Tag: Genomics

Of the 3000 or so proteins housed in the chloroplast, we know the functions of only a few hundred. One approach to identify function is to first identify plastid proteins found exclusively in photosynthetic organisms. This subset, GreenCut2, is further subdivided by whether the proteins are found in…

Due to its highly repetitive, polyploid genome, wheat genomics has lagged behind that of other cereals, but new tools promise to begin closing that gap.  Uauy reviews these new tools, which include access to full genomes of several wheat varieties, gene expression data from hundreds of publicly available…

Teosinte, the ancestor of maize, grows in a range of environments in México. Teosinte parviglumis (Zea mays ssp parviglumis) is more prevalent in lowland regions while teosinte mexicana (Zea mays ssp mexicana) occupies highland territory (>2000 m above sea level). Admixture between parviglumis and…

Nature journal published a special “Plant Insights” section featuring several excellent reviews.  Zipfel and Oldroyd review Plant signalling in symbiosis and immunity (10.1038/nature22009), Bevan et al. write about Genomic innovation for crop improvement (10.1038/nature22011), Scheres and van der…

Rice is the world’s most important food crop and its domestication was a key event in human history. Centuries of propagation across large geographical areas have resulted in five domesticated subpopulations:  aus, indica, temperate japonica, tropical japonica, and aromatic rice. Choi et al. analyzed…

Brassicaceae is one of the largest angiosperm families and provides many opportunities for studies of evolution. Of course, its most famous species, Arabidopsis thaliana is an important resource, but Brassicaceae also includes the very interesting Brassica crops (cabbage, turnip) that demonstrate the…

Evolution starts with molecular variation and phenotypic diversity, upon which selection acts. Flood and Hancock review the approaches used to detect adaptive evolution. The top down approach starts with the phenotype and works to identify its genomic basis; examples are quantitative trait locus (QTL)…

A considerable knowledge gap remains between the plant genome and the plant metabolome. To address this, Schläpfer et al. have developed a computational pipeline to identify metabolic enzymes, pathways, and gene clusters. Although metabolic genes are known to cluster in bacteria and fungi, until recently…