We present results for the structural and vibrational properties of the water molecule, water dimer, and liquid water at the experimental equilibrium density, as obtained with several van der Waals density functionals. The functional form originally proposed by Dion et al. [ Phys. Rev. Lett. 2004 , 92 , 246401 ], with an appropriately chosen local exchange functional, yields a description of the liquid superior to that of the semilocal functional PBE. In particular, a specific choice of the local exchange functional (optB88) fitted to quantum chemistry calculations yields the best agreement with experimental results for pair correlation functions although it is slightly inferior to other van der Waals functionals in describing infrared spectra. When using optB88, liquid water displays a hydrogen-bonded network less tightly bound than when using the PBE approximation. The performance of optB88 is definitely inferior to that of the PBE0 hybrid functional for the isolated molecule but only moderately so for the liquid. However, the computational cost of optB88 is much less than that of hybrid functionals; therefore the use of optB88 appears to be a sensible alternative to calculations implying the evaluation of the Fock operator, in cases when simulations of large systems are required.

Inflorescence and spikelet development determine grain yields in cereals. Although multiple genes are known to be involved in the regulation of floral organogenesis, the underlying molecular network remains unclear in cereals. Here, we report that the rice (Oryza sativa) microRNA396d (OsmiR396d) and its Os Growth Regulating Factor (OsGRF) targets, together with Os Growth Regulating Factor-Interacting Factor1 (OsGIF1), are involved in the regulation of floral organ development through the rice JMJD2 family jmjC gene 706 (OsJMJ706) and crinkly4 receptor-like kinase (OsCR4). Transgenic knockdown lines of OsGRF6, a predicted target of OsmiR396d, and overexpression lines of OsmiR396d showed similar defects in floral organ development, including open husks, long sterile lemmas, and altered floral organ morphology. These defects were almost completely rescued by overexpression of OsGRF6. OsGRF6 and its ortholog OsGRF10 were the most highly expressed OsGRF family members in young inflorescences, and the grf6/grf10 double mutant displayed abnormal florets. OsGRF6/OsGRF10 localized to the nucleus, and electrophoretic mobility shift assays revealed that both OsGRF6 and OsGRF10 bind the GA response element in the promoters of OsJMJ706 and OsCR4, which were reported to participate in the regulation of floral organ development. In addition, OsGRF6 and OsGRF10 could transactivate OsJMJ706 and OsCR4, an activity that was enhanced in the presence of OsGIF1, which can bind both OsGRF6 and OsGRF10. Together, our results suggest that OsmiR396d regulates the expression of OsGRF genes, which function with OsGIF1 in floret development through targeting of JMJ706 and OsCR4. This work thus reveals a microRNA-mediated regulation module for controlling spikelet development in rice.

We show that first principles hybrid functional (PBE0) simulations of the infrared spectrum of liquid water yields a much better agreement with experimental results than a semilocal functional description; in particular, the quantitative accord with measured stretching and bending bands is very good. Such an improved description stems from two effects: a more accurate account, at the PBE0 level of theory, of the vibrational properties of the monomer and dimer and an underlying structural model for the liquid with a smaller number of hydrogen bonds and oxygen coordination than those obtained with semilocal functionals. The average electronic gap of the liquid is increased by 60% with respect to the PBE value, when computed at the PBE0 level of theory, and is in fair agreement with experimental results.