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1.
J Neurol Neurosurg Psychiatry ; 91(4): 396-401, 2020 04.
Article in English | MEDLINE | ID: mdl-32041820

ABSTRACT

BACKGROUND: Human neural stem cell implantation may offer improved recovery from stroke. We investigated the feasibility of intracerebral implantation of the allogeneic human neural stem cell line CTX0E03 in the subacute-chronic recovery phase of stroke and potential measures of therapeutic response in a multicentre study. METHODS: We undertook a prospective, multicentre, single-arm, open-label study in adults aged >40 years with significant upper limb motor deficits 2-13 months after ischaemic stroke. 20 million cells were implanted by stereotaxic injection to the putamen ipsilateral to the cerebral infarct. The primary outcome was improvement by 2 or more points on the Action Research Arm Test (ARAT) subtest 2 at 3 months after implantation. FINDINGS: Twenty-three patients underwent cell implantation at eight UK hospitals a median of 7 months after stroke. One of 23 participants improved by the prespecified ARAT subtest level at 3 months, and three participants at 6 and 12 months. Improvement in ARAT was seen only in those with residual upper limb movement at baseline. Transient procedural adverse effects were seen, but no cell-related adverse events occurred up to 12 months of follow-up. Two deaths were unrelated to trial procedures. INTERPRETATION: Administration of human neural stem cells by intracerebral implantation is feasible in a multicentre study. Improvements in upper limb function occurred at 3, 6 and 12 months, but not in those with absent upper limb movement at baseline, suggesting a possible target population for future controlled trials. FUNDING: ReNeuron, Innovate UK (application no 32074-222145). TRIAL REGISTRATION NUMBER: EudraCT Number: 2012-003482-18.


Subject(s)
Brain Ischemia/therapy , Neural Stem Cells/transplantation , Recovery of Function/physiology , Stem Cell Transplantation/methods , Stroke/therapy , Adult , Aged , Brain Ischemia/physiopathology , Female , Humans , Male , Middle Aged , Prospective Studies , Stroke/physiopathology , Stroke Rehabilitation , Treatment Outcome , Upper Extremity/physiopathology
2.
PLoS One ; 13(8): e0203356, 2018.
Article in English | MEDLINE | ID: mdl-30153303

ABSTRACT

[This corrects the article DOI: 10.1371/journal.pone.0198167.].

3.
PLoS One ; 13(7): e0198167, 2018.
Article in English | MEDLINE | ID: mdl-29995888

ABSTRACT

Population parameters of poorly marked gregarious species are difficult to estimate. This is the case for common dolphins (Delphinus sp.), a genus known for its lack of distinctive marks resulting in a low mark ratio. Furthermore, the widespread nature of common dolphins results in low recaptures. We developed reliable photo-identification protocols to ensure accurate identification of individuals in the Hauraki Gulf, New Zealand. These protocols combined the use of nicks and notches and pigmentation patterns for identification and included the development of a distinctiveness threshold. The data were further stratified by the level of distinctiveness of each individual (as distinctive or highly-distinctive). Photo-identification surveys were conducted from January 2010 to December 2013. Mark-recapture techniques were implemented through a POPAN super-population approach to estimate seasonal apparent survival, capture probability and abundance of dolphins. A total of 2,083 unique adult common dolphins were identified, 51.3% were classified as D1 (highly distinctive; n = 1,069) and 48.7% as D2 (distinctive; n = 1,014). Of all individuals identified, 34.3% (n = 704) were re-sighted over subsequent years. The proportion of marked dolphins (when compared to unmarked dolphins) was 26.3% for D1 and 46.4% for D1 & D2, respectively. Apparent survival was estimated at 0.767 (CI = 0.694-0.827) for D1 animals, and 0.796 (CI = 0.729-0.850) for D1 & D2 combined. For D1 only, seasonal abundance varied from 732 (CI = 460-1,177) in autumn 2010 to 5,304 (CI = 4,745-5,930) in spring 2013. While the inclusion of D2 individuals may offer a more precise estimate of total abundance, the inability to determine additional sources of bias (for example, arising from under or overestimated mark ratios) meant that estimates for D1 individuals were deemed the least biased for this population. The photo-identification protocol, stratification of the data and steps taken to eliminate potential model violations provided a useful and novel approach to estimate population parameters for common dolphins. These approaches could be implemented for other large gregarious populations (≥500 individuals) of animals with poor natural markings.


Subject(s)
Dolphins/anatomy & histology , Pattern Recognition, Automated/methods , Pigmentation/physiology , Animals , Dolphins/physiology , Ecosystem , New Zealand , Pacific Ocean , Pattern Recognition, Automated/statistics & numerical data , Photography/instrumentation , Photography/methods , Population Density , Seasons , Survival Rate
4.
Sci Rep ; 7(1): 4995, 2017 07 10.
Article in English | MEDLINE | ID: mdl-28694444

ABSTRACT

The incidental capture of wildlife in fishing gear presents a global conservation challenge. As a baseline to inform assessments of the impact of bycatch on bottlenose dolphins (Tursiops truncatus) interacting with an Australian trawl fishery, we conducted an aerial survey to estimate dolphin abundance across the fishery. Concurrently, we carried out boat-based dolphin photo-identification to assess short-term fidelity to foraging around trawlers, and used photographic and genetic data to infer longer-term fidelity to the fishery. We estimated abundance at ≈ 2,300 dolphins (95% CI = 1,247-4,214) over the ≈ 25,880-km2 fishery. Mark-recapture estimates yielded 226 (SE = 38.5) dolphins associating with one trawler and some individuals photographed up to seven times over 12 capture periods. Moreover, photographic and genetic re-sampling over three years confirmed that some individuals show long-term fidelity to trawler-associated foraging. Our study presents the first abundance estimate for any Australian pelagic dolphin community and documents individuals associating with trawlers over days, months and years. Without trend data or correction factors for dolphin availability, the impact of bycatch on this dolphin population's conservation status remains unknown. These results should be taken into account by management agencies assessing the impact of fisheries-related mortality on this protected species.


Subject(s)
Dolphins/physiology , Animals , Australia , Conservation of Natural Resources , Fisheries , Population Dynamics , Surveys and Questionnaires
5.
Lancet ; 388(10046): 787-96, 2016 Aug 20.
Article in English | MEDLINE | ID: mdl-27497862

ABSTRACT

BACKGROUND: CTX0E03 is an immortalised human neural stem-cell line from which a drug product (CTX-DP) was developed for allogeneic therapy. Dose-dependent improvement in sensorimotor function in rats implanted with CTX-DP 4 weeks after middle cerebral artery occlusion stroke prompted investigation of the safety and tolerability of this treatment in stroke patients. METHODS: We did an open-label, single-site, dose-escalation study. Men aged 60 years or older with stable disability (National Institutes of Health Stroke Scale [NIHSS] score ≥6 and modified Rankin Scale score 2-4) 6-60 months after ischaemic stroke were implanted with single doses of 2 million, 5 million, 10 million, or 20 million cells by stereotactic ipsilateral putamen injection. Clinical and brain imaging data were collected over 2 years. The primary endpoint was safety (adverse events and neurological change). This trial is registered with ClinicalTrials.gov, number NCT01151124. FINDINGS: 13 men were recruited between September, 2010, and January, 2013, of whom 11 (mean age 69 years, range 60-82) received CTX-DP. Median NIHSS score before implantation was 7 (IQR 6-8) and the mean time from stroke was 29 (SD 14) months. Three men had subcortical infarcts only and seven had right-hemisphere infarcts. No immunological or cell-related adverse events were seen. Other adverse events were related to the procedure or comorbidities. Hyperintensity around the injection tracts on T2-weighted fluid-attenuation inversion recovery MRI was seen in five patients. At 2 years, improvement in NIHSS score ranged from 0 to 5 (median 2) points. INTERPRETATION: Single intracerebral doses of CTX-DP up to 20 million cells induced no adverse events and were associated with improved neurological function. Our observations support further investigation of CTX-DP in stroke patients. FUNDING: ReNeuron Limited.


Subject(s)
Brain Ischemia/complications , Cerebral Infarction/therapy , Neural Stem Cells , Putamen , Aged , Aged, 80 and over , Brain/diagnostic imaging , Brain/pathology , Cerebral Infarction/etiology , Chronic Disease , Diffusion Tensor Imaging , Feasibility Studies , Humans , Injections , Magnetic Resonance Imaging , Male , Middle Aged , Pilot Projects , Stereotaxic Techniques , Stroke/therapy , Time Factors , Tomography, X-Ray Computed , Treatment Outcome , United Kingdom
6.
PLoS One ; 11(4): e0151962, 2016.
Article in English | MEDLINE | ID: mdl-27050447

ABSTRACT

International differences in practices and attitudes regarding pet cats' interactions with wildlife were assessed by surveying citizens from at least two cities in Australia, New Zealand, the UK, the USA, China and Japan. Predictions tested were: (i) cat owners would agree less than non-cat owners that cats might threaten wildlife, (ii) cat owners value wildlife less than non-cat owners, (iii) cat owners are less accepting of cat legislation/restrictions than non-owners, and (iv) respondents from regions with high endemic biodiversity (Australia, New Zealand, China and the USA state of Hawaii) would be most concerned about pet cats threatening wildlife. Everywhere non-owners were more likely than owners to agree that pet cats killing wildlife were a problem in cities, towns and rural areas. Agreement amongst non-owners was highest in Australia (95%) and New Zealand (78%) and lowest in the UK (38%). Irrespective of ownership, over 85% of respondents from all countries except China (65%) valued wildlife in cities, towns and rural areas. Non-owners advocated cat legislation more strongly than owners except in Japan. Australian non-owners were the most supportive (88%), followed by Chinese non-owners (80%) and Japanese owners (79.5%). The UK was least supportive (non-owners 43%, owners 25%). Many Australian (62%), New Zealand (51%) and Chinese owners (42%) agreed that pet cats killing wildlife in cities, towns and rural areas was a problem, while Hawaiian owners were similar to the mainland USA (20%). Thus high endemic biodiversity might contribute to attitudes in some, but not all, countries. Husbandry practices varied internationally, with predation highest where fewer cats were confined. Although the risk of wildlife population declines caused by pet cats justifies precautionary action, campaigns based on wildlife protection are unlikely to succeed outside Australia or New Zealand. Restrictions on roaming protect wildlife and benefit cat welfare, so welfare is a better rationale.


Subject(s)
Animals, Wild , Attitude , Internationality , Predatory Behavior , Urban Population , Animals , Cats , Surveys and Questionnaires
7.
J Anim Ecol ; 85(2): 598-610, 2016 Mar.
Article in English | MEDLINE | ID: mdl-26559641

ABSTRACT

Assessing the impacts of multiple, often synergistic, stressors on the population dynamics of long-lived species is becoming increasingly important due to recent and future global change. Tiliqua rugosa (sleepy lizard) is a long-lived skink (>30 years) that is adapted to survive in semi-arid environments with varying levels of parasite exposure and highly seasonal food availability. We used an exhaustive database of 30 years of capture-mark-recapture records to quantify the impacts of both parasite exposure and environmental conditions on the lizard's survival rates and long-term population dynamics. Lizard abundance was relatively stable throughout the study period; however, there were changing patterns in adult and juvenile apparent survival rates, driven by spatial and temporal variation in levels of tick exposure and temporal variation in environmental conditions. Extreme weather events during the winter and spring seasons were identified as important environmental drivers of survival. Climate models predict a dramatic increase in the frequency of extreme hot and dry winter and spring seasons in our South Australian study region; from a contemporary probability of 0.17 up to 0.47-0.83 in 2080 depending on the emissions scenario. Our stochastic population model projections showed that these future climatic conditions will induce a decline in the abundance of this long-lived reptile of up to 67% within 30 years from 2080, under worst case scenario modelling. The results have broad implications for future work investigating the drivers of population dynamics and persistence. We highlight the importance of long-term data sets and accounting for synergistic impacts between multiple stressors. We show that predicted increases in the frequency of extreme climate events have the potential to considerably and negatively influence a long-lived species, which might previously have been assumed to be resilient to environmental perturbations.


Subject(s)
Lizards , Tick Infestations/veterinary , Ticks/physiology , Weather , Animals , Lizards/physiology , Longevity , Population Dynamics , Seasons , South Australia , Tick Infestations/parasitology
8.
PLoS One ; 10(3): e0119070, 2015.
Article in English | MEDLINE | ID: mdl-25734333

ABSTRACT

Coyotes recently expanded into the eastern U.S. and potentially have caused localized white-tailed deer population declines. Research has focused on quantifying coyote predation on neonates, but little research has addressed the potential influence of bedsite characteristics on survival. In 2011 and 2012, we radiocollared 65 neonates, monitored them intensively for 16 weeks, and assigned mortality causes. We used Program MARK to estimate survival to 16 weeks and included biological covariates (i.e., sex, sibling status [whether or not it had a sibling], birth weight, and Julian date of birth). Survival to 16 weeks was 0.141 (95% CI = 0.075-0.249) and the top model included only sibling status, which indicated survival was lower for neonates that had a sibling. Predation was the leading cause of mortality (35 of 55; 64%) and coyotes were responsible for the majority of depredations (30 of 35; 86%). Additionally, we relocated neonates for the first 10 days of life and measured distance to firebreak, visual obstruction, and plant diversity at bedsites. Survival of predation to 10 days (0.726; 95% CI = 0.586-0.833) was weakly associated with plant diversity at bedsites but not related to visual obstruction. Our results indicate that neonate survival was low and coyote predation was an important source of mortality, which corroborates several recent studies from the region. Additionally, we detected only weak support for bedsite cover as a covariate to neonate survival, which indicates that mitigating effects of coyote predation on neonates may be more complicated than simply managing for increased hiding cover.


Subject(s)
Coyotes/physiology , Deer/physiology , Lynx/physiology , Predatory Behavior/physiology , Reproduction/physiology , Animals , Birth Weight , Conservation of Natural Resources , Ecosystem , Female , Litter Size , Male , North Carolina , Population Dynamics/statistics & numerical data
9.
Oecologia ; 178(3): 761-72, 2015 Jul.
Article in English | MEDLINE | ID: mdl-25740335

ABSTRACT

Capture-mark-recapture models are useful tools for estimating demographic parameters but often result in low precision when recapture rates are low. Low recapture rates are typical in many study systems including fishing-based studies. Incorporating auxiliary data into the models can improve precision and in some cases enable parameter estimation. Here, we present a novel application of acoustic telemetry for the estimation of apparent survival and abundance within capture-mark-recapture analysis using open population models. Our case study is based on simultaneously collecting longline fishing and acoustic telemetry data for a large mobile apex predator, the broadnose sevengill shark (Notorhynchus cepedianus), at a coastal site in Tasmania, Australia. Cormack-Jolly-Seber models showed that longline data alone had very low recapture rates while acoustic telemetry data for the same time period resulted in at least tenfold higher recapture rates. The apparent survival estimates were similar for the two datasets but the acoustic telemetry data showed much greater precision and enabled apparent survival parameter estimation for one dataset, which was inestimable using fishing data alone. Combined acoustic telemetry and longline data were incorporated into Jolly-Seber models using a Monte Carlo simulation approach. Abundance estimates were comparable to those with longline data only; however, the inclusion of acoustic telemetry data increased precision in the estimates. We conclude that acoustic telemetry is a useful tool for incorporating in capture-mark-recapture studies in the marine environment. Future studies should consider the application of acoustic telemetry within this framework when setting up the study design and sampling program.


Subject(s)
Ecology/methods , Models, Biological , Sharks , Telemetry/methods , Acoustics , Animals , Demography/methods , Models, Statistical , Monte Carlo Method , Population Density , Tasmania
10.
PLoS One ; 9(4): e93178, 2014.
Article in English | MEDLINE | ID: mdl-24695338

ABSTRACT

The bycatch of small cetaceans in commercial fisheries is a global wildlife management problem. We used data from skippers' logbooks and independent observers to assess common bottlenose dolphin (Tursiops truncatus) bycatch patterns between 2003 and 2009 in the Pilbara Trawl Fishery, Western Australia. Both datasets indicated that dolphins were caught in all fishery areas, across all depths and throughout the year. Over the entire datasets, observer reported bycatch rates (n = 52 dolphins in 4,124 trawls, or 12.6 dolphins/1,000 trawls) were ca. double those reported by skippers (n = 180 dolphins in 27,904 trawls, or 6.5 dolphins/1,000 trawls). Generalised Linear Models based on observer data, which better explained the variation in dolphin bycatch, indicated that the most significant predictors of dolphin catch were: (1) vessel--one trawl vessel caught significantly more dolphins than three others assessed; (2) time of day--the lowest dolphin bycatch rates were between 00:00 and 05:59; and (3) whether nets included bycatch reduction devices (BRDs)--the rate was reduced by ca. 45%, from 18.8 to 10.3 dolphins/1,000 trawls, after their introduction. These results indicated that differences among vessels (or skippers' trawling techniques) and dolphin behavior (a diurnal pattern) influenced the rates of dolphin capture; and that spatial or seasonal adjustments to trawling effort would be unlikely to significantly reduce dolphin bycatch. Recent skipper's logbook data show that dolphin bycatch rates have not declined since those reported in 2006, when BRDs were introduced across the fishery. Modified BRDs, with top-opening escape hatches from which dolphins might escape to the surface, may be a more effective means of further reducing dolphin bycatch. The vulnerability of this dolphin population to trawling-related mortality cannot be assessed in the absence of an ongoing observer program and without information on trawler-associated dolphin community size, broader dolphin population size and connectivity with adjacent populations.


Subject(s)
Bottle-Nosed Dolphin , Fisheries , Animals , Australia
11.
Biometrics ; 70(2): 323-34, 2014 Jun.
Article in English | MEDLINE | ID: mdl-24571715

ABSTRACT

In this article, we first extend the superpopulation capture-recapture model to multiple states (locations or populations) for two age groups., Wen et al., (2011; 2013) developed a new approach combining capture-recapture data with population assignment information to estimate the relative contributions of in situ births and immigrants to the growth of a single study population. Here, we first generalize Wen et al., (2011; 2013) approach to a system composed of multiple study populations (multi-state) with two age groups, where an imputation approach is employed to account for the uncertainty inherent in the population assignment information. Then we develop a different, individual-level mixture model approach to integrate the individual-level population assignment information with the capture-recapture data. Our simulation and real data analyses show that the fusion of population assignment information with capture-recapture data allows us to estimate the origination-specific recruitment of new animals to the system and the dispersal process between populations within the system. Compared to a standard capture-recapture model, our new models improve the estimation of demographic parameters, including survival probability, origination-specific entry probability, and especially the probability of movement between populations, yielding higher accuracy and precision.


Subject(s)
Animal Migration , Models, Biological , Models, Statistical , Algorithms , Animals , Biometry/methods , Computer Simulation , Dipodomys/genetics , Dipodomys/physiology , Ecology/statistics & numerical data , Ecosystem , Female , Likelihood Functions , Male , Population Dynamics/statistics & numerical data
12.
PLoS One ; 9(1): e86132, 2014.
Article in English | MEDLINE | ID: mdl-24465917

ABSTRACT

Reliable population estimates are critical to implement effective management strategies. The Hawai'i Island spinner dolphin (Stenella longirostris) is a genetically distinct stock that displays a rigid daily behavioural pattern, foraging offshore at night and resting in sheltered bays during the day. Consequently, they are exposed to frequent human interactions and disturbance. We estimated population parameters of this spinner dolphin stock using a systematic sampling design and capture-recapture models. From September 2010 to August 2011, boat-based photo-identification surveys were undertaken monthly over 132 days (>1,150 hours of effort; >100,000 dorsal fin images) in the four main resting bays along the Kona Coast, Hawai'i Island. All images were graded according to photographic quality and distinctiveness. Over 32,000 images were included in the analyses, from which 607 distinctive individuals were catalogued and 214 were highly distinctive. Two independent estimates of the proportion of highly distinctive individuals in the population were not significantly different (p = 0.68). Individual heterogeneity and time variation in capture probabilities were strongly indicated for these data; therefore capture-recapture models allowing for these variations were used. The estimated annual apparent survival rate (product of true survival and permanent emigration) was 0.97 SE ± 0.05. Open and closed capture-recapture models for the highly distinctive individuals photographed at least once each month produced similar abundance estimates. An estimate of 221 ± 4.3 SE highly distinctive spinner dolphins, resulted in a total abundance of 631 ± 60.1 SE, (95% CI 524-761) spinner dolphins in the Hawai'i Island stock, which is lower than previous estimates. When this abundance estimate is considered alongside the rigid daily behavioural pattern, genetic distinctiveness, and the ease of human access to spinner dolphins in their preferred resting habitats, this Hawai'i Island stock is likely more vulnerable to negative impacts from human disturbance than previously believed.


Subject(s)
Ecosystem , Stenella , Animals , Hawaii , Islands , Models, Statistical , Population Density , Survival Rate
13.
Ecology ; 94(3): 553-9, 2013 Mar.
Article in English | MEDLINE | ID: mdl-23687880

ABSTRACT

Abundance and population density are fundamental pieces of information for population ecology and species conservation, but they are difficult to estimate for rare and elusive species. Mark--resight models are popular for estimating population abundance because they are less invasive and expensive than traditional mark-recapture. However, density estimation using mark-resight is difficult because the area sampled must be explicitly defined, historically using ad hoc approaches. We developed a spatial mark--resight model for estimating population density that combines spatial resighting data and telemetry data. Incorporating telemetry data allows us to inform model parameters related to movement and individual location. Our model also allows <100% individual identification of marked individuals. We implemented the model in a Bayesian framework, using a custom-made Metropolis-within-Gibbs Markov chain Monte Carlo algorithm. As an example, we applied this model to a mark--resight study of raccoons (Procyon lotor) on South Core Banks, a barrier island in Cape Lookout National Seashore, North Carolina, USA. We estimated a population of 186.71 +/- 14.81 individuals, which translated to a density of 8.29 +/- 0.66 individuals/km2 (mean +/- SD). The model presented here will have widespread utility in future applications, especially for species that are not naturally marked.


Subject(s)
Animal Identification Systems , Models, Biological , Raccoons/physiology , Telemetry/veterinary , Animals , Bayes Theorem , Population Dynamics
14.
Biometrics ; 67(3): 691-700, 2011 Sep.
Article in English | MEDLINE | ID: mdl-21155745

ABSTRACT

Ecologists applying capture-recapture models to animal populations sometimes have access to additional information about individuals' populations of origin (e.g., information about genetics, stable isotopes, etc.). Tests that assign an individual's genotype to its most likely source population are increasingly used. Here we show how to augment a superpopulation capture-recapture model with such information. We consider a single superpopulation model without age structure, and split each entry probability into separate components due to births in situ and immigration. We show that it is possible to estimate these two probabilities separately. We first consider the case of perfect information about population of origin, where we can distinguish individuals born in situ from immigrants with certainty. Then we consider the more realistic case of imperfect information, where we use genetic or other information to assign probabilities to each individual's origin as in situ or outside the population. We use a resampling approach to impute the true population of origin from imperfect assignment information. The integration of data on population of origin with capture-recapture data allows us to determine the contributions of immigration and in situ reproduction to the growth of the population, an issue of importance to ecologists. We illustrate our new models with capture-recapture and genetic assignment data from a population of banner-tailed kangaroo rats Dipodomys spectabilis in Arizona.


Subject(s)
Ecology/methods , Population Dynamics , Animal Migration , Animals , Dipodomys , Genotype , Parturition , Probability
15.
Ecology ; 91(8): 2446-54, 2010 Aug.
Article in English | MEDLINE | ID: mdl-20836466

ABSTRACT

The recent surge in the development and application of species occurrence models has been associated with an acknowledgment among ecologists that species are detected imperfectly due to observation error. Standard models now allow unbiased estimation of occupancy probability when false negative detections occur, but this is conditional on no false positive detections and sufficient incorporation of explanatory variables for the false negative detection process. These assumptions are likely reasonable in many circumstances, but there is mounting evidence that false positive errors and detection probability heterogeneity may be much more prevalent in studies relying on auditory cues for species detection (e.g., songbird or calling amphibian surveys). We used field survey data from a simulated calling anuran system of known occupancy state to investigate the biases induced by these errors in dynamic models of species occurrence. Despite the participation of expert observers in simplified field conditions, both false positive errors and site detection probability heterogeneity were extensive for most species in the survey. We found that even low levels of false positive errors, constituting as little as 1% of all detections, can cause severe overestimation of site occupancy, colonization, and local extinction probabilities. Further, unmodeled detection probability heterogeneity induced substantial underestimation of occupancy and overestimation of colonization and local extinction probabilities. Completely spurious relationships between species occurrence and explanatory variables were also found. Such misleading inferences would likely have deleterious implications for conservation and management programs. We contend that all forms of observation error, including false positive errors and heterogeneous detection probabilities, must be incorporated into the estimation framework to facilitate reliable inferences about occupancy and its associated vital rate parameters.


Subject(s)
Anura/physiology , Hearing , Observer Variation , Vocalization, Animal/physiology , Animals , Humans , Models, Theoretical , Population Density , Population Dynamics
16.
Biometrics ; 66(3): 883-90, 2010 Sep.
Article in English | MEDLINE | ID: mdl-19930186

ABSTRACT

Estimation of abundance is important in both open and closed population capture-recapture analysis, but unmodeled heterogeneity of capture probability leads to negative bias in abundance estimates. This article defines and develops a suite of open population capture-recapture models using finite mixtures to model heterogeneity of capture and survival probabilities. Model comparisons and parameter estimation use likelihood-based methods. A real example is analyzed, and simulations are used to check the main features of the heterogeneous models, especially the quality of estimation of abundance, survival, recruitment, and turnover. The two major advances in this article are the provision of realistic abundance estimates that take account of heterogenetiy of capture, and an appraisal of the amount of overestimation of survival arising from conditioning on the first capture when heterogeneity of survival is present.


Subject(s)
Animals, Wild , Models, Statistical , Population , Animals , Biometry/methods , Population Dynamics , Survival Analysis
17.
Biometrics ; 66(1): 178-85, 2010 Mar.
Article in English | MEDLINE | ID: mdl-19397581

ABSTRACT

Natural tags based on DNA fingerprints or natural features of animals are now becoming very widely used in wildlife population biology. However, classic capture-recapture models do not allow for misidentification of animals which is a potentially very serious problem with natural tags. Statistical analysis of misidentification processes is extremely difficult using traditional likelihood methods but is easily handled using Bayesian methods. We present a general framework for Bayesian analysis of categorical data arising from a latent multinomial distribution. Although our work is motivated by a specific model for misidentification in closed population capture-recapture analyses, with crucial assumptions which may not always be appropriate, the methods we develop extend naturally to a variety of other models with similar structure. Suppose that observed frequencies f are a known linear transformation f=A'x of a latent multinomial variable x with cell probability vector pi=pi(theta). Given that full conditional distributions [theta | x] can be sampled, implementation of Gibbs sampling requires only that we can sample from the full conditional distribution [x | f, theta], which is made possible by knowledge of the null space of A'. We illustrate the approach using two data sets with individual misidentification, one simulated, the other summarizing recapture data for salamanders based on natural marks.


Subject(s)
Algorithms , Artifacts , Biometry/methods , Data Interpretation, Statistical , Models, Statistical , Urodela/classification , Animals , Computer Simulation
18.
Ecology ; 90(1): 3-9, 2009 Jan.
Article in English | MEDLINE | ID: mdl-19294906

ABSTRACT

Misidentification of animals is potentially important when naturally existing features (natural tags) are used to identify individual animals in a capture-recapture study. Photographic identification (photoID) typically uses photographic images of animals' naturally existing features as tags (photographic tags) and is subject to two main causes of identification errors: those related to quality of photographs (non-evolving natural tags) and those related to changes in natural marks (evolving natural tags). The conventional methods for analysis of capture-recapture data do not account for identification errors, and to do so requires a detailed understanding of the misidentification mechanism. Focusing on the situation where errors are due to evolving natural tags, we propose a misidentification mechanism and outline a framework for modeling the effect of misidentification in closed population studies. We introduce methods for estimating population size based on this model. Using a simulation study, we show that conventional estimators can seriously overestimate population size when errors due to misidentification are ignored, and that, in comparison, our new estimators have better properties except in cases with low capture probabilities (< 0.2) or low misidentification rates (< 2.5%).


Subject(s)
Animal Identification Systems , Models, Biological , Photography/methods , Animals , Computer Simulation , Population Density , Research Design , Time Factors
19.
BMC Neurosci ; 8: 36, 2007 May 25.
Article in English | MEDLINE | ID: mdl-17531091

ABSTRACT

BACKGROUND: Neural stem cells (NSCs) are powerful research tools for the design and discovery of new approaches to neurodegenerative disease. Overexpression of the myc family transcription factors in human primary cells from developing cortex and mesencephalon has produced two stable multipotential NSC lines (ReNcell VM and CX) that can be continuously expanded in monolayer culture. RESULTS: In the undifferentiated state, both ReNcell VM and CX are nestin positive and have resting membrane potentials of around -60 mV but do not display any voltage-activated conductances. As initially hypothesized, using standard methods (stdD) for differentiation, both cell lines can form neurons, astrocytes and oligodendrocytes according to immunohistological characteristics. However it became clear that this was not true for electrophysiological features which designate neurons, such as the firing of action potentials. We have thus developed a new differentiation protocol, designated 'pre-aggregation differentiation' (preD) which appears to favor development of electrophysiologically functional neurons and to lead to an increase in dopaminergic neurons in the ReNcell VM line. In contrast, the protocol used had little effect on the differentiation of ReNcell CX in which dopaminergic differentiation was not observed. Moreover, after a week of differentiation with the preD protocol, 100% of ReNcell VM featured TTX-sensitive Na+-channels and fired action potentials, compared to 25% after stdD. Currents via other voltage-gated channels did not appear to depend on the differentiation protocol. ReNcell CX did not display the same electrophysiological properties as the VM line, generating voltage-dependant K+ currents but no Na+ currents or action potentials under either stdD or preD differentiation. CONCLUSION: These data demonstrate that overexpression of myc in NSCs can be used to generate electrophysiologically active neurons in culture. Development of a functional neuronal phenotype may be dependent on parameters of isolation and differentiation of the cell lines, indicating that not all human NSCs are functionally equivalent.


Subject(s)
Cell Differentiation/physiology , Cerebral Cortex/cytology , Mesencephalon/cytology , Neurons/physiology , Stem Cells/physiology , Cell Differentiation/drug effects , Cell Proliferation/drug effects , Cells, Cultured , Dose-Response Relationship, Radiation , Electric Stimulation/methods , Fetus , Humans , Intercellular Signaling Peptides and Proteins/pharmacology , Membrane Potentials/physiology , Membrane Potentials/radiation effects , Nerve Tissue Proteins/metabolism , Patch-Clamp Techniques/methods , Stem Cells/drug effects , Time Factors , Tubulin/metabolism , Tyrosine 3-Monooxygenase/metabolism
20.
Ecol Appl ; 17(3): 948-55, 2007 Apr.
Article in English | MEDLINE | ID: mdl-17494409

ABSTRACT

Many factors affect the number of birds detected on point count surveys of breeding songbirds. The magnitude and importance of these factors are not well understood. We used a bird song simulation system to quantify the effects of detection distance, singing rate, species differences, and observer differences on detection probabilities of birds detected by ear. We simulated 40 point counts consisting of 10 birds per count for five primary species (Black-and-white Warbler Mniotilta varia, Black-throated Blue Warbler Dendroica caerulescens, Black-throated Green Warbler Dendroica virens, Hooded Warbler Wilsonia citrina, and Ovenbird Seiurus aurocapillus) over a range of 15 distances (34-143 m). Songs were played at low (two songs per count) and high (13-21 songs per count) singing rates. Detection probabilities averaged across observers ranged from 0.60 (Black-and-white Warbler) to 0.83 (Hooded Warbler) at the high singing rate and 0.41 (Black-and-white Warbler) to 0.67 (Hooded Warbler) at the low singing rate. Logistic regression analyses indicated that species, singing rate, distance, and observer were all significant factors affecting detection probabilities. Singing rate x species and singing rate X distance interactions were also significant. Simulations of expected counts, based on the best logistic model, indicated that observers detected between 19% (for the worst observer, lowest singing rate, and least detectable species) and 65% (for the best observer, highest singing rate, and most detectable species) of the true population. Detection probabilities on actual point count surveys are likely to vary even more because many sources of variability were controlled in our experiments. These findings strongly support the importance of adjusting measures of avian diversity or abundance from auditory point counts with direct estimates of detection probability.


Subject(s)
Auditory Perception , Songbirds/physiology , Vocalization, Animal , Animals , Humans , Observer Variation , Population Density , Reproducibility of Results
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