TY - JOUR

T1 - Precision nomenclature for the new genomics

AU - Lewin, Harris A.

AU - Graves, Jennifer A.Marshall

AU - Ryder, Oliver A.

AU - Graphodatsky, Alexander S.

AU - O'Brien, Stephen J.

N1 - © The Author(s) 2019. Published by Oxford University Press.

PY - 2019/8/1

Y1 - 2019/8/1

N2 - The confluence of two scientific disciplines may lead to nomenclature conflicts that require new terms while respecting historical definitions. This is the situation with the current state of cytology and genomics, which offer examples of distinct nomenclature and vocabularies that require reconciliation. In this article, we propose the new terms C-scaffold (for chromosome-scale assemblies of sequenced DNA fragments, commonly named scaffolds) and scaffotype (the resulting collection of C-scaffolds that represent an organism's genome). This nomenclature avoids conflict with the historical definitions of the terms chromosome (a microscopic body made of DNA and protein) and karyotype (the collection of images of all chromosomes of an organism or species). As large-scale sequencing projects progress, adoption of this nomenclature will assist end users to properly classify genome assemblies, thus facilitating genomic analysis.

AB - The confluence of two scientific disciplines may lead to nomenclature conflicts that require new terms while respecting historical definitions. This is the situation with the current state of cytology and genomics, which offer examples of distinct nomenclature and vocabularies that require reconciliation. In this article, we propose the new terms C-scaffold (for chromosome-scale assemblies of sequenced DNA fragments, commonly named scaffolds) and scaffotype (the resulting collection of C-scaffolds that represent an organism's genome). This nomenclature avoids conflict with the historical definitions of the terms chromosome (a microscopic body made of DNA and protein) and karyotype (the collection of images of all chromosomes of an organism or species). As large-scale sequencing projects progress, adoption of this nomenclature will assist end users to properly classify genome assemblies, thus facilitating genomic analysis.

UR - http://www.scopus.com/inward/record.url?scp=85071515417&partnerID=8YFLogxK

U2 - 10.1093/gigascience/giz086

DO - 10.1093/gigascience/giz086

M3 - Review article

C2 - 31437278

AN - SCOPUS:85071515417

VL - 8

JO - GigaScience

JF - GigaScience

SN - 2047-217X

IS - 8

M1 - giz086

ER -