Volume 4, Issue 6, Pages 1105-1122 (November 2011) Comprehensive Sequence and Whole-Life-Cycle Expression Profile Analysis of the Phosphate Transporter Gene Family in Rice  Liu Fang , Chang Xiao-Jian , Ye Ying , Xie Wei-Bo , Wu Ping , Lian Xing-Ming   Molecular Plant  Volume 4, Issue 6, Pages 1105-1122 (November 2011) DOI: 10.1093/mp/ssr058 Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 1 Distribution of OsPT Genes on Rice Chromosomes.White ovals on the chromosomes (vertical bar) indicate the position of centromeres. The arrows next to the gene names show the direction of transcription. Chromosome numbers are indicated at the top of each bar. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 2 The GSDS (http://gsds.cbi.pku.edu.cn/chinese.php) Output of the OsPT (A) and AtPT (B) Gene Structure in Rice. 0, 1, 2: intron phases indicating splicing patterns: in phase 0, splicing occurs after the third nucleotide of the first codon; in phase 1, splicing occurs after the first nucleotide of the single codon; in phase 2, splicing occurs after the second nucleotide. Four OsPT clusters, I–IV, correspond to the phylogenetic clusters from Figure 3. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 3 Phylogenetic Relationship between PT Family Genes in Rice (OsPT) and Arabidopsis. The joint unrooted tree was generated using MEGA4 with the neighbor-joining method. Bootstrap values from 1 000 replicates are indicated at each branch. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 4 Organization of Putative Motifs in OsPT Genes Identified by MEME. Numbered color boxes represent different putative motifs. The expected values calculated by MEME are shown after the gene names. Clusters I, II, III, and IV correspond to the phylogenetic clusters in Figure 3. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 5 Hierarchical Cluster Display of OsPT Genes in Rice Based on the Average Signal Values in 27 Tissues. Numbers from 1 to 27 above the cluster represent the 27 tissues covering the rice lifecycle (described in ‘Methods’). Each tissue has three parallel displays representing Minghui 63 (MH), Shanyou 63 (SH), and Zhenshan 97 (ZH), respectively. The color scale representing average signal values is shown at the bottom. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 6 The Expression pattern of eight genes (OsPT2, OsPT4, OsPT6, OsPT11, OsPT12, OsPT13, OsPT17, and OsPT20) exhibited tissue- or organ-preferential expression patterns in 27 tissues covering the rice lifecycle based on average signal values in three rice cultivars: Minghui 63, Shanyou 63, and Zhenshan 97, respectively. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 7 Real-Time PCR of Genes Showing Tissue-Preferential Expression. The x-axes are representative tissues and y-axes are scales of relative expression level. Twelve representative tissues are as follows: Cal, callus at 15 d after subculture; Sd, three-leaf seedlings; Lf, leaf from plants with two tillers; Rt, root from plants with two tillers; Ls, leaf at 1-mm young panicle stage; Ly, leaf at 4–5-cm young panicle stage; Pan, young panicle 4–5 cm in length; F5, flag leaf at 5 d before heading stage; Stm, stem from plants at 1 d before flowering; Sta, stamen at 1 d before flowering; F14, flag leaf at 14 d after heading stage; Spi, spikelet 3 d after pollination; and Esp, endosperm at 7 d after pollination. The bars are standard deviations of three technical repeats. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 8 Expression Profiles of OsPT Genes after NAA, GA3, and KT Treatments in Three Rice Genotypes: Minghui 63, Shanyou 63, and Zhenshan 97. The color scale representing average signal values is shown at the bottom. MH-CK (Minghui 63, control), MH-NAA (Minghui 63, NAA), MH-GA3 (Minghui 63, GA3), MH-KT (Minghui 63, KT), SHCK (Shanyou 63, control), SH-NAA (Shanyou 63, NAA), SH-GA3 (Shanyou 63, GA3), SH-KT (Shanyou, KT), ZH-CK (Zhenshan 97, control), ZH-NAA (Zhenshan 97, NAA), ZH-GA3 (Zhenshan 97, GA3), and ZH-KT (Zhenshan 97, KT). Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions

Figure 9 Real-Time PCR Analysis of Hormone-Responsive and Stress-Responsive OsPT Genes. The x-axes are time courses of hormonal stress treatments and y-axes are scales of relative expression level. A, ABA; D, 2,4-D; G, GA3; K, KT; N, NAA; S, salt; P, phosphorus. For each hormone treatment, rice leaves were sampled at 0, 1, 3, 6, 12, and 24 h after treatment, respectively. For salt stress and phosphorus stress, seedlings were sampled at 0, 1, 6, and 24 h, respectively. The bars are standard deviations of technical repeats. Molecular Plant 2011 4, 1105-1122DOI: (10.1093/mp/ssr058) Copyright © 2011 The Authors. All rights reserved. Terms and Conditions