Accuracy of Segment-Anything Model (SAM) in medical image segmentation tasks

The segment-anything model (SAM), was introduced as a fundamental model for segmenting images. It was trained using over 1 billion masks from 11 million natural images. The model can perform zero-shot segmentation of images by using various prompts such as masks, boxes, and points. In this report, we explored (1) the accuracy of SAM on 12 public medical image segmentation datasets which cover various organs (brain, breast, chest, lung, skin, liver, bowel, pancreas, and prostate), image modalities (2D X-ray, histology, endoscropy, and 3D MRI and CT), and health conditions (normal, lesioned). (2) if the computer vision foundational segmentation model SAM can provide promising research directions for medical image segmentation. We found that SAM without re-training on medical images does not perform as accurately as U-Net or other deep learning models trained on medical images.Comment: Technical Repor

Paralysis and lipofuscin-like pigmentation of farm stock caused by the plant, Trachyandra laxa var. laxa

A paralytic condition of farm stock in South West Africa, characterized by prominent neuronal and some mild extraneuronal pigmentation, is described. The distribution of the pigment, which was mainly located in the larger neurones of the brain and spinal cord, is given. Experimental evidence, obtained by feeding the plant, is presented that the condition is caused by Trachyandra laxa var. laxa. The histochemical features of the pigment proved to be compatible with a lipofuscin.The articles have been scanned in colour with a HP Scanjet 5590; 600dpi. Adobe Acrobat XI Pro was used to OCR the text and also for the merging and conversion to the final presentation PDF-format

The association between body mass index and mood state

The weight of an individual appears to have an influence on mood state. Therefore, the purpose of this study was to evaluate this potential relationship. It was found that body mass index (BMI) does not have an association with the emotions of this sample (N = 206).This paper was initially delivered at the Annual Congress of the Biological Sciences Division of the South African Academy for Science and Art, ARC-Plant Protection Research Institute, Roodeplaat, Pretoria, South Africa on 01 October 2010.http://www.satnt.ac.zaam2014ay201

Reading Film with Age Through Collaborative Autoethnography: Old Age and Care, Encounters with Amour (Haneke, 2012), Chronic (Franco, 2015) and A Woman’s Tale (Cox, 1991)

This paper is primarily a study in research methods, reflecting on the application of an autoethnographic method as means to engage with a co-created intergenerational research project that focussed on reading films about older age and end of life care. Methodologically rich and complex, this paper outlines the research process through which six women at different stages of the lifecourse (Katz, Stephen. 2005. Aging: Life Course, Lifestyle, and Senior Worlds. Peterborough: Broadview Press) came together to critically analyse Amour (Haneke 2012), Chronic (Franco 2015) and A Woman’s Tale (Cox 1991). The autoethnographic approach privileges the voices of older women who use their own life stories and experiences to produce nuanced readings of care and old age as they are represented on screen. From this innovative approach to film through autoethnographic reflection, new concepts of “reading with care,” and “reading with age” emerge as important to our understandings of what it means to care and be cared for

Reconstituted B cell receptor signaling reveals carbohydrate-dependent mode of activation

Activation of immune cells (but not B cells) with lectins is widely known. We used the structurally defined interaction between influenza hemagglutinin (HA) and its cell surface receptor sialic acid (SA) to identify a B cell receptor (BCR) activation modality that proceeded through non-cognate interactions with antigen. Using a new approach to reconstitute antigen-receptor interactions in a human reporter B cell line, we found that sequence-defined BCRs from the human germline repertoire could be triggered by both complementarity to influenza HA and a separate mode of signaling that relied on multivalent ligation of BCR sialyl-oligosaccharide. The latter suggested a new mechanism for priming naïve B cell responses and manifested as the induction of SA-dependent pan-activation by peripheral blood B cells. BCR crosslinking in the absence of complementarity is a superantigen effect induced by some microbial products to subvert production of antigen-specific immune responses. B cell superantigen activity through affinity for BCR carbohydrate is discussed

The correlation between cardio stress and visual skills

Armed forces recruits were tested during a six month period of intense basic training. Data was collected at the start, after 12 weeks and 20 weeks. Means indicated significant decreases in cardio stress and increases in visual skills performance after 12 weeks and 20 weeks. Results indicate that cardio stress has a definite effect on visual performance.This abstract was initially presented at the annual Biological Sciences Symposium, presented under the protection of the Suid-Afrikaanse Akademie vir Wetenskap en Kuns. The symposium was held at the University of Johannesburg on 01 October 2011.http://www.satnt.ac.z

Polymorphisms in Plasmodium falciparum chloroquine resistance transporter and multidrug resistance 1 genes: parasite risk factors that affect treatment outcomes for P. falciparum malaria after artemether-lumefantrine and artesunate-amodiaquine.

Adequate clinical and parasitologic cure by artemisinin combination therapies relies on the artemisinin component and the partner drug. Polymorphisms in the Plasmodium falciparum chloroquine resistance transporter (pfcrt) and P. falciparum multidrug resistance 1 (pfmdr1) genes are associated with decreased sensitivity to amodiaquine and lumefantrine, but effects of these polymorphisms on therapeutic responses to artesunate-amodiaquine (ASAQ) and artemether-lumefantrine (AL) have not been clearly defined. Individual patient data from 31 clinical trials were harmonized and pooled by using standardized methods from the WorldWide Antimalarial Resistance Network. Data for more than 7,000 patients were analyzed to assess relationships between parasite polymorphisms in pfcrt and pfmdr1 and clinically relevant outcomes after treatment with AL or ASAQ. Presence of the pfmdr1 gene N86 (adjusted hazards ratio = 4.74, 95% confidence interval = 2.29 - 9.78, P < 0.001) and increased pfmdr1 copy number (adjusted hazards ratio = 6.52, 95% confidence interval = 2.36-17.97, P < 0.001 : were significant independent risk factors for recrudescence in patients treated with AL. AL and ASAQ exerted opposing selective effects on single-nucleotide polymorphisms in pfcrt and pfmdr1. Monitoring selection and responding to emerging signs of drug resistance are critical tools for preserving efficacy of artemisinin combination therapies; determination of the prevalence of at least pfcrt K76T and pfmdr1 N86Y should now be routine

Evaluation of visual skills in sedentary and active work environments

The two fundamental categories of vision include visual-perceptual and visual-motor skills. Visual-motor skills encompass three essential ocular motor skills, namely focusing, eye-hand coordination and tracking. The aspects of the visual perceptual process include visual memory and visualization. This study aims to determine whether there is a difference in the visual performance of individuals exposed to a sedentary work environment and those exposed to an active work environment. The participants consisted of military recruits, who underwent a 12 week intense training regimen, and second year university students, who were subjected to a battery of vision testing to determine their visual performance. It was hypothesized that training recruits will possess superior visual skills in comparison to university students. The results indicate that training recruits possess superior skills in eye-hand coordination and visualization, while students showed enhanced tracking and sequencing skills. Cardio stress indices and blood pressures were tested to determine the heart health of the subjects and whether these factors influence visual attributes. Although not significant, the results indicate a decrease in cardio stress index in training recruits although their blood pressures were higher than those of students. The results concur with previous studies, which have shown that individuals exposed to physical activity, even for a short period of time, tend to acquire superior visual skills. However, the skills are honed according to the field of expertise due to the transfer effect that occurs in the brain. The findings of the study support as well as contradict evidence regarding sports vision testing and training, thus further investigation is required to elucidate the controversy regarding vision testing.http://www.ajol.info/journal_index.php?jid=153&ab=ajpher

A strategic framework for biodiversity monitoring in South African National Parks

Protected areas are under increasing threat from a range of external and internal pressures on biodiversity. With a primary mandate being the conservation of biodiversity, monitoring is an essential component of measuring the performance of protected areas. Here we present a framework for guiding the structure and development of a Biodiversity Monitoring System (BMS) for South African National Parks (SANParks). Monitoring activities in the organisation are currently unevenly distributed across parks, taxa and key concerns: they do not address the full array of biodiversity objectives, and have largely evolved in the absence of a coherent, overarching framework. The requirement for biodiversity monitoring in national parks is clearly specified in national legislation and international policy, as well as by SANParks’ own adaptive management philosophy. Several approaches available for categorising the multitude of monitoring requirements were considered in the development of the BMS, and 10 Biodiversity Monitoring Programmes (BMPs) were selected that provide broad coverage of higher-level biodiversity objectives of parks. A set of principles was adopted to guide the development of BMPs (currently underway), and data management, resource and capacity needs will be considered during their development. It is envisaged that the BMS will provide strategic direction for future investment in this core component of biodiversity conservation and management in SANParks. Conservation implications: Monitoring biodiversity in protected areas is essential to assessing their performance. Here we provide a coordinated framework for biodiversity monitoring in South African National Parks. The proposed biodiversity monitoring system addresses the broad range of park management plan derived biodiversity objectives

Large herbivores may alter vegetation structure of semi-arid savannas through soil nutrient mediation

In savannas, the tree–grass balance is governed by water, nutrients, fire and herbivory, and their interactions. We studied the hypothesis that herbivores indirectly affect vegetation structure by changing the availability of soil nutrients, which, in turn, alters the competition between trees and grasses. Nine abandoned livestock holding-pen areas (kraals), enriched by dung and urine, were contrasted with nearby control sites in a semi-arid savanna. About 40 years after abandonment, kraal sites still showed high soil concentrations of inorganic N, extractable P, K, Ca and Mg compared to controls. Kraals also had a high plant production potential and offered high quality forage. The intense grazing and high herbivore dung and urine deposition rates in kraals fit the accelerated nutrient cycling model described for fertile systems elsewhere. Data of a concurrent experiment also showed that bush-cleared patches resulted in an increase in impala dung deposition, probably because impala preferred open sites to avoid predation. Kraal sites had very low tree densities compared to control sites, thus the high impala dung deposition rates here may be in part driven by the open structure of kraal sites, which may explain the persistence of nutrients in kraals. Experiments indicated that tree seedlings were increasingly constrained when competing with grasses under fertile conditions, which might explain the low tree recruitment observed in kraals. In conclusion, large herbivores may indirectly keep existing nutrient hotspots such as abandoned kraals structurally open by maintaining a high local soil fertility, which, in turn, constrains woody recruitment in a negative feedback loop. The maintenance of nutrient hotspots such as abandoned kraals by herbivores contributes to the structural heterogeneity of nutrient-poor savanna vegetation