Various features of PLC genes in rice genome.

<p>Various features of PLC genes in rice genome.</p

Co-localization of rice NPC proteins with chlorophyll auto-fluorescence of the cell.

<p>Confocal images of <i>Nicotiana benthamiana</i> cell expressing GFP-OsNPC1 (upper panel) and GFP-OsNPC3 (lower panel). Green GFP signal merges with red auto-fluorescence of chloroplast, as seen in the merged regions (yellowish orange) in the overlay. All the images were taken in 5 different sections in z direction and merges together. Scale bar = 40 µm.</p

Expression profile of rice PLC gene family during developmental stages.

<p>Average signal intensity (GCRMA) value of three replicates from microarray for all the developmental stages (three vegetative; L-mature leaf, R-root, SDL-seven day old seedling, six panicle stages; P1–P6 and five seed stages; S1–S5) has been plotted to show the differential expression. Standard error bars have been shown. Y-axis represents signal values from microarray and X-axis shows different developmental stages.</p

Phylogenetic relationship of rice and <b><i>Arabidopsis</i></b><b> PLC gene family.</b>

<p>An un-rooted neighbour joining phylogenetic tree was constructed from the protein sequences of rice and <i>Arabidopsis</i> PLCs, including both PI-PLCs and NPCs. Multiple sequence alignment was carried out using clustalX2.0 and the tree was generated using MEGA5. Rice and <i>Arabidopsis</i> PI-PLCs and NPCs are clustered together based on significant bootstrap value (>50%). Scale bar indicates 0.1 amino acid substitution per site.</p

Subcellular localization of OsPLC proteins in <b><i>Nicotiana benthamiana</i></b><b> cells.</b>

<p>Agrobacterium-infiltrated tobacco leaves expressing the GFP-PLC fusion protein driven by the 2XCaMV 35S promoter. Confocal images of fluorescence (green) for cell expressing OsPLC1 and OsPLC4 are showing their distribution throughout the cytoplasm and nucleus (first and second row). Expressed GFP-OsNPC1 fusion protein, mainly localized to cytoplasm and small spots like structures in the cell (third row), and GFP-OsNPC3 fusion protein showed preferential localization to small punctate structures in the cell (fourth row). Cells transformed with vector only (CaMV35S-GFP) are shown in the lowermost row. All the images were taken in 5 different sections in z direction and merges together. Scale bar = 40 µm.</p

MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress-2

<p><b>Copyright information:</b></p><p>Taken from "MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress"</p><p>http://www.biomedcentral.com/1471-2164/8/242</p><p>BMC Genomics 2007;8():242-242.</p><p>Published online 18 Jul 2007</p><p>PMCID:PMC1947970.</p><p></p>motif is represented by a number in colored box. Length of box does not correspond to length of motif. Order of the motifs corresponds to position of motifs in individual protein sequence. For detail of motifs refer to supplementary material

MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress-8

<p><b>Copyright information:</b></p><p>Taken from "MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress"</p><p>http://www.biomedcentral.com/1471-2164/8/242</p><p>BMC Genomics 2007;8():242-242.</p><p>Published online 18 Jul 2007</p><p>PMCID:PMC1947970.</p><p></p>Y-axis represents the raw expression values obtained using microarrays. Chromosome numbers on the left of each graph represent the duplicated segments on which the duplicated genes were identified. Homology for each duplicated gene pair is given in brackets

MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress-3

<p><b>Copyright information:</b></p><p>Taken from "MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress"</p><p>http://www.biomedcentral.com/1471-2164/8/242</p><p>BMC Genomics 2007;8():242-242.</p><p>Published online 18 Jul 2007</p><p>PMCID:PMC1947970.</p><p></p>xpression and red signifies high level expression). . (Color bar at the base represents logexpression values, thereby blue color representing low level expression, yellow shows medium level expression and red signifies high level expression). Developmental stages used for expression profiling are mentioned on top of each column. Panicle and seed stages have been listed in the temporal order of development. On the left side of expression map, cluster dendrogram is shown. On the right side, eight groups have been made for the genes showing discrete expression patterns (Figure 5). Symbol * represents accumulative expression profiles of duplicated genes, , , and . Genes belonging to the different groups have been marked by a symbol (m, MIKC; m*, MIKC*; α, Mα; β, Mβ and γ, Mγ). . Expression profiles of and using QPCR. X-axis represents the developmental stages as given in Table 2. Y-axis represents relative expression values obtained after normalizing against maximum expression value. Error bars show the standard error for two biological replicates performed

Structural features of rice phospholipase C family.

<p>(A) Exon-intron organization is shown for both PI-PLC and NPC groups of rice PLCs and the gene names are mentioned at left. Genes are shown according to their phylogenetic clustering and not in the order of their numbers. Purple bars represent the exon, lines represent the intron while grey colour bars indicate the un-translated region (UTR) both at 5′ and 3′ position. (B) Protein structure of rice PLC gene family is showing the presence of highly conserved characteristic domains PI-PLC-X (Pfam identity- PF00388), PI-PLC-Y (PF00387) and C2 (PF00168) in all the PI-PLC members while EF hand like motif (PF09279) was marked only in two of the members. Phosphoesterase (PF04185) domain is present in all the NPC members. Numbers on each domain depict amino acid residue at the start and end of a particular domain and direction of a protein is depicted by N and C terminal.</p

MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress-0

<p><b>Copyright information:</b></p><p>Taken from "MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress"</p><p>http://www.biomedcentral.com/1471-2164/8/242</p><p>BMC Genomics 2007;8():242-242.</p><p>Published online 18 Jul 2007</p><p>PMCID:PMC1947970.</p><p></p>are written at the top. Genes belonging to five groups have been marked by different colors (MIKC, red; MIKC*, yellow; Mα, purple; Mβ, green and Mγ, blue). Genes lying on duplicated segments of genome have been joined by dashed lines. Tandemly duplicated genes are joined with vertical lines. (* The duplicated segment between chromosome 1 and 9 containing and , respectively, could be detected only in segmental duplication database with 500 kb and not with 100 kb distance allowed between collinear genes in TIGR, for details experimental procedures)