Development of Habitat Suitability Criteria and In‐Stream Habitat Assessment for the Benthic Cyanobacteria Phormidium

Global demand for freshwater has led to unprecedented levels of water abstraction from riverine systems. This has resulted in large alterations in natural river flows. The deleterious impacts of reduced flows on fish and macroinvertebrate abundances have been thoroughly investigated; in contrast, there is a limited understanding of the potential for changes in the abundance of nuisance benthic algal/cyanobacterial blooms. In New Zealand, Phormidium sp. blooms are common in numerous rivers during summer low flows. In this study, an in‐stream habitat assessment is used to examine the relationship between Phormidium habitat availability and reducing flows. Over 650 observations of Phormidium mats, from seven sites (Hutt River, lower North Island, New Zealand), were used to construct habitat suitability curves for depth, velocity and substrate. Preference curves were fitted using both the ‘forage ratio’ and ‘quantile regression’ methods. Phormidium growth, observed at all seven sites, increased significantly from upstream (uppermost site, 5.2% mat cover) to downstream (63.5%). The habitat suitability curves revealed Phormidium had a large tolerance to velocity, depth and substrate type. Consequently, decreases in flow had only negligible effects on available Phormidium habitat. During periods of stable flow, Phormidium abundance positively correlated with increased nitrogen concentrations, potentially explaining the large variation in Phormidium cover from upstream to downstream. Quantile regression generated habitat suitability criteria were a more accurate predictor of available Phormidium habitat than the forage ratio criteria. Copyright © 2013 John Wiley & Sons, Ltd.     

Better Safe than Sorry: A Study of Investigating Individuals’ Protection of Privacy in the Use of Storage as a Cloud Computing Service

Since the use of network-based storage as a cloud computing service [Storage as a Service (StaaS)] becomes ubiquitous, users who store data in the cloud are exposed to risk and potentially severe consequences. Therefore, individuals should carefully consider security and privacy issues when using StaaS. Drawing upon the principle of self-preservation and the theory of protection motivation, this study develops a research model explaining the mechanisms leading to the development of a protection strategy for individuals’ safe use of StaaS and empirically tests the proposed model. The results show that the natural propensity to trust, an individual trait, influences an individual’s need for privacy. This, in turn, along with perception of privacy risk, significantly affects individuals’ perception of the need to protect themselves. Three coping appraisal factors, preventive measures, self-efficacy, and willingness to incur cost of prevention, together with the individual perceived need to protect self, directly and positively affect users’ need to develop a protection strategy in a cloud computing environment. Theoretical and practical implications are discussed.     

An empirical study of integration activities in distributions of open source software

Reuse of software components, either closed or open source, is considered to be one of the most important best practices in software engineering, since it reduces development cost and improves software quality. However, since reused components are (by definition) generic, they need to be customized and integrated into a specific system before they can be useful. Since this integration is system-specific, the integration effort is non-negligible and increases maintenance costs, especially if more than one component needs to be integrated. This paper performs an empirical study of multi-component integration in the context of three successful open source distributions (Debian, Ubuntu and FreeBSD). Such distributions integrate thousands of open source components with an operating system kernel to deliver a coherent software product to millions of users worldwide. We empirically identified seven major integration activities performed by the maintainers of these distributions, documented how these activities are being performed by the maintainers, then evaluated and refined the identified activities with input from six maintainers of the three studied distributions. The documented activities provide a common vocabulary for component integration in open source distributions and outline a roadmap for future research on software integration.     

Service-Oriented Security Architecture and its Implications for Security Department Organization Structures

ABSTRACT

Cyber-crime and malware has evolved so drastically over the last two years that it is a challenge for an IT professional to stay on top of recent malware trends and technological advances in cyber-security. This paper provides a look from inside the antivirus laboratory at current malware attacks and technology developments for effective defenses.     

In-focus electron microscopy of frozen-hydrated biological samples with a Boersch phase plate

We report the implementation of an electrostatic Einzel lens (Boersch) phase plate in a prototype transmission electron microscope dedicated to aberration-corrected cryo-EM. The combination of phase plate, C_s corrector and Diffraction Magnification Unit (DMU) as a new electron-optical element ensures minimal information loss due to obstruction by the phase plate and enables in-focus phase contrast imaging of large macromolecular assemblies. As no defocussing is necessary and the spherical aberration is corrected, maximal, non-oscillating phase contrast transfer can be achieved up to the information limit of the instrument. A microchip produced by a scalable micro-fabrication process has 10 phase plates, which are positioned in a conjugate, magnified diffraction plane generated by the DMU. Phase plates remained fully functional for weeks or months. The large distance between phase plate and the cryo sample permits the use of an effective anti-contaminator, resulting in ice contamination rates of <0.6 nm/h at the specimen. Maximal in-focus phase contrast was obtained by applying voltages between 80 and 700 mV to the phase plate electrode. The phase plate allows for in-focus imaging of biological objects with a signal-to-noise of 5-10 at a resolution of 2-3 nm, as demonstrated for frozen-hydrated virus particles and purple membrane at liquid-nitrogen temperature.     

Bed morphology, flow structure, and sediment transport at the outlet of Lake Huron and in the upper St. Clair River

An integrated multibeam echo sounder and acoustic Doppler current profiler field survey was conducted in July 2008 to investigate the morphodynamics of the St. Clair River at the outlet of Lake Huron. The principal morphological features of the upper St. Clair River included flow-transverse bedforms that appear weakly mobile, erosive bedforms in cohesive muds, thin non-cohesive veneers of weakly mobile sediment that cover an underlying cohesive (till or glacio-lacustrine) surface, and vegetation that covers the bed. The flow was characterized by acceleration as the banks constrict from Lake Huron into the St. Clair River, an approximately 1500-m long region of flow separation downstream from the Blue Water Bridge, and secondary flow connected to: i) channel curvature; ii) forcing of the flow by local bed topography, and iii) flow wakes in the lee side of ship wrecks. Nearshore, sand-sized, sediment from Lake Huron was capable of being transported into, and principally along, the banks of the upper St. Clair River by the measured flow. A comparison of bathymetric surveys conducted in 2007 and 2008 identifies that the gravel bed does undergo slow downstream movement, but that this movement does not appear to be generated by the mean flow, and could possibly be caused by ship-propeller-induced turbulence. The study results suggest that the measured mean flow and dredging within the channel have not produced major scour of the upper St. Clair River and that the recent fall in the level of Lake Huron is unlikely to have been caused by these mechanisms.     

Engineering the Irish Software Tiger

Information and communication technologies, particularly software, play a crucial role in the Republic of Ireland's remarkable economic growth. Successful globalization has posed many challenges and fostered a major strategic investment in research. Ireland's unique position has a major influence on the realization of the software engineering research agenda.     

Inductive transfer with context-sensitive neural networks

Context-sensitive Multiple Task Learning, or csMTL, is presented as a method of inductive transfer which uses a single output neural network and additional contextual inputs for learning multiple tasks. Motivated by problems with the application of MTL networks to machine lifelong learning systems, csMTL encoding of multiple task examples was developed and found to improve predictive performance. As evidence, the csMTL method is tested on seven task domains and shown to produce hypotheses for primary tasks that are often better than standard MTL hypotheses when learning in the presence of related and unrelated tasks. We argue that the reason for this performance improvement is a reduction in the number of effective free parameters in the csMTL network brought about by the shared output node and weight update constraints due to the context inputs. An examination of IDT and SVM models developed from csMTL encoded data provides initial evidence that this improvement is not shared across all machine learning models.