Genome comparison of two Magnaporthe oryzae field isolates reveals genome variations and potential virulence effectors.
Genome comparison of two Magnaporthe oryzae field isolates reveals genome variations and potential virulence effectors.
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两种稻瘟病菌田间分离株的基因组比较揭示了基因组变异和潜在的毒力效应子
DOI：
10.1186/1471-2164-14-887
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发表时间：
2013-12-16
期刊：
影响因子：
4.4
通讯作者：
Mitchell TK
中科院分区：
文献类型：
--
作者：
Chen C;Lian B;Hu J;Zhai H;Wang X;Venu RC;Liu E;Wang Z;Chen M;Wang B;Wang GL;Wang Z;Mitchell TK
由稻瘟病菌引起的稻瘟病是世界上几乎所有水稻种植区的重要病害，每年都会导致稻米品质和产量的显著下降。为了预防病害，人们克隆了水稻的抗性基因，并将其导入感病品种。然而，引入的抗性通常在释放后的几年内就会被打破，这通常是由于真菌田间种群中同源无毒基因的突变。为了更好地了解稻瘟病菌田间菌株在自然选择作用下的突变模式，我们使用下一代测序方法对两个田间菌株FJ81278和HN19311的基因组以及FJ81278的转录组进行了分析。通过将两个分离株的从头基因组组合与已完成的参考菌株70-15进行比较，我们发现了广泛的多态现象，包括独特的基因、SNPs(单核苷酸多态)和Indels、结构变异、拷贝数变异和强正向选择下的基因座。还鉴定了携带来自FJ81278的118个新基因的1.75亿MB的分离株特定基因组内容和来自HN19311的0.83亿MB的基因组内容。通过对含有多态的分泌蛋白的分析，共发现256个候选毒力效应因子，其中6个用于功能鉴定。我们提供了基因组比较分析的结果，显示了广泛的基因组变异，并生成了一份米曲霉候选毒力效应子的列表，用于功能鉴定。
Rice blast caused by the fungus Magnaporthe oryzae is an important disease in virtually every rice growing region of the world, which leads to significant annual decreases of grain quality and yield. To prevent disease, resistance genes in rice have been cloned and introduced into susceptible cultivars. However, introduced resistance can often be broken within few years of release, often due to mutation of cognate avirulence genes in fungal field populations. To better understand the pattern of mutation of M. oryzae field isolates under natural selection forces, we used a next generation sequencing approach to analyze the genomes of two field isolates FJ81278 and HN19311, as well as the transcriptome of FJ81278. By comparing the de novo genome assemblies of the two isolates against the finished reference strain 70–15, we identified extensive polymorphisms including unique genes, SNPs (single nucleotide polymorphism) and indels, structural variations, copy number variations, and loci under strong positive selection. The 1.75 MB of isolate-specific genome content carrying 118 novel genes from FJ81278, and 0.83 MB from HN19311 were also identified. By analyzing secreted proteins carrying polymorphisms, in total 256 candidate virulence effectors were found and 6 were chosen for functional characterization. We provide results from genome comparison analysis showing extensive genome variation, and generated a list of M. oryzae candidate virulence effectors for functional characterization.
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影响因子：
4.5
作者：
Kofler R;Betancourt AJ;Schlötterer C
通讯作者：
Schlötterer C
影响因子：
6.7
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Chuma I;Isobe C;Hotta Y;Ibaragi K;Futamata N;Kusaba M;Yoshida K;Terauchi R;Fujita Y;Nakayashiki H;Valent B;Tosa Y
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Tosa Y
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Ruden, Douglas M.
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4.4
作者：
Fedorova ND;Badger JH;Robson GD;Wortman JR;Nierman WC
通讯作者：
Nierman WC
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4.5
作者：
Coleman JJ;Rounsley SD;Rodriguez-Carres M;Kuo A;Wasmann CC;Grimwood J;Schmutz J;Taga M;White GJ;Zhou S;Schwartz DC;Freitag M;Ma LJ;Danchin EG;Henrissat B;Coutinho PM;Nelson DR;Straney D;Napoli CA;Barker BM;Gribskov M;Rep M;Kroken S;Molnár I;Rensing C;Kennell JC;Zamora J;Farman ML;Selker EU;Salamov A;Shapiro H;Pangilinan J;Lindquist E;Lamers C;Grigoriev IV;Geiser DM;Covert SF;Temporini E;Vanetten HD
通讯作者：
Vanetten HD