A Web-based Interactive Genome Library for Surveillance, Detection, Characterization and Drug-Resistance Monitoring of Influenza Virus Infection in the.

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Presentation transcript:

A Web-based Interactive Genome Library for Surveillance, Detection, Characterization and Drug-Resistance Monitoring of Influenza Virus Infection in the Philippines Dr. Edsel Maurice T. Salvaña National Institute of Molecular Biology and Biotechnology National Institutes of Health University of the Philippines - Manila

INTRODUCTION Influenza is an emerging infection Through reassortment, it has the potential to become pandemic, such as 2009 A(H1N1) which caused the latest influenza pandemic Important to monitor for new strains and drug resistance Reassortant strains may cause a pandemic Drug resistance monitoring is important for the treatment of immunocompromised, the elderly, and the children

INFLUENZA IN THE PHILIPPINES There is currently no existing web-based database about influenza in the Philippines Present data on influenza only includes basic information and infection rates Little is available on epidemiology and drug-resistance

OBJECTIVE This project aims to design and construct a web-based interactive genome library for surveillance, detection, characterization, genotyping, and genotype and drug-resistance monitoring of influenza virus infection in the Philippines.

GOALS OF THE DATABASE Comprehensive library of influenza sequences in the Philippines Linked genomic, clinical and geographic data Sequencing of key resistance genes for epidemiologic monitoring http://iflu.upm.edu.ph/

FEATURES 3 Levels of Access Patient and Virological Data Entry Patient and Virological Data Search Data Analysis-Tables and Graphs Clickable Map of the Philippines When clicked shows ILI data for the region

METHODS Computer Scientists Biologists This project is being worked on by 2 teams: the computer scientists and biologists. On one hand, the computer scientists are developing the website/database. On the other hand, the biologists are sequencing the pandemic A(H1N1) influenza viruses. When we combine these two together, we get the Philippine Influenza Database.

ACCESS LEVELS Guest Administrator Can only access search features, maps, tables, and graphs Registered User Can input patient data and sequence data Administrator All website access including Allowing access for registered users Maintaining the website Deleting Patients Updating graphs

HOMEPAGE

CREATE ACCOUNT

PATIENT DATA ENTRY

SEQUENCE DATA ENTRY

UPLOAD/DOWNLOAD

SEQUENCE SEARCH

TABLES

GRAPHS

CLICKABLE MAP

CLICKABLE MAP

430 A(H1N1) isolates with a total of 952 sequences (only 4 Philippine isolates previously, submitted by foreign sources) All isolates resistant to adamantane resistance data Detected six instances of oseltamivir resistance Beta-testing of Genome Library

CONSISTENT WITH DATA FROM OTHER COUNTRIES RESULTS All of the A(H1N1) 2009 pandemic samples sequenced had resistance mutations against adamantanes (S31N) CONSISTENT WITH DATA FROM OTHER COUNTRIES

RESULTS Six of the neuraminidase genes had resistance mutations (H275Y) for oseltamivir

METHODOLOGY A total of sixty (60) sequences for both hemagglutinin and neuraminidase were obtained from the Influenza database. Sequence concatenation and alignment were done using MEGA 5 software (Tamura et al., 2007). Aligned sequences were uploaded in Beauti to generate files for the BEAST software (Drummond and Rambaut, 2007). Phylogenetic tree was generated using HKY model and tip dates to generate height. RESULT Phylogenetic analysis resulted to a tree that has clusters based on the year of sampling. Two samples (2011-03-12_11_82 and 2011-03-12_11_83) were found to be more related to 2010-07-18_10_79. DISCUSSION The phylogenetic tree generated in this study shows the yearly genetic change of the influenza virus similar to other studies such as the study of Su and colleagues in 2015. Two samples isolated in March 2011 were found to be closely related to the samples that were isolated July 2010. This could indicate the possibility that the variant of influenza virus related to 2010-07-18 still exists in the population up to the early 2011 as demonstrated Steinbruck in 2011.

Data presented in European Congress of Clinical Microbiology and Infectious Diseases 2012 – WHO showed interest in this model Abstract presented at ID Week 2012 – Excellent Reception Resistance Data presented in ECCMID 2015 Active collaboration with RITM most samples sourced from them

FUTURE PLANS Beta testing in Metro Manila Incorporating RITM data into database Expanding the database to other diseases of public health importance, i.e., dengue, HIV Long-term sustainability Hosting by the Philippine Genome Center

THE INFLUENZA TEAM Program Leader: Dr. Raul V. Destura Project Leader: Dr. Edsel Maurice T. Salvaña Web Portal: George Bryan Trinidad Monica Hoe Lim Ma Mark Laurence Agmata Sequencing of Influenza: Brian Schwem Sharie Keanne Ganchua Funded by the Department of Science and Technology Before I end, I would like to acknowledging the efforts of the IMBB Influenza Team. These are the people behind this project.

THANK YOU!