Spatially-averaged flows over mobile rough beds : equations for the second-order velocity moments

This study was part of the research project ‘Hydrodynamic Transport in Ecologically Critical Heterogeneous interfaces’ (HYTECH), the support of which, under the European Union’s Seventh Framework Programme (Marie Curie Actions FP7PEOPLE-2012-ITN, European Commission [grant agreement number 316546]),is gratefully acknowledged. Financial support was also provided by the Engineering and Physical Sciences Research Council (EPSRC)/UK grant “Bed friction in roughbed free-surface flows: a theoretical framework, roughness regimes, and quantification” [grant EP/K041088/1].Peer reviewedPublisher PD

Image annotation with Photocopain

Photo annotation is a resource-intensive task, yet is increasingly essential as image archives and personal photo collections grow in size. There is an inherent conflict in the process of describing and archiving personal experiences, because casual users are generally unwilling to expend large amounts of effort on creating the annotations which are required to organise their collections so that they can make best use of them. This paper describes the Photocopain system, a semi-automatic image annotation system which combines information about the context in which a photograph was captured with information from other readily available sources in order to generate outline annotations for that photograph that the user may further extend or amend

Long-term geomorphic adjustments following the recoupling of a tributary to its main-stem river

River restoration and rehabilitation projects are widespread, but rarely include the data needed to fully evaluate if they are successful in achieving their goals or how long the process of readjustment takes before a new ‘recovered’ regime state is reached. Here we present a seven-year post-project dataset detailing the morpho-sedimentary responses of a river to the reconnection of a formerly diverted tributary, and relate observed changes to conditions in the river prior to the reconnection. We describe changes in the tributary and main-stem channels, including changes in channel planform, morphology, and the export of coarse and fine sediment from the tributary to the main-stem river. We use the data to develop a conceptual model of the system's response to the reconnection. Marked geomorphic changes occurred within the first two years after the reconnection. Changes during this ‘shock phase’ included dramatic erosion and subsequent deepening and widening of the tributary channel, rapid development of a confluence bar and an increase in fine sediment delivered to the main-stem. After this shock phase, and despite the continued occurrence of high magnitude flow events, the rate of geomorphic change in the tributary began to decrease, and the rate of growth of the confluence bar slowed. Fine sediment volumes in the main-stem also decreased steadily. After an adjustment phase lasting a total of approximately 4.5 yr (including the initial 2-yr shock phase), the tributary to mainstem system appeared to reach a new dynamic equilibrium that we consider the adjusted regime state. This new regime state was characterised by, among other things, an increase in geomorphic heterogeneity in the tributary and main-stem channels. Changes in both fluvial processes and forms indicate that within 4.5 yr the project was successful in achieving its goal of augmenting sediment and increasing geomorphic heterogeneity. Our conceptual model of adjustment mirrors that developed by Petts and Gurnell (2005), with the river passing through a complex and dynamic adjustment phase before reaching a new regime state. However, unlike the responses to impoundment represented by Petts and Gurnell, our model of river response to rehabilitation charts increases in dynamism and heterogeneity.The research presented in this paper has been supported by a number of organisations. We thank United Utilities (UU) and the Environment Agency (EA) for funding and support. In particular, we thank Kat Liney and Alice Senior from UU, and Gez Foster and Jane Atkins from EA. Part of this research benefited from the methods and outcomes of the MorphHab (PID2019-104979RB-I00/AEI/10.13039/501100011033) research project. B. Marteau's contribution was in part supported by a postdoctoral fellowship from the EUR H2O'Lyon (ANR-17-EURE-0018). D. Vericat is a Serra Húnter Fellow at the University of Lleida. We are also grateful to the reviewers and editor for their comments that improved the manuscript

Double-averaged kinetic energy budgets in flows over mobile granular beds : insights from DNS data analysis

Acknowledgments The authors gratefully acknowledge the Centre for Information Services and High Performance Computing (ZIH), Dresden, the Jülich Supercomputing Centre (JSC) and the High Performance Computing Service (Maxwell) of the University of Aberdeen for providing computing time. The authors would like to thank Professor Francesco Ballio and two anonymous reviewers for their helpful comments that contributed to improving the final version of this manuscript. Funding This study was part of the research project “Hydrodynamic Transport in Ecologically Critical Heterogeneous interfaces” (HYTECH), the support of which, under the European Union's Seventh Framework Programme (Marie Curie PFP7-PEOPLE-2012-ITN, European Commission [grant agreement number 316546]), is gratefully acknowledged. Financial support was also provided by the grantsp3 10.13039/501100000266 Engineering and Physical Sciences Research Council (EPSRC), UK, [grant EP/K041088/1] and the German Research Foundation (DFG), [project FR 1593/5-2]. B. Vowinckel and R. Jain gratefully acknowledge the scholarships respectfully provided by the Alexander von Humboldt Foundation and Saxon Scholarship Program, Germany.Peer reviewedPublisher PD

High rates of biodeposition and N-excretion indicate strong functional effects of mussels (Bivalvia: Unionida) in certain anthropogenic tropical freshwater habitats

The functional roles of freshwater mussels (Unionida) in tropical systems are poorly understood. We quantified the effects of mussel filtration, excretion and deposition in three anthropogenic tropical systems, i.e. a man-made lake, abandoned mining pool and rice paddy channel. Sinanodonta cf. woodiana (non-native) was present at all three sites, whilst Pilsbryoconcha compressa (native) was present in the channel only. Clearance rates, biodeposition rates and effects on suspended algal pigment and dissolved nutrient concentrations were quantified in controlled, replicated experiments in laboratory tanks with water from original habitats. Clearance rates were generally low and did not explain the high biodeposition rates observed. A considerable proportion of the natural diet of these populations may therefore consist of material that was not available in tanks, i.e. benthic or deposited algae. Deposition rates in lake and channel populations exceeded published rates from temperate and Mediterranean habitats, presumably due to prevalence of non-palatable material and/or higher metabolic rates in tropical systems. The presence of S. cf. woodiana but not P. compressa led to a strong increase in total ammonia nitrogen concentrations and N:P ratios, exceeding estimations from other systems. This study suggests that freshwater mussels play different functional roles in anthropogenic tropical habitats than in temperate systems

Homeless shelter food production: positive implications for clients and volunteers

Within the context of a longstanding project (Behavioral Activation Project in Homeless Shelters), the Shelter Farm was developed on the grounds of a homeless shelter located in a food desert. The Behavioral Activation Project, which represents a decade-long collaboration between a Professor of Psychology at the University of Dayton (Roger N. Reeb, Ph.D.) and St. Vincent de Paul (Dayton, Ohio), fosters self-sufficiency in shelter residents as they strive to overcome personal challenges and obstacles associated with homelessness. Past research shows that the Behavioral Activation Project enhances the psychological (and adaptive) functioning of shelter residents as well as the civic-related development of service-learning students who assist in implementing the Project. In 2017, Dr. Reeb (University of Dayton) established a collaboration with Ms. Mills-Wasniak (Extension Educator, The Ohio State University Extension Montgomery County) to develop the Shelter Farm at the St. Vincent de Paul Gettysburg Gateway Shelter for Men. A Memorandum of Understanding among the three collaborative entities was developed and approved. Shelter residents volunteered to work alongside service-learning students and community partners on the farm. In the first season, we harvested nearly a ton of produce – all of which was delivered to the shelter kitchen to enhance the nutrition of shelter residents. The Shelter Farm also enhanced St. Vincent de Paul’s budget for food, as we estimated wholesale value of the produce at almost $4,000. This same level of success was replicated in Shelter Farm’s second season. As we faced COVID-19 obstacles in the third season, safety protocols were approved by all three aforementioned collaborative entities, and we sustained the Shelter Farm, harvesting approximately 1500 pounds of produce for the shelters. In the first season, a graduate student in clinical psychology at the University of Dayton completed an M.A. Thesis providing preliminary evidence that, as shelter residents volunteer to work alongside students and community partners on the farm, they show decreases in state anxiety and improvements in wellness over time. This manuscript provides the following: (a) a description of the long-standing Project that provided the infrastructure for developing the Shelter Farm, (b) a description of the collaborative process underlying the initiative, the Shelter Farm itself, and the success in sustaining the Shelter Farm, even in the face of COVID-19; (c) an overview of the benefits (nutritional and psychological) of the Shelter Farm for shelter residents; and (d) plans for sustaining and expanding the Shelter Farm (and associated research)

United by Neurodiversity : Postgraduate Research in a Neurodiverse Context

Peer reviewedPublisher PD

Niche adaptation by expansion and reprogramming of general transcription factors

Experimental analysis of TFB family proteins in a halophilic archaeon reveals complex environment-dependent fitness contributions. Gene conversion events among these proteins can generate novel niche adaptation capabilities, a process that may have contributed to archaeal adaptation to extreme environments

Ecological connectivity in fragmented agricultural landscapes and the importance of scattered trees and small patches

Background Fragmentation and habitat loss can restrict species movement and reduce connectivity, negatively impacting biodiversity. Characterising the overall connectivity of an area can inform better management of human modified landscapes. Contemporary connectivity modelling methods seldom incorporate fine-scale movement patterns associated with movement between fine-scaled structural connectivity elements such as scattered trees, roadside corridors and small patches of habitat. This study aims to characterise connectivity within the Karuah-Myall catchments, a typical woodland ecosystem that is fragmented by agriculture, using least-cost path analysis and a graph-theoretic approach; it focuses on how fine-scaled vegetation such as scattered trees support connectivity. We mapped scattered (and paddock) trees within this agricultural landscape where the main human modified land use was pasture. We modelled connectivity for a general representative woodland species using an interpatch dispersal distance and gap crossing threshold, and resistance from different land cover types. The gap crossing distance threshold was used to model movement between fine-scaled vegetation features. We compared the least-cost paths modelled with and without scattered trees. Results Our results show that by excluding scattered trees, least-cost paths across the cleared pasture landscape did not reflect the types of movement patterns typically observed from field studies, such as those associated with a foray-search strategy used by small and medium mammals and birds. The modelling also shows that the Karuah-Myall catchments are well connected and provide value to biodiversity beyond the catchment borders, by connecting coastal vegetation to the Great Eastern Ranges national wildlife corridor initiative. Conclusion Connectivity models that exclude fine-scale landscape features such as scattered trees and small, linear patches risk misrepresenting connectivity patterns. Models of regional-scale connectivity can be influenced by the presence or absence of even the smallest features, such as scattered trees