Plant responses to red and far-red light are mediated by a family of photoreceptors called phytochromes. In Arabidopsis thaliana, there are genes encoding at least five phytochromes, and it is of interest to learn if the different phytochromes have overlapping or distinct functions. To address this question for two of the phytochromes in Arabidopsis, we have compared light responses of the wild type with those of a phyA null mutant, a phyB null mutant, and a phyA phyB double mutant. We have found that both phyA and phyB mutants have a deficiency in germination, the phyA mutant in far-red light and the phyB mutant in the dark. Furthermore, the germination defect caused by the phyA mutation in farred light could be suppressed by a phyB mutation, suggesting that phytochrome B (PHYB) can have an inhibitory as well as a stimulatory effect on germination. In red light, the phyA phyB double mutant, but neither single mutant, had poorly developed cotyledons, as well as reduced red-light induction of CAB gene expression and potentiation of chlorophyll induction. The phyA mutant was deficient in sensing a flowering response indudive photoperiod, suggesting that PHYA participates in sensing daylength. In contrast, the phyB mutant flowered earlier than the wild type (and the phyA mutant) under all photoperiods tested, but responded to an inductive photoperiod. Thus, PHYA and PHYB appear to have complementary fundions in controlling germination, seedling development, and flowering. We discuss the implications of these results for possible mechanisms of PHYA and PHYB signal transduction.

Forest protection policies potentially reduce deforestation and re-direct agricultural expansion to already-cleared areas. Using satellite imagery, we assessed whether deforestation for conversion to pasture and cropland decreased in the lowlands of northern Costa Rica following the 1996 ban on forest clearing, despite a tripling of area under pineapple cultivation in the last decade. We observed that following the ban, mature forest loss decreased from 2.2% to 1.2% per year, and the proportion of pineapple and other export-oriented cropland derived from mature forest declined from 16.4% to 1.9%. The post-ban expansion of pineapples and other crops largely replaced pasture, exotic and native tree plantations, and secondary forests. Overall, there was a small net gain in forest cover due to a shifting mosaic of regrowth and clearing in pastures, but cropland expansion decreased reforestation rates. We conclude that forest protection efforts in northern Costa Rica have likely slowed mature forest loss and succeeded in re-directing expansion of cropland to areas outside mature forest. Our results suggest that deforestation bans may protect mature forests better than older forest regrowth and may restrict clearing for large-scale crops more effectively than clearing for pasture.

Aim To identify characteristics of a human-modified landscape that promote taxonomic (TD), functional (FD) and phylogenetic (PD) dimensions of bat biodiversity.Location Caribbean lowlands of northeastern Costa Rica.Methods During the dry and wet seasons, we quantified TD (Simpson's diversity), as well as FD and PD (Rao's quadratic entropy) of phyllostomid bat assemblages at 15 sites that represented a forest loss and fragmentation gradient. FD was estimated separately for each of seven functional components that reflect particular niche axes (e.g. diet, foraging strategy) and for all functional components combined (FD all ). PD was based on relatedness of species derived from a supertree. We identified the best explanatory landscape characteristics of each dimension using hierarchical partitioning.Results Landscape effects were dimension and season specific. During the dry season, TD and PD increased with increasing proportions of pasture or size of forest patches, whereas FD all decreased with increasing size of forest patches. During the wet season, TD increased with increasing forest patch size, whereas FD all and PD increased with increasing compactness of forest patches and decreasing proximity. Decomposition of FD into separate functional components revealed different landscape effects on ecological aspects of assemblages.Main conclusions One dimension of biodiversity was not a good surrogate for another. Rather, decomposition of biodiversity into different dimensions and functional components facilitated identification of the aspects of assemblages that are most affected by forest conversion and fragmentation. Areas with intermediate amounts of forest and pasture during the dry season harboured highest diversity from taxonomic, functional and phylogenetic perspectives. During the wet season, areas with large, compact forest patches promoted the dimensions of biodiversity. Placement of areas with even amounts of forest and pasture adjacent to large, compact forest patches (e.g. reserves) may maintain high biodiversity of bats and the ecosystem functions that they provide throughout the year.

Commodity crop expansion, for both global and domestic urban markets, follows multiple land change pathways entailing direct and indirect deforestation, and results in various social and environmental impacts. Here we compare six published case studies of rapid commodity crop expansion within forested tropical regions. Across cases, between 1.7% and 89.5% of new commodity cropland was sourced from forestlands. Four main factors controlled pathways of commodity crop expansion: (i) the availability of suitable forestland, which is determined by forest area, agroecological or accessibility constraints, and land use policies, (ii) economic and technical characteristics of agricultural systems, (iii) differences in constraints and strategies between small-scale and large-scale actors, and (iv) variable costs and benefits of forest clearing. When remaining forests were unsuitable for agriculture and/or policies restricted forest encroachment, a larger share of commodity crop expansion occurred by conversion of existing agricultural lands, and land use displacement was smaller. Expansion strategies of large-scale actors emerge from context-specific balances between the search for suitable lands; transaction costs or conflicts associated with expanding into forests or other state-owned lands versus smallholder lands; net benefits of forest clearing; and greater access to infrastructure in alreadycleared lands. We propose five hypotheses to be tested in further studies: (i) land availability Environmental Research Letters Environ. Res. Lett. 9 (2014) 074012 (13pp)