Research Topics
Genomes and Genes | Michael HofreiterSummaryAffiliation: Max Planck Institute for Evolutionary Anthropology Country: Germany Publications
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Detail Information
Publications
Mitochondrial genomes reveal an explosive radiation of extinct and extant bears near the Miocene-Pliocene boundaryJohannes Krause
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
BMC Evol Biol 8:220. 2008..Widely divergent topologies have been suggested based on various data sets and methods...- Lack of phylogeography in European mammals before the last glaciationMichael Hofreiter
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Proc Natl Acad Sci U S A 101:12963-8. 2004.... 
Genetic analyses from ancient DNASvante Paabo
Max Planck Institute for Evolutionary Anthropology, D 04013 Leipzig, Germany
Annu Rev Genet 38:645-79. 2004..We also highlight some significant results and areas of promising future research...
First DNA sequences from Asian cave bear fossils reveal deep divergences and complex phylogeographic patternsMichael Knapp
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Mol Ecol 18:1225-38. 2009..They also agree with recent studies on other extinct and extant species, such as wolves, hyenas and steppe bison, which have also revealed higher genetic and ecological diversity in Pleistocene populations than previously known...- Direct multiplex sequencing (DMPS)--a novel method for targeted high-throughput sequencing of ancient and highly degraded DNAMathias Stiller
Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Genome Res 19:1843-8. 2009..Embedded in our approach, we present a new protocol for the construction of barcoded sequencing libraries, which is compatible with all current high-throughput technologies and can be performed entirely in plate setup... - Multiplex amplification of the mammoth mitochondrial genome and the evolution of ElephantidaeJohannes Krause
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Nature 439:724-7. 2006..However, the divergence of mammoth, African and Asian elephants occurred over a short time, corresponding to only about 7% of the total length of the phylogenetic tree for the three evolutionary lineages... - Proboscidean mitogenomics: chronology and mode of elephant evolution using mastodon as outgroupNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
PLoS Biol 5:e207. 2007..0 mya, supporting the view that these two groups represent different species. Finally, we found the mitochondrial mutation rate of proboscideans to be roughly half of the rate in primates during at least the last 24 million years... - Isotopic evidence for omnivory among European cave bears: Late Pleistocene Ursus spelaeus from the Peştera cu Oase, RomaniaMichael P Richards
Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, Germany
Proc Natl Acad Sci U S A 105:600-4. 2008..These data therefore broaden the dietary profile of U. spelaeus and raise questions about the nature of the carnivore guild in Pleistocene Europe... - The population history of extant and extinct hyenasNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Mol Biol Evol 22:2435-43. 2005..Both striped and brown hyenas show low amounts of genetic diversity, with the latter ones displaying just a single haplotype... - From micrograms to picograms: quantitative PCR reduces the material demands of high-throughput sequencingMatthias Meyer
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Nucleic Acids Res 36:e5. 2008..The method should also apply to Illumina/Solexa and ABI/SOLiD sequencing, and should therefore help to widen the accessibility of all three platforms... - Comparison and optimization of ancient DNA extractionNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Biotechniques 42:343-52. 2007..Finally, we observed a marked difference in the performance between different types of DNA polymerases, as measured by amplification success... - No evidence of Neandertal mtDNA contribution to early modern humansDavid Serre
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
PLoS Biol 2:E57. 2004..In combination with current mtDNA data, this excludes any large genetic contribution by Neandertals to early modern humans, but does not rule out the possibility of a smaller contribution... - Evidence for reproductive isolation between cave bear populationsMichael Hofreiter
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103, Leipzig, Germany
Curr Biol 14:40-3. 2004..We also find no evidence that the morphology of the bears in the two caves changed to become more similar over time. We suggest that the two cave bear forms may have represented two reproductively isolated subspecies or species... - Vertebrate DNA in fecal samples from bonobos and gorillas: evidence for meat consumption or artefact?Michael Hofreiter
Research Group Molecular Ecology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
PLoS ONE 5:e9419. 2010..As a control we also attempted PCR amplifications from gorilla feces, a species assumed to be strictly herbivorous... - Ancient DNA extraction from bones and teethNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Nat Protoc 2:1756-62. 2007..The protocol presented here allows DNA extraction from ancient bone and teeth with a minimum of working steps and equipment and yields DNA extracts within 2 working days... - Road blocks on paleogenomes--polymerase extension profiling reveals the frequency of blocking lesions in ancient DNAPatricia Heyn
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Nucleic Acids Res 38:e161. 2010.... - Influence of climate warming on arctic mammals? New insights from ancient DNA studies of the collared lemming Dicrostonyx torquatusStefan Prost
Research Group Molecular Ecology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
PLoS ONE 5:e10447. 2010.... - Ancient DNA analyses reveal high mitochondrial DNA sequence diversity and parallel morphological evolution of late pleistocene cave bearsMichael Hofreiter
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Mol Biol Evol 19:1244-50. 2002..This suggests that small size may have been an ancestral trait in cave bears and that large size evolved at least twice independently... - Nondestructive DNA extraction method for mitochondrial DNA analyses of museum specimensNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Biotechniques 36:814-6, 818-21. 2004..Thus this method opens up the possibility to repeatedly use museum collections for mtDNA analyses without damaging the specimens and thus without reducing the value of irreplaceable collections for morphological analyses... - Computational challenges in the analysis of ancient DNAKay Prüfer
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, Germany
Genome Biol 11:R47. 2010..We show that more accurate genome divergence estimates from ancient DNA sequence can be attained using at least two outgroup genomes and appropriate filtering... - Parallel tagged sequencing on the 454 platformMatthias Meyer
Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics, Deutscher Platz 6, D 04103 Leipzig, Germany
Nat Protoc 3:267-78. 2008..Most of the reactions can be performed in a multichannel setup on 96-well reaction plates, allowing for processing up to several hundreds of samples in a few days... - Effects of late quaternary climate change on Palearctic shrewsStefan Prost
Research Group Molecular Ecology, Max Planck Institute for Evolutionary Anthropology, Leipzig, 04103, Germany
Glob Chang Biol 19:1865-74. 2013.... - Whole mitochondrial genome sequencing of domestic horses reveals incorporation of extensive wild horse diversity during domesticationSebastian Lippold
Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, Germany
BMC Evol Biol 11:328. 2011.... - A rapid column-based ancient DNA extraction method for increased sample throughputNadin Rohland
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA Department of Biology, University of York, YO10 5YW, York, UK
Mol Ecol Resour 10:677-83. 2010..Thus, this method is suited for harvesting the power of high-throughput sequencing using the DNA preserved in the millions of paleontological and museums specimens... - MammothsMichael Hofreiter
Max Planck-Institute for Evolutionary Anthropology, Deutscher Platz 6, D-04103 Leipzig, Germany
Curr Biol 16:R347-8. 2006 - Targeted high-throughput sequencing of tagged nucleic acid samplesMatthias Meyer
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Nucleic Acids Res 35:e97. 2007..PTS dramatically increases the sequencing throughput of samples in parallel and thus fully mobilizes the resources of the 454 technology for targeted sequencing... - Mitochondrial DNA sequence from an enigmatic gorilla population (Gorilla gorilla uellensis)Michael Hofreiter
Max Planck Institute for Evolutionary Anthropology, Leipzig 04103, Germany
Am J Phys Anthropol 121:361-8. 2003.... - Discovery of lost diversity of paternal horse lineages using ancient DNASebastian Lippold
Research Group Molecular Ecology, Max Planck Institute for Evolutionary Anthropology, D 04103 Leipzig, Germany
Nat Commun 2:450. 2011..Our methodology establishes the feasibility of re-sequencing long ancient nuclear DNA fragments and demonstrates the power of ancient Y chromosome DNA sequence data to provide insights into the evolutionary history of populations... - Pleistocene extinctions: haunting the survivorsMichael Hofreiter
Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
Curr Biol 17:R609-11. 2007..However, recent analyses show that the surviving species may also have experienced losses in terms of genetic and ecological diversity... - Mitochondrial genomes reveal slow rates of molecular evolution and the timing of speciation in beavers (Castor), one of the largest rodent speciesSusanne Horn
Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
PLoS ONE 6:e14622. 2011..Little is known about their evolution and even their closest phylogenetic relatives have not yet been identified with certainty. Similarly, little is known about the timing of divergence events within the genus Castor... - G protein-coupled time travel: evolutionary aspects of GPCR researchHolger Römpler
Institute of Biochemistry, Molecular Biochemistry, Medical Faculty, University of Leipzig, Johannisallee 30, 04103 Leipzig, Germany
Mol Interv 7:17-25. 2007..This review discusses recent advances and approaches aimed at developing a better understanding of GPCR biology based on evolutionary data... - Sudden replacement of cave bear mitochondrial DNA in the late PleistoceneMichael Hofreiter
Curr Biol 17:R122-3. 2007 - Molecular breeding of polymerases for amplification of ancient DNAMichael Hofreiter
Medical Research Council Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, UK
Nat Biotechnol 25:939-43. 2007..Our results demonstrate that engineered polymerases can expand the recovery of genetic information from Pleistocene specimens and may benefit genetic analysis in paleontology, archeology and forensic medicine... - Ancient biomolecules from deep ice cores reveal a forested southern GreenlandEske Willerslev
Centre for Ancient Genetics, University of Copenhagen, Denmark
Science 317:111-4. 2007..The results provide direct evidence in support of a forested southern Greenland and suggest that many deep ice cores may contain genetic records of paleoenvironments in their basal sections... - Molecular cavingMichael Hofreiter
Curr Biol 13:R693-5. 2003 - A rapid loss of stripes: the evolutionary history of the extinct quaggaJennifer A Leonard
Genetics Program, National Museum of Natural History, Smithsonian Institution, 3001 Connecticut Avenue, NW, Washington, DC 20008 0551, USA
Biol Lett 1:291-5. 2005..This emphasizes the importance of Pleistocene climate changes for phylogeographic patterns in African as well as Holarctic fauna... - Ongoing controversy over Romanov remainsMichael Hofreiter
Science 306:407-10. 2004 - Tenrec phylogeny and the noninvasive extraction of nuclear DNARobert J Asher
Museum für Naturkunde, D 10115, Berlin, Germany
Syst Biol 55:181-94. 2006.... - A melanocortin 1 receptor allele suggests varying pigmentation among NeanderthalsCarles Lalueza-Fox
Departament de Biologia Animal, Universitat de Barcelona, Spain
Science 318:1453-5. 2007..Our data suggest that inactive MC1R variants evolved independently in both modern humans and Neanderthals... - Genomic sequencing of Pleistocene cave bearsJames P Noonan
United States Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA
Science 309:597-9. 2005..Comparison of cave bear and modern bear sequences revealed the evolutionary relationship of these lineages. The metagenomic approach used here establishes the feasibility of ancient DNA genome sequencing programs... - Pleistocene brown bears in the mid-continent of North AmericaPaul Matheus
Alaska Quaternary Center, University of Alaska Fairbanks, Fairbanks, AK, USA
Science 306:1150. 2004.... - Multiplex amplification of ancient DNAHolger Römpler
Molecular Biochemistry, Institute of Biochemistry, Medical Faculty, University of Leipzig, Johannisallee 30, 04103 Leipzig, Germany
Nat Protoc 1:720-8. 2006..It thus combines optimal template usage with a high specificity and can be performed within a day... - DNA from pre-Clovis human coprolites in Oregon, North AmericaM Thomas P Gilbert
Centre for Ancient Genetics, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark
Science 320:786-9. 2008..The mtDNA corresponds to Native American founding haplogroups A2 and B2. The dates of the coprolites are >1000 14C years earlier than currently accepted dates for the Clovis complex... - Learning from the past: evolution of GPCR functionsTorsten Schoneberg
Institute of Biochemistry, Molecular Biochemistry, Medical Faculty, University of Leipzig, Johannisallee 30, 04103 Leipzig, Germany
Trends Pharmacol Sci 28:117-21. 2007.... - Surprising migration and population size dynamics in ancient Iberian brown bears (Ursus arctos)Cristina E Valdiosera
Centro Mixto, Universidad Complutense de Madrid Instituto de Salud Carlos III de Evolución y Comportamiento Humanos, c Sinesio Delgado 4 Pabellon 14, 28029 Madrid, Spain
Proc Natl Acad Sci U S A 105:5123-8. 2008..Thus, the current situation is highly unusual and the population may in fact be isolated for the first time in its history... - Nuclear gene indicates coat-color polymorphism in mammothsHolger Römpler
Molecular Biochemistry, Institute of Biochemistry, Medical Faculty, University of Leipzig, 04103 Leipzig, Germany
Science 313:62. 2006..This finding suggests that mammoths may have been polymorphic in coat color, with both dark- and light-haired individuals co-occurring...