Quantifying the effect of soil compaction on three varieties of wheat (Triticum aestivum L.) using X-ray Micro Computed Tomography (CT)

Aims

X-ray Micro Computed Tomography (CT) enables interactions between roots and soil to be visualised without disturbance. This study examined responses of root growth in three Triticum aestivum L. (wheat) cultivars to different levels of soil compaction (1.1 and 1.5?g?cm^?3).

Methods

Seedlings were scanned 2, 5 and 12?days after germination (DAG) and the images were analysed using novel root tracking software, RootViz3D?, to provide accurate visualisation of root architecture. RootViz3D? proved more successful in segmenting roots from the greyscale images than semi-automated segmentation, especially for finer roots, by combining measurements of pixel greyscale values with a probability approach to identify roots.

Results

Root density was greater in soil compacted at 1.5?g?cm^?3 than at 1.1?g?cm^?3 (P?=?0.04). This effect may have resulted from improved contact between roots and surrounding soil. Root diameter was greater in soil at a high bulk density (P?=?0.006) but overall root length was reduced (P?=?0.20). Soil porosity increased with time (P?<?0.001) in the uncompacted treatment.

Conclusions

RootViz3D? root tracking software in X-ray CT studies provided accurate, non-destructive and automated three dimensional quantification of root systems that has many applications for improving understanding on root-soil interactions.     

Human vascular cell responses to the circulating bone hormone osteocalcin

The purpose of this study was to characterize the direct effects of uncarboxylated osteocalcin (ucOCN) on vascular cell biology in vitro, to assess its potential function in pathophysiological conditions such as atherosclerosis. Human aortic endothelial cells (HAECs) and smooth muscle cells (HASMCs) were treated with ucOCN (0.1–50 ng/ml) and changes in phosphorylation of intracellular signaling proteins, angiogenesis, proliferation, migration, monolayer permeability, and protein secretion were measured. In HAECs, phosphorylated JNK and CREB were decreased with ucOCN (p < 0.05). In HASMCs, phosphorylated p70S6K and NF-ΚB were increased by ucOCN (p < 0.05). Cell proliferation increased in both cell types dose dependently which was blocked by AKT and ERK pathway inhibitors. ucOCN did not affect cell permeability, angiogenesis, or migration. The direct activity of ucOCN on vascular cells is recognized, particularly its proliferative effects. However, at least in physiological settings, it does not appear that osteocalcin may directly promote atherogenesis based on the outcomes measured.     

Epiphytes of Sitka spruce (<Emphasis Type="Italic">Picea sitchensis</Emphasis>) plantations in Ireland and the effects of open spaces

The epiphytes of the trunks and branches of mature Sitka spruce (Picea sitchensis) trees were studied in twelve plantations containing open spaces (glades, rides and roads) in the east and southwest of Ireland. A pair of trees was studied at each site: one tree at the south-facing edge of an open space and one in the forest interior. Spruce trees were found to support a moderately diverse range of bryophytes and lichens, including two relatively rare bryophyte species. Clear patterns in vertical distribution were identified, with bryophyte richness and cover decreasing and lichen richness and cover increasing from the tree base to the upper trunk. The open spaces themselves did not appear to affect overall epiphyte diversity, with no significant differences in any of the diversity measures between edge and interior trees. The main effect of open spaces was on the epiphyte cover of the edge trees. This was related to increased light levels combined with the presence of live branches from close to ground level on the south sides of the edge trees, which produced optimum conditions for bryophytes at the tree base and lichens in the upper plots. However, this dense side-canopy negatively affected epiphyte diversity on the north sides of the edge trees. Further research is required to assess the effects of open spaces within forestry plantations on epiphyte diversity.     

RooTrak: automated recovery of three-dimensional plant root architecture in soil from x-ray microcomputed tomography images using visual tracking

X-ray microcomputed tomography (μCT) is an invaluable tool for visualizing plant root systems within their natural soil environment noninvasively. However, variations in the x-ray attenuation values of root material and the overlap in attenuation values between roots and soil caused by water and organic materials represent major challenges to data recovery. We report the development of automatic root segmentation methods and software that view μCT data as a sequence of images through which root objects appear to move as the x-y cross sections are traversed along the z axis of the image stack. Previous approaches have employed significant levels of user interaction and/or fixed criteria to distinguish root and nonroot material. RooTrak exploits multiple, local models of root appearance, each built while tracking a specific segment, to identify new root material. It requires minimal user interaction and is able to adapt to changing root density estimates. The model-guided search for root material arising from the adoption of a visual-tracking framework makes RooTrak less sensitive to the natural ambiguity of x-ray attenuation data. We demonstrate the utility of RooTrak using μCT scans of maize (Zea mays), wheat (Triticum aestivum), and tomato (Solanum lycopersicum) grown in a range of contrasting soil textures. Our results demonstrate that RooTrak can successfully extract a range of root architectures from the surrounding soil and promises to facilitate future root phenotyping efforts.     

Epiphytes of Sitka spruce (<Emphasis Type="Italic">Picea sitchensis</Emphasis>) plantations in Ireland and the effects of open spaces

The epiphytes of the trunks and branches of mature Sitka spruce (Picea sitchensis) trees were studied in twelve plantations containing open spaces (glades, rides and roads) in the east and southwest of Ireland. A pair of trees was studied at each site: one tree at the south-facing edge of an open space and one in the forest interior. Spruce trees were found to support a moderately diverse range of bryophytes and lichens, including two relatively rare bryophyte species. Clear patterns in vertical distribution were identified, with bryophyte richness and cover decreasing and lichen richness and cover increasing from the tree base to the upper trunk. The open spaces themselves did not appear to affect overall epiphyte diversity, with no significant differences in any of the diversity measures between edge and interior trees. The main effect of open spaces was on the epiphyte cover of the edge trees. This was related to increased light levels combined with the presence of live branches from close to ground level on the south sides of the edge trees, which produced optimum conditions for bryophytes at the tree base and lichens in the upper plots. However, this dense side-canopy negatively affected epiphyte diversity on the north sides of the edge trees. Further research is required to assess the effects of open spaces within forestry plantations on epiphyte diversity.     

Interspecific,ontogenetic, and sexual variation in ozopore morphology among cosmetid harvestmen (Arachnida,Opiliones, Laniatores)

The ozopores of cosmetid harvestmen rest upon lateral projections of the carapace, have simple or highly reduced channels, and are partially obscured by enlarged dorsal processes associated with coxae I and II. Rather than use scent gland secretions to form a chemical shield on the dorsum, the cosmetid harvestman exhibits a unique defensive behavior known as “leg dabbing” in which the distal tip of tarsus I or II is dipped into fluid that accumulate at the base of coxa II and the droplet on the tarsus is pointed toward the predator. Relatively little is known about interspecific variation in ozopore morphology among cosmetid harvestmen. In this study, we used scanning electron microscopy to examine the ozopores of males and females of nine species as well as those of antepenultimate nymphs for two species. Among adults, we found differences between species in the shapes of the ozopores (round or subtriangular), the morphology of the dorsal and lateral channels (if present), and the relative size, shape and armature of the dorsal posterior process (dpp) of coxa I and the dorsal anterior process (dap) of coxa II. Our observations suggest that the morphology of dpp I and dap II could be sources for systematic characters in future phylogenetic studies of the Cosmetidae. We observed ontogenetic differences but relatively little intersexual variation in the morphology of the ozopore. The ozopores of nymphs are generally more oval than those of adults and the opening of the ozopore of the nymph is less obstructed, if at all, by the dorsal coxal processes of legs I–II. These morphological differences suggest that nymphs may use scent gland secretions in a manner different from that of adults.