Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China
<i>Xanthomonas oryzae</i> pv. <i>oryzae</i> (<i>Xoo</i>) is a causative agent of rice bacterial blight (BB). In 2020–2022, BB re-emerged, and there was a break out in the Yangtze River area, China. The pandemic <i>Xoo</i> strain, LA20, was isolated and...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2023-05-01
|
| Series: | International Journal of Molecular Sciences |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1422-0067/24/9/8132 |
| _version_ | 1797602442564599808 |
|---|---|
| author | Yuxuan Hou Yan Liang Changdeng Yang Zhijuan Ji Yuxiang Zeng Guanghao Li Zhiguo E |
| author_facet | Yuxuan Hou Yan Liang Changdeng Yang Zhijuan Ji Yuxiang Zeng Guanghao Li Zhiguo E |
| author_sort | Yuxuan Hou |
| collection | DOAJ |
| description | <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> (<i>Xoo</i>) is a causative agent of rice bacterial blight (BB). In 2020–2022, BB re-emerged, and there was a break out in the Yangtze River area, China. The pandemic <i>Xoo</i> strain, LA20, was isolated and identified from cultivar Quanyou1606 and demonstrated to be the Chinese R9 <i>Xoo</i> strain, which is able to override the widely adopted <i>xa5</i>-, <i>Xa7</i>- and <i>xa13</i>-mediated resistance in rice varieties in Yangtze River. Here, we report the complete genome of LA20 by PacBio and Illumina sequencing. The assembled genome consists of one circular chromosome of 4,960,087 bp, sharing 99.65% sequence identity with the traditional representative strain, YC11 (R5), in the Yangtze River. Comparative genome analysis of LA20 and YC11 revealed the obvious variability in <i>Tal</i> genes (the uppermost virulence determinants) in numbers and sequences. Particularly, six <i>Tal</i> genes were only found in LA20, but not in YC11, among which <i>Tal1b</i> (<i>pthXo1</i>)/<i>Tal4</i> (<i>pthXo6</i>), along with the lost one, <i>pthXo3</i> (<i>avrXa7</i>), might be the major factors for LA20 to overcome <i>xa5</i>-, <i>Xa7</i>- and <i>xa13</i>-mediated resistance, thus, leading to the resurgence of BB. This complete genome of the new pandemic <i>Xoo</i> strain will provide novel insights into pathogen evolution, the traits of pathogenicity on genomic level and the epidemic disease status in China. |
| first_indexed | 2024-03-11T04:16:06Z |
| format | Article |
| id | doaj.art-5a8678f15b084977b84ad65c2a32d623 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-11T04:16:06Z |
| publishDate | 2023-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-5a8678f15b084977b84ad65c2a32d6232023-11-17T23:05:22ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-05-01249813210.3390/ijms24098132Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, ChinaYuxuan Hou0Yan Liang1Changdeng Yang2Zhijuan Ji3Yuxiang Zeng4Guanghao Li5Zhiguo E6State Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, ChinaState Key Laboratory of Rice Biology and Breeding, China National Rice Research Institute, Hangzhou 311400, China<i>Xanthomonas oryzae</i> pv. <i>oryzae</i> (<i>Xoo</i>) is a causative agent of rice bacterial blight (BB). In 2020–2022, BB re-emerged, and there was a break out in the Yangtze River area, China. The pandemic <i>Xoo</i> strain, LA20, was isolated and identified from cultivar Quanyou1606 and demonstrated to be the Chinese R9 <i>Xoo</i> strain, which is able to override the widely adopted <i>xa5</i>-, <i>Xa7</i>- and <i>xa13</i>-mediated resistance in rice varieties in Yangtze River. Here, we report the complete genome of LA20 by PacBio and Illumina sequencing. The assembled genome consists of one circular chromosome of 4,960,087 bp, sharing 99.65% sequence identity with the traditional representative strain, YC11 (R5), in the Yangtze River. Comparative genome analysis of LA20 and YC11 revealed the obvious variability in <i>Tal</i> genes (the uppermost virulence determinants) in numbers and sequences. Particularly, six <i>Tal</i> genes were only found in LA20, but not in YC11, among which <i>Tal1b</i> (<i>pthXo1</i>)/<i>Tal4</i> (<i>pthXo6</i>), along with the lost one, <i>pthXo3</i> (<i>avrXa7</i>), might be the major factors for LA20 to overcome <i>xa5</i>-, <i>Xa7</i>- and <i>xa13</i>-mediated resistance, thus, leading to the resurgence of BB. This complete genome of the new pandemic <i>Xoo</i> strain will provide novel insights into pathogen evolution, the traits of pathogenicity on genomic level and the epidemic disease status in China.https://www.mdpi.com/1422-0067/24/9/8132bacterial blightresurgence<i>Xanthomonas oryzae</i> pv. <i>oryzae</i>genome |
| spellingShingle | Yuxuan Hou Yan Liang Changdeng Yang Zhijuan Ji Yuxiang Zeng Guanghao Li Zhiguo E Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China International Journal of Molecular Sciences bacterial blight resurgence <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> genome |
| title | Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China |
| title_full | Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China |
| title_fullStr | Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China |
| title_full_unstemmed | Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China |
| title_short | Complete Genomic Sequence of <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> Strain, LA20, for Studying Resurgence of Rice Bacterial Blight in the Yangtze River Region, China |
| title_sort | complete genomic sequence of i xanthomonas oryzae i pv i oryzae i strain la20 for studying resurgence of rice bacterial blight in the yangtze river region china |
| topic | bacterial blight resurgence <i>Xanthomonas oryzae</i> pv. <i>oryzae</i> genome |
| url | https://www.mdpi.com/1422-0067/24/9/8132 |
| work_keys_str_mv | AT yuxuanhou completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT yanliang completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT changdengyang completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT zhijuanji completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT yuxiangzeng completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT guanghaoli completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina AT zhiguoe completegenomicsequenceofixanthomonasoryzaeipvioryzaeistrainla20forstudyingresurgenceofricebacterialblightintheyangtzeriverregionchina |