The maximum likelihood tree of FslK members.

<p>The phylogenetic tree was built with the kinase domain sequences using PhyML 3.1 and was drawn using Interactive Tree Of Life Version 2.2.2 (<a href="http://itol.embl.de/#" target="_blank">http://itol.embl.de/#</a>). The p-values of approximate likelihood ratios (SH-aLRT) plotted as circle marks on the branches (only p-values>0.5 are indicated) and circle size is proportional to the p-values. Filled red circles mark sequences used in the <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone-0089813-g002" target="_blank">Figure 2</a>. For abbreviations see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813.s003" target="_blank">Table S1</a>.</p

Comparison of sequence patterns in TK-specific motifs.

<p><b>A</b>. Sub-domains of the protein kinase domain. Consensus sequences DL(R/A)A(A/R)N in subdomain VI and XP(I/V)(K/R)W(T/M)APE in subdomain VIII are specific to TKs. The motif in red [GXR(M/L)] was identified in this study. The motif CW(X)₆RPXF in gray was found to be not specific to TKs in this study (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813.s002" target="_blank">Figure S2</a>). <b>B</b>. The LOGOs show sequence patterns of the three motifs in each group. Red arrow heads indicate conserved amino acid residues that are diagnostic for TKs.</p

The distribution of FslK members in fungal species used in this study.

<p>The species tree was drawn based on the phylogenetic tree of α-tubulins. The red bar indicates the number of FslK members.</p

Multiple sequence alignments of representative members of FslK.

<p>The consensus sequences of Protein kinase domain (Pkinase, pfam00069) and Catalytic domain of Protein Tyrosine Kinases (PTKc, cd00192) were used as references. Eleven sub-domains of FslK catalytic domains were shown. Conserved amino acid residues related to crystal structure and catalytic function <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813-Hanks1" target="_blank">[1]</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813-Taylor1" target="_blank">[9]</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813-Hanks2" target="_blank">[10]</a> in protein kinases were indicated below. The default color scheme for ClustalW alignment in the Jalview program was used.</p

Phylogenetic position of the FslK.

<p>Phylogenetic trees were calculated using Maximum-likelihood (ML) and Bayesian inference (BI) methods, respectively. Both methodologies gave similar tree topology. The tree presented here is the BI tree. Numbers on major branches indicate SH-like approximate likelihood ratio test (SH-aLRT) probabilities/Bayesian posterior probabilities. Branches with Bayesian posterior probability less than 0.5 have been collapsed. The simple cladogram of eukaryotic groups on the top right corner was drawn according to the tree of life (<a href="http://tolweb.org/tree/" target="_blank">http://tolweb.org/tree/</a>). Ac, <i>Acanthamoeba castellanii</i>; At, <i>Arabidopsis thaliana</i>; Ce, <i>Caenorhabditis elegans</i>; Cr, <i>Chlamydomonas reinhardtii</i>; Dd, <i>Dictyostelium discoideum</i>; Dm, <i>Drosophila melanogaster</i>; Eh, <i>Entamoeba histolytica</i>; Hs, <i>Homo sapiens</i>; Mb, <i>Monosiga brevicollis</i>; Mm, <i>Mus musculus</i>; Pi, <i>Phytophthora infestans</i>; Pr, <i>Phytophthora ramorum</i>; Ps, <i>Phytophthora sojae</i>; Su, <i>Sea Urchin</i>; Tv, <i>Trichomonas vaginalis</i>. For abbreviations of fungi see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0089813#pone.0089813.s003" target="_blank">Table S1</a>.</p

Methodic of basic punches and defences in box.

Title: Methodic ofbasic punches and defences in box. The aim of diploma theses: Create a manual ofmethodic ofbasic punches and defences in box. Method: In making my theses I used usual methods like dokument analysis, interrogation and observation. I replenished this acquired information with study of Czech and foreign literature, reading magazines and searching on internet. Also I completed this infonnation with my own experience. Results: In this diploma theses I described all of basic punches and defences in box. Process is systematic from basic pose and simply punches till offensive combinations, active and passive defence. Keywords: Box, punch, defence, offensive.

The S289 mutation affected the function but not localization of FgPrp4.

<p>(<b>A).</b> Western blots of total proteins isolated from the wild type (PH-1) and the <i>FgPRP4</i>-3xFLAG transformant were detected with an anti-3xFLAG antibody. (<b>B).</b> 12 h germlings of the <i>Fgprp4/FgPRP4</i>^S289A transformant FPA2 were examined by DIC and epifluorescence microscopy. Bar = 20 μm. <b>(C).</b> Three-day old PDA cultures of the <i>Fgprp4</i> mutant (FP1), complemented transformant (FPN1), and <i>Fgprp4/FgPRP4</i>^S289A transformant (FPA2).</p

Wild-type and transformants of <i>Fusarium graminearum</i> strains used in this study.

<p>Wild-type and transformants of <i>Fusarium graminearum</i> strains used in this study.</p

Schematic draw of the pre-mRNA splicing processes and components of tri-snRNP related to this study.

<p>Exons and one intron are represented by boxes and solid line, respectively. Base pairing of U1 to 5’ss and recognition of BP by U2 (formation of complex A) are followed by the integration of preformed U4/U6-U5 tri-snRNP to form complex B. Whereas Prp4 and Prp31 are components of U4/U6 snRNP, Brr2, Prp8, and Prp6 are components of U5 snRNP. Phosphorylation of Prp6 and Prp31 by Prp4 is associated with the activation of B-complex (complex B^act). U1, U4, Prp4, Prp6, and Prp31 are released from the activated spliceosome that catalyzes two sequential transesterifications reactions for intron splicing.</p

Effects of <i>FgPRP4</i> deletion on intron splicing.

<p>(<b>A).</b> Box-plot comparison of intron retention levels between the wild type (PH-1) and <i>Fgprp4</i> mutant (FP1) in replica experiments. The statistical significance for each comparison is analyzed by <i>t</i>-test (****, <i>P</i><0.0001). (<b>B).</b> The percentage of introns and genes with the three marked intron retention levels in <i>Fgprp4</i> compared to the wild type. (<b>C)</b>. Introns that were increased in intron retention over 2-fold in <i>Fgprp4</i> in both replica experiments. (<b>D).</b> Intron splicing defects in the labelled genes were verified by RT-PCR with primers flanking the introns with reduced splicing efficiency (marked with *) in the <i>Fgprp4</i> mutant. Lanes 1–3 were PCR results with the genomic DNA, cDNA of PH-1, and cDNA of <i>Fgprp4</i>, respectively. The sizes of amplified bands are labelled on the side.</p