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Supplementary information from: An extensive archaeological dental calculus dataset spanning 5000 years for ancient human oral microbiome research (Version: 1)

<b>Abstract</b><br/><div> <div> <div> <div> <p>Archaeological dental calculus can provide detailed insights into the ancient human oral microbiome. We offer a multi-period, multi-site, ancient shotgun metagenomic dataset consisting of 174 samples obtained primarily from archaeological dental calculus derived from various skeletal collections in the United Kingdom. This article describes all the materials used, including the skeletons’ historical period and burial location, biological sex, and age determination, data accessibility, and additional details associated with environmental and laboratory controls. In addition, this article describes the laboratory and bioinformatic methods associated with the dataset development and discusses the technical validity of the data following quality assessments, damage evaluations, and decontamination procedures. Our approach to collecting, making accessible, and evaluating bioarchaeological metadata in advance of metagenomic analysis aims to further enable the exploration of archaeological science topics such as diet, disease, and antimicrobial resistance (AMR).</p> </div> </div> </div> </div>

Authors

Standeven, Francesca ;
Dahlquist-Axe, Gwyn ;
Hendy, Jessica ;
Fiddyment, Sarah ;
Holst, Malin ;
McGrath, Krista ;
Collins, Matthew ;
Mundroff, Amy ;
Radini, Anita ;
Wagner, Josef ;
Meehan, Conor ;
Tedder, Andrew ;
Speller, Camilla

0 Citations0 Mentions42% FAIR1.0 Dataset Index

10.14288/1.0449426January 2025

MALDI-TOF MS spectra of archaeological whale bone specimens from Atlantic Europe (Version: 1)

<b>Abstract</b><br/><p class="MsoNormal" style="margin-bottom:0cm;text-align:justify;"><span lang="EN-GB">Whale bones are regularly found during archaeological excavations. Identification of these specimens to taxonomic levels is problematic due to their fragmented state. This lack of taxonomic resolution limits understanding of the past spatiotemporal distributions of whale populations and reconstructions of early whaling activities. To overcome this challenge, we performed Zooarchaeology by Mass-Spectrometry on an unprecedented selection of 719 archaeological and palaeontological specimens of probable whale bone from Atlantic European contexts, from the Middle to Late Neolithic (c.3500–2500 BCE) to the eighteenth century CE.</span></p> <p class="MsoNormal" style="margin-bottom:0cm;text-align:justify;"><span lang="EN-GB">The results show high numbers of Balaenidae (most likely North Atlantic right whale (<em>Eubalaena glacialis</em>)) and grey whale (<em>Eschrichtius robustus</em>) specimens, two species no longer present in the eastern North Atlantic. Many of these specimens derive from contexts associated with the known medieval whaling cultures of the Basques, northern Spaniards, Normans, Flemish, Frisians, Anglo-Saxons, and Scandinavians. This association raises the likelihood that pre-industrial whaling impacted these taxa, contributing to their extinction and extirpation respectively. Much lower numbers of other large whale taxa were identified, suggesting that it was once abundant and accessible whales that suffered the greatest long-term impact. The pattern of natural abundance leading to over-exploitation, well-documented for other taxa, is thus applicable to early whaling. </span></p>

Authors

Van Den Hurk, Youri ;
Sikström, Fanny ;
Amkreutz, Luc ;
Bleasdale, Madeleine ;
Borvon, Aurélia ;
Ephrem, Brice ;
Fernández-Rodríguez, Carlos ;
Gibbs, Hannah ;
Johnsson, Leif ;
Lehouck, Alexander ;
Martínez Cedeira, Jose ;
Meng, Stefan ;
Monge Soares, Rui ;
Moreno, Marta ;
Nabais, Mariana ;
Nores, Carlos ;
Pis Millán, José Antonio ;
Riddler, Ian ;
Schmölcke, Ulrich ;
Segschneider, Martin ;
Speller, Camilla ;
Vretemark, Maria ;
Wickler, Stephen ;
Collins, Matthew ;
Nadeau, Marie-Josée ;
Barrett, James

0 Citations0 Mentions42% FAIR0.5 Dataset Index

10.14288/1.0436266January 2023

Additional file 1 of Dengue in Western Uganda: a prospective cohort of children presenting with undifferentiated febrile illness

Additional file 1.

Authors

Boyce, Ross M. ;
Collins, Matthew ;
Rabbison Muhindo ;
Nakakande, Regina ;
Ciccone, Emily J. ;
Grounds, Samantha ;
Espinoza, Daniel ;
Yerun Zhu ;
Matte, Michael ;
Ntaro, Moses ;
Nyehangane, Dan ;
Juliano, Jonathan J. ;
Mulogo, Edgar M.

0 Citations0 Mentions81% FAIR2.0 Dataset Index

10.6084/m9.figshare.13225940.v1January 2020

Additional file 1 of Dengue in Western Uganda: a prospective cohort of children presenting with undifferentiated febrile illness

Additional file 1.

Authors

Boyce, Ross M. ;
Collins, Matthew ;
Rabbison Muhindo ;
Nakakande, Regina ;
Ciccone, Emily J. ;
Grounds, Samantha ;
Espinoza, Daniel ;
Yerun Zhu ;
Matte, Michael ;
Ntaro, Moses ;
Nyehangane, Dan ;
Juliano, Jonathan J. ;
Mulogo, Edgar M.

0 Citations0 Mentions81% FAIR1.8 Dataset Index

10.6084/m9.figshare.13225940January 2020

combined_protein_mtDNA_xenarthra_bradypus_constraint_beast (Version: 1)

No description available

Authors

Forasiepi, Analia M. ;
Presslee, Samantha ;
Slater, Graham J ;
Pujos, Francois ;
Fischer, Roman ;
Molloy, Kelly ;
Mackie, Meaghan ;
Olsen, Jesper V. ;
Kramarz, Alejandro ;
Taglioretti, Matias ;
Scaglia, Fernando ;
Lezcano, Maximiliano ;
Lanata, José Luis ;
Southon, John ;
Feranec, Robert ;
Bloch, Jonathan ;
Hajduk, Adam ;
Martin, Fabiana M ;
Gismondi, Rodolfo S ;
Reguero, Marcelo ;
De Muizon, Christian ;
Greenwood, Alex ;
Chait, Brian ;
Penkman, Kirsty ;
Collins, Matthew ;
MacPhee, Ross D. E.

0 Citations0 Mentions77% FAIR0.8 Dataset Index

10.5061/dryad.7dd64gs/7January 2019