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DNA-DNA hybridization values and their relationship to whole-genome sequence similarities.
TLDR
It is concluded that ANI can accurately replace DDH values for strains for which genome sequences are available and reveal extensive gene diversity within the current concept of "species". Expand
Genomic insights that advance the species definition for prokaryotes.
TLDR
The average nucleotide identity of the shared genes between two strains was found to be a robust means to compare genetic relatedness among strains, and that ANI values of approximately 94% corresponded to the traditional 70% DNA-DNA reassociation standard of the current species definition. Expand
Towards a Genome-Based Taxonomy for Prokaryotes
TLDR
The AAI-based approach provides a means to evaluate the robustness of alternative genetic markers for phylogenetic purposes, and could contribute significantly to a genome-based taxonomy for all microbial organisms. Expand
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
TLDR
FastANI is developed, a method to compute ANI using alignment-free approximate sequence mapping, and it is shown 95% ANI is an accurate threshold for demarcating prokaryotic species by analyzing about 90,000 proKaryotic genomes. Expand
Unexpected nondenitrifier nitrous oxide reductase gene diversity and abundance in soils
TLDR
It is demonstrated that diverse microbial taxa possess divergent nos clusters with genes that are related yet evolutionarily distinct from the typical nos genes of denitirifers, and that nondenitrifying populations with a broad range of metabolisms and habitats are potentially significant contributors to N2O consumption. Expand
Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum
TLDR
The C. symbiosum genome was remarkably distinct from those of other known Archaea and shared many core metabolic features in common with its free-living planktonic relatives. Expand
Microbial species delineation using whole genome sequences
TLDR
This work demonstrates that the combination of gANI and the alignment fraction between two genomes accurately reflects their genomic relatedness, and proposes this precise and objective AF,gANI-based species definition: the MiSI (Microbial Species Identifier) method, to be used to address previous inconsistencies in species classification. Expand
The bacterial species definition in the genomic era
TLDR
The analysis of five important bacterial groups suggests, however, that more stringent standards for species may be justifiable when a solid understanding of gene content and ecological distinctiveness becomes available and the idea of biologically meaningful clusters of diversity may not be universally applicable in the microbial world. Expand
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
TLDR
Two standards developed by the Genomic Standards Consortium (GSC) for reporting bacterial and archaeal genome sequences are presented, including the Minimum Information about a Single Amplified Genome (MISAG) and the Minimum information about a Metagenome-Assembled Genomes (MIMAG), including estimates of genome completeness and contamination. Expand
Comparative Metagenomic Analysis of a Microbial Community Residing at a Depth of 4,000 Meters at Station ALOHA in the North Pacific Subtropical Gyre
TLDR
The authors' analyses indicated that the deep-sea lifestyle is likely facilitated by a collection of very subtle adaptations, as opposed to dramatic alterations of gene content or structure, which appear to include higher metabolic versatility and genomic plasticity to cope with the sparse and sporadic energy resources available. Expand
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