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Type material in the NCBI Taxonomy Database.

Federhen S - Nucleic Acids Res. (2014)

Bottom Line: Type material is the taxonomic device that ties formal names to the physical specimens that serve as exemplars for the species.For the prokaryotes these are strains submitted to the culture collections; for the eukaryotes they are specimens submitted to museums or herbaria.This has important implications for many NCBI resources, some of which are outlined below.

View Article: PubMed Central - PubMed

Affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA federhen@ncbi.nlm.nih.gov.

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Correctly identified but taxonomically misplaced species, in need of a formal taxonomic revision.
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Related In: Results  -  Collection


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Figure 1: Correctly identified but taxonomically misplaced species, in need of a formal taxonomic revision.

Mentions: It is also important to realize that just because a name is valid and an entry is correctly identified that does not necessarily mean that the classification makes sense (Figure 1). Bacteroides pectinophilus is a validly published name, and ATCC 43243 is the type strain (from which we have a whole-genome shotgun (WGS) genome)—but it clearly does not belong with the rest of the genus Bacteroides (which we list in a different bacterial division, the equivalent of a eukaryotic phylum). That is the significance of the square brackets around the genus name in the species binomial. This species and others like it are waiting for someone to publish a revision that updates the nomenclature in an appropriate fashion.


Type material in the NCBI Taxonomy Database.

Federhen S - Nucleic Acids Res. (2014)

Correctly identified but taxonomically misplaced species, in need of a formal taxonomic revision.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4383940&req=5

Figure 1: Correctly identified but taxonomically misplaced species, in need of a formal taxonomic revision.
Mentions: It is also important to realize that just because a name is valid and an entry is correctly identified that does not necessarily mean that the classification makes sense (Figure 1). Bacteroides pectinophilus is a validly published name, and ATCC 43243 is the type strain (from which we have a whole-genome shotgun (WGS) genome)—but it clearly does not belong with the rest of the genus Bacteroides (which we list in a different bacterial division, the equivalent of a eukaryotic phylum). That is the significance of the square brackets around the genus name in the species binomial. This species and others like it are waiting for someone to publish a revision that updates the nomenclature in an appropriate fashion.

Bottom Line: Type material is the taxonomic device that ties formal names to the physical specimens that serve as exemplars for the species.For the prokaryotes these are strains submitted to the culture collections; for the eukaryotes they are specimens submitted to museums or herbaria.This has important implications for many NCBI resources, some of which are outlined below.

View Article: PubMed Central - PubMed

Affiliation: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA federhen@ncbi.nlm.nih.gov.

Show MeSH