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Bacteria and archaeBioinformaticsEpigenomicsEvolutionary genomics
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2 articles found
2020-10-09
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An evaluation of pool-sequencing transcriptome-based exon capture for population genomics in non-model species
Emeline Deleury, Thomas Guillemaud, Aurélie Blin & Eric Lombaert
https://doi.org/10.1101/583534

Recommended by Thomas Derrien and Sebastian Ramos-Onsins based on reviews by Valentin Wucher and 1 anonymous reviewer
Assessing a novel sequencing-based approach for population genomics in non-model species

Developing new sequencing and bioinformatic strategies for non-model species is of great interest in many applications, such as phylogenetic studies of diverse related species, but also for studies in population genomics, where a relatively large number of individuals is necessary. Different approaches have been developed and used in these last two decades, such as RAD-Seq (e.g., Miller et al. 2007), exome sequencing (e.g., Teer and Mullikin 2010) and other genome reduced representation methods ...

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2020-09-24
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A rapid and simple method for assessing and representing genome sequence relatedness
M Briand, M Bouzid, G Hunault, M Legeay, M Fischer-Le Saux, M Barret
10.1101/569640

Recommended by B. Jesse Shapiro based on reviews by Gavin Douglas and 1 anonymous reviewer
A quick alternative method for resolving bacterial taxonomy using short identical DNA sequences in genomes or metagenomes

The bacterial species problem can be summarized as follows: bacteria recombine too little, and yet too much (Shapiro 2019).
Too little in the sense that recombination is not obligately coupled with reproduction, as in sexual eukaryotes. So the Biological Species Concept (BSC) of reproductive isolation does not strictly apply to clonally reproducing organisms like bacteria. Too much in the sense that genetic exchange can occur promiscuously across species (or even Domains), potentially obscur...

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