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\"In recent years, new discoveries yielded through analysis of ancient DNA have made headlines around the world. Can and should we take these stories at face value? In this thought-provoking book, archaeologist Anna Källén provides a concise and accessible guide to the promises and perils of telling stories about the past using genomic science. Acknowledging the power of ancient DNA to rewrite ideas about who we are and where we came from, Källén offers a variety of cautionary examples to demonstrate why such narratives should be received, understood, and crafted with greater accuracy as well as sensitivity. Probing the gaps between the hype and the science, The Trouble with Ancient DNA is required reading for anyone interested in the fascinating findings of paleogenomics\"-- Provided by publisher.

The untold story of the rise of the new scientific field of ancient DNA research, and how Jurassic Park and popular media influenced its development   Ancient DNA research—the recovery of genetic material from long-dead organisms—is a discipline that developed from science fiction into a reality between the 1980s and today. Drawing on scientific, historical, and archival material, as well as original interviews with more than fifty researchers worldwide, Elizabeth Jones explores the field's formation and explains its relationship with the media by examining its close connection to de-extinction, the science and technology of resurrecting extinct species. She reveals how the search for DNA from fossils flourished under the influence of intense press and public interest, particularly as this new line of research coincided with the book and movie Jurassic Park. Ancient DNA is the first account to trace the historical and sociological interplay between science and celebrity in the rise of this new research field. In the process, Jones argues that ancient DNA research is more than a public-facing science: it is a celebrity science.

\"Could extinct species like mammoths and passenger pigeons be brought back to life? The science says yes. In [this book], Beth Shapiro, evolutionary biologist and pioneer in 'ancient DNA' research, walks readers through the astonishing and controversial process of de-extinction. From deciding which species should be restored, to sequencing their genomes, to anticipating how revived populations might be overseen in the wild, Shapiro vividly explores the extraordinary cutting-edge science that is being used--today--to resurrect the past\"--Amazon.com.

Recent advances in sequencing technologies now permit the analyses of plant DNA from fossil samples (ancient plant DNA, plant aDNA), and thus enable the molecular reconstruction of palaeofloras.Hitherto, ancient frozen soils have proved excellent in preservingDNAmolecules, and have thus been the most commonly used source of plant aDNA. However, DNA from soil mainly represents taxa growing a fewmetres fromthe sampling point. Lakes have larger catchment areas and recent studies have suggested that plant aDNAfromlake sediments is a more powerful tool for palaeofloristic reconstruction. Furthermore, lakes can be found globally in nearly all environments, and are therefore not limited to perennially frozen areas. Here,we review the latest approaches and methods for the study of plant aDNA from lake sediments and discuss the progressmade up to the present.Weargue that aDNAanalyses add newand additional perspectives for the study of ancient plant populations and, in time, will provide higher taxonomic resolution and more precise estimation of abundance. Despite this, key questions and challenges remain for such plant aDNA studies. Finally, we provide guidelines on technical issues, including lake selection, and we suggest directions for future research on plant aDNA studies in lake sediments.

In the twenty-first century, because of climate change and other human activities, many animal species have become extinct, and many others are at risk of extinction. Once they are gone, we cannot bring them back or can we?

The untold story of the rise of the new scientific field of ancient DNA research, and how Jurassic Park and popular media influenced its development Ancient DNA research-the recovery of genetic material from long-dead organisms-is a discipline that developed from science fiction into a reality between the 1980s and today. Drawing on scientific, historical, and archival material, as well as original interviews with more than fifty researchers worldwide, Elizabeth Jones explores the field's formation and explains its relationship with the media by examining its close connection to de-extinction, the science and technology of resurrecting extinct species. She reveals how the search for DNA from fossils flourished under the influence of intense press and public interest, particularly as this new line of research coincided with the book and movie Jurassic Park . Ancient DNA is the first account to trace the historical and sociological interplay between science and celebrity in the rise of this new research field. In the process, Jones argues that ancient DNA research is more than a public-facing science: it is a celebrity science.

Presents the first set of microsatellite markers developed exclusively for an extinct taxon with low copy number (LCN) DNA - the extinct New Zealand moa (Aves: Dinornithiformes). Demonstrates the viability of the primers and the protocols used, by compiling a full Dinornis microsatellite dataset representing fossils of c. 600–5000 years of age. Source: National Library of New Zealand Te Puna Matauranga o Aotearoa, licensed by the Department of Internal Affairs for re-use under the Creative Commons Attribution 3.0 New Zealand Licence.

Aquatic sediments record past climatic conditions while providing a wide range of ecological niches for microorganisms. In theory, benthic microbial community composition should depend on environmental features and geochemical conditions of surrounding sediments, as well as ontogeny of the subsurface environment as sediment degraded. In principle, DNA in sediments should be composed of ancient and extant microbial elements persisting at different degrees of preservation, although to date few studies have quantified the relative influence of each factor in regulating final composition of total sedimentary DNA assemblage. Here geomicrobiological and phylogenetic analyses of a Patagonian maar lake were used to indicate that the different sedimentary microbial assemblages derive from specific lacustrine regimes during defined climatic periods. Two climatic intervals (Mid-Holocene, 5 ka BP; Last Glacial Maximum, 25 ka BP) whose sediments harbored active microbial populations were sampled for a comparative environmental study based on fossil pigments and 16S rRNA gene sequences. The genetic assemblage recovered from the Holocene record revealed a microbial community displaying metabolic complementarities that allowed prolonged degradation of organic matter to methane. The series of Archaea identified throughout the Holocene record indicated an age-related stratification of these populations brought on by environmental selection during early diagenesis. These characteristics were associated with sediments resulting from endorheic lake conditions and stable pelagic regime, high evaporative stress and concomitant high algal productivity. In contrast, sulphate-reducing bacteria and lithotrophic Archaea were predominant in sediments dated from the Last Glacial Maximum, in which pelagic clays alternated with fine volcanic material characteristic of a lake level highstand and freshwater conditions, but reduced water column productivity. Comparison of sedimentary DNA composition with that of fossil pigments suggested that post-depositional diagenesis resulted in a rapid change in the initial nucleic acid composition and overprint of phototrophic communities by heterotrophic assemblages with preserved pigment compositions. Long DNA sequences (1400–900 bp) appeared to derive from intact bacterial cells, whereas short fragments (290–150 bp) reflected extracellular DNA accumulation in ancient sediments. We conclude that sedimentary DNA obtained from lacustrine deposits provides essential genetic information to complement paleoenvironmental indicators and trace post-depositional diagenetic processes over tens of millennia. However, it remains difficult to estimate the time lag between original deposition of lacustrine sediments and establishment of the final composition of the sedimentary DNA assemblage.

In 2015, I wrote an opinion piece in this journal announcing the successful extraction of a mitochondrial DNA (mtDNA) sequence from a 2300-year-old skeleton from Saldanha Bay, South Africa. My concluding passage noted that the latest research was focused on nuclear autosomal DNA to provide data on admixture between populations and the impact of natural selection on specific genetic traits and that we could expect publication of articles on this topic in the near future.

We aimed to extract DNA and amplify PCR fragments at the mitochondrial DNA Nad7.1 locus and 11 nuclear microsatellite loci in nine circa 11,000-year-old individuals of Scots pine found at the bottom of the Baltic sea and test the genetic associations with the present-day gene pool of Scots pine in Lithuania. We followed a strict anticontamination protocol in the lab and, simultaneously with the aDNA specimens, tested DNA-free controls. The DNA was extracted by an ATMAB protocol from the ancient wood specimens sampled underwater from Scots pine stumps located circa 20–30 m deep and circa 12 km ashore in western Lithuania. As the references, we used 30 present-day Lithuanian populations of Scots pine with 25–50 individuals each. The aDNA yield was 11–41 ng/μL. The PCR amplification for the mtDNA Nad7.1 locus and the nDNA loci yielded reliable aDNA fragments for three and seven out of nine ancient pines, respectively. The electrophoresis profiles of all the PCR tested DNA-free controls contained the sizing standard only, indicating low likelihood for contamination. At the mtDNA Nad7.1 locus, all three ancient Scots pine individuals had the type A (300 bp) allele, indicating postglacial migration from the refugia in Balkan peninsula. The GENECLASS Bayesian assignment tests revealed relatively stringer and consistent genetic associations between the ancient Scots pine trees and the present-day southern Lithuanian populations (assignment probability 0.37–0.55) and several wetlands in Lithuania. Our study shows that salty sea water efficiently preserves ancient DNA in wood at the quality levels suitable for genetic testing of trees dated back as far as 11,000 years before present.