Genome-wide analysis to predict protein sequence variations that change phosphorylation sites or their corresponding kinases

We define phosphovariants as genetic variations that change phosphorylation sites or their interacting kinases. Considering the essential role of phosphorylation in protein functions, it is highly likely that phosphovariants change protein functions and may constitute a proportion of the mechanisms by which genetic variations cause individual differences or diseases. We categorized phosphovariants into three subtypes and developed a system that predicts them. Our method can be used to screen important polymorphisms and help to identify the mechanisms of genetic diseases

Insight into highly conserved H1 subtype-specific epitopes in influenza virus hemagglutinin

Influenza viruses continuously undergo antigenic changes with gradual accumulation of mutations in hemagglutinin (HA) that is a major determinant in subtype specificity. The identification of conserved epitopes within specific HA subtypes gives an important clue for developing new vaccines and diagnostics. We produced and characterized nine monoclonal antibodies that showed significant neutralizing activities against H1 subtype influenza viruses, and determined the complex structure of HA derived from a 2009 pandemic virus A/Korea/01/2009 (KR01) and the Fab fragment from H1-specific monoclonal antibody GC0587. The overall structure of the complex was essentially identical to the previously determined KR01 HA-Fab0757 complex structure. Both Fab0587 and Fab0757 recognize readily accessible head regions of HA, revealing broadly shared and conserved antigenic determinants among H1 subtypes. The beta-strands constituted by Ser110-Glu115 and Lys169-Lys170 form H1 epitopes with distinct conformations from those of H1 and H3 HA sites. In particular, Glu112, Glu115, Lys169, and Lys171 that are highly conserved among H1 subtype HAs have close contacts with HCDR3 and LCDR3. The differences between Fab0587 and Fab0757 complexes reside mainly in HCDR3 and LCDR3, providing distinct antigenic determinants specific for 1918 pdm influenza strain. Our results demonstrate a potential key neutralizing epitope important for H1 subtype specificity in influenza virus

Vegetation change in the regional surface climate over East Asia due to global warming using BIOME4

This study investigates the possible changes in the regional surface climate due to global warming from a MM5 downscaling simulation for the period of 1971-2100. The main focus of this study is to observe the changes in vegetation types over East Asia. BIOME4, an equilibrium terrestrial biosphere model, is utilized to simulate vegetation patterns. Regional projections of this study show the increase of surface air temperature by 5◦C and precipitation by 6% over East Asia in the end of the 21st century. The present study also noticed that the increasing trend of temperature is associated with the increasing trends of the minimum temperature of the coldest month. Therefore, the region of favorable temperature conditions for vegetation growth in lower latitudes seems to extend toward the higher latitude. It leads to a northward shift of vegetation distribution in the lower latitudes besides the area extension. For instance, the trend in which the warm mixed forest and temperate deciduous forest shift northward may be distinguished. At the same time, the area of temperate deciduous forest pervades the area and replaces temperate grassland regions. Of interest, the tropical evergreen forest is expected to appear over southern China in the end of the 21st century. The possible vegetation changes are mainly affected by a temperature increase rather than a precipitation increase