Essential Fish Habitat project status report

: Groundfish that associate with rugged seafloor types are difficult to assess with bottom-trawl sampling gear. Simrad ME70 multibeam echosounder (MBES) data and video imagery were collected to characterize trawlable and untrawlable areas, and to ultimately improve efforts to determine habitat-specific groundfish biomass. The data were collected during two acoustic-trawl surveys of the Gulf of Alaska (GOA) during 2011 and 2012 by NOAA Alaska Fisheries Science Center (AFSC) researchers. MBES data were collected continuously along the trackline, which included parallel transects (1-20 nmi spacing) and fine-scale survey locations in 2011. Video data were collected at camera stations using a drop camera system. Multibeamderived seafloor metrics were overlaid with the locations of previously conducted AFSC bottomtrawl (BT) survey hauls and 2011 camera stations. Generalized linear models were used to identify the best combination of multibeam metrics to discriminate between trawlable and untrawlable seafloor for the region of overlap between the camera stations or haul paths and the MBES data. The most discriminatory models were chosen based on the Akaike information criterion (AIC). The two best models were developed using data collected at camera stations with either oblique incidence backscatter strength (Sb) or mosaic Sb in combination with bathymetric position index and seafloor ruggedness and described over 54% of the variation between trawlable and untrawlable seafloor types. A map of predicted seafloor trawlability produced from the model using mosaic Sb and benthic-terrain metrics demonstrated that 58% of the area mapped (5,987 km2 ) had \u3e 50% probability of being trawlable and 42% of being untrawlable. The model predicted 69% of trawlable and untrawlable haul locations correctly. Successful hauls occurred in areas with 62% probability of being trawlable and haul locations with gear damage occurred in areas with a 38% probability of being trawlable. This model and map produced from multibeamderived seafloor metrics may be used to refine seafloor interpretation for the AFSC BT surveys and to advance efforts to develop habitat-specific biomass estimates for GOA groundfish populations

Designing Primary Prevention for People Living with HIV

Today, there are new reasons for a sharper focus on prevention for people living with HIV. Growing numbers of people with the disease are living more healthy, sexual lives. Recent evidence suggests that risk taking among both HIV-positive and negative people is increasing. After nearly two decades of life in the shadow of AIDS, communities are growing weary of traditional prevention messages and many people are openly grappling with difficult questions of intimacy and sex. Increasingly, people living with HIV also face multiple complex economic and substance abuse challenges that complicate prevention efforts.There is an urgent need -- and sufficient expertise -- to move forward with prevention campaigns focused on helping people living with HIV and AIDS avoid passing their infection along to others. Numerous innovative interventions for people with HIV show promise, including:a social marketing campaign for gay men and a five-session group intervention for women living with HIV in Massachusetts,a chat line for positives and a group session program for Latinas/Latinos in Los Angeles,Internet chat room interventions in Atlanta,a group session for gay Asian American-Pacific Islander Americans living with HIV in San Francisco, andPrevention Case Management programs newly funded by the Centers for Disease Control

REAPR: a universal tool for genome assembly evaluation.

Methods to reliably assess the accuracy of genome sequence data are lacking. Currently completeness is only described qualitatively and mis-assemblies are overlooked. Here we present REAPR, a tool that precisely identifies errors in genome assemblies without the need for a reference sequence. We have validated REAPR on complete genomes or de novo assemblies from bacteria, malaria and Caenorhabditis elegans, and demonstrate that 86% and 82% of the human and mouse reference genomes are error-free, respectively. When applied to an ongoing genome project, REAPR provides corrected assembly statistics allowing the quantitative comparison of multiple assemblies. REAPR is available at http://www.sanger.ac.uk/resources/software/reapr/

Controls on the processing and fate of terrestrially-derived organic carbon in aquatic ecosystems: synthesis of special issue

This special issue brought together a complementary set of studies describing the range of processes affecting the cycling and fate of terrigenous organic matter within aquatic systems. It focuses in particular on headwater streams, and on peat catchments as major global sources of freshwater dissolved organic matter and of particulate organic matter in areas of peat erosion. This work is placed within the wider context of processes occurring in forested and agricultural headwaters, larger river systems and estuaries, and in a policy context in relation to national-scale carbon fluxes, the treatment of organic matter in drinking water supplies and the inclusion of aquatic carbon in international greenhouse gas accounting

Developing a low-cost beer dispensing robotic system for the service industry

As the prices of commercially available electronic and mechanical components decrease, manufacturers such as Devantech and Revolution Education have made encoded motor controller systems and microcontrollers very accessible to engineers and designers. This has made it possible to design sophisticated robotic and mechatronic systems very rapidly and at relatively low cost. A recent project in the Autonomous Systems Lab at Middlesex University, UK was to design and build a small, automated, robotic bartender based around the 5 litre Heineken 'Draughtkeg' system, which is capable of patrolling a bar and dispensing beer when signalled to by a customer. Because the system was designed as a commercial product, design constraints focused on keeping the build cost down, and so electronic components were sourced from outside companies and interfaced with a bespoke chassis and custom mechanical parts designed and manufactured on site at the University. All the programming was conducted using the proprietary BASIC language, which is freely available from the PicAXE supplier at no cost. This paper will discuss the restrictions involved in building a robot chassis around 'off-theshelf' components, and the issues arising from making the human-machine interaction intuitive whilst only using low-cost ultrasonic sensors. Programming issues will also be discussed, such as the control of accuracy when interfacing a PicAXE microcontroller with a Devantech MD25 Motor Controller board. Public live testing of the system was conducted at the Kinetica Art Fair 2010 event in London and has since been picked up by websites such as Engadget.com and many others. Feedback on the system will be described, as well as the refinements made as a result of these test