Project - PRJEB15264

Microbial diversity based on a multilocus and long amplicon sequencing approach using MinION(TM) sequencer.


We have recently explored the performance of MinION(TM) device regarding microbial diversity of complex samples demonstrating that data obtained from sequencing of nearly-full 16S rRNA gene amplicons is feasible to study microbial communities through nanopore technology. We wanted to move a step forward in this type of strategy by designing a multi-locus and ultra-long amplicon sequencing method to study the microbial diversity. As a consequence, we present a study of the 16S, 23S, and the internal transcribed spacer (ITS, that frequently encodes tRNA genes) simultaneous sequencing, using MinION??MkI device and R9 chemistry, with prior generation of ~4.5kb DNA fragments by amplifying the nearly-full operon encoding the ribosomal RNA genes in bacteria, the rrn operon (rrn hereinafter). We have studied the rrn of two mock microbial communities composed of genomic DNA from 20 and 8 different bacterial species, obtained respectively from BEI Resources and ZYMO Research Corp., using the MinIONTM sequencing platform.

External Links

ENA website

NCBI website


Multi-locus and long amplicon sequencing approach to study microbial diversity at species level using the MinION portable nanopore sequencer
Alfonso Benitez-Paez, et al. 2017

Runs 2

Sample Accession Run Accession Scientific Name Instrument Platform Instrument Model Library Name
SAMEA4413456 ERR1924217 bacterial mixed DNA library Oxford Nanopore MinION reads_R9.4
SAMEA4413456 ERR1605520 bacterial mixed DNA library Oxford Nanopore MinION reads_mock