Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen.
Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen.
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DOI：
10.1186/s12864-018-4750-6
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发表时间：
2018-05-22
期刊：
影响因子：
4.4
通讯作者：
Panstruga R
中科院分区：
文献类型：
--
作者：
Frantzeskakis L;Kracher B;Kusch S;Yoshikawa-Maekawa M;Bauer S;Pedersen C;Spanu PD;Maekawa T;Schulze-Lefert P;Panstruga R
白粉病是一种侵染多种重要经济作物的生物营养型病原真菌。白粉菌已成为研究专性生物营养真菌病原菌寄主专化性的模式生物。我们解析了禾谷类芽孢杆菌的大规模基因组结构，以探索其基因组结构对其与寄主大麦(Hordeum Uggare)共同进化过程的潜在影响。BGH参考分离物DH14和最多样化的分离物之一RACE1的近染色体水平的组装使对这些单倍体基因组的比较分析成为可能，这些单倍体基因组高度富含转座元件(TES)。我们发现很大程度上保留了基因组的共性和基因谱系，但检测到分泌信号肽蛋白编码基因(SP)的拷贝数变异(CNV)和局部破坏的共性区块。编码与序列相关的SPS的基因通常是局部聚集的，但SPS和TES都不优先位于具有独特功能的基因组区域。通过与不同寄主专化型禾谷类芽孢杆菌的扩展比较分析，发现存在一套核心的SPS，但也存在分离物特有的SP组，以及SP CNV的同源性和系统发育关系。我们进一步检测到了BGH基因组中最近特定血统特异性的TES扩展的证据。BGH基因组的特征(基本保持同步性，SP基因的CNV，最近增殖的TES和缺乏显著的区划)与一个在其结构和(共同)进化模式上不同于其他几种丝状植物病原体的“双速”基因组的“一速”基因组相一致。本文的在线版本(10.1186/s12864-0184750-6)包含补充材料，可供授权用户使用。
Powdery mildews are biotrophic pathogenic fungi infecting a number of economically important plants. The grass powdery mildew, Blumeria graminis, has become a model organism to study host specialization of obligate biotrophic fungal pathogens. We resolved the large-scale genomic architecture of B. graminis forma specialis hordei (Bgh) to explore the potential influence of its genome organization on the co-evolutionary process with its host plant, barley (Hordeum vulgare). The near-chromosome level assemblies of the Bgh reference isolate DH14 and one of the most diversified isolates, RACE1, enabled a comparative analysis of these haploid genomes, which are highly enriched with transposable elements (TEs). We found largely retained genome synteny and gene repertoires, yet detected copy number variation (CNV) of secretion signal peptide-containing protein-coding genes (SPs) and locally disrupted synteny blocks. Genes coding for sequence-related SPs are often locally clustered, but neither the SPs nor the TEs reside preferentially in genomic regions with unique features. Extended comparative analysis with different host-specific B. graminis formae speciales revealed the existence of a core suite of SPs, but also isolate-specific SP sets as well as congruence of SP CNV and phylogenetic relationship. We further detected evidence for a recent, lineage-specific expansion of TEs in the Bgh genome. The characteristics of the Bgh genome (largely retained synteny, CNV of SP genes, recently proliferated TEs and a lack of significant compartmentalization) are consistent with a “one-speed” genome that differs in its architecture and (co-)evolutionary pattern from the “two-speed” genomes reported for several other filamentous phytopathogens. The online version of this article (10.1186/s12864-018-4750-6) contains supplementary material, which is available to authorized users.
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影响因子：
4.5
作者：
Bietenhader M;Martos A;Tetaud E;Aiyar RS;Sellem CH;Kucharczyk R;Clauder-Münster S;Giraud MF;Godard F;Salin B;Sagot I;Gagneur J;Déquard-Chablat M;Contamine V;Hermann-Le Denmat S;Sainsard-Chanet A;Steinmetz LM;di Rago JP
通讯作者：
di Rago JP
硫氧还蛋白 A 对于运动至关重要，并通过氧化还原相互作用促进单核细胞增生李斯特菌的宿主感染。
影响因子：
5.7
作者：
Cheng C;Dong Z;Han X;Wang H;Jiang L;Sun J;Yang Y;Ma T;Shao C;Wang X;Chen Z;Fang W;Freitag NE;Huang H;Song H
通讯作者：
Song H
影响因子：
4
作者：
Dong, Suomeng;Raffaele, Sylvain;Kamoun, Sophien
通讯作者：
Kamoun, Sophien
使用下一代 DNA 测序数据进行变异发现和基因分型的框架。
影响因子：
30.8
作者：
通讯作者：
--
DOI：
10.1073/pnas.132212899
发表时间：
2002-06-25
影响因子：
11.1
作者：
Freitag, M;Williams, RL;Selker, EU
通讯作者：
Selker, EU