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Biology subjects

Mostafa, H.

Publications and source records attributed to Mostafa, H..

2 recordsLinked to original sources

Applying Machine Learning Technology in the Prediction of Crop Infestation with Cotton Leafworm in Greenhouse

The use of technology in agriculture has grown in recent years with the era of data analytics affecting every industry. The main challenge in using technology in agriculture is identification of effectiveness of big data analytics algorithms and their application methods. Pest management is one of the most important problems facing farmers. The cotton leafworm, Spodoptera littoralis (Boisd.) (CLW) is one of the major polyphagous key pests attacking plants includes 73 species recorded at Egypt. In the present study, several machine learning algorithms have been implemented to predict plant infestation with CLW. The moth of CLW data was weekly collected for two years in a commercial hydroponic greenhouse. Furthermore, among other features temperature and relative humidity were recorded over the total period of the study. It was proven that the XGBoost algorithm is the most effective algorithm applied in this study. Prediction accuracy of 84 % has been achieved using this algorithm. The impact of environmental features on the prediction accuracy was compared with each other to ensure a complete dataset for future results. In conclusion, the present study provided a framework for applying machine learning in the prediction of plant infestation with the CLW in the greenhouses. Based on this framework, further studies with continuous measurements are warranted to achieve greater accuracy.

bioinformatics

Highly multiplexed oligonucleotide probe-ligation testing enables efficient extraction-free SARS-CoV-2 detection and viral genotyping

The emergence of SARS-CoV-2 has caused the current COVID-19 pandemic with catastrophic societal impact. Because many individuals shed virus for days before symptom onset, and many show mild or no symptoms, an emergent and unprecedented need exists for development and deployment of sensitive and high throughput molecular diagnostic tests. RNA-mediated oligonucleotide Annealing Selection and Ligation with next generation DNA sequencing (RASL-seq) is a highly multiplexed technology for targeted analysis of polyadenylated mRNA, which incorporates sample barcoding for massively parallel analyses. Here we present a more generalized method, capture RASL-seq (“cRASL-seq”), which enables analysis of any targeted pathogen-(and/or host-) associated RNA molecules. cRASL-seq enables highly sensitive (down to ∼1-100 pfu/ml or cfu/ml) and highly multiplexed (up to ∼10,000 target sequences) detection of pathogens. Importantly, cRASL-seq analysis of COVID-19 patient nasopharyngeal (NP) swab specimens does not involve nucleic acid extraction or reverse transcription, steps that have caused testing bottlenecks associated with other assays. Our simplified workflow additionally enables the direct and efficient genotyping of selected, informative SARS-CoV-2 polymorphisms across the entire genome, which can be used for enhanced characterization of transmission chains at population scale and detection of viral clades with higher or lower virulence. Given its extremely low per-sample cost, simple and automatable protocol and analytics, probe panel modularity, and massive scalability, we propose that cRASL-seq testing is a powerful new surveillance technology with the potential to help mitigate the current pandemic and prevent similar public health crises.Competing Interest StatementJ.J.C. and H.B.L. are listed as inventors on a patent describing the cRASL-seq method. H.B.L. has founded a company to license and commercialize oligonucleotide probe ligation related technologies.View Full Text

pathology