CIESM Workshop Monographs, n°49

 

Searching for Bacterial Pathogens in the Digital Ocean

To be cited as:
CIESM 2017. Searching for Bacterial Pathogens in the Digital Ocean. CIESM Workshop Monograph n° 49 [F. Briand, ed.], 158 p., CIESM Publisher, Monaco.

This volume, fully illustrated and rich in references, is available in print from our on-line bookstore.

You may also download the Executive Summary if based in a CIESM Member State.

This book is protected by international copyright law.

Contents:

I – Executive Summary …………………………………………………………………

1. Introduction
2. Identification of useful variables / markers
3. Pathogenic traits
4. The pathogenic environment
5. Relevant, reliable, available databases
6. Statistical/ mathematical tools for data mining
      
II – Workshop Communications

Genome Complexity
- Diversity of metagenomics studies - dissecting microbiomes
Maria Dzunkova, Francesc Peris-Bondia, Andres Moya and Giuseppe D'Auria……………………

- The Enhanced Infectious Disease Database (EID2) system of species interactions and location automatic detection and its applications
Maya Wardeh, Marie McIntyre and Matthew Baylis……………………

Data Acquisition and Analysis

- Sequencing the ocean
Chris Bowler, Frank-Oliver Glöckner and Antonio Fernandez-Guerra…………………………………………

- Finding Statistically Significant Patterns from Data
Mahito Sugiyama……………………

- The "explore and exploit" strategy of bacteria: from the gut to the ocean
Dorota Czerucka and Fernando Peruani……………………

Genomics of Pathogenic Bacteria

- Tracking pathogens in the wild requires a plan
Maxime Bruto, Adèle James, Damien Piel, Sabine Chenivesse, Yannick Labreuche and Frédérique Le Roux…………………………

- Environmental stress and the control of gene expression in pathogenic bacteria
Charles J. Dorman…………………………………

- The management and utility of whole genome sequence data for infectious disease surveillance and intervention: from hospitals, to fish-farms, to the oceans
Nicola Coyle, Sion C. Bayliss, Harry A. Thorpe and Edward J Feil……………………

- New potential NGS-based markers for detection of Vibrionaceae in marine environments
Aleksei Korzhenkov, Bogdan Efimenko, Stepan Toshchakov……………………

Ecological Traits of Pathogenic Bacteria

- Investigating the macroecology of emerging Vibrio pathogens in the ocean using the Continuous Plankton Recorder technology
Luigi Vezzulli, William H. Wilson, Carla Pruzzo…………………………………………

- Diversity and distribution of potential human pathogenic bacteria in the seas: novel insights from exploration of NGS databases
Marc Troussellier, Jean-Christophe Auguet and Arthur Escalas…………………………………………

- Next generation sequencing-based approaches to characterize microbial pathogenic community and their potential relation to the Black Sea ecosystem status
Elena Stoica, Mariia Pavlovska, Evgen Dykyi, Konstantinos Kormas…………………………………………

III – Bibliographic References …………………………………………………………

IV – List of Participants …………………………………………………………………