Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method
Genotypic analyses could provide highly accurate information on taxonomic linage and can be used to develop identification tool for fish bacterial pathogens. In this study, the nucleotide sequences of 16S rRNA and atpA genes in15 strains of V. harveyi were analyzed to determine which of these genes...
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| Format: | Article |
| Language: | English |
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2013
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| Online Access: | https://eprints.ums.edu.my/id/eprint/20286/1/Taxonomic%20classification%20of%20Vibrio%20harveyi%20using%2016S%20rDNA%20and%20atpA%20gene%20sequencing%20method.pdf |
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| author | Mohammad Tamrin Mohammad Lal Mohamad Lal Julian Ransangan |
| author_facet | Mohammad Tamrin Mohammad Lal Mohamad Lal Julian Ransangan |
| author_sort | Mohammad Tamrin Mohammad Lal |
| collection | UMS |
| description | Genotypic analyses could provide highly accurate information on taxonomic linage and can be used to develop
identification tool for fish bacterial pathogens. In this study, the nucleotide sequences of 16S rRNA and atpA genes in15 strains of V. harveyi were analyzed to determine which of these genes provide high confident level in the identification of the bacterial pathogen. In addition, the phenotypic characteristics and antibiotic susceptibility of the bacterial strains were also determined. The phenotypic analysis classified V. harveyi strains into 5 phenotypic groups. Each of this phenotypic group also exhibited variable responses to antibiotics. The 16S rRNA gene sequence analysis grouped V. harveyi into two
main groups. The grouping was due to the presence of two unique nucleotide sequences located at nt1004 – nt1013 (V.
harveyiATCC 35084 (GQ370528)). Unfortunately, these unique sequences were also found in other closely related Vibrio
species. On the other hand, the atpA gene sequencing analysis clustered all the V. harveyi strains into a single group and differentiated from closely related species. The single clustering of V. harveyi was the result of the presence of one unique sequence at the nucleotide positions, nt1071 – nt1122 (V. harveyiATCC 35084 (JF723525)). The present study shows that phenotypic characterization and antibiotic susceptibility test may not be able to identify V. harveyi strains with high degree of confidence. Although, 16S rDNA gene sequencing analysis has been widely accepted as the universal method for bacterial identification, it is less useful in taxonomic classification ofV. harveyi. Hence our study suggests that atpA gene may be the best target for DNA sequencing analysis for the purpose of taxonomic classification of V. harveyi. |
| first_indexed | 2024-03-06T02:57:26Z |
| format | Article |
| id | ums.eprints-20286 |
| institution | Universiti Malaysia Sabah |
| language | English |
| last_indexed | 2024-03-06T02:57:26Z |
| publishDate | 2013 |
| record_format | dspace |
| spelling | ums.eprints-202862018-06-20T00:21:33Z https://eprints.ums.edu.my/id/eprint/20286/ Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method Mohammad Tamrin Mohammad Lal Mohamad Lal Julian Ransangan QL Zoology Genotypic analyses could provide highly accurate information on taxonomic linage and can be used to develop identification tool for fish bacterial pathogens. In this study, the nucleotide sequences of 16S rRNA and atpA genes in15 strains of V. harveyi were analyzed to determine which of these genes provide high confident level in the identification of the bacterial pathogen. In addition, the phenotypic characteristics and antibiotic susceptibility of the bacterial strains were also determined. The phenotypic analysis classified V. harveyi strains into 5 phenotypic groups. Each of this phenotypic group also exhibited variable responses to antibiotics. The 16S rRNA gene sequence analysis grouped V. harveyi into two main groups. The grouping was due to the presence of two unique nucleotide sequences located at nt1004 – nt1013 (V. harveyiATCC 35084 (GQ370528)). Unfortunately, these unique sequences were also found in other closely related Vibrio species. On the other hand, the atpA gene sequencing analysis clustered all the V. harveyi strains into a single group and differentiated from closely related species. The single clustering of V. harveyi was the result of the presence of one unique sequence at the nucleotide positions, nt1071 – nt1122 (V. harveyiATCC 35084 (JF723525)). The present study shows that phenotypic characterization and antibiotic susceptibility test may not be able to identify V. harveyi strains with high degree of confidence. Although, 16S rDNA gene sequencing analysis has been widely accepted as the universal method for bacterial identification, it is less useful in taxonomic classification ofV. harveyi. Hence our study suggests that atpA gene may be the best target for DNA sequencing analysis for the purpose of taxonomic classification of V. harveyi. 2013 Article PeerReviewed text en https://eprints.ums.edu.my/id/eprint/20286/1/Taxonomic%20classification%20of%20Vibrio%20harveyi%20using%2016S%20rDNA%20and%20atpA%20gene%20sequencing%20method.pdf Mohammad Tamrin Mohammad Lal and Mohamad Lal and Julian Ransangan (2013) Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method. International Journal of Research in Pure and Applied Microbiology, 1. pp. 17-24. ISSN 2277–3843 |
| spellingShingle | QL Zoology Mohammad Tamrin Mohammad Lal Mohamad Lal Julian Ransangan Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title | Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title_full | Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title_fullStr | Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title_full_unstemmed | Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title_short | Taxonomic classification of Vibrio harveyi using 16S rDNA and atpA gene sequencing method |
| title_sort | taxonomic classification of vibrio harveyi using 16s rdna and atpa gene sequencing method |
| topic | QL Zoology |
| url | https://eprints.ums.edu.my/id/eprint/20286/1/Taxonomic%20classification%20of%20Vibrio%20harveyi%20using%2016S%20rDNA%20and%20atpA%20gene%20sequencing%20method.pdf |
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