Norgal: Extraction and de novo assembly of mitochondrial DNA from whole-genome sequencing data

Background: Whole-genome sequencing (WGS) projects provide short read nucleotide sequences from nuclear and possibly organelle DNA depending on the source of origin. Mitochondrial DNA is present in animals and fungi, while plants contain DNA from both mitochondria and chloroplasts. Current techniques for separating organelle reads from nuclear reads in WGS data require full reference or partial seed sequences for assembling. Results: Norgal (de Novo ORGAneLle extractor) avoids this requirement by identifying a high frequency subset of k-mers that are predominantly of mitochondrial origin and performing a de novo assembly on a subset of reads that contains these k-mers. The method was applied to WGS data from a panda, brown algae seaweed, butterfly and filamentous fungus. We were able to extract full circular mitochondrial genomes and obtained sequence identities to the reference sequences in the range from 98.5 to 99.5%. We also assembled the chloroplasts of grape vines and cucumbers using Norgal together with seed-based de novo assemblers. Conclusion: Norgal is a pipeline that can extract and assemble full or partial mitochondrial and chloroplast genomes from WGS short reads without prior knowledge. The program is available at: https://bitbucket.org/kosaidtu/norgal

A Cluster Analysis of Lifestyle and Health Habits of Youth from Two Geographically and Culturally Diverse Countries

Objectives: Obesity is a leading risk factor for global mortality, promoted by poor dietary habits and sedentary behaviour. This study explores the clustering and differences in dietary habits, body mass index (BMI) and physical activity (PA) amongst youth from United Kingdom (UK) and Saudi Arabia (SA). Methods: 2290 males and females aged 15 - 17 years completed a self-report questionnaire and an objective measure of BMI. Results: Youth from SA had a higher prevalence of overweight/obesity and lower levels of PA than youth from the UK. Males were more physically active than females across both countries. Three clusters were identified: a “high risk” cluster with least healthy dietary habits, low PA and high BMI; a “moderate cluster” with moderate healthy dietary habits, PA and BMI; a “low risk” cluster with healthiest dietary habits, greatest PA and the lowest BMI compared to the other clusters. There were more SA youth in the high and moderate risk clusters compared to UK youth. Conclusions: Exploring cross-cultural and demographic characteristics of youth enables the identification of similarities and differences that might lead to the development of universal intervention strategies

Comparative Histological Study of the Stomach in Two Species of Iraqi Vertebrates (Magpie Pica pica L. and Small Asian Mongoose Herpestes javanicus E.)

          A histological study showed the wall of the stomach in Pica pica and Herpestes javanicus consists of four layers: mucosa, submucosa, muscularis externa and serosa. Also, the present study showed many  differences in the histological structures of the stomach for each in both types. The stomach of P. pica consists of two portions: the proventiculus and gizzard, while the stomach of H. javanicus consists of three portions: cardiac, fundic and pyloric regions. The mucosa layer formed short gastric folds, named plicae. In the proventiculus of P. pica, sulcus is found between each two plicae, but the folds called gastric pits in the gizzard, which are full with koilin. Lamina properia in both types contained gastric glands (straight simple tubular glands) named superficial glands, as well as another gastric gland found in the submucosa layer of the proventiculus in P. pica only named deep gastric glands. The gastric gland in the stomach of H. javanicus contained: mucous neck cells and parietal cells positive to AB/PAS stains in cardiac portion, as well as chief cells in fundic portion, but pyloric portion had just mucous neck cells. Muscularis externa in both types formed two muscle layers: inner and outer layer

The use of a permanently controlled biliary fistula in the sheep to study the excretion of carbon tetrachloride in the bile.

http://www.worldcat.org/oclc/1114987

Leading Technological Change - Case Study of Emirates Airlines

Purpose: Emirates Airlines is one of the leading airlines with over 100 international destinations. The airline sector is continually evolving, bringing both difficulties and possibilities. Emirates Airlines has reacted to these changes by effecting an organizational change plan. Implementing a Resource Management System (RMS) in the line maintenance department is the primary subject of this study since it was the main change in the Emirates. Based on specified criteria and flight updates, the RMS software program produces jobs for technicians and engineers. Therefore the study aims to evaluate how the organization handles the change process after introducing new technological applications in the emirates airlines. Methodology: This study employs various qualitative research techniques, including interviews. Findings: The study reveals that critical leadership traits for implementing change include self-awareness, self-regulation, empathy, self-motivation, and social skills. Embracing change enables organizations to enhance their services and provide a distinct competitive edge compared to resistance, which can render the firm irrelevant. Resistance to change mainly occurs due to inadequate information, poor comprehension, and varying visions (Elgohary & Abdelazyz, 2020). Unique Contribution to Theory, Practice and Policy: The study was anchored on change model. The study recommends that the RMS should benefits the department by improving labor utilization, lowering maintenance costs, and raising customer satisfaction

Experimental Models of Short Courses of Liposomal Amphotericin B for Induction Therapy for Cryptococcal Meningitis.

Cryptococcal meningoencephalitis is a rapidly lethal infection in immunocompromised patients. Induction regimens are usually administered for 2-weeks. The shortest effective period of induction therapy with liposomal amphotericin B (LAmB) is unknown. The pharmacodynamics of LAmB were studied in murine and rabbit models of cryptococcal meningoencephalitis. The concentrations of LAmB in plasma and brain of mice were measured using HPLC. Histopathological changes were determined. The penetration of LAmB into the brain was determined by immunohistochemistry using an antibody directed to amphotericin B. A dose-dependent decline in fungal burden was observed in the brain of mice with near-maximal efficacy achieved with LAmB 10-20 mg/kg/day. The terminal elimination half-life in brain was 133 hours. The pharmacodynamics of a single dose of 20 mg/kg was the same as 20 mg/kg/day administered for 2 weeks. Changes in quantitative counts were reflected by histopathological changes in the brain. Three doses of LAmB 5 mg/kg/day in rabbits were required to achieve fungicidal activity in cerebrospinal fluid (cumulative AUC 2500 mg.h/L). Amphotericin B was visible in the intra- and perivascular spaces, leptomeninges and choroid plexus. The prolonged mean residence time of amphotericin B in the brain suggest abbreviated induction regimens of LAmB are possible for cryptococcal meningoencephalitis