Special Issue "Microbial Paleogenomics: The Role of Microbes on Evolutionary Trends and Future Discoveries"

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Microbial Genetics and Genomics".

Deadline for manuscript submissions: closed (30 April 2018)

Special Issue Editors

Guest Editor
Dr. Raul J. Cano

Director of Research, ATCC Programs, ATCC Center for Translational Microbiology, 1075 Morris Avenue – STEM Building 5-19, Union, NJ 07083, USA
E-Mail
Phone: 805-748-9717
Guest Editor
Dr. Gary A. Toranzos

Professor of Microbiology, University of Puerto Rico, Rio Piedras Campus
E-Mail
Phone: 7787-478-7790
Guest Editor
Dr. Tasha M. Santiago-Rodriguez

Diversigen Inc., Houston, TX, USA 77046
E-Mail

Special Issue Information

Dear Colleagues,

The fields of paleogenomics is experiencing a new technological revolution as a result of a much greater armamentarium of techniques, such as next generation sequencing and corresponding bioinformatics analysis to reconstruct ancestral genomes. Molecular and “omics” approaches are increasingly allowing the investigation of ancient cultures and environments farther than previously imagined. Until recently, studies of ancient cultures have been limited by the quality and analysis methods of DNA in artifacts and remains found during excavations other explorations of ancient life on Earth. The application of the most recent technological advances in DNA sequencing and analysis, however, ancient materials of human, animal and microbial origin have provided important insights of the microbiome, resistome, dietary habits, and health and disease states of ancient times and civilizations. Such studies offer the possibility of providing a point of reference or milestone for the study of microbial genome evolution. Of particular interest is the study of the ancient resistome evolution and predictive trends in antimicrobial resistant determinants that the resistome can provide. The same armamentarium of tools can be applied to the study of ancient environments in an attempt to better understand environmental issues, such as global warming and species extinctions. This Special Issue of Genes will explore the genomics and metagenomics of ancient microbial life and their impact on the environment and human and animal populations and putative antibiotic-resistance genes compositions of such environments prior the antibiotic therapy era.

Dr. Raul J. Cano
Dr. Gary A. Toranzos
Dr. Tasha M. Santiago-Rodriguez
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All papers will be peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

 

Keywords

  • DNA sequencing
  • Metagenomics
  • Microbiome
  • Epigenomics
  • Evolution
  • Genome evolution
  • Next Generation Sequencing
  • Resistome
  • Ancient DNA
  • Archaeology
  • Viromes
  • Paleoviromes
  • Phageomes

Published Papers (1 paper)

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Research

Open AccessFeature PaperArticle Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies
Genes 2017, 8(11), 310; https://doi.org/10.3390/genes8110310
Received: 30 August 2017 / Revised: 20 October 2017 / Accepted: 25 October 2017 / Published: 7 November 2017
Cited by 2 | PDF Full-text (2623 KB) | HTML Full-text | XML Full-text | Supplementary Files
Abstract
Little is still known about the microbiome resulting from the process of mummification of the human gut. In the present study, the gut microbiota, genes associated with metabolism, and putative resistome of Inca and Italian nobility mummies were characterized by using high-throughput sequencing.
[...] Read more.
Little is still known about the microbiome resulting from the process of mummification of the human gut. In the present study, the gut microbiota, genes associated with metabolism, and putative resistome of Inca and Italian nobility mummies were characterized by using high-throughput sequencing. The Italian nobility mummies exhibited a higher bacterial diversity as compared to the Inca mummies when using 16S ribosomal (rRNA) gene amplicon sequencing, but both groups showed bacterial and fungal taxa when using shotgun metagenomic sequencing that may resemble both the thanatomicrobiome and extant human gut microbiomes. Identification of sequences associated with plants, animals, and carbohydrate-active enzymes (CAZymes) may provide further insights into the dietary habits of Inca and Italian nobility mummies. Putative antibiotic-resistance genes in the Inca and Italian nobility mummies support a human gut resistome prior to the antibiotic therapy era. The higher proportion of putative antibiotic-resistance genes in the Inca compared to Italian nobility mummies may support the hypotheses that a greater exposure to the environment may result in a greater acquisition of antibiotic-resistance genes. The present study adds knowledge of the microbiome resulting from the process of mummification of the human gut, insights of ancient dietary habits, and the preserved putative human gut resistome prior the antibiotic therapy era. Full article
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