Information extraction and transmission techniques for spaceborne synthetic aperture radar images

Information extraction and transmission techniques for synthetic aperture radar (SAR) imagery were investigated. Four interrelated problems were addressed. An optimal tonal SAR image classification algorithm was developed and evaluated. A data compression technique was developed for SAR imagery which is simple and provides a 5:1 compression with acceptable image quality. An optimal textural edge detector was developed. Several SAR image enhancement algorithms have been proposed. The effectiveness of each algorithm was compared quantitatively

Perturbation Energy Production in Pipe Flow over a Range of Reynolds Numbers using Resolvent Analysis

The response of pipe flow to physically realistic, temporally and spatially continuous(periodic) forcing is investigated by decomposing the resolvent into orthogonal forcing and response pairs ranked according to their contribution to the resolvent 2-norm. Modelling the non-linear terms normally neglected by linearisation as unstructured forcing permits qualitative extrapolation of the resolvent norm results beyond infinitesimally small perturbations to the turbulent case. The concepts arising have a close relationship to input output transfer function analysis methods known in the control systems literature. The body forcings that yield highest disturbance energy gain are identified and ranked by the decomposition and a worst-case bound put on the energy gain integrated across the pipe cross-section. Analysis of the spectral variation of the corresponding response modes reveals interesting comparisons with recent observations of the behavior of the streamwise velocity in high Reynolds number (turbulent) pipe flow, including the importance of very long scales of the order of ten pipe radii, in the extraction of turbulent energy from the mean flow by the action of turbulent shear stress against the velocity gradient

Host genotype interacts with aerial spore communities and influences the needle mycobiome of Norway spruce

The factors shaping the composition of the tree mycobiome are still under investigation. We tested the effects of host genotype, site, host phenotypic traits, and air fungal spore communities on the assembly of the fungi inhabiting Norway spruce needles. We used Norway spruce clones and spore traps within the collection sites and characterized both needle and air mycobiome communities by high-throughput sequencing of the ITS2 region. The composition of the needle mycobiome differed between Norway spruce clones, and clones with high genetic similarity had a more similar mycobiome. The needle mycobiome also varied across sites and was associated with the composition of the local air mycobiome and climate. Phenotypic traits such as diameter at breast height or crown health influenced the needle mycobiome to a lesser extent than host genotype and air mycobiome. Altogether, our results suggest that the needle mycobiome is mainly driven by the host genotype in combination with the composition of the local air spore communities. Our work highlights the role of host intraspecific variation in shaping the mycobiome of trees and provides new insights on the ecological processes structuring fungal communities inhabiting woody plants.This research was supported by the Swedish research council for Environment, Agricultural Sciences and Spatial Planning, FORMAS, project 2016-00798. M.E. and H.D.C were also supported by Formas project 2017-00402. J.O. was partially supported by the 'Ramon y Cajal' fellowship RYC-2015-17459. The authors would like to thank the owners of the seed orchards, Svenska skogsplantor AB and Sodra skogsagarna AB, for allowing us to sample the trees and assisting with the air mycobiome sampling. The authors also thank Antonio Rizzi, Rena Gadjieva, Maria Jonsson, and Katarina Ihrmark for their assistance with the laboratory and field work. The authors would like to acknowledge the support of the National Genomics Infrastructure (NGI)/Uppsala, Genome Center and UPPMAX for assisting us in massive parallel sequencing and computational infrastructure. Work performed at NGI/Uppsala Genome Center was funded by RFI/VR and Science for Life Laboratory, Sweden

Tree Diversity Drives Forest Stand Resistance to Natural Disturbances

Purpose of review Forests are frequently exposed to natural disturbances, which are likely to increase with global change, and may jeopardize the delivery of ecosystem services. Mixed-species forests have often been shown to be more productive than monocultures, but it is unclear whether this results from mixed stands being in part more resistant to various biotic and abiotic disturbance factors. This review investigates the relationships between tree diversity and stand resistance to natural disturbances and explores the ecological mechanisms behind the observed relationships.Recent findings Mixed forests appear to be more resistant than monocultures to small mammalian herbivores, soil-borne fungal diseases and specialized insect herbivores. Admixing broadleaves to conifers also increases the resistance to fire and windstorms when compared to pure conifer stands. However, mixed forests may be more affected by drought depending on the species in the mixture.Summary Overall, our findings suggest that mixed forests are more resistant to natural disturbances that are relatively small-scale and selective in their effect. However, benefits provided by mixtures are less evident for larger-scale disturbances. Higher tree diversity translates into increased resistance to disturbances as a result of ecological trait complementarity among species, reduction of fuel and food resources for herbivores, enhancement of diversion or disruption processes, and multi-trophic interactions such as predation or symbiosis.To promote resistance, the selection of tree species with different functional characteristics appears more important than increasing only the number of species in the stand. Trees with different levels of susceptibility to different hazards should be intermixed in order to reduce the amount of exposed resources and to generate barriers against contagion.However, more research is needed to further improve associational resistance in mixed forests, through a better understanding of the most relevant spatial and temporal scales of species interactions and to optimize the overall provision of ecosystem services

Fractal Stability Border in Plane Couette Flow

We study the dynamics of localised perturbations in plane Couette flow with periodic lateral boundary conditions. For small Reynolds number and small amplitude of the initial state the perturbation decays on a viscous time scale $t \propto Re$. For Reynolds number larger than about 200, chaotic transients appear with life times longer than the viscous one. Depending on the type of the perturbation isolated initial conditions with infinite life time appear for Reynolds numbers larger than about 270--320. In this third regime, the life time as a function of Reynolds number and amplitude is fractal. These results suggest that in the transition region the turbulent dynamics is characterised by a chaotic repeller rather than an attractor.Comment: 4 pages, Latex, 4 eps-figures, submitted to Phys. Rev. Le

Serological markers of extracellular matrix remodeling predict transplant‐free survival in primary sclerosing cholangitis

BACKGROUND: Primary sclerosing cholangitis is a progressive liver disease with a remarkably variable course. Biomarkers of disease activity or prognostic models predicting outcome at an individual level are currently not established. AIM: To evaluate the prognostic utility of four biomarkers of basement membrane and interstitial extracellular matrix remodeling in patients with primary sclerosing cholangitis. METHODS: Serum samples were available from 138 large‐duct primary sclerosing cholangitis patients (of which 102 [74%] with IBD) recruited 2008‐2012 and 52 ulcerative colitis patients (controls). The median follow‐up time was 2.2 (range 0‐4.3) years. Specific biomarkers of type III and V collagen formation (PRO‐C3 and PRO‐C5, respectively) and type III and IV collagen degradation (C3M and C4M, respectively) were assessed. The Enhanced Liver Fibrosis test, including procollagen type III N‐terminal peptide, tissue inhibitor of metalloproteinase‐1 and hyaluronic acid was assessed for comparison. RESULTS: All markers were elevated in primary sclerosing cholangitis compared to ulcerative colitis patients (P < 0.001). PRO‐C3 showed the largest difference between the two groups with a threefold increase in primary sclerosing cholangitis compared to ulcerative colitis patients. Patients with high baseline serum levels of all markers, except C3M, had shorter survival compared to patients with low baseline serum levels (P < 0.001). Combining PRO‐C3 and PRO‐C5 the odds ratio for predicting transplant‐free survival was 47 compared to the Enhanced Liver Fibrosis test's odds ratio of 11. CONCLUSIONS: Extracellular matrix remodeling is elevated in primary sclerosing cholangitis patients compared to ulcerative colitis patients. Furthermore, the interstitial matrix marker PRO‐C3 was identified as a potent prognostic marker and an independent predictor of transplant‐free survival in primary sclerosing cholangitis

Functional characterisation of the mammalian NDR1 and NDR2 protein kinases and their regulation by the mammalian Ste20-like kinase MST3

Protein modification is a common regulatory mechanism in order to transduce a signal from one molecule to another. One of the best-studied protein modifications is phosphorylation. The enzymes that are capable of transferring phosphate groups onto other proteins are called protein kinases. Depending on the acceptor group, kinases can be distinguished into tyrosine, serine/threonine and dual-specificity kinases. This work describes the characterisation of human and mouse NDR1 and NDR2 kinases, members of the AGC group of serine/threonine kinases. The NDR protein kinase family is highly conserved between yeast and human, and several members have been shown to be involved in the regulation of cell morphology and the control of cell cycle progression. For example, the yeast NDR kinases Sid2p (Schizosaccharomyces pombe) and Dbf2p (Saccharomyces cerevisiae) are central components of the septation-initiation network and the mitosis exit network, respectively. The closest yeast relatives Cbk1p and Orb6p, members of the regulation of Ace2p transcription and morphogenesis network and Orb6 signalling pathways, are implicated in the coordination of cell cycle progression and cell morphology. This study, as well as studies using worms and flies, provide evidence that not only NDR is conserved, but also the NDR signalling pathway and regulation. Similar to yeast, NDR kinase activation is regulated by phosphorylation at the activation segment phosphorylation site and the hydrophobic motif phosphorylation site. This phosphorylation is regulated by a conserved signaling module consisting of MOB proteins and a STE20–like kinase. Here we show that the STE20-like kinase MST3 activates NDR by phosphorylation specifically at the hydrophobic motif in vitro and in vivo. Furthermore, MOB1A binding is important for the release of autoinhibition and full kinase activation. The data also indicate that NDR is part of a feedback mechanism, which induces cleavage and nuclear translocation of MST3. The data presented here also show that NDR1 and NDR2 are differentially expressed, but regulated in a similar manner. Mouse Ndr1 mRNA is mainly expressed in spleen, thymus and lung, whereas Ndr2 mRNA is more ubiquitously expressed, with the highest levels in the gastrointestinal tract. Both, NDR1 and NDR2, are activated by S100B protein and okadaic acid stimulated phosphorylation; NDR1 and NDR2 are also indistinguishable in the biochemical assays used: membrane targetting, phosphorylation by MST3, and activation by MOB. Further, this work describes the generation and initial characterisation of a mouse model for NDR1 deficiency. Protein analysis using NDR1 knockout mouse embryonic fibroblasts suggest a compensation of the loss of NDR1 by upregulation of NDR2 expression