On the development and application of indirect site indexes based on edaphoclimatic variables for commercial forestry in South Africa

Thesis (MScFor)--Stellenbosch University, 2012.ENGLISH ABSTRACT: Site Index is used extensively in modern commercial forestry both as an indicator of current and future site potential, but also as a means of site comparison. The concept is deeply embedded into current forest planning processes, and without it empirical growth and yield modelling would not function in its present form. Most commercial forestry companies in South Africa currently spend hundreds of thousands of Rand annually collecting growth stock data via inventory, but spend little or no money on the default compartment data (specifically Site Index) which is used to estimate over 90% of the product volumes in their long term plans. A need exists to construct reliable methods to determine Site Index for sites which have not been physically measured (the socalled "default", or indirect Site Index). Most previous attempts to model Site Index have used multiple linear regression as the model, alternative methods have been explored in this thesis: Regression tree analysis, random forest analysis, hybrid or model trees, multiple linear regression, and multiple linear regression using regression trees to identify the variables. Regression tree analysis proves to be ideally suited to this type of data, and a generic model with only three site variables was able to capture 49.44 % of the variation in Site Index. Further localisation of the model could prove to be commercially useful. One of the key assumptions associated with Site Index, that it is unaffected by initial planting density, was tested using linear mixed effects modelling. The results show that there may well be role played by initial stocking in some species (notably E. dunnii and E. nitens), and that further work may be warranted. It was also shown that early measurement of dominant height results in poor estimates of Site Index, which will have a direct impact on inventory policies and on data to be included in Site Index modelling studies. This thesis is divided into six chapters: Chapter 1 contains a description of the concept of Site Index and it's origins, as well as, how the concept is used within the current forest planning processes. Chapter 2 contains an analysis on the influence of initial planted density on the estimate of Site Index. Chapter 3 explores the question of whether the age at which dominant height is measured has any effect on the quality of Site Index estimates. Chapter 4 looks at various modelling methodologies and compares the resultant models. Chapter 5 contains conclusions and recommendations for further study, and finally Chapter 6 discusses how any new Site Index model will effect the current planning protocol.AFRIKAANSE OPSOMMING: Hedendaagse kommersiële bosbou gebruik groeiplek indeks (Site Index) as 'n aanduiding van huidige en toekomstige groeiplek moontlikhede, asook 'n metode om groeiplekke te vergelyk. Hierdie beginsel is diep gewortel in bestaande beplanningsprosesse en daarsonder kan empiriese groeien opbrengsmodelle nie in hul huidige vorm funksioneer nie. SuidAfrikaanse bosboumaatskappye bestee jaarliks groot bedrae geld aan die versameling van groeivoorraad data deur middel van opnames, maar weinig of geen geld word aangewend vir die insameling van ongemete vak data (veral groeiplek indeks) nie. Ongemete vak data word gebuik om meer as 90% van die produksie volume te beraam in langtermyn beplaning. 'n Behoefte bestaan om betroubare metodes te ontwikkel om groeiplek indeks te bereken vir groeiplekke wat nog nie opgemeet is nie. Die meeste vorige pogings om groeiplek indeks te beraam het meervoudige linêre regressie as model gebruik. Alternatiewe metodes is ondersoek; naamlik regressieboom analise, ewekansige woud analise, hibriedeof modelbome, meervoudige linêre regressie en meervoudige linêre regressie waarin die veranderlike faktore bepaal is deur regressiebome. Regressieboom analise blyk geskik te wees vir hierdie tipe data en 'n veralgemeende model met slegs drie groeiplek veranderlikes dek 49.44 % van die variasie in groeiplek indeks. Verdere lokalisering van die model kan dus van kommersiële waarde wees. 'n Sleutel aanname is gemaak dat aanvanklike plantdigtheid nie 'n invloed op groeiplek indeks het nie. Hierdie aanname is getoets deur linêre gemengde uitwerkings modelle. Die toetsuitslag dui op 'n moontlikheid dat plantdigtheid wel 'n invloed het op sommige spesies (vernaamlik E. dunnii en E. nitens) en verdere navorsing kan daarom geregverdig word. Dit is ook bewys dat metings van jonger bome vir dominante hoogtes gee aanleiding tot swak beramings van groeiplek indekse. Gevolglik sal hierdie toestsuitslag groeivoorraad opname beleid, asook die data wat vir groeiplek indeks modellering gebruik word, beïnvloed. Hierdie tesis word in ses hoofstukke onderverdeel. Hoofstuk een bevat 'n beskrywing van die beginsel van groeiplek indeks, die oorsprong daarvan, asook hoe die beginsel tans in huidige bosbou beplannings prosesse toegepas word. Hoofstuk twee bestaan uit ń ontleding van die invloed van aanvanklike plantdigtheid op die beraming van groeplek indeks. In hoofstuk drie word ondersoek wat die moontlike invloed is van die ouderdom waarop metings vir dominante hoogte geneem word, op die kwaliteit van groeplek indeks beramings het. Hoofstuk vier verken verskeie modelle metodologieë en vergelyk die uitslaggewende modelle. Hoofstuk vyf bevat gevolgtrekkings en voorstelle vir verdere studies. Afsluitend, is hoofstuk ses ń bespreking van hoe enige nuwe groeiplek indeks modelle die huidige beplannings protokol kan beïnvloed

The Grey Fox, broadside

Broadside for the play, The Grey Fox with Henry Hull and Chrystal Herne, appearing at The Playhouse.https://egrove.olemiss.edu/creekmore/1267/thumbnail.jp

Renal artery sympathetic denervation:observations from the UK experience

Background: Renal denervation (RDN) may lower blood pressure (BP); however, it is unclear whether medication changes may be confounding results. Furthermore, limited data exist on pattern of ambulatory blood pressure (ABP) response—particularly in those prescribed aldosterone antagonists at the time of RDN. Methods: We examined all patients treated with RDN for treatment-resistant hypertension in 18 UK centres. Results: Results from 253 patients treated with five technologies are shown. Pre-procedural mean office BP (OBP) was 185/102 mmHg (SD 26/19; n = 253) and mean daytime ABP was 170/98 mmHg (SD 22/16; n = 186). Median number of antihypertensive drugs was 5.0: 96 % ACEi/ARB; 86 % thiazide/loop diuretic and 55 % aldosterone antagonist. OBP, available in 90 % at 11 months follow-up, was 163/93 mmHg (reduction of 22/9 mmHg). ABP, available in 70 % at 8.5 months follow-up, was 158/91 mmHg (fall of 12/7 mmHg). Mean drug changes post RDN were: 0.36 drugs added, 0.91 withdrawn. Dose changes appeared neutral. Quartile analysis by starting ABP showed mean reductions in systolic ABP after RDN of: 0.4; 6.5; 14.5 and 22.1 mmHg, respectively (p < 0.001 for trend). Use of aldosterone antagonist did not predict response (p < 0.2). Conclusion: In 253 patients treated with RDN, office BP fell by 22/9 mmHg. Ambulatory BP fell by 12/7 mmHg, though little response was seen in the lowermost quartile of starting blood pressure. Fall in BP was not explained by medication changes and aldosterone antagonist use did not affect response

REQUITE: A prospective multicentre cohort study of patients undergoing radiotherapy for breast, lung or prostate cancer

Purpose: REQUITE aimed to establish a resource for multi-national validation of models and biomarkers that predict risk of late toxicity following radiotherapy. The purpose of this article is to provide summary descriptive data. Methods: An international, prospective cohort study recruited cancer patients in 26 hospitals in eight countries between April 2014 and March 2017. Target recruitment was 5300 patients. Eligible patients had breast, prostate or lung cancer and planned potentially curable radiotherapy. Radiotherapy was prescribed according to local regimens, but centres used standardised data collection forms. Pre-treatment blood samples were collected. Patients were followed for a minimum of 12 (lung) or 24 (breast/prostate) months and summary descriptive statistics were generated. Results: The study recruited 2069 breast (99% of target), 1808 prostate (86%) and 561 lung (51%) cancer patients. The centralised, accessible database includes: physician-(47,025 forms) and patient-(54,901) reported outcomes; 11,563 breast photos; 17,107 DICOMs and 12,684 DVHs. Imputed genotype data are available for 4223 patients with European ancestry (1948 breast, 1728 prostate, 547 lung). Radiation-induced lymphocyte apoptosis (RILA) assay data are available for 1319 patients. DNA (n = 4409) and PAXgene tubes (n = 3039) are stored in the centralised biobank. Example prevalences of 2-year (1-year for lung) grade >= 2 CTCAE toxicities are 13% atrophy (breast), 3% rectal bleeding (prostate) and 27% dyspnoea (lung). Conclusion: The comprehensive centralised database and linked biobank is a valuable resource for the radiotherapy community for validating predictive models and biomarkers. Patient summary: Up to half of cancer patients undergo radiation therapy and irradiation of surrounding healthy tissue is unavoidable. Damage to healthy tissue can affect short-and long-term quality-of-life. Not all patients are equally sensitive to radiation "damage" but it is not possible at the moment to identify those who are. REQUITE was established with the aim of trying to understand more about how we could predict radiation sensitivity. The purpose of this paper is to provide an overview and summary of the data and material available. In the REQUITE study 4400 breast, prostate and lung cancer patients filled out questionnaires and donated blood. A large amount of data was collected in the same way. With all these data and samples a database and biobank were created that showed it is possible to collect this kind of information in a standardised way across countries. In the future, our database and linked biobank will be a resource for research and validation of clinical predictors and models of radiation sensitivity. REQUITE will also enable a better understanding of how many people suffer with radiotherapy toxicity

The bii4africa dataset of faunal and floral population intactness estimates across Africa’s major land uses

Sub-Saharan Africa is under-represented in global biodiversity datasets, particularly regarding the impact of land use on species’ population abundances. Drawing on recent advances in expert elicitation to ensure data consistency, 200 experts were convened using a modified-Delphi process to estimate ‘intactness scores’: the remaining proportion of an ‘intact’ reference population of a species group in a particular land use, on a scale from 0 (no remaining individuals) to 1 (same abundance as the reference) and, in rare cases, to 2 (populations that thrive in human-modified landscapes). The resulting bii4africa dataset contains intactness scores representing terrestrial vertebrates (tetrapods: ±5,400 amphibians, reptiles, birds, mammals) and vascular plants (±45,000 forbs, graminoids, trees, shrubs) in sub-Saharan Africa across the region’s major land uses (urban, cropland, rangeland, plantation, protected, etc.) and intensities (e.g., large-scale vs smallholder cropland). This dataset was co-produced as part of the Biodiversity Intactness Index for Africa Project. Additional uses include assessing ecosystem condition; rectifying geographic/ taxonomic biases in global biodiversity indicators and maps; and informing the Red List of Ecosystems

The bii4africa dataset of faunal and floral population intactness estimates across Africa’s major land uses

Sub-Saharan Africa is under-represented in global biodiversity datasets, particularly regarding the impact of land use on species’ population abundances. Drawing on recent advances in expert elicitation to ensure data consistency, 200 experts were convened using a modified-Delphi process to estimate ‘intactness scores’: the remaining proportion of an ‘intact’ reference population of a species group in a particular land use, on a scale from 0 (no remaining individuals) to 1 (same abundance as the reference) and, in rare cases, to 2 (populations that thrive in human-modified landscapes). The resulting bii4africa dataset contains intactness scores representing terrestrial vertebrates (tetrapods: ±5,400 amphibians, reptiles, birds, mammals) and vascular plants (±45,000 forbs, graminoids, trees, shrubs) in sub-Saharan Africa across the region’s major land uses (urban, cropland, rangeland, plantation, protected, etc.) and intensities (e.g., large-scale vs smallholder cropland). This dataset was co-produced as part of the Biodiversity Intactness Index for Africa Project. Additional uses include assessing ecosystem condition; rectifying geographic/taxonomic biases in global biodiversity indicators and maps; and informing the Red List of Ecosystems

25th annual computational neuroscience meeting: CNS-2016

The same neuron may play different functional roles in the neural circuits to which it belongs. For example, neurons in the Tritonia pedal ganglia may participate in variable phases of the swim motor rhythms [1]. While such neuronal functional variability is likely to play a major role the delivery of the functionality of neural systems, it is difficult to study it in most nervous systems. We work on the pyloric rhythm network of the crustacean stomatogastric ganglion (STG) [2]. Typically network models of the STG treat neurons of the same functional type as a single model neuron (e.g. PD neurons), assuming the same conductance parameters for these neurons and implying their synchronous firing [3, 4]. However, simultaneous recording of PD neurons shows differences between the timings of spikes of these neurons. This may indicate functional variability of these neurons. Here we modelled separately the two PD neurons of the STG in a multi-neuron model of the pyloric network. Our neuron models comply with known correlations between conductance parameters of ionic currents. Our results reproduce the experimental finding of increasing spike time distance between spikes originating from the two model PD neurons during their synchronised burst phase. The PD neuron with the larger calcium conductance generates its spikes before the other PD neuron. Larger potassium conductance values in the follower neuron imply longer delays between spikes, see Fig. 17.Neuromodulators change the conductance parameters of neurons and maintain the ratios of these parameters [5]. Our results show that such changes may shift the individual contribution of two PD neurons to the PD-phase of the pyloric rhythm altering their functionality within this rhythm. Our work paves the way towards an accessible experimental and computational framework for the analysis of the mechanisms and impact of functional variability of neurons within the neural circuits to which they belong

Rehabilitation versus surgical reconstruction for non-acute anterior cruciate ligament injury (ACL SNNAP): a pragmatic randomised controlled trial

BackgroundAnterior cruciate ligament (ACL) rupture is a common debilitating injury that can cause instability of the knee. We aimed to investigate the best management strategy between reconstructive surgery and non-surgical treatment for patients with a non-acute ACL injury and persistent symptoms of instability.MethodsWe did a pragmatic, multicentre, superiority, randomised controlled trial in 29 secondary care National Health Service orthopaedic units in the UK. Patients with symptomatic knee problems (instability) consistent with an ACL injury were eligible. We excluded patients with meniscal pathology with characteristics that indicate immediate surgery. Patients were randomly assigned (1:1) by computer to either surgery (reconstruction) or rehabilitation (physiotherapy but with subsequent reconstruction permitted if instability persisted after treatment), stratified by site and baseline Knee Injury and Osteoarthritis Outcome Score—4 domain version (KOOS4). This management design represented normal practice. The primary outcome was KOOS4 at 18 months after randomisation. The principal analyses were intention-to-treat based, with KOOS4 results analysed using linear regression. This trial is registered with ISRCTN, ISRCTN10110685, and ClinicalTrials.gov, NCT02980367.FindingsBetween Feb 1, 2017, and April 12, 2020, we recruited 316 patients. 156 (49%) participants were randomly assigned to the surgical reconstruction group and 160 (51%) to the rehabilitation group. Mean KOOS4 at 18 months was 73·0 (SD 18·3) in the surgical group and 64·6 (21·6) in the rehabilitation group. The adjusted mean difference was 7·9 (95% CI 2·5–13·2; p=0·0053) in favour of surgical management. 65 (41%) of 160 patients allocated to rehabilitation underwent subsequent surgery according to protocol within 18 months. 43 (28%) of 156 patients allocated to surgery did not receive their allocated treatment. We found no differences between groups in the proportion of intervention-related complications.InterpretationSurgical reconstruction as a management strategy for patients with non-acute ACL injury with persistent symptoms of instability was clinically superior and more cost-effective in comparison with rehabilitation management

A Method for Quantifying Consistency in Animal Distributions Using Survey Data

The degree of consistency with which groups of animals use the landscape is determined by a variety of ecological processes that influence their movements and patterns of habitat use. We developed a technique termed Distributional Consistency that uses survey data of unmarked individuals to quantify temporal consistency in their spatial distribution, while accounting for changes in population size. Distributional consistency is quantified by comparing the observed distribution patterns to all theoretically possible distribution patterns of observed individuals, leading to a proportional score between 0 and 1, reflecting increasingly consistent use of sites within a region. The technique can be applied to survey data for any taxa across a range of spatial and temporal scales. We suggest ways in which distributional consistency could provide inferences about the dispersal and habitat decisions of individuals, and the scales at which these decisions operate. Distributional consistency integrates spatial and temporal processes to quantify an important characteristic of different habitats and their use by populations, which in turn will be particularly useful in complimenting and interpreting other ecological measures such as population density and stability. The technique can be applied to many existing data sets to investigate and evaluate a range of important ecological questions using simple survey data

Physiological-Studies of the Brain: Implications for Science Teaching

Physiological changes resulting from repeated, long‐term stimulation have been observed in the brains of both humans and laboratory animals. It may be speculated that these changes are related to short‐term and long‐term memory processes. A physiologically based model for memory processing (PBMMP) can serve to explain the interrelations of various areas of the brain as they process new stimuli and recall past events. The model can also serve to explain many current principles of learning theory and serve as a foundation for developing new theories of learning based upon the physiology of the brain