Facing the challenges of nanopore sequencing in microbial communities studies, por Alfonso Benítez Páez (IATA)

Seminarios
Friday, 24 February, 2017

Fecha: 24 de Febrero 2017, 12:30 h
Lugar: Salón de Actos del IATA
Ponente:Alfonso Benítez Páez

The miniaturized and portable DNA sequencer MinIONTM has been released on early 2014 to the scientific community in the framework of an early access programme (MAP programme supported by Oxford Nanopore Technologies) to evaluate its application for a wide variety of genetic approaches. This technology has demonstrated a great potential, especially in genome-wide analyses given its long-read output. We have used this technology to setup a new molecular approach to study the composition of complex microbial communities from environmental- and human-derived samples. Our published results has demonstrated the ability of the MinIONTM system to perform amplicon sequencing using nearly full-length 16S rDNA sequences. The application of such technology in the field of microbiology gives a higher resolution of the microbial community structure allowing classification of sequences at species level despite the low per-base accuracy of reads produced during the single molecule sequencing, however, the throughput of MinIONTM appears as the major handicap for the complete application of this technology in microbial diversity analyses. With the permanent update of this technology, we have moved a step forward to develop a multi-locus approach based on the ultra-long amplicon sequencing using chemistries R9 and R9.4 and new MinIONTM MKIb. Our results are promising when mock communities are analyzed using a reference database created from more than 65 thousand bacterial genomes. We are on progress to advance in the deep characterization of microbial communities allowing taxonomy identification at species and even strain level.

Dr. Alfonso Benítez Páez works at IATA in the Microbial ecology, Nutrition and Health Group, on microbial genomics of human gut microbiota.