Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice
<i>Magnaporthe oryzae</i> caused huge losses in rice and wheat production worldwide. Comparing to long-term co-evolution history with rice, wheat-infecting isolates were new-emerging. To reveal the genetic differences between rice and wheat blast on global genomic scale, 109 whole-genome...
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MDPI AG
2021-12-01
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| Series: | Journal of Fungi |
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| Online Access: | https://www.mdpi.com/2309-608X/8/1/5 |
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| author | Qi Wu Yi Wang Li-Na Liu Kai Shi Cheng-Yun Li |
| author_facet | Qi Wu Yi Wang Li-Na Liu Kai Shi Cheng-Yun Li |
| author_sort | Qi Wu |
| collection | DOAJ |
| description | <i>Magnaporthe oryzae</i> caused huge losses in rice and wheat production worldwide. Comparing to long-term co-evolution history with rice, wheat-infecting isolates were new-emerging. To reveal the genetic differences between rice and wheat blast on global genomic scale, 109 whole-genome sequences of <i>M. oryzae</i> from rice, wheat, and other hosts were reanalyzed in this study. We found that the rice lineage had gone through stronger selective sweep and fewer conserved genes than those of <i>Triticum</i> and <i>Lolium</i> lineages, which indicated that rice blast fungi adapted to rice by gene loss and rapid evolution of specific loci. Furthermore, 228 genes associated with host adaptation of <i>M. oryzae</i> were found by presence/absence variation (PAV) analyses. The functional annotation of these genes found that the fine turning of genes gain/loss involved with transport and transcription factor, thiol metabolism, and nucleotide metabolism respectively are major mechanisms for rice adaption. This result implies that genetic base of specific host plant may lead to gene gain/loss variation of pathogens, so as to enhance their adaptability to host. Further characterization of these specific loci and their roles in adaption and evaluation of the fungi may eventually lead to understanding of interaction mechanism and develop new strategies of the disease management. |
| first_indexed | 2024-03-10T01:10:59Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 2309-608X |
| language | English |
| last_indexed | 2024-03-10T01:10:59Z |
| publishDate | 2021-12-01 |
| publisher | MDPI AG |
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| spelling | doaj.art-1c5453fd4ac749bc9c305d289d9b169e2023-11-23T14:17:25ZengMDPI AGJournal of Fungi2309-608X2021-12-0181510.3390/jof8010005Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with RiceQi Wu0Yi Wang1Li-Na Liu2Kai Shi3Cheng-Yun Li4State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, ChinaState Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, ChinaState Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, ChinaSchool of Foreign Language, Yunnan Agricultural University, Kunming 650201, ChinaState Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, China<i>Magnaporthe oryzae</i> caused huge losses in rice and wheat production worldwide. Comparing to long-term co-evolution history with rice, wheat-infecting isolates were new-emerging. To reveal the genetic differences between rice and wheat blast on global genomic scale, 109 whole-genome sequences of <i>M. oryzae</i> from rice, wheat, and other hosts were reanalyzed in this study. We found that the rice lineage had gone through stronger selective sweep and fewer conserved genes than those of <i>Triticum</i> and <i>Lolium</i> lineages, which indicated that rice blast fungi adapted to rice by gene loss and rapid evolution of specific loci. Furthermore, 228 genes associated with host adaptation of <i>M. oryzae</i> were found by presence/absence variation (PAV) analyses. The functional annotation of these genes found that the fine turning of genes gain/loss involved with transport and transcription factor, thiol metabolism, and nucleotide metabolism respectively are major mechanisms for rice adaption. This result implies that genetic base of specific host plant may lead to gene gain/loss variation of pathogens, so as to enhance their adaptability to host. Further characterization of these specific loci and their roles in adaption and evaluation of the fungi may eventually lead to understanding of interaction mechanism and develop new strategies of the disease management.https://www.mdpi.com/2309-608X/8/1/5<i>Magnaporthe oryzae</i>comparative genomicsgene poolselective sweephost adaption |
| spellingShingle | Qi Wu Yi Wang Li-Na Liu Kai Shi Cheng-Yun Li Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice Journal of Fungi <i>Magnaporthe oryzae</i> comparative genomics gene pool selective sweep host adaption |
| title | Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice |
| title_full | Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice |
| title_fullStr | Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice |
| title_full_unstemmed | Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice |
| title_short | Comparative Genomics and Gene Pool Analysis Reveal the Decrease of Genome Diversity and Gene Number in Rice Blast Fungi by Stable Adaption with Rice |
| title_sort | comparative genomics and gene pool analysis reveal the decrease of genome diversity and gene number in rice blast fungi by stable adaption with rice |
| topic | <i>Magnaporthe oryzae</i> comparative genomics gene pool selective sweep host adaption |
| url | https://www.mdpi.com/2309-608X/8/1/5 |
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