UACG: Up-to-Date Archaeal Core Genes and Software for Phylogenomic Tree Reconstruction

Na, Seong-In; Bailey, Michael James; Chalita, Mauricio; Cho, Jae Hyoung; Chun, Jongsik

doi:10.1007/s12275-023-00064-2

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Use Of Whole Genome Sequence Data For Phylogenomic Tree Infe...1

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2024

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“…As a widely used example of this approach is the EzBioCloud UBCG pipeline, which relies on the identification of a fixed number of single copy bacterial core genes to infer a phylogeny [35]. In recent times, different versions of this pipeline have been developed, allowing for archaeal and even fungal phylogenies (UACG and UFCG) [36][37][38].…”

Section: Use Of Whole Genome Sequence Data For Phylogenomic Tree Infe...mentioning

confidence: 99%

Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

Riesco,

Trujillo

2024

International Journal of Systematic and Evolutionary Microbiology

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The field of microbial taxonomy is dynamic, aiming to provide a stable and contemporary classification system for prokaryotes. Traditionally, reliance on phenotypic characteristics limited the comprehensive understanding of microbial diversity and evolution. The introduction of molecular techniques, particularly DNA sequencing and genomics, has transformed our perception of prokaryotic diversity. In the past two decades, advancements in genome sequencing have transitioned from traditional methods to a genome-based taxonomic framework, not only to define species, but also higher taxonomic ranks. As technology and databases rapidly expand, maintaining updated standards is crucial. This work seeks to revise the 2018 guidelines for applying genome sequencing data in microbial taxonomy, adapting minimal standards and recommendations to reflect technological progress during this period.

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Section: Use Of Whole Genome Sequence Data For Phylogenomic Tree Infe...mentioning

confidence: 99%

Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

Riesco,

Trujillo

2024

International Journal of Systematic and Evolutionary Microbiology

View full text Add to dashboard Cite

show abstract

UACG: Up-to-Date Archaeal Core Genes and Software for Phylogenomic Tree Reconstruction

Cited by 1 publication

References 46 publications

Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes

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