Pangenomic analysis reveals pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae
Pangenomic analysis reveals pathogen-specific regions and novel effector candidates in Fusarium oxysporum f. sp. cepae
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泛基因组分析揭示了尖孢镰刀菌中的病原体特异性区域和新的候选效应子。
DOI：
10.1101/182238
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发表时间：
2017
期刊：
影响因子：
--
通讯作者：
Armitage A
中科院分区：
文献类型：
--
作者：
Armitage A
尖孢镰刀菌参比制剂的研制。洋葱基腐病的病原菌--洋葱根腐病菌(sp.cepae，Foc)与其他洋葱致病和非致病分离物的基因组一起产生。系统发育分析证实了FOC致病谱系的单一起源。与其他尖孢子囊菌的基因组比对。SPP.而非病原菌的核心染色体具有高度的共线保守性，而谱系特异(LS)染色体之间的共线很少。在Foc中有4个LS重叠群，总计3.9 Mb，被指定为病原菌专一性(PS)。观察到基因组的LS区之间的节段性复制事件比核心区内或从LS区到核心区增加了两倍。RNA-seq表达研究确定了在植物中表达的候选效应物，包括已知的效应物同源物和新的候选物。FTF1和其他参与调节效应器表达的转录因子的子集被发现在植物中表达。
A reference-quality assembly ofFusarium oxysporumf. sp.cepae(Foc), the causative agent of onion basal rot has been generated along with genomes of additional pathogenic and non-pathogenic isolates of onion. Phylogenetic analysis confirmed a single origin of the Foc pathogenic lineage. Genome alignments with otherF.oxysporumff. spp. and non pathogens revealed high levels of syntenic conservation of core chromosomes but little synteny between lineage specific (LS) chromosomes. Four LS contigs in Foc totaling 3.9 Mb were designated as pathogen-specific (PS). A two-fold increase in segmental duplication events was observed between LS regions of the genome compared to within core regions or from LS regions to the core. RNA-seq expression studies identified candidate effectors expressedin planta, consisting of both known effector homologs and novel candidates. FTF1 and a subset of other transcription factors implicated in regulation of effector expression were found to be expressedin planta.
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影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
3.7
作者：
Walker BJ;Abeel T;Shea T;Priest M;Abouelliel A;Sakthikumar S;Cuomo CA;Zeng Q;Wortman J;Young SK;Earl AM
通讯作者：
Earl AM
影响因子：
5.8
作者：
Simao, Felipe A.;Waterhouse, Robert M.;Zdobnov, Evgeny M.
通讯作者：
Zdobnov, Evgeny M.
编码尖孢镰刀菌新转录因子（ftf1）的基因仅在蚕豆感染期间表达。
影响因子：
3
作者：
B. Ramos;F. M. Alves;M. García;Noemí Martín;A. P. Eslava;J. Díaz
通讯作者：
J. Díaz
影响因子：
4
作者：
Dong, Suomeng;Raffaele, Sylvain;Kamoun, Sophien
通讯作者：
Kamoun, Sophien