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Summer School Director: 
M. Pilar Francino
 
Summer School Administrator:
Kevin Cifuentes
Telf.: 961 925 911

 

 
 
 
 
 

SUMMER SCHOOL - Module 2

 

 

 


Module 2/ Introduction to Oxford nanopore (MinION) and MiSeq (illumina) technologies: microbial whole genomic, metagenomics and amplicon libraries preparation.

Dates: June 25th to June 28th 2019

Coordinator: Llúcia Martínez Priego (martinez_lucpri@gva.es)

The Sequencing Service of Fundació per al Foment de la Investigació Sanitària i Biomèdica de la Generalitat Valenciana (FISABIO – Salut Pública) propose a basic course in Oxford nanopore (MinION) and MiSeq (illumina) technologies. The goal of this course is to teach the fundamentals of nanopore and illumina library preparation protocols and sequencing. The training will be focused on microbiology NGS applications: microbial whole genomic, metagenomics and 16S amplicon protocols.

The course is addressed to professionals of microbiology services in hospitals, NGS laboratory technicians and other professionals in microbiology, health sciences and related fields who are interested in learning new techniques to approach the study of microbiota.

The module will be practical and hands-on, and will teach participants to prepare two different libraries for Illumina platforms: 16S amplicon libraries for taxonomy analyses and whole genome amplification libraries for genomic or metagenomic analyses and one library protocol for Oxford nanopore MinION platform: 16S amplicon libraries.

Brief theoretical sessions and practical hands-on sessions will be taught by FISABIO Sequencing Service staff.

Official language: English or Spanish (depending of the student’s origin)

 

PREREGISTRATION

Module costs: 480 euros


Instructors:

Llúcia Martínez Priego PhD. Manager in the Sequencing Service of FISABIO-SP.
Griselda de Marco. MS. Research Assistant in Sequencing Service of FISABIO-SP.

 

Llúcia Martínez Priego

PhD. Manager in the Sequencing Service of FISABIO-SP.

martinez_lucpri@gva.es

Griselda de Marco

MS. Research Assistant in Sequencing Service of FISABIO-SP.

 




Course program 2019:

Tuesday June 25th:

09:15 – 10:00 An Introduction to NGS library preparation
        Llúcia Martínez Priego

10:00 – 10:30 Best practices in a NGS laboratory
        Llúcia Martínez Priego

Break

11:00 – 12:00 DNA quantification and normalisation
       Llúcia and Griselda

12:00 – 13:00 Starting illumina 16S amplicon protocol: first amplicon PCR
        Llúcia and Griselda

Lunch

14:30 – 16:30 Starting illumina microbial whole genomic protocol: DNA tagmentation and library clean up
        Llúcia and Griselda

16:30 – 17:30 Indexing both  illumina protocols
        Llúcia and Griselda


Wednesday June 26th:

09:00 – 10:00 Cleaning up both illumina protocols 
          Llúcia and Griselda
 
10:00 – 10:30 Bioanalyzer set up for illumine libraries validation
          Llúcia and Griselda
 
Break
 
11:00 – 11:30 Library quantification
          Llúcia and Griselda
 
11:30 – 13:00 Review of library validation results
         Llúcia Martínez Priego
 
Lunch
 
14:30 – 16:30 Library normalization
          Llúcia Martínez Priego
 
16:30 – 17:30 Create Sample sheet for Illumina MiSeq RUN
         Llúcia Martínez Priego
 
Thursday June 27th:
 
09:15 – 10:30 An Introduction to Oxford nanopore technology
         Llúcia Martínez Priego
 
Break
 
11:00 – 13:00 Nanopore 16S amplicon library preparation
         Llúcia and Griselda
 
Lunch
 
14:30 – 16:30 Run ONT device and assess sequencing performance during the run
          Llúcia and Griselda
 
 
Friday June 28th:
 
09:00 – 10:45 Preparing the MiSeq and the loading cartridge
          Llúcia Martínez Priego
 
Break
 
11:00 – 13:30 Loading libraries for sequencing
          Llúcia Martínez Priego
 
13:30 – 15:00 Course feedback and wrap up
         Llúcia Martínez Priego
 


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