Assessing garcinia afzelii harvest and trade : case study of Southeast Liberia

57 páginas.Trabajo Fin de Máster Propio. Tutores: Dr. Johnson J. Geply ; Dr. Seyni Abdoul-Aziz. Garcinia afzelii is a polygamous evergreen tree species that belongs to the family Clusiaceae. Its geographic range extends across Central and West tropical Africa, mainly, in Nigeria, Cameroon, Central Africa Republic, Congo, Gabon, Ghana, Côte d’Ivoire, Liberia, Sierra Leone, and Guinea. There are special biotic chemicals contained in Garcinia afzelii for which it is highly desirable for trade. The tree species has been assessed by the IUCN Red List of Threatened Species in 2013 and is categorized as Vulnerable due to its decline in the wild as a result of extraction and overexploitation. The study was carried out in Southeast Liberia with the general objective to analyze and map the areas of Garcinia afzelii harvest and trade. Four counties in Southeast Liberia, namely Grand Gedeh, Grand Kru, River Gee, and Sinoe were purposively selected for data collection based on important harvest sites, accessibility to towns, and the number of actors in the value chain of Garcinia afzelii. Participatory Rural Appraisal (PRA) tools were used to gather data from transporters, traditional leaders, Forestry Development Authority (FDA) staff, Police, immigration officers, and Liberia Revenue Authority (LRA) agents. Key questions were asked in the study that addressed the socio-economic and demographic characteristics of the major actors in the value chain, trade regulations, and the role played by local communities in the harvest of Garcinia afzelii. A total of 225 individuals (203 harvesters and 22 traders) were sampled in 17 communities across Southeast Liberia. For the majority of the harvesters, 115 (56.7%) age range was found between 18 to 35 years and followed by 81 (39.9%) who have an age range between 36 to 50 years. 7 (3.5%) of the harvesters have attained 50 years and above. 142 (70%) of the total harvesters interviewed are self-employed. The general overview of the harvesters’ level of education from the results revealed 51.7% have attained elementary education, 30.5% with junior high education, 16.3% with senior high-level education, and 1.5% obtained no education. 14.8% of the harvesters generate their income from the sale of Garcinia afzelii. Key to addressing gender aspects in the value chain of Garcinia afzelii, women’s involvement was addressed. Women’s involvement comes at the town leadership level where they play a vital role in regulating the harvest and having opinions on the determination of the Garcinia afzelii round pole price. A total of 17 focus group discussions were held where women constituted 6% of the total 127 respondents. Income generated from Garcinia afzelii sale by both the harvesters and traders is used for health, feeding, small trade, and education. Despite the FDA has promulgated the National Forestry Reform Law of 2006 which provides guidelines for the use, management, and protection of forest resources, there is increasing demand for Garcinia afzelii coupled with a lack of proper monitoring and enforcement of the harvest and trade regulations. Recommendations include more awareness raising for local communities on harvest and trade guidelines for Non-Timber Forest Products (NTFPs) and the FDA and the Community Forest Management Board need to coordinate to promote effective enforcement measures to regulate the harvest and trade of Garcinia afzelii

MUSTANG: 90 GHz Science with the Green Bank Telescope

MUSTANG is a 90 GHz bolometer camera built for use as a facility instrument on the 100 m Robert C. Byrd Green Bank radio telescope (GBT). MUSTANG has an 8 by 8 focal plane array of transition edge sensor bolometers read out using time-domain multiplexed SQUID electronics. As a continuum instrument on a large single dish MUSTANG has a combination of high resolution (8") and good sensitivity to extended emission which make it very competitive for a wide range of galactic and extragalactic science. Commissioning finished in January 2008 and some of the first science data have been collected.Comment: 9 Pages, 5 figures, Presented at the SPIE conference on astronomical instrumentation in 200

Investigating knowledge management factors affecting Chinese ICT firms performance: An integrated KM framework

This is an Author's Accepted Manuscript of an article published in the Journal of Information Systems Management, 28(1), 19 - 29, 2011, copyright Taylor & Francis, available online at: http://www.tandfonline.com/10.1080/10580530.2011.536107.This article sets out to investigate the critical factors of Knowledge Management (KM) which are considered to have an impact on the performance of Chinese information and communication technology (ICT) firms. This study confirms that the cultural environment of an enterprise is central to its success in the context of China. It shows that a collaborated, trusted, and learning environment within ICT firms will have a positive impact on their KM performance

SillyPutty: Improved clustering by optimizing the silhouette width

Clustering is an important task in biomedical science, and it is widely believed that different data sets are best clustered using different algorithms. When choosing between clustering algorithms on the same data set, reseachers typically rely on global measures of quality, such as the mean silhouette width, and overlook the fine details of clustering. However, the silhouette width actually computes scores that describe how well each individual element is clustered. Inspired by this observation, we developed a novel clustering method, called SillyPutty. Unlike existing methods, SillyPutty uses the silhouette width for individual elements as a tool to optimize the mean silhouette width. This shift in perspective allows for a more granular evaluation of clustering quality, potentially addressing limitations in current methodologies. To test the SillyPutty algorithm, we first simulated a series of data sets using the Umpire R package and then used real-workd data from The Cancer Genome Atlas. Using these data sets, we compared SillyPutty to several existing algorithms using multiple metrics (Silhouette Width, Adjusted Rand Index, Entropy, Normalized Within-group Sum of Square errors, and Perfect Classification Count). Our findings revealed that SillyPutty is a valid standalone clustering method, comparable in accuracy to the best existing methods. We also found that the combination of hierarchical clustering followed by SillyPutty has the best overall performance in terms of both accuracy and speed. Availability: The SillyPutty R package can be downloaded from the Comprehensive R Archive Network (CRAN)

Pattern recognition in lymphoid malignancies using CytoGPS and Mercator

BACKGROUND: There have been many recent breakthroughs in processing and analyzing large-scale data sets in biomedical informatics. For example, the CytoGPS algorithm has enabled the use of text-based karyotypes by transforming them into a binary model. However, such advances are accompanied by new problems of data sparsity, heterogeneity, and noisiness that are magnified by the large-scale multidimensional nature of the data. To address these problems, we developed the Mercator R package, which processes and visualizes binary biomedical data. We use Mercator to address biomedical questions of cytogenetic patterns relating to lymphoid hematologic malignancies, which include a broad set of leukemias and lymphomas. Karyotype data are one of the most common form of genetic data collected on lymphoid malignancies, because karyotyping is part of the standard of care in these cancers. RESULTS: In this paper we combine the analytic power of CytoGPS and Mercator to perform a large-scale multidimensional pattern recognition study on 22,741 karyotype samples in 47 different hematologic malignancies obtained from the public Mitelman database. CONCLUSION: Our findings indicate that Mercator was able to identify both known and novel cytogenetic patterns across different lymphoid malignancies, furthering our understanding of the genetics of these diseases

De Novo Mutations in SLC1A2 and CACNA1A Are Important Causes of Epileptic Encephalopathies

Epileptic encephalopathies (EEs) are the most clinically important group of severe early-onset epilepsies. Next-generation sequencing has highlighted the crucial contribution of de novo mutations to the genetic architecture of EEs as well as to their underlying genetic heterogeneity. Our previous whole-exome sequencing study of 264 parent-child trios revealed more than 290 candidate genes in which only a single individual had a de novo variant. We sought to identify additional pathogenic variants in a subset (n = 27) of these genes via targeted sequencing in an unsolved cohort of 531 individuals with a diverse range of EEs. We report 17 individuals with pathogenic variants in seven of the 27 genes, defining a genetic etiology in 3.2% of this unsolved cohort. Our results provide definitive evidence that de novo mutations in SLC1A2 and CACNA1A cause specific EEs and expand the compendium of clinically relevant genotypes for GABRB3. We also identified EEs caused by genetic variants in ALG13, DNM1, and GNAO1 and report a mutation in IQSEC2. Notably, recurrent mutations accounted for 7/17 of the pathogenic variants identified. As a result of high-depth coverage, parental mosaicism was identified in two out of 14 cases tested with mutant allelic fractions of 5%–6% in the unaffected parents, carrying significant reproductive counseling implications. These results confirm that dysregulation in diverse cellular neuronal pathways causes EEs, and they will inform the diagnosis and management of individuals with these devastating disorders

Monitoring the kinetics of the pH driven transition of the anthrax toxin prepore to the pore by biolayer interferometry and surface plasmon resonance

Domain 2 of the anthrax protective antigen (PA) prepore heptamer unfolds and refolds during endosome acidification to generate an extended 100 Å beta barrel pore that inserts into the endosomal membrane. The PA pore facilitates the pH dependent unfolding and translocation of bound toxin enzymic components, lethal factor (LF) and/or edema factor (EF), from the endosome into the cytoplasm. We constructed immobilized complexes of the prepore with the PA-binding domain of LF (LFN) to monitor the real-time prepore to pore kinetic transition using surface plasmon resonance (SPR) and bio-layer interferometry (BLI). The kinetics of this transition increased as the solution pH was decreased from pH 7.5 to pH 5.0, mirroring acidification of the endosome. Once transitioned, the LFN-PA pore complex was removed from the BLI biosensor tip and deposited onto EM grids, where the PA pore formation was confirmed by negative stain electron microscopy. When the soluble receptor domain (ANTRX2/CMG2) binds the immobilized PA prepore, the transition to the pore state was observed only after the pH was lowered to early or late endosomal pH conditions (5.5 to 5.0 respectively). Once the pore formed, the soluble receptor readily dissociated from the PA pore. Separate binding experiments with immobilized PA pores and soluble receptor indicate that the receptor has a weakened propensity to bind to the transitioned pore. This immobilized anthrax toxin platform can be used to identify or validate potential antimicrobial lead compounds capable of regulating and/or inhibiting anthrax toxin complex formation or pore transitions

Evaluation of high-dose daptomycin for therapy of experimental Staphylococcus aureus foreign body infection

BACKGROUND: Daptomycin is a novel cyclic lipopeptide whose bactericidal activity is not affected by current antibiotic resistance mechanisms displayed by S. aureus clinical isolates. This study reports the therapeutic activity of high-dose daptomycin compared to standard regimens of oxacillin and vancomycin in a difficult-to-treat, rat tissue cage model of experimental therapy of chronic S. aureus foreign body infection. METHODS: The methicillin-susceptible S. aureus (MSSA) strain I20 is a clinical isolate from catheter-related sepsis. MICs, MBCs, and time-kill curves of each antibiotic were evaluated as recommended by NCCLS, including supplementation with physiological levels (50 mg/L) of Ca(2+ )for daptomycin. Two weeks after local infection of subcutaneously implanted tissue cages with MSSA I20, each animal received (i.p.) twice-daily doses of daptomycin, oxacillin, or vancomycin for 7 days, or was left untreated. The reductions of CFU counts in each treatment group were analysed by ANOVA and Newman-Keuls multiple comparisons procedures. RESULTS: The MICs and MBCs of daptomycin, oxacillin, or vancomycin for MSSA strain I20 were 0.5 and 1, 0.5 and 1, or 1 and 2 mg/L, respectively. In vitro elimination of strain I20 was more rapid with 8 mg/L of daptomycin compared to oxacillin or vancomycin. Twice-daily administered daptomycin (30 mg/kg), oxacillin (200 mg/kg), or vancomycin (50 mg/kg vancomycin) yielded bactericidal antibiotic levels in infected cage fluids throughout therapy. Before therapy, mean (± SEM) viable counts of strain I20 were 6.68 ± 0.10 log(10 )CFU/mL of cage fluid (n = 74). After 7 days of therapy, the mean (± SEM) reduction in viable counts of MSSA I20 was 2.62 (± 0.30) log(10 )CFU/mL in cages (n = 18) of daptomycin-treated rats, exceeding by >2-fold (P < 0.01) the viable count reductions of 0.92 (± 0.23; n = 19) and 0.96 (± 0.24; n = 18) log(10 )CFU/mL in cages of oxacillin-treated and vancomycin-treated rats, respectively. Viable counts in cage fluids of untreated animals increased by 0.48 (± 0.24; n = 19) log(10 )CFU/mL. CONCLUSION: The improved efficacy of the twice-daily regimen of daptomycin (30 mg/kg) compared to oxacillin (200 mg/kg) or vancomycin (50 mg/kg) may result from optimisation of its pharmacokinetic and bactericidal properties in infected cage fluids