I thought to examine signal of natural evolution in #nCoV2019 by looking at distribution of mutations in the lineage leading to nCoV and compare this distribution to mutations occurring in other SARS-like bat viruses 1/9
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The
#nCoV2019 lineage has 79 amino acid changes and 554 nucleotide changes relative to this common ancestor, so that only 14.3% of changes result in differences in amino acid. 5/9Prikaži ovu nit -
Evolutionary biologists commonly use the ratio of amino acid changes to nucleotide changes to look for natural selection (https://en.wikipedia.org/wiki/Ka/Ks_ratio …). Observing 14% of changes as amino acid changes fits with common expectations for sequences evolving under purifying selection. 6/9
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And in fact we see that the RaTG13 lineage has 79 amino acid changes and 563 nucleotide changes for a ratio of 14.2%. Thus we see that the outbreak virus has a similar distribution of nucleotide vs amino acid changes as its closest bat virus relative. 7/9pic.twitter.com/Uw2Evu9qTo
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Additionally, I thought to look at the distribution of amino acid changes across genes in the virus genome. In this case, we see highly similar distributions between the nCoV lineage and its closest bat virus relative. 8/9pic.twitter.com/oLyZPHSNgy
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Looking at mutation distributions, it appears that the genetic differences in
#nCoV2019 are consistent with differences expected to arise during natural evolution, as I would expect engineering to have a distorted AA to nuc ratio and to focus on changing a subset of genes 9/9Prikaži ovu nit -
If you'd like to investigate yourself, you can either run the entire openly available bioinformatics pipeline here https://github.com/blab/sars-like-cov … or just work from the resulting JSON file that contains all of these mutation calls here https://raw.githubusercontent.com/blab/sars-like-cov/master/auspice/sars-like-cov.json …
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I feel like I read in an article that the full genome suggested there was recombination between two (still relatively closely related) coronaviruses. Does this ring any bells? I’ve read so many damn nCoV papers over the past few days, it is going to be hell finding it again...
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Yep. But now kind of old news given the RaT bat CoV which is 96% identical to novelCoV across their genomes
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have you been interested in reading any of Prof. Zhengli's from the wuhan institute of virology research papers? she has been studying these viruses since 2006, she has coauthored about 130 papers. the institute warned about these possible viruses
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Batman was "created" in 1939. Coincidence? I think so.
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Čini se da učitavanje traje već neko vrijeme.
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