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conferenceseries
.com
Volume 5, Issue 3 (Suppl)
J Infect Dis Ther, an open access journal
ISSN:2332-0877
Infectious Diseases 2017
August 21-23, 2017
3
rd
Annual Congress on
Infectious Diseases
August 21-23, 2017 San Francisco, USA
Whole genome sequencing analysis from bacterial DNA: An attempt to
Mycobacterium tuberculosis
complete genome sequencing
Alvarez-Maya Ikuri
1
, Padilla-Martinez Felipe
1
, Gonzalez-Barrios Juan Antonio
2
, Barbadilla-Prados Antonio
3
, Egea Raquel IBB
3
and
Islas-Rodriguez
Alfonso
4
1
CIATEJ, Mexico
2
Lara-Lozano Manuel Regional Hospital, Mexico
3
Universitat Autonoma de Barcelona, Spain
4
University of Guadalajara, Mexico
Statement of the Problem:
Tuberculosis is a bacterial disease caused by
Mycobacterium tuberculosis
. This bacterium is known
for a high rate of drug resistance, and then tuberculosis is considered a worldwide public disease with high health and economic
impact. Statistics in Mexico show that the incidence increases 15% every year, being a major problem due to the persistence.
We aim to sequence the complete genome of
Mycobacterium tuberculosis
and subsequently perform bioinformatics analysis to
determine possible molecular changes.
Methodology & Theoretical Orientation:
The complete genome of a Laboratory
Mycobacterium tuberculosis
strain H37Rv
was sequenced using Next-Generation Sequencing (NGS) on the Illumina MiSeq platform. Genome DNA (gDNA) library
was constructed using Nextera XT (Illumina) protocol. DNA was fragmented, tagged and selected by size, then sequenced by
Illumina MiSeq-NGS platform. For bioinformatics, all sequences with adaptor contamination, duplicate reads or unknown
nucleotides were removed by trimmomatic. Clean-filtered reads were mapped to the reference genome from GenBank
(AL123456.3) by BWA software. Finally SAMTools software was used for SNP calling, since a resistance anti-tuberculous drug
has been associated with SNPs in particular genes.
Findings:
Phred quality score in DNA sequencing was calculate (Q45) then this score was assigned to each nucleotide in the
generated sequences. The P value was obtained (3.162e-005) and indicated that the genotype GC is very likely to be the true
genotype in the sequenced sample. Preliminary results shown that there is a single nucleotide variant (SNV) from G to C at
position 3982 in the strain of
Mycobacterium tuberculosis
.
Conclusion & Significance:
Mapping between Laboratory strain H37Rv and GeneBank H37Rv (ID 20829) shown at least one
SNP in the position 3982. However, this result must to be confirmed using a higher depth reading and a further exhaustive
analysis.
Biography
Alvarez-Maya Ikuri is a Researcher at the Center for Research and Assistance in Technology and Design of the State of Jalisco. She holds a Post-doctoral degree
in Neurobiology Department, NRC in University of Alabama at Birmingham UAB, Alabama, and USA; and in Department of Virology, Children's Hospital of Eastern
Ontario CHEO, Ottawa, Canada. She has published in several indexed journals, attended more than 30 national and international congresses, and has contributed
to the training of students in different levels of postgraduation. Her research interest is focused mainly on molecular diagnosis of infectious diseases.
Ikuri.alvarez@gmail.comAlvarez-Maya Ikuri et al., J Infect Dis Ther 2017, 5:3 (Suppl)
DOI: 10.4172/2332-0877-C1-026