| URL: | http://biodb.sdau.edu.cn/gmgm |
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| Description: | The comparative genomic research about Xanthomonas oryzae pv. oryzae(Xoo)&Xanthomonas oryzae pv. oryzicola(Xoc) is a major bioinformatics initiative with the aim of providing a molecular biology methods to quarantine and determine two pathogens of rice bacterial blight (BB) and bacterial leaf streak (BLS) . The project provides a genome-wide analysis for describing genomic differences about that two pathogens and molecular markers we developed which based on the two pathogens' complete genome sequences, as well as tools to blast and search this data. |
| Year founded: | 2015 |
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| Accessibility: |
Accessible
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| Country/Region: | China |
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| University/Institution: | Shandong Agricultural University |
| Address: | College of Plant Protection, Shandong Agricultural University, Taian, 271018, China. |
| City: | Taian |
| Province/State: | Shandong |
| Country/Region: | China |
| Contact name (PI/Team): | Feng W |
| Contact email (PI/Helpdesk): | Feng@nyumc.org |
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Genomic-associated Markers and comparative Genome Maps of Xanthomonas oryzae pv. oryzae and X. oryzae pv. oryzicola. [PMID: 26093644]
Xanthomonas oryzae pv. oryzae (Xoo) and X. oryzae pv. oryzicola (Xoc) cause two major seed quarantine diseases in rice, bacterial blight and bacterial leaf streak, respectively. Xoo and Xoc share high similarity in genomic sequence, which results in hard differentiation of the two pathogens. Genomic-associated Markers and comparative Genome Maps database (GMGM) is an integrated database providing comprehensive information including compared genome maps and full genomic-coverage molecular makers of Xoo and Xoc. This database was established based on bioinformatic analysis of complete sequenced genomes of several X. oryzae pathovars of which the similarity of the genomes was up to 91.39 %. The program was designed with a series of specific PCR primers, including 286 pairs of Xoo dominant markers, 288 pairs of Xoc dominant markers, and 288 pairs of Xoo and Xoc co-dominant markers, which were predicted to distinguish two pathovars. Test on a total of 40 donor pathogen strains using randomly selected 120 pairs of primers demonstrated that over 52.5 % of the primers were efficacious. The GMGM web portal ( http://biodb.sdau.edu.cn/gmgm/ ) will be a powerful tool that can present highly specific diagnostic markers, and it also provides information about comparative genome maps of the two pathogens for future evolution study. |