Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates

Streptococcus pneumoniae is an important cause of human infections, particularly pneumonia, acute otitis media and meningitis. Hyaluronate lyase, an enzyme secreted by Streptococcus pneumoniae facilitates bacterial invasion by degradation of host connective tissue. This study was conducted to charac...

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Main Authors:	Ahmad Yusof @ Hanafi, Hanani, Masri, Siti Norbaya, Mohd Desa, Mohd Nasir, Osman, Malina, Jamal, Farida
Format:	Conference or Workshop Item
Language:	English English English
Published:	2012
Subjects:	QR Microbiology
Online Access:	http://irep.iium.edu.my/45442/ http://irep.iium.edu.my/45442/1/Hanani_Ahmad_Yusof_%40_Hanafi_extended_abstract_31st_MSM_symposium_2012_%28new%29.pdf http://irep.iium.edu.my/45442/2/Programme_book_31st_SMSM_2012.pdf http://irep.iium.edu.my/45442/3/Slides_Hanani_bt_Ahmad_Yusof_.pdf

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spelling	iium-454422016-06-28T06:17:37Z http://irep.iium.edu.my/45442/ Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates Ahmad Yusof @ Hanafi, Hanani Masri, Siti Norbaya Mohd Desa, Mohd Nasir Osman, Malina Jamal, Farida QR Microbiology Streptococcus pneumoniae is an important cause of human infections, particularly pneumonia, acute otitis media and meningitis. Hyaluronate lyase, an enzyme secreted by Streptococcus pneumoniae facilitates bacterial invasion by degradation of host connective tissue. This study was conducted to characterize the nucleotide sequence of hyaluronate lyase gene among clinical isolates of Streptococcus pneumoniae. Twenty isolates were selected comprising 13 from blood, 3 from sputum, 2 from pus and one each from cerebrospinal fluid and pleural fluid. ATCC 49169 strain was included as the positive control. DNA was extracted from all samples and PCR amplification was done using 5 sets of primers prior to sequencing the whole gene. DNA sequence analysis was done with BioEdit, NCBI Blast tools and MEGA4 software by using Streptococcus pneumoniae TIGR4 as the reference sequence. A total of 100 nucleotide variants were found among the strains which comprised 98 single nucleotide substitutions, 1 deletion and 1 insertion of triplet bases. From this result it was predicted that 53 variants could change the amino acid residue. Part of the changes involved 15 residues of both α- and β-domains, and 1 residue in the linker. Two nucleotide variations could cause earlier stop codon. Although high numbers of nucleotide variants were present, biological function of hyaluronate lyase was not likely to be affected as no catalytic active site was involved. The nucleotide variants were scattered in all strains, and did not appear to be related to the serotype or clinical source of the strain. Further studies are required to elaborate the significance of these findings. 2012 Conference or Workshop Item NonPeerReviewed application/pdf en http://irep.iium.edu.my/45442/1/Hanani_Ahmad_Yusof_%40_Hanafi_extended_abstract_31st_MSM_symposium_2012_%28new%29.pdf application/pdf en http://irep.iium.edu.my/45442/2/Programme_book_31st_SMSM_2012.pdf application/pdf en http://irep.iium.edu.my/45442/3/Slides_Hanani_bt_Ahmad_Yusof_.pdf Ahmad Yusof @ Hanafi, Hanani and Masri, Siti Norbaya and Mohd Desa, Mohd Nasir and Osman, Malina and Jamal, Farida (2012) Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates. In: 31st Symposium of the Malaysian Society for Microbiology, 13th-15th Dec. 2012, Promenade Hotel, Kota Kinabalu, Sabah. (Unpublished)
repository_type	Digital Repository
institution_category	Local University
institution	International Islamic University Malaysia
building	IIUM Repository
collection	Online Access
language	English English English
topic	QR Microbiology
spellingShingle	QR Microbiology Ahmad Yusof @ Hanafi, Hanani Masri, Siti Norbaya Mohd Desa, Mohd Nasir Osman, Malina Jamal, Farida Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
description	Streptococcus pneumoniae is an important cause of human infections, particularly pneumonia, acute otitis media and meningitis. Hyaluronate lyase, an enzyme secreted by Streptococcus pneumoniae facilitates bacterial invasion by degradation of host connective tissue. This study was conducted to characterize the nucleotide sequence of hyaluronate lyase gene among clinical isolates of Streptococcus pneumoniae. Twenty isolates were selected comprising 13 from blood, 3 from sputum, 2 from pus and one each from cerebrospinal fluid and pleural fluid. ATCC 49169 strain was included as the positive control. DNA was extracted from all samples and PCR amplification was done using 5 sets of primers prior to sequencing the whole gene. DNA sequence analysis was done with BioEdit, NCBI Blast tools and MEGA4 software by using Streptococcus pneumoniae TIGR4 as the reference sequence. A total of 100 nucleotide variants were found among the strains which comprised 98 single nucleotide substitutions, 1 deletion and 1 insertion of triplet bases. From this result it was predicted that 53 variants could change the amino acid residue. Part of the changes involved 15 residues of both α- and β-domains, and 1 residue in the linker. Two nucleotide variations could cause earlier stop codon. Although high numbers of nucleotide variants were present, biological function of hyaluronate lyase was not likely to be affected as no catalytic active site was involved. The nucleotide variants were scattered in all strains, and did not appear to be related to the serotype or clinical source of the strain. Further studies are required to elaborate the significance of these findings.
format	Conference or Workshop Item
author	Ahmad Yusof @ Hanafi, Hanani Masri, Siti Norbaya Mohd Desa, Mohd Nasir Osman, Malina Jamal, Farida
author_facet	Ahmad Yusof @ Hanafi, Hanani Masri, Siti Norbaya Mohd Desa, Mohd Nasir Osman, Malina Jamal, Farida
author_sort	Ahmad Yusof @ Hanafi, Hanani
title	Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
title_short	Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
title_full	Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
title_fullStr	Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
title_full_unstemmed	Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
title_sort	nucleotide variations of streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates
publishDate	2012
url	http://irep.iium.edu.my/45442/ http://irep.iium.edu.my/45442/1/Hanani_Ahmad_Yusof_%40_Hanafi_extended_abstract_31st_MSM_symposium_2012_%28new%29.pdf http://irep.iium.edu.my/45442/2/Programme_book_31st_SMSM_2012.pdf http://irep.iium.edu.my/45442/3/Slides_Hanani_bt_Ahmad_Yusof_.pdf
first_indexed	2023-09-18T21:04:41Z
last_indexed	2023-09-18T21:04:41Z
_version_	1777410853918736384

Nucleotide variations of Streptococcus pneumoniae hyaluronate lyase (spnhyl) gene in clinical isolates

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