Ancient DNA analysis identifies marine mollusc shells as new metagenomic archives of the past
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Title
Ancient DNA analysis identifies marine mollusc shells as new metagenomic archives of the past
Authors
Keywords
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Journal
Molecular Ecology Resources
Volume 17, Issue 5, Pages 835-853
Publisher
Wiley
Online
2017-04-10
DOI
10.1111/1755-0998.12679
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Note: Only part of the references are listed.- Non-Cholera Vibrios: The Microbial Barometer of Climate Change
- (2017) Craig Baker-Austin et al. TRENDS IN MICROBIOLOGY
- Taming the Past: Ancient DNA and the Study of Animal Domestication
- (2017) David E. MacHugh et al. Annual Review of Animal Biosciences
- The Egyptian Red Sea coastal microbiome: A study revealing differential microbial responses to diverse anthropogenic pollutants
- (2016) Ghada A. Mustafa et al. ENVIRONMENTAL POLLUTION
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- (2016) Ewan Harney et al. Marine Genomics
- Fast, Accurate and Automatic Ancient Nucleosome and Methylation Maps with epiPALEOMIX
- (2016) Kristian Hanghøj et al. MOLECULAR BIOLOGY AND EVOLUTION
- metaBIT, an integrative and automated metagenomic pipeline for analysing microbial profiles from high-throughput sequencing shotgun data
- (2016) Guillaume Louvel et al. Molecular Ecology Resources
- Nuclear DNA sequences from the Middle Pleistocene Sima de los Huesos hominins
- (2016) Matthias Meyer et al. NATURE
- A First Insight into the Genome of the Filter-Feeder Mussel Mytilus galloprovincialis
- (2016) Maria Murgarella et al. PLoS One
- Climate influence onVibrioand associated human diseases during the past half-century in the coastal North Atlantic
- (2016) Luigi Vezzulli et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Ancient DNA and human history
- (2016) Montgomery Slatkin et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Evolutionary Patterns and Processes: Lessons from Ancient DNA
- (2016) Michela Leonardi et al. SYSTEMATIC BIOLOGY
- Annually resolved North Atlantic marine climate over the last millennium
- (2016) D. J. Reynolds et al. Nature Communications
- Deciphering the molecular adaptation of the king scallop (Pecten maximus) to heat stress using transcriptomics and proteomics
- (2015) Sébastien Artigaud et al. BMC GENOMICS
- RNA-Seq in Mytilus galloprovincialis: comparative transcriptomics and expression profiles among different tissues
- (2015) Rebeca Moreira et al. BMC GENOMICS
- Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse
- (2015) Clio Der Sarkissian et al. CURRENT BIOLOGY
- Major transitions in human evolution revisited: A tribute to ancient DNA
- (2015) Luca Ermini et al. JOURNAL OF HUMAN EVOLUTION
- Structure of Manila Clam (Ruditapes philippinarum) Microbiota at the Organ Scale in Contrasting Sets of Individuals
- (2015) Guillaume Meisterhans et al. MICROBIAL ECOLOGY
- Comparing the performance of three ancient DNA extraction methods for high-throughput sequencing
- (2015) Cristina Gamba et al. Molecular Ecology Resources
- MetaPhlAn2 for enhanced metagenomic taxonomic profiling
- (2015) Duy Tin Truong et al. NATURE METHODS
- Reconstructing ancient genomes and epigenomes
- (2015) Ludovic Orlando et al. NATURE REVIEWS GENETICS
- Structure and function of the global ocean microbiome
- (2015) S. Sunagawa et al. SCIENCE
- Comparative performance of two whole-genome capture methodologies on ancient DNA Illumina libraries
- (2015) María C. Ávila-Arcos et al. Methods in Ecology and Evolution
- Development of a Taqman real-time PCR assay for rapid detection and quantification ofVibrio tapetisin extrapallial fluids of clams
- (2015) Adeline Bidault et al. PeerJ
- Transcriptional changes in Manila clam (Ruditapes philippinarum) in response to Brown Ring Disease
- (2014) Bassem Allam et al. FISH & SHELLFISH IMMUNOLOGY
- Deep transcriptome sequencing of Pecten maximus hemocytes: A genomic resource for bivalve immunology
- (2014) Marianna Pauletto et al. FISH & SHELLFISH IMMUNOLOGY
- Hemolymph microbiome of Pacific oysters in response to temperature, temperature stress and infection
- (2014) Ana Lokmer et al. ISME Journal
- Deep sequencing of the mantle transcriptome of the great scallop Pecten maximus
- (2014) Sébastien Artigaud et al. Marine Genomics
- Mitogenomics of recombinant mitochondrial genomes of Baltic Sea Mytilus mussels
- (2014) Małgorzata Zbawicka et al. MOLECULAR GENETICS AND GENOMICS
- Fast and sensitive protein alignment using DIAMOND
- (2014) Benjamin Buchfink et al. NATURE METHODS
- Spatially resolved transcriptomics and beyond
- (2014) Nicola Crosetto et al. NATURE REVIEWS GENETICS
- Ancient and modern environmental DNA
- (2014) Mikkel Winther Pedersen et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Prehistoric genomes reveal the genetic foundation and cost of horse domestication
- (2014) Mikkel Schubert et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- An epigenetic window into the past?
- (2014) L. Orlando et al. SCIENCE
- Reconstructing the DNA Methylation Maps of the Neandertal and the Denisovan
- (2014) D. Gokhman et al. SCIENCE
- Genome flux and stasis in a five millennium transect of European prehistory
- (2014) Cristina Gamba et al. Nature Communications
- mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
- (2013) Hákon Jónsson et al. BIOINFORMATICS
- Exploring the hologenome concept in marine bivalvia: haemolymph microbiota as a pertinent source of probiotics for aquaculture
- (2013) Florie Desriac et al. FEMS MICROBIOLOGY LETTERS
- Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome
- (2013) J. S. Pedersen et al. GENOME RESEARCH
- Differential expression of genes involved in immunity and biomineralization during Brown Ring Disease development and shell repair in the Manila clam, Ruditapes philippinarum
- (2013) Fanny Jeffroy et al. JOURNAL OF INVERTEBRATE PATHOLOGY
- Impacts of ocean acidification on marine shelled molluscs
- (2013) Frédéric Gazeau et al. MARINE BIOLOGY
- Computational meta'omics for microbial community studies
- (2013) N. Segata et al. Molecular Systems Biology
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- (2013) Ludovic Orlando et al. NATURE
- A mitochondrial genome sequence of a hominin from Sima de los Huesos
- (2013) Matthias Meyer et al. NATURE
- Mitochondrial Phylogenomics of Modern and Ancient Equids
- (2013) Julia T. Vilstrup et al. PLoS One
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- (2013) Andaine Seguin-Orlando et al. PLoS One
- Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments
- (2013) J. Dabney et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- IntCal13 and Marine13 Radiocarbon Age Calibration Curves 0–50,000 Years cal BP
- (2013) Paula J Reimer et al. RADIOCARBON
- Ancient DNA Damage
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- Interactive effects of temperature and salinity on shell formation and general condition in Baltic Sea Mytilus edulis and Arctica islandica
- (2011) C Hiebenthal et al. Aquatic Biology
- ART: a next-generation sequencing read simulator
- (2011) Weichun Huang et al. BIOINFORMATICS
- Transcriptome sequencing and microarray development for the Manila clam, Ruditapes philippinarum: genomic tools for environmental monitoring
- (2011) Massimo Milan et al. BMC GENOMICS
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- (2011) R. Moreira et al. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
- Integrative analysis of environmental sequences using MEGAN4
- (2011) D. H. Huson et al. GENOME RESEARCH
- Genome Sequence of Vibrio rotiferianus Strain DAT722
- (2011) P. R. Chowdhury et al. JOURNAL OF BACTERIOLOGY
- Barium and molybdenum records in bivalve shells: Geochemical proxies for phytoplankton dynamics in coastal environments?
- (2011) Julien ThÉbault et al. LIMNOLOGY AND OCEANOGRAPHY
- De Novo Assembly of the Manila Clam Ruditapes philippinarum Transcriptome Provides New Insights into Expression Bias, Mitochondrial Doubly Uniparental Inheritance and Sex Determination
- (2011) F. Ghiselli et al. MOLECULAR BIOLOGY AND EVOLUTION
- A chronological framework for the British Quaternary based on Bithynia opercula
- (2011) Kirsty E. H. Penkman et al. NATURE
- A draft genome of Yersinia pestis from victims of the Black Death
- (2011) Kirsten I. Bos et al. NATURE
- Mineral phase in shell repair of Manila clam Venerupis philippinarum affected by brown ring disease
- (2010) N Trinkler et al. DISEASES OF AQUATIC ORGANISMS
- Variability of shell repair in the Manila clam Ruditapes philippinarum affected by the Brown Ring Disease: A microstructural and biochemical study
- (2010) Nolwenn Trinkler et al. JOURNAL OF INVERTEBRATE PATHOLOGY
- Fossil avian eggshell preserves ancient DNA
- (2010) C. L. Oskam et al. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Climate oscillations of the Holsteinian (Mazovian) Interglacial recorded in shell morphometry of Viviparus diluvianus (Kunth, 1865) from eastern Poland
- (2010) Marcin Szymanek QUATERNARY INTERNATIONAL
- Clam shell repair from the brown ring disease: a study of the organic matrix using Confocal Raman micro-spectrometry and WDS microprobe
- (2009) Nowenn Trinkler et al. ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- BLAST+: architecture and applications
- (2009) Christiam Camacho et al. BMC BIOINFORMATICS
- Influence of food supply on the δ13C signature of mollusc shells: implications for palaeoenvironmental reconstitutions
- (2009) Franck Lartaud et al. GEO-MARINE LETTERS
- Resistance to Brown Ring Disease in the Manila clam, Ruditapes philippinarum: A study of selected stocks showing a recovery process by shell repair
- (2009) Nolwenn Trinkler et al. JOURNAL OF INVERTEBRATE PATHOLOGY
- Sequencing technologies — the next generation
- (2009) Michael L. Metzker NATURE REVIEWS GENETICS
- Vibrio tapetis-like strain isolated from introduced Manila clams Ruditapes philippinarum showing symptoms of brown ring disease in Norway
- (2008) C Paillard et al. DISEASES OF AQUATIC ORGANISMS
- Advances in mollusc sclerochronology and sclerochemistry: tools for understanding climate and environment
- (2008) Darren R. Gröcke et al. GEO-MARINE LETTERS
- Use of mollusc shells for DNA-based molecular analyses
- (2008) J. Geist et al. JOURNAL OF MOLLUSCAN STUDIES
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