4.4 Article

Combined metagenomic and archaeobotanical analyses on human dental calculus: A cross-section of lifestyle conditions in a Copper Age population of central Italy

Related references

Note: Only part of the references are listed.
Article Multidisciplinary Sciences

Tracking the transition to agriculture in Southern Europe through ancient DNA analysis of dental calculus

Claudio Ottoni et al.

Summary: Through shotgun metagenomic analysis of dental calculus from 44 ancient foragers and farmers in the Balkans and the Italian Peninsula, it was found that the introduction of farming in Southern Europe did not significantly alter the oral microbiomes of local forager groups. The dominant microbial species in the human oral environment in prehistory exhibited geographic diversification, and major taxonomic shifts in human oral microbiome composition occurred after the Neolithic.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2021)

Review Medicine, General & Internal

Sulfate-Reducing Bacteria of the Oral Cavity and Their Relation with Periodontitis-Recent Advances

Ivan Kushkevych et al.

JOURNAL OF CLINICAL MEDICINE (2020)

Article Biochemical Research Methods

ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R

Emmanuel Paradis et al.

BIOINFORMATICS (2019)

Article Biochemistry & Molecular Biology

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

Ivica Letunic et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Multidisciplinary Sciences

Metagenomic analysis of dental calculus in ancient Egyptian baboons

Claudio Ottoni et al.

SCIENTIFIC REPORTS (2019)

Article Plant Sciences

Algorithms and strategies in short-read shotgun metagenomic reconstruction of plant communities

Robert S. Harbert

APPLICATIONS IN PLANT SCIENCES (2018)

Article Biochemical Research Methods

Species-level functional profiling of metagenomes and metatranscriptomes

Eric A. Franzosa et al.

NATURE METHODS (2018)

Review Microbiology

The oral microbiota: dynamic communities and host interactions

Richard J. Lamont et al.

NATURE REVIEWS MICROBIOLOGY (2018)

Article Geography, Physical

The Lateglacial and Holocene vegetation and climate history of Lago di Mezzano (central Italy)

Laura Sadori

QUATERNARY SCIENCE REVIEWS (2018)

Article Multidisciplinary Sciences

Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus

Laura S. Weyrich et al.

NATURE (2017)

Article Anthropology

Beyond food: The multiple pathways for inclusion of materials into ancient dental calculus

Anita Radini et al.

AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY (2017)

Article Computer Science, Artificial Intelligence

Bracken: estimating species abundance in metagenomics data

Jennifer Lu et al.

PEERJ COMPUTER SCIENCE (2017)

Article Microbiology

Actinomyces spp. gene expression in root caries lesions

Naile Dame-Teixeira et al.

JOURNAL OF ORAL MICROBIOLOGY (2016)

Article Biotechnology & Applied Microbiology

EAGER: efficient ancient genome reconstruction

Alexander Peltzer et al.

GENOME BIOLOGY (2016)

Letter Biochemical Research Methods

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

Duy Tin Truong et al.

NATURE METHODS (2015)

Review Biology

A new era in palaeomicrobiology: prospects for ancient dental calculus as a long-term record of the human oral microbiome

Christina Warinner et al.

PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2015)

Article Plant Sciences

Epidermal Patterning and Silica Phytoliths in Grasses: An Evolutionary History

Paula J. Rudall et al.

BOTANICAL REVIEW (2014)

Article Biochemistry & Molecular Biology

Shotgun microbial profiling of fossil remains

C. Der Sarkissian et al.

MOLECULAR ECOLOGY (2014)

Article Genetics & Heredity

Pathogens and host immunity in the ancient human oral cavity

Christina Warinner et al.

NATURE GENETICS (2014)

Article Multidisciplinary Sciences

Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome

Boulos Chalhoub et al.

SCIENCE (2014)

Article Multidisciplinary Sciences

Mongolians core gut microbiota and its correlation with seasonal dietary changes

Jiachao Zhang et al.

SCIENTIFIC REPORTS (2014)

Article Biotechnology & Applied Microbiology

Kraken: ultrafast metagenomic sequence classification using exact alignments

Derrick E. Wood et al.

GENOME BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters

Hakon Jonsson et al.

BIOINFORMATICS (2013)

Article Multidisciplinary Sciences

Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments

Jesse Dabney et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Archaeology

THE ARCHAEOBOTANY OF NEOLITHIC AND BRONZE AGE CRETE: SYNTHESIS AND PROSPECTS

Alexandra Livarda et al.

ANNUAL OF THE BRITISH SCHOOL AT ATHENS (2013)

Article Anatomy & Morphology

Setting the stage - Building and working in an ancient DNA laboratory

Michael Knapp et al.

ANNALS OF ANATOMY-ANATOMISCHER ANZEIGER (2012)

Article Biotechnology & Applied Microbiology

Improving ancient DNA read mapping against modern reference genomes

Mikkel Schubert et al.

BMC GENOMICS (2012)

Article Multidisciplinary Sciences

Structure, function and diversity of the healthy human microbiome

Curtis Huttenhower et al.

NATURE (2012)

Article Biochemical Research Methods

phangorn: phylogenetic analysis in R

Klaus Peter Schliep

BIOINFORMATICS (2011)

Article Anthropology

Evaluating the usefulness of phytoliths and starch grains found on survey artifacts

Thomas C. Hart

JOURNAL OF ARCHAEOLOGICAL SCIENCE (2011)

Review Dentistry, Oral Surgery & Medicine

The Role of Bacteria in the Caries Process: Ecological Perspectives

N. Takahashi et al.

JOURNAL OF DENTAL RESEARCH (2011)

Article Biochemical Research Methods

Bayesian community-wide culture-independent microbial source tracking

Dan Knights et al.

NATURE METHODS (2011)

Article Agronomy

Seasonal dynamics of biomass, inulin, and water-soluble sugars in roots of Cynara cardunculus L.

Salvatore Antonino Raccuia et al.

FIELD CROPS RESEARCH (2010)

Review Food Science & Technology

Composition, molecular structure, properties, and modification of pulse starches: A review

R. Hoover et al.

FOOD RESEARCH INTERNATIONAL (2010)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Article Geography, Physical

The Holocene landscape history of the NW Italian coasts

Cristina Bellini et al.

HOLOCENE (2009)

Article Anthropology

Changes in starch grain morphologies from cooking

Amanda G. Henry et al.

JOURNAL OF ARCHAEOLOGICAL SCIENCE (2009)

Article Plant Sciences

Plant gathering and cultivation in prehistoric Tuscany (Italy)

Cristina Bellini et al.

VEGETATION HISTORY AND ARCHAEOBOTANY (2008)

Article Anthropology

Grinding flour in Upper Palaeolithic Europe (25 000 years bp)

Biancamaria Aranguren et al.

ANTIQUITY (2007)

Review Plant Sciences

The domestication of artichoke and cardoon: From roman times to the genomic age

Gabriella Sonnante et al.

ANNALS OF BOTANY (2007)

Article Plant Sciences

Vegetation history, climate and human impact over the last 15,000 years at Lago dell'Accesa (Tuscany, Central Italy)

Ruth Drescher-Schneider et al.

VEGETATION HISTORY AND ARCHAEOBOTANY (2007)

Article Plant Sciences

International Code for Phytolith Nomenclature 1.0

M Madella et al.

ANNALS OF BOTANY (2005)

Article Plant Sciences

Morphology and distribution of epidermal phytoliths in Triticum aestivum L.

R Ponzi et al.

PLANT BIOSYSTEMS (2003)