The Draft Genome of Extinct European Aurochs and its Implications for De-Extinction by Mikkel-Holger S. Sinding, M. Thomas P. Gilbert

“…In the context of genetics, aurochs have been targeted since the early days of the establishment of ancient DNA techniques, and for two decades analyses of its mitochondrial genome have considerably deepened our knowledge of this animal. …”
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Simultaneous Barcode Sequencing of Diverse Museum Collection Specimens Using a Mixed RNA Bait Set by Stefanie Agne, Michaela Preick, Nicolas Straube, Michael Hofreiter

“…A growing number of publications presenting results from sequencing natural history collection specimens reflect the importance of DNA sequence information from such samples. Ancient DNA extraction and library preparation methods in combination with target gene capture are a way of unlocking archival DNA, including from formalin-fixed wet-collection material. …”
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The Study of Adoption in Archaeological Human Remains by Manuel Lozano-García, Cláudia Gomes, Sara Palomo-Díez, Ana María López-Parra, Eduardo Arroyo-Pardo

“…Therefore, the study of adoption should be carried out based on an in-depth knowledge of the cultural background, before using a powerful tool such as ancient DNA technology.…”
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Herbarium specimen sequencing allows precise dating of Xanthomonas citri pv. citri diversification history by Paola E. Campos, Olivier Pruvost, Karine Boyer, Frederic Chiroleu, Thuy Trang Cao, Myriam Gaudeul, Cláudia Baider, Timothy M. A. Utteridge, Nathalie Becker, Adrien Rieux, Lionel Gagnevin

“…Following authentication based on ancient DNA damage patterns, we compare them with a large set of modern genomes to estimate their phylogenetic relationships, pathogenicity-associated gene content and several evolutionary parameters. …”
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HAYSTAC: A Bayesian framework for robust and rapid species identification in high-throughput sequencing data. by Evangelos A Dimopoulos, Alberto Carmagnini, Irina M Velsko, Christina Warinner, Greger Larson, Laurent A F Frantz, Evan K Irving-Pease

“…We tested the performance and accuracy of HAYSTAC using simulated Illumina libraries, both with and without ancient DNA damage, and compared the results to other currently available methods (i.e., Kraken2/Bracken, KrakenUniq, MALT/HOPS, and Sigma). …”
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An Insight into Vaginal Microbiome Techniques by Mahima Sharma, Chitrakshi Chopra, Malvika Mehta, Varun Sharma, Sharada Mallubhotla, Srinivas Sistla, Jyothi C. Sistla, Indu Bhushan

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Mitochondrial DNA Consensus Calling and Quality Filtering for Constructing Ancient Human Mitogenomes: Comparison of Two Widely Applied Methods by Alexandros Heraclides, Eva Fernández-Domínguez

“…Retrieving high-quality endogenous ancient DNA (aDNA) poses several challenges, including low molecular copy number, high rates of fragmentation, damage at read termini, and potential presence of exogenous contaminant DNA. …”
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Confronting historical legacies of biological anthropology in South Africa-Restitution, redress and community-centered science: The Sutherland Nine. by Victoria E Gibbon, Loretta Feris, Joscha Gretzinger, Kathryn Smith, Simon Hall, Nigel Penn, Tinashe E M Mutsvangwa, Michaela Heale, Devin A Finaughty, Yvonne W Karanja, Jan Esterhuyse, Daniël Kotze, Nina Barnes, Geney Gunston, Je'nine May, Johannes Krause, Caroline M Wilkinson, Stephan Schiffels, Doreen Februarie, Sianne Alves, Judith C Sealy

“…Nearly 100 years later, the remains are being returned to their community, accompanied by a range of community-driven interdisciplinary historical, archaeological and analytical (osteobiographic, craniofacial, ancient DNA, stable isotope) studies to document, as far as possible, their lives and deaths. …”
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Population genomics of the Viking world by Margaryan, A, Lawson, DJ, Sikora, M, Racimo, F, Rasmussen, S, Moltke, I, Cassidy, LM, Jørsboe, E, Ingason, A, Pedersen, MW, Korneliussen, T, Wilhelmson, H, Buś, MM, de Barros Damgaard, P, Martiniano, R, Renaud, G, Bhérer, C, Moreno-Mayar, JV, Fotakis, AK, Allen, M, Allmäe, R, Molak, M, Cappellini, E, Scorrano, G, McColl, H, Buzhilova, A, Fox, A, Albrechtsen, A, Schütz, B, Skar, B, Arcini, C, Falys, C, Jonson, CH, Błaszczyk, D, Pezhemsky, D, Turner-Walker, G, Gestsdóttir, H, Lundstrøm, I, Gustin, I, Mainland, I, Potekhina, I, Muntoni, IM, Cheng, J, Stenderup, J, Ma, J, Gibson, J, Peets, J, Gustafsson, J, Iversen, KH, Simpson, L

“…Additionally, we see substantial ancestry from elsewhere in Europe entering Scandinavia during the Viking Age. Our ancient DNA analysis also revealed that a Viking expedition included close family members. …”

The Eneolithic cemetery at Khvalynsk on the Volga River by Anthony, DW, Khokhlov, AA, Agapov, SA, Agapov, DS, Schulting, R, Olalde, I, Reich, D

“…The human skeletons have been sampled extensively for ancient DNA, the basis for an analysis of family relationships. …”

Reconstructing Asian faunal introductions to eastern Africa from multi-proxy biomolecular and archaeological datasets by Prendergast, M, Buckley, M, Crowther, A, Frantz, L, Eager, H, Lebrasseur, O, Hutterer, R, Hulme-Beaman, A, Van Neer, W, Douka, K, Veall, M, Quintana Morales, E, Schuenemann, V, Reiter, E, Allen, R, Dimopoulos, E, Helm, R, Shipton, C, Mwebi, O, Denys, C, Horton, M, Wynne-Jones, S, Fleisher, J, Radimilahy, C, Wright, H, Searle, J, Krause, J, Larson, G, Boivin, N

“…Our approach included ancient DNA (aDNA) analysis aided by BLAST-based bioinformatics, Zooarchaeology by Mass Spectrometry (ZooMS) collagen fingerprinting, and direct AMS (accelerator mass spectrometry) radiocarbon dating. …”

Molecular insights into an ancient form of Paget’s disease of bone by Shaw, B, Burrell, C, Green, D, Navarro-Martinez, A, Scott, D, Daroszewska, A, Van ’T Hof, R, Smith, L, Hargrave, F, Mistry, S, Bottrill, A, Kessler, B, Fischer, R, Singh, A, Dalmay, T, Fraser, W, Henneberger, K, King, T, Gonzalez, S, Layfield, R

“…Direct sequencing of ancient DNA excluded contemporary PDB-associated <jats:italic>SQSTM1</jats:italic> mutations. …”

Bat Use of Hollows in California’s Old-Growth Redwood Forests: From DNA to Ecology by Amon J. Armstrong, Faith M. Walker, Colin J. Sobek, Cheri J. Sanville, Stephanie L. Martin, Joseph M. Szewczak

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Exploring the complex pre-adaptations of invasive plants to anthropogenic disturbance: a call for integration of archaeobotanical approaches by Ginevra Bellini, Ginevra Bellini, Karin Schrieber, Wiebke Kirleis, Wiebke Kirleis, Alexandra Erfmeier, Alexandra Erfmeier

“…We propose a combination of archaeobotanical, ancient DNA and morphometric analyses of plant macro- and microremains to assess past community composition, and species’ functional traits to unravel the timing of adaptation processes, their drivers and their long-term consequences for invasive species. …”
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Prokaryotic richness and diversity increased during Holocene glacier retreat and onset of an Antarctic Lake by C. Piccini, F. Bertoglio, R. Sommaruga, G. Martínez de la Escalera, L. Pérez, L. Bugoni, L. Bergamino, H. Evangelista, F. García-Rodriguez

“…Here, we combined analyses of lithology, chronology and geochemistry with sedimentary ancient DNA metabarcoding to assess such transition in maritime Antarctica. …”
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Joint inference of adaptive and demographic history from temporal population genomic data by Pavinato, Vitor A. C., De Mita, Stéphane, Marin, Jean-Michel, de Navascués, Miguel

“…We propose to use the ABC-Random Forests framework to jointly infer demographic and selection parameters from temporal population genomic data (e.g. experimental evolution, monitored populations, ancient DNA). Our framework allowed the separation of demography (census size, N) from the genetic drift (effective population size, Ne) and the estimation of genome-wide parameters of selection. …”
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A comparative analysis of extraction protocol performance on degraded mammalian museum specimens by Melissa T. R. Hawkins, Mary Faith C. Flores, Michael McGowen, Arlo Hinckley, Arlo Hinckley

“…The tested protocols spanned spin-column based extractions, magnetic bead purification, phenol/chloroform isolation, and specific modifications for ancient DNA. Diverse types of mammalian specimens were tested including adherent osteological material, bone and teeth, skin, and baleen. …”
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Paleogenetic Analysis of the Residents from the Moscow Kremlin’s Podol (Lower Area) of the 14th Century (According to the Materials of Excavations in the Taynitsky Garden) by Irina Alborova, Kharis Mustafin, Maria Mednikova, Alexandra Buzhilova, Asya Engovatova

“…The aim of this work was the genetic study of the ancient DNA of the remains of people who died in the 14th century, clarification of their gender, determination of kinship and presumptive origin. …”
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Genetic diversity of variants involved in drug response among Tunisian and Italian populations toward personalized medicine by Haifa Jmel, Stefania Sarno, Cristina Giuliani, Wided Boukhalfa, Sonia Abdelhak, Donata Luiselli, Rym Kefi

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Female bone physiology resilience in a past Polynesian Outlier community by Justyna J. Miszkiewicz, Hallie R. Buckley, Michal Feldman, Lawrence Kiko, Selina Carlhoff, Kathrin Naegele, Emilie Bertolini, Nathalia R. Dias Guimarães, Meg M. Walker, Adam Powell, Cosimo Posth, Rebecca L. Kinaston

“…We tested whether bone remodelling indicators differed between age groups, and biological sex validated using ancient DNA. Bone vascular canal and osteon size, vascular porosity, and localised osteon densities, corrected by femoral robusticity indices were examined. …”
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