Simulating Potential Impacts of Future Climate Change on Post-Rainy Season Sorghum Yields in India

Given the wide use of the multi-climate model mean (MMM) for impact assessment studies, this work examines the fidelity of Coupled Model Intercomparison Project Phase 5 (CMIP5) in simulating the features of Indian summer monsoons as well as the post-rainy seasons for assessing the possible impacts of climate change on post-rainy season sorghum crop yields across India. The MMM simulations captured the spatial patterns and annual cycles of rainfall and surface air temperatures. However, bias was observed in the precipitation amounts and daily rainfall intensity. The trends in the simulations of MMM for both precipitation and temperatures were less satisfactory than the observed climate means. The Crop Environment Resource Synthesis (CERES)-sorghum model was used to estimate the potential impacts of future climate change on post-rainy season sorghum yield values. On average, post-rainy season sorghum yields are projected to vary betwee

Minimotif miner 2nd release: a database and web system for motif search

Minimotif Miner (MnM) consists of a minimotif database and a web-based application that enables prediction of motif-based functions in user-supplied protein queries. We have revised MnM by expanding the database more than 10-fold to approximately 5000 motifs and standardized the motif function definitions. The web-application user interface has been redeveloped with new features including improved navigation, screencast-driven help, support for alias names and expanded SNP analysis. A sample analysis of prion shows how MnM 2 can be used. Weblink: http://mnm.engr.uconn.edu, weblink for version 1 is http://sms.engr.uconn.edu

Secondary Structure, a Missing Component of Sequence-Based Minimotif Definitions

Minimotifs are short contiguous segments of proteins that have a known biological function. The hundreds of thousands of minimotifs discovered thus far are an important part of the theoretical understanding of the specificity of protein-protein interactions, posttranslational modifications, and signal transduction that occur in cells. However, a longstanding problem is that the different abstractions of the sequence definitions do not accurately capture the specificity, despite decades of effort by many labs. We present evidence that structure is an essential component of minimotif specificity, yet is not used in minimotif definitions. Our analysis of several known minimotifs as case studies, analysis of occurrences of minimotifs in structured and disordered regions of proteins, and review of the literature support a new model for minimotif definitions that includes sequence, structure, and function. © 2012 Sargeant et al