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32 results on '"Punchihewa S"'

30. Digest: Individual- and population-level effects of SARS-CoV-2 evolution and changing preventative measures.

Author

Punchihewa S

Subjects
Humans, COVID-19 prevention & control, COVID-19 epidemiology, COVID-19 transmission, COVID-19 virology, SARS-CoV-2 genetics
Abstract

Although COVID-19 is no longer classified as a pandemic, variants of SARS-CoV-2 continue to arise. It is critical to understand how changes in viral characteristics, public policy, and behavior affect disease load and mortality. An analysis by Otto et al. (2024) shows that changes in transmission rate and immunological properties have differing effects on disease load, even among variants with similar selective advantages. The impact of various strategies aimed at countering disease spread is also analyzed., (© The Author(s) 2024. Published by Oxford University Press on behalf of The Society for the Study of Evolution (SSE). All rights reserved. For commercial re-use, please contact reprints@oup.com for reprints and translation rights for reprints. All other permissions can be obtained through our RightsLink service via the Permissions link on the article page on our site—for further information please contact journals.permissions@oup.com.)

Published
2024
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31. Genopo: a nanopore sequencing analysis toolkit for portable Android devices.

Author

Samarakoon H, Punchihewa S, Senanayake A, Hammond JM, Stevanovski I, Ferguson JM, Ragel R, Gamaarachchi H, and Deveson IW

Subjects
Betacoronavirus pathogenicity, COVID-19, Cell Phone instrumentation, Computational Biology instrumentation, Coronavirus Infections diagnosis, Coronavirus Infections virology, DNA Methylation, High-Throughput Nucleotide Sequencing instrumentation, Humans, Nanopores, Pandemics, Pneumonia, Viral diagnosis, Pneumonia, Viral virology, SARS-CoV-2, Whole Genome Sequencing instrumentation, Betacoronavirus genetics, Computational Biology methods, Genome, Human, Genome, Viral, High-Throughput Nucleotide Sequencing methods, Whole Genome Sequencing methods
Abstract

The advent of portable nanopore sequencing devices has enabled DNA and RNA sequencing to be performed in the field or the clinic. However, advances in in situ genomics require parallel development of portable, offline solutions for the computational analysis of sequencing data. Here we introduce Genopo, a mobile toolkit for nanopore sequencing analysis. Genopo compacts popular bioinformatics tools to an Android application, enabling fully portable computation. To demonstrate its utility for in situ genome analysis, we use Genopo to determine the complete genome sequence of the human coronavirus SARS-CoV-2 in nine patient isolates sequenced on a nanopore device, with Genopo executing this workflow in less than 30 min per sample on a range of popular smartphones. We further show how Genopo can be used to profile DNA methylation in a human genome sample, illustrating a flexible, efficient architecture that is suitable to run many popular bioinformatics tools and accommodate small or large genomes. As the first ever smartphone application for nanopore sequencing analysis, Genopo enables the genomics community to harness this cheap, ubiquitous computational resource.

Published
2020
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32. Urtica ferox neuropathy.

Author

Hammond-Tooke GD, Taylor P, Punchihewa S, and Beasley M

Subjects
Action Potentials drug effects, Action Potentials physiology, Adult, Electromyography, Gait Disorders, Neurologic diagnosis, Gait Disorders, Neurologic physiopathology, Humans, Inflammation Mediators adverse effects, Male, Muscle Weakness diagnosis, Muscle Weakness physiopathology, Muscle, Skeletal innervation, Muscle, Skeletal physiopathology, Neural Conduction drug effects, Neural Conduction physiology, New Zealand, Peripheral Nerves drug effects, Peripheral Nerves physiopathology, Plant Extracts adverse effects, Polyneuropathies diagnosis, Polyneuropathies physiopathology, Reflex, Abnormal drug effects, Reflex, Abnormal physiology, Sensation Disorders chemically induced, Sensation Disorders physiopathology, Urticaceae chemistry, Gait Disorders, Neurologic chemically induced, Muscle Weakness chemically induced, Muscle, Skeletal drug effects, Neurotoxins poisoning, Polyneuropathies chemically induced, Urticaceae adverse effects
Abstract

A 21-year-old student developed an acute, symmetrical, predominantly motor polyneuropathy within 48 h of walking through a patch of nettles (Urtica ferox). Two companions had similar but less severe symptoms. Nerve conduction studies demonstrated markedly reduced compound muscle action potentials and prolonged distal motor latencies. Recovery occurred over a period of a few weeks. This case demonstrates that cutaneous exposure to Urtica ferox can cause an acute polyneuropathy and that its stinging hairs contain an unidentified neurotoxin.

Published
2007
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