Bypassing Cultivation To Identify Bacterial Species: Culture-independent genomic approaches identify credibly distinct clusters, avoid cultivation bias, and provide true insights into microbial…

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Uncultivated microbes in need of their own taxonomy (2017, background): “The above genome-quality standards have been shown to work well with the latter methods and tools in our hands and the experience of others (Albertsen et al., 2013; Rodriguez-R and Konstantinidis, 2014).”
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes (2016, methodology): “…the ANI and AAI calculators, and 167 previously reported tools like Nonpareil (Rodriguez-R & Konstantinidis, 2014b), a tool to estimate the level 168 of coverage in metagenomic samples, and MyTaxa (Luo, Rodriguez-R & Konstantinidis, 2014), a 169 taxonomic classification tool for sequence fragments.”