Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia.
Primer pairs XOR-F/XOR-R2 was used for rapid identification and differentiation of thirty strains of Xanthomonas oryzae pv. oryzae (Xoo) were collected from rice fields in Penang, Kedah, Selangor and Melaka during the period from 2008 to 2010. Purified DNA was extracted using a modified CTAB method...
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| Format: | Article |
| Language: | English English |
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Academic Journals
2011
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| Online Access: | http://psasir.upm.edu.my/id/eprint/23723/ http://psasir.upm.edu.my/id/eprint/23723/1/Rapid%20identification%20and%20differentiation%20of%20Xanthomonas%20oryzae%20pv%20oryzae%20strain%20with%20primer%2016S.pdf |
| _version_ | 1848844838035783680 |
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| author | Keshavarz, Kavous Sijam, Kamaruzaman Mior Ahmad, Zainal Abidin Hashim, Habibuddin Nazerian, Eisa |
| author_facet | Keshavarz, Kavous Sijam, Kamaruzaman Mior Ahmad, Zainal Abidin Hashim, Habibuddin Nazerian, Eisa |
| author_sort | Keshavarz, Kavous |
| building | UPM Institutional Repository |
| collection | Online Access |
| description | Primer pairs XOR-F/XOR-R2 was used for rapid identification and differentiation of thirty strains of Xanthomonas oryzae pv. oryzae (Xoo) were collected from rice fields in Penang, Kedah, Selangor and Melaka during the period from 2008 to 2010. Purified DNA was extracted using a modified CTAB method and was used in the PCR. Four hundred and seventy bp product was amplified from DNA of 30 strain using XOR-F/XOR-R2 primer pairs. Sequence similarities of the intergenic region in the 16S-23S rDNA in the Malaysian strains were as high as 99-100%. Cluster analysis based on the sequencing shows that the strains are grouped one main cluster and four groups. The minimum role of varietal influence on strain variability is partly due to the almost homogenous planting of two popular rice varieties in Peninsular Malaysia during the period of the study. On the other hand, phylogenetic analysis by using intergenic region 16S-23S divided the strains into one main cluster and four groups. The first group is represented by isolates collected from Penang and the second groups from Selangor. The third and fourth groups represented strains collected from Melaka and Kedah, respectively. The present study confirmed that direct DNA extraction from infected rice tissue by using CTAB method, followed by PCR effective methods for the identification of Xoo. Further more the results indicated that strains differentiation may be affected by the geographical areas. |
| first_indexed | 2025-11-15T08:37:16Z |
| format | Article |
| id | upm-23723 |
| institution | Universiti Putra Malaysia |
| institution_category | Local University |
| language | English English |
| last_indexed | 2025-11-15T08:37:16Z |
| publishDate | 2011 |
| publisher | Academic Journals |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | upm-237232015-09-22T02:49:43Z http://psasir.upm.edu.my/id/eprint/23723/ Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. Keshavarz, Kavous Sijam, Kamaruzaman Mior Ahmad, Zainal Abidin Hashim, Habibuddin Nazerian, Eisa Primer pairs XOR-F/XOR-R2 was used for rapid identification and differentiation of thirty strains of Xanthomonas oryzae pv. oryzae (Xoo) were collected from rice fields in Penang, Kedah, Selangor and Melaka during the period from 2008 to 2010. Purified DNA was extracted using a modified CTAB method and was used in the PCR. Four hundred and seventy bp product was amplified from DNA of 30 strain using XOR-F/XOR-R2 primer pairs. Sequence similarities of the intergenic region in the 16S-23S rDNA in the Malaysian strains were as high as 99-100%. Cluster analysis based on the sequencing shows that the strains are grouped one main cluster and four groups. The minimum role of varietal influence on strain variability is partly due to the almost homogenous planting of two popular rice varieties in Peninsular Malaysia during the period of the study. On the other hand, phylogenetic analysis by using intergenic region 16S-23S divided the strains into one main cluster and four groups. The first group is represented by isolates collected from Penang and the second groups from Selangor. The third and fourth groups represented strains collected from Melaka and Kedah, respectively. The present study confirmed that direct DNA extraction from infected rice tissue by using CTAB method, followed by PCR effective methods for the identification of Xoo. Further more the results indicated that strains differentiation may be affected by the geographical areas. Academic Journals 2011 Article PeerReviewed application/pdf en http://psasir.upm.edu.my/id/eprint/23723/1/Rapid%20identification%20and%20differentiation%20of%20Xanthomonas%20oryzae%20pv%20oryzae%20strain%20with%20primer%2016S.pdf Keshavarz, Kavous and Sijam, Kamaruzaman and Mior Ahmad, Zainal Abidin and Hashim, Habibuddin and Nazerian, Eisa (2011) Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. Asian Journal of Plant Pathology, 5 (2). pp. 93-99. ISSN 1819-1541 10.3923/ajppaj.2011.93.99 English |
| spellingShingle | Keshavarz, Kavous Sijam, Kamaruzaman Mior Ahmad, Zainal Abidin Hashim, Habibuddin Nazerian, Eisa Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title | Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title_full | Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title_fullStr | Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title_full_unstemmed | Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title_short | Rapid identification and differentiation of Xanthomonas oryzae pv oryzae strain with primer 16S-23S rDNA from rice fields in Peninsular Malaysia. |
| title_sort | rapid identification and differentiation of xanthomonas oryzae pv oryzae strain with primer 16s-23s rdna from rice fields in peninsular malaysia. |
| url | http://psasir.upm.edu.my/id/eprint/23723/ http://psasir.upm.edu.my/id/eprint/23723/ http://psasir.upm.edu.my/id/eprint/23723/1/Rapid%20identification%20and%20differentiation%20of%20Xanthomonas%20oryzae%20pv%20oryzae%20strain%20with%20primer%2016S.pdf |