Ancient DNA
Subtitle: methods and protocols
By: edited by Beth Shapiro, Michael Hofreiter
Series: Methods in molecular biology -- 840; Springer protocols; Methods in molecular biology (Clifton, N.J.) -- v. 840.; Springer protocols
Publisher: Humana Press; Springer
Published: 2012
Place of publication: New York
Language: eng
Number of pages: 247
ISBN-13: 9781617795152; 9781617795169
Subjects: Genetic Techniques; Genetics; DNS; Paläobiologie; Analysis; Methodology; Fossil; Fossils; Laboratory Manuals; Fossil Animals; Methods; Paleontology; Extinct animals; Methode; DNA; Fossil DNA
Description: Research into ancient DNA began more than 25 years ago with the publication of short mitochondrial DNA sequence fragments from the quagga, an extinct relative of the zebra. Ancient DNA research really gained momentum following the invention of PCR, which allowed millions of copies to be made of the few remaining DNA molecules preserved in fossils and museum specimens. In Ancient DNA: Methods and Protocols expert researchers in the field describe many of the protocols that are now commonly used to study ancient DNA. These include instructions for setting up an ancient DNA laboratory, extraction protocols for a wide range of different substrates, details of laboratory techniques including PCR and NGS library preparation, and suggestions for appropriate analytical approaches to make sense of the sequences obtained. Written in the highly successful Methods in Molecular Biology"!series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Ancient DNA: Methods and Protocols seeks to aid scientists in the further study of ancient DNA and the methodological approaches in ancient research
Notes: Includes bibliographical references and index.
Table of contents: title: Setting up an ancient DNA laboratory / Tara L. Fulton; title: A phenol-chloroform protocol for extracting DNA from ancient samples / Ross Barnett and Greger Larson; title: DNA extraction of ancient animal hard tissue samples via adsorption to silica particles / Nadin Rohland; title: Case study : recovery of ancient nuclear DNA from toe pads of the extinct passenger pigeon / Tara L. Fulton, Stephen M. Wagner, and Beth Shapiro; title: Extraction of DNA from paleofeces / Melanie Kuch and Hendrik Poinar; title: DNA extraction from keratin and chitin / Paula F. Campos and Thomas M.P. Gilbert; title: Case study : ancient sloth DNA recovered from hairs preserved in paleofeces / Andrew A. Clack, Ross D.E. MacPhee, and Hendrik N. Poinar; title: Ancient DNA extraction from soils and sediments / James Haile; title: DNA extraction from fossil eggshell / Charlotte L. Oskam and Michael Bunce; title: Ancient DNA extraction from plants / Logan Kistler; title: DNA extraction from formalin-fixed material / Paula F. Campos and Thomas M.P. Gilbert; title: Case study : ancient DNA recovered from Pleistocene-age remains of a Florida armadillo / Brandon Letts and Beth Shapiro; title: Nondestructive DNA extraction from museum specimens / Michael Hofreiter; title: Case study : using a nondestructive DNA extraction method to generate mtDNA sequences from historical chimpanzee specimens / Elmira Mohandesan, Stefan Prost, and Michael Hofreiter; title: PCR amplification, cloning, and sequencing of ancient DNA / Tara L. Fulton and Mathias Stiller; title: Quantitative real-time PCR in aDNA research / Michael Bunce, Charlotte L. Oskam, and Morten E. Allentoft; title: Multiplex PCR amplification of ancient DNA / Mathias Stiller and Tara L. Fulton; title: Preparation of next-generation sequencing libraries from damaged DNA / Adrian W. Briggs and Patricia Heyn; title: Generating barcoded libraries for multiplex high-throughput sequencing / Michael Knapp, Mathias Stiller, and Matthias Meyer; title: Case study : targeted high-throughput sequencing of mitochondrial genomes from extinct cave bears via direct multiplex PCR sequencing (DMPS) / Mathias Stiller; title: Target enrichment via DNA hybridization capture / Susanne Horn; title: Case study : enrichment of ancient mitochondrial DNA by hybridization capture / Susanne Horn; title: Analysis of high-throughput ancient DNA sequencing data / Martin Kircher; title: Phylogenetic analysis of ancient DNA using BEAST / Simon Y.W. Ho.