Combining archive territory mapping data and aerial photography to investigate bird–habitat relationships: a case study from the Lincolnshire coast

Capsule Habitat associations of breeding birds in a complex coastal environment are clear, interpretable and mostly consistent between years.

Aims To match archive territory mapping data with historical aerial photographs and develop data handling and analytical techniques for the study of bird–habitat relationships.

Methods Bird registrations were digitized from archive British Trust for Ornithology Common Birds Census maps and habitat characteristics from contemporaneous aerial photographs. The resulting maps were overlaid and ranks of habitat preference for 15 species calculated using compositional analysis. Similarity analysis identified species with consistent habitat profiles across years. Cluster analysis identified groups of species with similar patterns of habitat use.

Results A total of 5400 registrations of 15 species in 14 habitats were analysed. Of these, 13 species showed stable patterns of habitat association across survey years. Clear differences and similarities in habitat preferences among the species were identified. The results may be used to inform conservation and management programmes in this and similar environments.

Conclusions Extensive archives of bird survey data can be used to study bird–habitat relationships and to measure the effects of natural and anthropogenic environmental change if contemporaneous aerial photographs can be sourced.     

Counting birds on farmland habitats in winter

Capsule Perimeter counts underestimate the number of birds using agricultural fields.

Aims To determine the degree to which farmland birds may be undercounted on field surveys and the factors influencing this.

Methods In a study of 96 fields, birds in the field were counted during a walk of the perimeter. Afterwards transects were walked across the field to determine the number of birds missed. Additionally in a national survey we looked at the birds seen in field transects expressed as a proportion of the total seen in the transect and on perimeter counts.

Results To obtain an accurate count of birds on a field requires the use of the whole-area search methodology especially for species such as Grey Partridge Perdix perdix, Snipe Gallinago gallinago, Skylark Alauda arvensis and Meadow Pipit Anthus pratensis. However, for a large number of species, including thrushes, flocking finches and buntings, over 90% of individuals can be recorded using the much less time-consuming perimeter count method.

Conclusions Perimeter counts are likely to be reliable for most species but special efforts may be required for a few cryptic species.     

COUNTING STELLER SEA LION PUPS IN ALASKA: AN EVALUATION OF MEDIUMFORMAT, COLOR AERIAL PHOTOGRAPHY

Estimates of Steller sea lion ( Eumetopias jubatus ) pup production are valuable for estimating population trend and size. Currently in Alaska, pups are counted by visiting rookeries, driving older animals into the water, then walking through the rookeries and counting the pups, a highly disruptive procedure. At smaller rookeries, with good vantage points, pups are occasionally counted from the periphery of rookeries without disturbing the sea lions. We evaluated counts made from medium-format, color, aerial photographs as an alternative to drive counts and peripheral counts. Neither the peripheral counts nor the aerial photographic counts disturbed animals on the rokeries. There were strong 1:1 linear relationships between photographic counts and drive counts ( r ²= 0.966, P < 0.001) and between photographic counts and peripheral counts ( r ²= 0.999, P < 0.001). Precision was similar for all three methods of counting. We suggest that medium-format, color, aerial photographs is appropriate for routine surveys of Steller sea lion pups in Alaska because it is not disruptive to the hauled-out sea lions and provides comparable estimates with similar precision to drive and peripheral counts. Large areas canbe rapidly surveyed during periods of good weather with a minimum of manpower.     

Habitat use and densities of co‐existing migrant Willow Warblers Phylloscopus trochilus and resident eremomelas Eremomela spp. in Zimbabwe

Capsule Migrant Willow Warblers occupy more woodland types and occur at higher densities than ecologically‐similar resident Afrotropical warblers.

Aims To compare population densities of Willow Warblers and eremomelas in adjacent acacia, mopane and miombo woodlands, and assess the abundance of potential invertebrate prey in each habitat type, in order to investigate whether Palearctic migrants use more open habitats and are more flexible in habitat use than their Afrotropical counterparts in the same feeding guild.

Methods Using distance sampling we carried out four replicated sets of point counts in acacia woodland and three sets of counts in miombo and mopane between December 1999 and February 2000. We noted the tree species in which we saw warblers foraging and took beating‐tray samples of potential arthropod prey present on tree foliage in each of the three habitats.

Results Willow Warbler density in acacia woodland increased from 1.80 ± 0.54 (se) birds/ha in early December to 7.15 ± 1.41 birds/ha in late January after influxes of later arrivals. Densities of Willow Warblers in miombo and mopane were much lower (1.14 ± 0.28 and 0.38 ± 0.23 birds/ha, respectively) and did not show significant changes. Burnt‐necked Eremomelas averaged 0.74 ± 0.34 birds/ha in acacia woodland, and in miombo densities of Green‐capped and Yellow‐bellied Eremomelas were 0.23 ± 0.17 and 0.34 ± 0.26 birds/ha, respectively. Densities in mopane were too low to estimate reliably. Willow Warblers and Green‐capped Eremomelas showed some apparent preferences in tree species used for foraging but differences in tree use were not obviously related to the abundance of arthropod taxa present as potential prey.

Conclusion Willow Warblers occupied more habitats at greater density than similar Afrotropical warblers. They appear to favour acacia, but their settlement patterns and the reasons for disparities between densities of immigrants and residents are unclear.     

An evaluation of rapid methods for monitoring vegetation characteristics of wetland bird habitat

Wetland managers benefit from monitoring data of sufficient precision and accuracy to assess wildlife habitat conditions and to evaluate and learn from past management decisions. For large-scale monitoring programs focused on waterbirds (waterfowl, wading birds, secretive marsh birds, and shorebirds), precision and accuracy of habitat measurements must be balanced with fiscal and logistic constraints. We evaluated a set of protocols for rapid, visual estimates of key waterbird habitat characteristics made from the wetland perimeter against estimates from (1) plots sampled within wetlands, and (2) cover maps made from aerial photographs. Estimated percent cover of annuals and perennials using a perimeter-based protocol fell within 10 percent of plot-based estimates, and percent cover estimates for seven vegetation height classes were within 20 % of plot-based estimates. Perimeter-based estimates of total emergent vegetation cover did not differ significantly from cover map estimates. Post-hoc analyses revealed evidence for observer effects in estimates of annual and perennial covers and vegetation height. Median time required to complete perimeter-based methods was less than 7 percent of the time needed for intensive plot-based methods. Our results show that rapid, perimeter-based assessments, which increase sample size and efficiency, provide vegetation estimates comparable to more intensive methods.     

Identifying important bird habitats in a sub-arctic area undergoing rapid land-use change

Capsule Habitats in lowland South Iceland sustain bird populations of international importance, with highest densities in wet habitats.

Aims In areas important for biodiversity there is an urgent need to assess large-scale variation in the biodiversity value of habitats to inform management. We carried out a large-scale survey to assess the conservation value of sub-arctic, Icelandic bird habitats.

Methods Bird counts were carried out on 200 transects in the five most common vegetated habitat types in South Iceland. Based on these counts, breeding bird density and diversity were compared between habitats and total population sizes of common species in these habitats were calculated.

Results Overall, eight species (seven waders and Meadow Pipit) composed over 95% of all birds counted. The combined density of those species exceeded 275 birds/km² in all habitats. The two wettest habitat types had the highest density of birds.

Conclusion Wet habitats in lowland South Iceland held particularly high densities of breeding birds, notably waders, which constitute populations of international importance. Wet habitat types are generally of higher value for more species, than dryer ones.     

How well does a commercially available wearable device measure sleep in young athletes?

ABSTRACT

The validity of a commercially available wearable device for measuring total sleep time was examined in a sample of well-trained young athletes during night-time sleep periods and daytime naps. Participants wore a FitBit HR Charge on their non-dominant wrist and had electrodes attached to their face and scalp to enable polysomnographic recordings of sleep in the laboratory. The FitBit automatically detected 24/30 night-time sleep periods but only 6/20 daytime naps. Compared with polysomnography, the FitBit overestimated total sleep time by an average of 52 ± 152 min for night-time sleep periods, and by 4 ± 8 min for daytime naps. It is important for athletes and practitioners to be aware of the limitations of wearable devices that automatically detect sleep duration.     

Bias in aerial estimates of the number of nests in White Ibis and Great Egret colonies

ABSTRACT Estimating detection error, as well as the magnitude of other potential survey biases, is essential when sampling efforts play a role in the estimation of population size and management of wildlife populations. We quantified visual biases in aerial surveys of nesting wading birds (Ciconiiformes) in colonies in the Florida Everglades using a negative binomial count regression model to compare numbers of nests in quadrats counted on the ground with numbers estimated from aerial photographs of the same quadrats. The model also allowed the determination of degree of difference between monitoring results based upon such factors as nest density, vegetative cover, and nest turnover rates. Aerial surveys of White Ibis (Eudocimus albus) colonies underestimated the true number of nests found during ground counts by 11.1%, and underestimates were significantly greater (P= 0.047) in a colony with high nest turnover. Error rates did not differ for quadrats that varied in the density of White Ibis nests did not differ, and visual bias did not increase with vegetative complexity (P= 0.73). Estimates of nest density in colonies of Great Egrets (Ardea alba) based on aerial surveys were higher than ground counts for 38% of the quadrats sampled, and mean visual bias was 23.1%. Species misidentification likely contributed to visibility bias for Great Egrets in our study, with some Snowy Egrets almost certainly mistaken for Great Egrets in aerial photos. Biases of the magnitude we observed fro Great Egrets and White Ibises can mask true population trends in long‐term monitoring and, therefore, we recommend that detection probability be explicitly evaluated when conducting aerial surveys of nesting birds.     

Estimating the relative abundance of emperor penguins at inaccessible colonies using satellite imagery

Emperor penguin (Aptenodytes forsteri) populations are useful environmental indicators due to the bird’s extreme reliance on sea ice. We used remote sensing technology to estimate relative adult bird abundance at two inaccessible emperor penguin colonies in the Ross Sea, Antarctica. We performed supervised classification of 12 panchromatic satellite images of the seven known Ross Sea colonies. We used regression to predict adult bird counts at the inaccessible colonies by relating the number of pixels classified as “penguin” in the satellite images of the accessible colonies to corresponding known adult bird counts from aerial photographs or ground counts. While our analysis was hampered by excessive guano and shadows, we used satellite imagery to differentiate between relatively small (<3,000 adult birds) and larger colonies (>5,000 adult birds). Remote sensing technology is logistically less intense and less costly than aerial or ground censuses when the objective is to document penguin presence and/or large emperor penguin population changes (e.g., catastrophic changes). Improvements expected soon in the resolution of the satellite images should allow for more accurate abundance estimates.     

Computer vision for LCA foreground modelling—an initial pipeline and proof of concept software,lcopt-cv

Purpose

The majority of LCA studies begin with the drawing of a process flow diagram, which then needs to be translated manually into an LCA model. This study presents an initial image processing pipeline, implemented in an open-source software package, called lcopt-cv, which can be used to identify the boxes and links in a photograph of a hand-drawn process flow diagram and automatically create an LCA foreground model.

Methods

The computer vision pipeline consists of a total of 15 steps, beginning with loading the image file and conversion to greyscale. The background is equalised, then the foreground of the image is extracted from the background using thresholding. The lines are then dilated and closed to account for drawing errors. Contours in the image are detected and simplified, and rectangles (contours with four corners) are identified from the simplified contours as ‘boxes’. Links between these boxes are identified using a flood-filling technique. Heuristic processing, based on knowledge of common practice in drawing of process flow diagrams, is then performed to more accurately identify the typology of the identified boxes and the direction of the links between them.

Results and discussion

The performance of the image processing pipeline was tested on four flow diagrams of increasing difficulty: one simple computer drawn diagram and three photographs of hand-drawn diagrams (a simple diagram, a complex diagram and a diagram with merged lines). A set of default values for the variables which define the pipeline was developed through trial and error. For the two simple flow charts, all boxes and links were identified using the default settings. The complex diagram required minor tweaks to the default values to detect all boxes and links. An ‘unstacking’ heuristic allowed the diagram with merged lines to be correctly processed. After some manual reclassification of link directions and process types, the diagrams were turned into LCA models and exported to open-source LCA software packages (lcopt and Brightway) to be verified and analysed.

Conclusions

This study demonstrates that it is possible to generate a fully functional LCA model from a picture of a flow chart. This has potentially important implications not only for LCA practitioners as a whole, but in particular for the teaching of LCA. Skipping the steep learning curve required by most LCA software packages allows teachers to focus on important LCA concepts, while participants maintain the benefits of experiential learning by doing a ‘real’ LCA.

     

The Independence Road to Fort Laramie: By Aerial Photograph

Abstract

Aerial photographs have been used to locate the eastern portion of the Oregon Trail, one of the earliest and most frequently used routes west. The section discussed is the section between Independence, Missouri and Fort Laramie, Wyoming.

Establishment of the location of the trail resulted from historical knowledge of the approximate whereabouts. Primary sources of the route were diaries of travellers, oral information, original township land plats, and other previously published sources.

Source of the aerial photographs is discussed together with photographic requirements for the study of old roads. The photographs used to identify the Laramie road are organized geographically and are classified by the author in terms of the road visibility on the prints,     

Revised estimate of numbers of wintering Red-throated Divers Gavia stellata in Great Britain

Capsule An estimated 17 000 Red-throated Divers winter around Great Britain.

Aim To produce an up-to-date assessment of the numbers of Red-throated Divers wintering around Great Britain.

Methods A revised Great Britain (GB) wintering population estimate for Red-throated Divers was compiled using data primarily from systematic line transect surveys by aircraft over marine nearshore areas conducted during 2001–06, supplemented with county bird records and Wetland Bird Survey (WeBS) counts, both from 1995 to 2005. Population estimates for each survey area around GB were calculated as the mean of either annual means (aerial surveys) or annual maxima (WeBS, county bird records) of all data collected within January and February of each year. These were summed to give a revised GB wintering population estimate.

Results A total of 17116 (13198–21034, 95% confidence interval) Red-throated Divers were estimated to winter around GB. Distribution was uneven. By far the greatest numbers were found off southeast and east Britain (59.3% of the total was between Flamborough Head, Yorkshire, and Dungeness, Kent), with large concentrations off the English south coast (10.9%), north Wales and Liverpool Bay (9.8%), and eastern Scotland (6.1%).

Conclusion This is a minimum plausible population estimate and the true population size may be larger. The new 1% of population threshold for statutory conservation work is 170 birds.     

Foraging Blue Tits Parus caeruleus may trade-off calorific value of food items and distance from cover

Capsule Flowers of an invasive plant species are more visited by native birds than flowers of ornithophilous endemic plants.

Aims To describe the bird guild and its behaviour visiting the century plant Agave americana in an insular environment and to determine which factors are affecting visitation rates.

Methods We noted number and species of birds visiting inflorescences on Tenerife, Canary Islands. We used multimodel inference of generalized linear models to analyse the factors affecting the number of visits and the visitor species richness.

Results Eighty-one per cent of inflorescences were visited by eight native bird species. All species fed on nectar and only the Atlantic Canary fed also on pollen. Foraging behaviour varied among species. Visitation rate increased with density and diversity of birds and flower characteristics and decreased through the day. The number of species visiting the inflorescences increased with diversity and density of birds in the surroundings and decreased through the day.

Conclusion The native bird community uses the invasive century plant as a feeding resource at a higher rate than it uses endemic ornithophilous plants. This could have negative effects for the pollination of endemic plants, but positive effects for birds.     

Effect of dietary zinc level on serum carotenoid levels,body and shank pigmentation of chickens after experimental infection with coccidia

Abstract

Two experiments were conducted to test the effects of a dietary zinc amino acid complex (Zn-AA) and an anticoccidial drug on Eimeria acervulina or Eimeria tenella infections. In each experiment, 288 day-old Three-Yellow-Chickens were used in a 2 × 3 factorial experimental design. Six groups were arranged randomly to receive three levels of Zn-AA (0, 40, or 80 mg/kg) alone or with salinomycin (60 mg/kg). Additionally an uninfected group was set as negative control. At the age of 21 days birds in Exp. 1 were inoculated with 3 · 10⁴ sporulated E. acervulina oocysts, while birds in Exp. 2 were inoculated with 1.5 · 10⁴ sporulated E. tenella oocysts. In Exp. 1, E. acervulina did not suppress growth performance significantly, but in groups without salinomycin it significantly reduced serum carotenoid levels on day 7 after inoculation and body and shank pigmentation on day 42. Salinomycin medication maintained serum carotenoids and visual colour of inoculated birds, but Zn-AA did not influence these parameters. In Exp. 2, growth performances of infected and uninfected chickens were similar. Infection decreased to only serum carotenoid levels on day 14 after infection, and colour scores on day 42 in the inoculated group without salinomycin and Zn-AA supplementation. The birds that received Zn-AA had significantly higher serum carotenoid levels and colour scores than those that did not. Although supplementation of Zn-AA cannot avoid coccidial damage of caecum, it prevents the reduction of serum carotenoids and pigmentation of Three-Yellow-Chicken infected with E. tenella, but not after infection with E. avervulina. The interactive effects between Zn-AA and salinomycin on growth performance and pigmentation were not significant.     

COUNTS OF CALIFORNIA SEA LION (ZALOPHUS CALIFORNIANUS) PUPS FROM AERIAL COLOR PHOTOGRAPHS AND FROM THE GROUND: A COMPARISON OF TWO METHODS

Pups on San Nicolas Island were counted by two methods; counts by observers on the ground were compared to counts from aerial photographs taken with a 126-mm-format camera with image motion compensation. No difference was detected between photographic counts and ground counts (P= 0.367) when ground counters had unobstructed views. However, ground counts were significantly lower when areas with obstructed views were included in the analysis (P < 0.001). For areas with unobstructed viewing conditions, no difference was detected between counts by the two methods for rock substrates (P= 0.140), sand substrates (P= 0.468), or mixed rock-and-sand substrates (P= 0.968). No differences were found among three replicate aerial photographic censuses (P= 0.432), but a significant difference was found between two replicate ground censuses (P= 0.037). Total counts obtained from the aerial photographs were more precise (CV = 0.042) than counts obtained on the ground (CV = 0.078). Less variability in counts was found between photographic counters than for ground counters.     

Assessing breeding success in common woodland birds using a novel method

Capsule Repeated counts of fledged broods can provide a useful estimate of breeding success for most common woodland birds.

Aims To assess the efficacy of comparing fledged-brood survey data with territory mapping using simple mark–recapture analysis techniques to provide an estimate of breeding success for common woodland birds that does not involve finding nests.

Methods Three observers undertook territory mapping surveys of adults, followed by counts of fledged broods four times a week during May–July 2007 in two 15 ha woods each, both in southern England. Using known fledging to maturity periods, these counts were used to calculate daily detection probabilities for broods of ubiquitous species. These enabled fledged brood territory occupancy probabilities (i.e. brood to territory ratios) to be estimated that take account of the possibility that broods were present but missed by surveys.

Results Of the 19 species found in all six woods, mean daily detection probability estimates for fledged broods of 17 species ranged from 0.17 to 0.50 with significant variation between woods for 12 species, but within region/observer for four species. The mean probability of detecting a brood at least once was over 75% using four visits per week and over 50% using two visits. Only for Great Spotted Woodpeckers Dendrocopos major and Garden Warblers Sylvia borin was the fledging period too short and the daily detection probability too low to provide a reasonable estimate of the territory occupancy probability.

Conclusion Daily detection probabilities for fledged broods of most common woodland birds were sufficiently high to enable useable estimates of fledged-brood territory occupancy probabilities to be made based on a survey programme involving two or three visits per week between late May and the end June. The method used may have application as a means of providing a relatively easily derived productivity index for woodland bird monitoring programmes or for research studies.     

Rapid drone semi-automated counts of wintering Greater Flamingos (Phoenicopterus roseus) as a tool for amateur researchers

Drone-conducted aerial counts of waterbirds are at least as accurate as traditional ground counts and drastically reduce fieldwork resource expenditures, but the image processing can be very time-consuming. The aim of the present study was to compare the accuracy, precision and time requirement of semi-automated counts, using drone-derived imagery, carried out with the open-access ImageJ software, in comparison with conventional ground methods for counting wintering Greater Flamingos Phoenicopterus roseus. Semi-automated counts were easy to execute, affordable and safe for birds. They were faster and yielded more reliable and consistent results than traditional ground count approaches, providing a simple, accessible method for use by amateur ornithologists.     

Monitoring of spine curvatures and posture during pregnancy using surface topography – case study and suggestion of method

Background

Low back and pelvic pain is one of the most frequently reported disorders in pregnancy, however etiology and pathology of this problem have not been fully determined. The relationship between back pain experienced during pregnancy and posture remains unclear. It is challenging to measure reliably postural and spinal changes at the time of pregnancy, since most imaging studies cannot be used due to the radiation burden. 3D shape measurement, or surface topography (ST), systems designed for posture evaluation could potentially fill this void. A pilot study was conducted to test the potential of monitoring the change of spine curvatures and posture during pregnancy using surface topography. A single case was studied to test the methodology and preliminarily assess the usefulness of the procedure before performing a randomized trial. The apparatus used in this study was metrologically tested and utilized earlier in scoliosis screening.

Case presentation

The subject was measured using a custom-made structured light illumination scanner with accuracy of 0.2 mm. Measurement was taken every 2 weeks, between 17th and 37th week of pregnancy, 11 measurements in total. From the measurement the thoracic kyphosis and lumbar lordosis angles, and vertical balance angle were extracted automatically. Custom-written software was used for analysis. Oswestry Low Back Pain Disability Questionnaire (ODI) was done with every measurement. The values were correctly extracted from the measurement. The results were: 50.9 ± 2.4° for kyphosis angle, 58.1 ± 2.1° for lordosis angle and 4.7 ± 1.7° for vertical balance angle. The registered change was 7.4° in kyphosis angle, 8.4° in lordosis angle and 5.5° in vertical balance angle. The calculated ODI values were between moderate disability and severe disability (22 to 58 %).

Conclusions

This case study presents that surface topography may be suitable for monitoring of spinal curvature and posture change in pregnant women. The ionizing radiation studies are contraindicated during pregnancy. Surface topography data connected with information from pain level questionnaires allows to investigate the connection between changes in posture and back pain.

     

Rapid Purification of Annexin V from Human Placenta by Affinity Chromatography

Abstract

Affinity purification of annexin V from human placenta on column with appropriate monospecific antibodies is developed. The procedure permits purification of the protein to a highly purified state by a two stage procedure. The yield of the protein is about 5 mg per 100 g of wet tissue. Because of high homologies between various annexins, it was supposed that this procedure can be also applied for purification of other annexins from other tissues.