.
Phylogenetic tree of ABCB (MDR) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCB (MDR) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCB1 (NP_181228.1), AtABCB2 (NP_194326.2), AtABCB3 (NP_192091.1), AtABCB4 (NP_182223.1), AtABCB5 (NP_192092.1), AtABCB6 (NP_181480.1), AtABCB7 (NP_199466.1), AtABCB8 (NP_683599.1), AtABCB9 (NP_193539.6), AtABCB10 (NP_172538.1), AtABCB11 (NP_171753.1), AtABCB12 (NP_171754.1), AtABCB13 (NP_174115.1), AtABCB14 (NP_174122.1), AtABCB15 (NP_189475.1), AtABCB16 (NP_189477.4), AtABCB17 (NP_189479.1), AtABCB18 (NP_189480.1), AtABCB19 (NP_189528.1), AtABCB20 (NP_191092.1) and AtABCB21 (NP_191774.1). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 4.
Phylogenetic tree of ABCB (TAP) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCB (TAP) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCB26 (NP_177218.3), AtABCB27 (NP_198720.2) and AtABCB28 (NP_194275.2). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 5.
Phylogenetic tree of ABCC (MRP) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCC (MRP) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCC1 (NP_174329.1), AtABCC2 (NP_181013.1), AtABCC3 (NP_187915.1), AtABCC4 (NP_182301.1), AtABCC5 (NP_171908.1), AtABCC6 (NP_188762.3), AtABCC7 (NP_187917.3), AtABCC8 (NP_187916.3) AtABCC9 (NP_191575.2), AtABCC10 (NP_191829.1), AtABCC11 (NP_178811.7), AtABCC12 (NP_174331.2), AtABCC13 (NP_174330.3), AtABCC14 (NP_191473.2) and AtABCC15 (NP_191656.2). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 6.
Phylogenetic tree of ABCF (GCN) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCF (GCN) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCF1 (NP_200887.1), AtABCF2 (NP_196555.2), AtABCF3 (NP_176636.1), AtABCF4 (NP_567001.1) and AtABCF5 (NP_201289.1). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 7.
Phylogenetic tree of ABCG (WBC) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCG (WBC) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCG1 (NP_181467.1), AtABCG2 (NP_181272.1), AtABCG3 (NP_850111.1), AtABCG4 (NP_194305.1), AtABCG5 (NP_178984.1), AtABCG6 (NP_196862.1), AtABCG7 (NP_178241.1), AtABCG8 (NP_200098.1), AtABCG9 (NP_194472.2), AtABCG10 (NP_175734.1), AtABCG11 (NP_173226.2), AtABCG12 (NP_175561.1), AtABCG13 (NP_175557.1), AtABCG14 (NP_564383.1), AtABCG15 (NP_188746.2), AtABCG16 (NP_191069.2), AtABCG17 (NP_191070.1), AtABCG18 (NP_191071.1), AtABCG19 (NP_191073.1), AtABCG21 (NP_189190.2 ), AtABCG22 (NP_568169.1), AtABCG23 (NP_197442.1), AtABCG24 (NP_175745.4), AtABCG25 (NP_565030.1), AtABCG26 (NP_187928.2), AtABCG27 (NP_190799.1) and AtABCG28 (NP_200882.4). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 8.
Phylogenetic tree of ABCG (PDR) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCG (PDR) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCG29 (NP_190919.1), AtABCG30 (NP_566543.1), AtABCG31 (NP_193258.2), AtABCG32 (NP_180555.2), AtABCG33 (NP_180259.1), AtABCG34 (NP_181265.1), AtABCG35 (NP_181179.2), AtABCG36 (NP_172973.1), AtABCG37 (NP_176196.1), AtABCG38 (NP_190916.1), AtABCG39 (NP_683617.1), AtABCG40 (NP_176867.2), AtABCG41 (NP_173005.1), AtABCG42 (NP_680692.1), AtABCG43 (NP_680693.5) and AtABCG44 (NP_680694.2). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 9.
Phylogenetic tree of ABCI (NAP) protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis ABCI (NAP) proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtABCI8 (NP_192386.1), AtABCI21 (NP_199224.1), AtABCI17 (NP_176961.1), AtABCI19 (NP_563694.1), AtABCI7 (NP_564404.1), AtABCI6 (NP_187678.1), AtABCI20 (NP_195847.1), AtABCI1 (NP_176516.1), AtABCI13 (NP_564850.1), AtABCI10 (NP_195072.2) and AtABCI11 (NP_196914.1). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.
Figure 10.
Phylogenetic tree of SMC protein sequences from Arabidopsis and Vitis vinifera.
The amino acid sequences of all Arabidopsis SMC proteins and those of Vitis vinifera were aligned using the MUSCLE program and subjected to phylogenetic analysis by the distance with neighborjoining method using MEGA5 programme. Accession numbers for Arabidopsis sequences are AtSMC1 (CAB77587), AtSMC2 (CAB61972.1), AtSMC3 (BAB10693.1), AtSMC4 (BAB11491.1). AtSKD1 (AEC08019.1) and VvSKD1 (XP_002266534.1) were used as outgroups.