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Study

Study Name: Mineralized plaque microbial communities from archaeological dental calculus in Industrial England, United Kingdom

Projects

Biosamples

Organisms

Biosamples: 31 Seq. Projects: 31
STUDY INFORMATION
GOLD Study ID Gs0153917
Study Name Mineralized plaque microbial communities from archaeological dental calculus in Industrial England, United Kingdom
Other Names
NCBI Umbrella Bioproject Name
NCBI Umbrella Bioproject ID
SRA Studies
SRA Study Id ERP014351  (Link to NCBI )
Study Title A_plaque_on_both_your_houses__Exploring_the_history_of_urbanisation_and_infectious_diseases_through_the_study_of_archaeological_dental_tartar
Study Abstract This study will reconstruct the diversity and relative abundance of infectious pathogens in late 18th century-early 19th century skeletons through metgeonomic analysis of archaeological dental calculus . The focus is Industrial England, which witnessed unprecedented urban growth, and where records indicate differential mortality from tuberculosis, typhus (1818) and cholera (1831-2) among urban poor. DNA will be extracted within a dedicated clean-room facility using a protocol based on Dabney et al. (2013), doi: 10.1073/pnas.1314445110. We will apply a ‘shotgun’ metagenomic approach to simultaneously amplify all DNA trapped in the tartar (viruses, bacteria, fungi), and screen the sequences against reference databases to identify opportunistic, systemic and oral pathogens in each skeleton. We will examine differences in pathogen diversity and abundance and explore the congruence of microbial, skeletal and historical evidence for infectious disease exposure in urban and rural centres. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
  
Legacy ER Study ID
Legacy GOLD ID
Added By JGI automated process on 2021-03-20
Last Modified By
PI
Description The goal of this study is to develop pilot data on oral microbial profiles and disease exposure within the historic period through the metagenomic analysis of archaeological dental calculus
Relevance
Study Information Link
Study Information Visibility Public
Metagenomic Study Yes
Publication
Is GEBA
Is HMP
ECOSYSTEM CLASSIFICATION
Ecosystem Host-associated
Ecosystem Category Human
Ecosystem Type Digestive system
Ecosystem Subtype Oral cavity
Specific Ecosystem Dental plaque
STUDY COMPOSITION
Number of Biosamples 31
Number of Organisms 0
Number of Seq Projects 31
Number of Analysis Projects 0
Number of Related Studies 0

 

 

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