These data identify the JNK1 pathway as an important target in understanding lung immunity

ibitor ), and HECT ubiquitin ligase whereas genes involved in transport activities are underrepresented . Second, the species-specific genes were 1692608 compared to the rest of the genes from those particular species. Several transporter- and nucleotide-sugar transporter-related ) domains were highly over-represented in Py. vexans-specific genes. The Py. aphanidermatum-specific genes were highly enriched for aspartic peptidase, endoglucanase, cutinase, and pectate lyase domains. The highly represented domains in Py. arrhenomanes were protease inhibitor ), cutinase, necrosis inducing, and pectate lyase. Similarly, pathogenesis related domains such as peptidase and proteinase inhibitor I25 ) were highly represented in Py. irregularespecific genes. The leucine-rich repeat containing domain, carbonic anhydrase, and chitinase II were over-represented in Py. iwayamaispecific genes. A number of these protein domains have been shown to be implicated in plant-pathogen interaction in different oomycete pathogens. In general, we observed higher representation of protein domains potentially involved in degradation of host tissues and establishment of 181223-80-3 infection structure in the core Pythium gene set leading to necrotrophic life style. Metabolism of Complex Carbohydrates Carbohydrate-active enzymes are involved in the biosynthesis and degradation of diverse glycoconjugates, oligosaccharides, and polysaccharides and have a central role in the breakdown of the plant cell wall by plant pathogens thereby serving as pathogenicity factors. These enzymes can also be involved in the biosynthesis, breakdown, and modification of the oomycete cell wall and structural polysaccharides as part of growth and development. Thus, comparison of the CAZyme content would provide insights into metabolic and enzymatic diversity in oomycete pathogens. Putative CAZymes in Pythium species were identified using the CAZymes Analysis Toolkit and correspondence between CAZyme families and protein family Comparative Oomycete Genomics domains was analyzed. The comparison of the glycoside hydrolase, glycosyltransferases, polysaccharide lyase, and carbohydrate esterase in the Pythium genomes revealed that these organisms exhibit substantial variation in number of CAZymes. The CE and carbohydrate-binding module classes were poorly represented in all Pythium genomes. Interestingly, we identified eight and six cutinase-encoding genes in Py. aphanidermatum and Py. arrhenomanes, respectively, but not in the other Pythium genomes suggesting that the evolution of these phytopathogens led to different degrees of reduction in their cutin degrading capabilities. Pythium species have a relatively smaller set of GHencoding genes compared to all Phytophthora species yet strikingly larger than the repertoire of the biotroph H. arabidopsidis and the diatoms in agreement with previous findings. The GH superfamily was the most highly represented CAZyme superfamily in all Pythium genomes with PL the least represented. We observed that in general Pythium species have a highly reduced set of secreted CAZymes when compared to Phytophthora species, which underwent gene expansion. The differential ability of oomycete pathogens to produce different hydrolytic enzymes acting on different complex carbohydrate molecules could determine their infection strategy, host range, and most likely contribute to the different virulence mechanisms between 22924972 oomycete pathogens. An in-depth study of the Pythium-CAZymes is reported ibitor ), and HECT ubiquitin ligase whereas genes involved in transport activities are underrepresented . Second, the species-specific genes were compared to the rest of the genes from those particular species. Several transporter- and nucleotide-sugar transporter-related ) domains were highly over-represented in Py. vexans-specific genes. The Py. aphanidermatum-specific genes were highly enriched for aspartic peptidase, endoglucanase, cutinase, and pectate lyase domains. The highly represented domains in Py. arrhenomanes were protease inhibitor ), cutinase, necrosis inducing, and pectate lyase. Similarly, 23570531 pathogenesis related domains such as peptidase and proteinase inhibitor I25 ) were highly represented in Py. irregularespecific genes. The leucine-rich repeat containing domain, carbonic anhydrase, and chitinase II were over-represented in Py. iwayamaispecific genes. A number of these protein domains have been shown to be implicated in plant-pathogen interaction in different oomycete pathogens. In general, we observed higher representation of protein domains potentially involved in degradation of host tissues and establishment of infection structure in the core Pythium gene set leading to necrotrophic life style. Metabolism of Complex Carbohydrates Carbohydrate-active enzymes are involved in the biosynthesis and degradation of diverse glycoconjugates, oligosaccharides, and polysaccharides and have a central role in the breakdown of the plant cell wall by plant pathogens thereby serving as pathogenicity factors. These enzymes can also be involved in the biosynthesis, breakdown, and modification of the oomycete cell wall and structural polysaccharides as part of growth and development. Thus, comparison of the CAZyme content would provide insights into metabolic and enzymatic diversity in oomycete pathogens. Putative CAZymes in Pythium species were identified using the CAZymes Analysis Toolkit and correspondence between CAZyme families and protein family Comparative Oomycete Genomics domains was analyzed. The comparison of the glycoside hydrolase, glycosyltransferases, polysaccharide lyase, and carbohydrate esterase in the Pythium genomes revealed that these organisms exhibit substantial variation in number of CAZymes. The CE and carbohydrate-binding module classes were poorly represented in all Pythium genomes. Interestingly, we identified eight and six cutinase-encoding genes in Py. aphanidermatum and Py. arrhenomanes, respectively, but not in the other Pythium genomes suggesting that the evolution of these phytopathogens led to different degrees of reduction in their cutin degrading capabilities. Pythium species have a relatively smaller set of GHencoding genes compared to all Phytophthora species yet strikingly larger than the repertoire of the biotroph H. arabidopsidis and the diatoms in agreement with previous findings. The GH superfamily was the most highly represented CAZyme superfamily in all Pythium genomes with PL the least represented. We observed that in general Pythium species have a highly reduced set of secreted CAZymes when compared to Phytophthora species, which underwent gene expansion. The differential ability 21836025 of oomycete pathogens to produce different hydrolytic enzymes acting on different complex carbohydrate molecules could determine their infection strategy, host range, and most likely contribute to the different virulence mechanisms between oomycete pathogens. An in-depth study of the Pythium-CAZymes is reported