On the standardization of ZooMS nomenclature
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On the standardization of ZooMS nomenclature. / Brown, Samantha; Douka, Katerina; Collins, Matthew J.; Richter, Kristine Korzow.
In: Journal of Proteomics, Vol. 235, 104041, 2021.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - On the standardization of ZooMS nomenclature
AU - Brown, Samantha
AU - Douka, Katerina
AU - Collins, Matthew J.
AU - Richter, Kristine Korzow
PY - 2021
Y1 - 2021
N2 - Zooarchaeology by Mass Spectrometry (ZooMS) is rapidly becoming a staple in archaeological and cultural heritage science. Developed a decade ago, this peptide mass fingerprinting technique is expanding from a small group of researchers mainly involved in method development to a broader group of scientists using it as another tool in their toolboxes. With new researchers beginning to use the method, it is imperative that a user-friendly, standardized approach be established. A major barrier has been the often haphazard and changing nomenclature used to label peptide markers necessary for taxonomic identification. Consistent, reliable, and easy-to-understand nomenclature is key to the growth of ZooMS, particularly as the reference library continues to expand. We propose a new set of standardized guidelines for peptide markers based on their position in the type I collagen sequence from the beginning of the highly conserved, helical region. Since this region has no insertions or deletions over a wide range of taxonomic groups, the proposed nomenclature system can be used reliably and consistently across all vertebrate taxa. We propose to label ZooMS peptide markers with the gene, followed by the position of the first and last amino acid of the marker from the start of the helical region. Significance statement: We propose a standardized nomenclature system for ZooMS peptide markers that provides consistent labels across multiple, broad taxonomic groups. This system unambiguously locates the marker peptides in the type I collagen sequence, avoids duplication of marker names, and facilitates the creation of large ZooMS databases which can include all vertebrates.
AB - Zooarchaeology by Mass Spectrometry (ZooMS) is rapidly becoming a staple in archaeological and cultural heritage science. Developed a decade ago, this peptide mass fingerprinting technique is expanding from a small group of researchers mainly involved in method development to a broader group of scientists using it as another tool in their toolboxes. With new researchers beginning to use the method, it is imperative that a user-friendly, standardized approach be established. A major barrier has been the often haphazard and changing nomenclature used to label peptide markers necessary for taxonomic identification. Consistent, reliable, and easy-to-understand nomenclature is key to the growth of ZooMS, particularly as the reference library continues to expand. We propose a new set of standardized guidelines for peptide markers based on their position in the type I collagen sequence from the beginning of the highly conserved, helical region. Since this region has no insertions or deletions over a wide range of taxonomic groups, the proposed nomenclature system can be used reliably and consistently across all vertebrate taxa. We propose to label ZooMS peptide markers with the gene, followed by the position of the first and last amino acid of the marker from the start of the helical region. Significance statement: We propose a standardized nomenclature system for ZooMS peptide markers that provides consistent labels across multiple, broad taxonomic groups. This system unambiguously locates the marker peptides in the type I collagen sequence, avoids duplication of marker names, and facilitates the creation of large ZooMS databases which can include all vertebrates.
KW - Collagen
KW - MALDI-TOF-MS
KW - Peptide mass fingerprinting
KW - Zooarcheology
KW - ZooMS
U2 - 10.1016/j.jprot.2020.104041
DO - 10.1016/j.jprot.2020.104041
M3 - Journal article
C2 - 33160104
AN - SCOPUS:85098982072
VL - 235
JO - Journal of Proteomics
JF - Journal of Proteomics
SN - 1874-3919
M1 - 104041
ER -
ID: 259669455