Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes.
Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes.
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DOI：
10.3390/genes12050771
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发表时间：
2021-05-18
期刊：
影响因子：
3.5
通讯作者：
Danchin EGJ
中科院分区：
文献类型：
--
作者：
Da Rocha M;Bournaud C;Dazenière J;Thorpe P;Bailly-Bechet M;Pellegrin C;Péré A;Grynberg P;Perfus-Barbeoch L;Eves-van den Akker S;Danchin EGJ
根结线虫(Meloidogyne属)是造成作物损失的主要原因。这些线虫将来自两组咽腺细胞的效应蛋白分泌到植物体内，以操纵宿主的生理和免疫。成功地完成生命周期，包括从卵到成虫的连续蜕皮，包括形态和功能上的不同阶段，将需要精确控制基因表达，包括效应基因。关于根结线虫如何调控转录的细节仍然很少。在此，我们报道了南方根结线虫的生活期特异性转录组。结合一个可用的注释基因组，我们探索了基因表达的时空调节。我们揭示了伴随着主要发育转变的基因表达簇和预测的功能。聚焦于效应器，我们确定了一个与背腺表达相关的假定的顺式调控基序，为了解效应器的调控提供了一个洞察力。我们结合这个基序的存在和其他几个标准来预测一组新的推定的背腺效应器。最后，我们展示了这个基序，因此它的用途，在根结线虫属中广泛保守，我们将其命名为Mel-Dog。综上所述，我们首次对根结线虫的时空基因表达进行了全基因组范围的分析，并确定了一组新的候选效应基因，这将指导未来的功能分析。
Root-knot nematodes (genus Meloidogyne) are the major contributor to crop losses caused by nematodes. These nematodes secrete effector proteins into the plant, derived from two sets of pharyngeal gland cells, to manipulate host physiology and immunity. Successful completion of the life cycle, involving successive molts from egg to adult, covers morphologically and functionally distinct stages and will require precise control of gene expression, including effector genes. The details of how root-knot nematodes regulate transcription remain sparse. Here, we report a life stage-specific transcriptome of Meloidogyne incognita. Combined with an available annotated genome, we explore the spatio-temporal regulation of gene expression. We reveal gene expression clusters and predicted functions that accompany the major developmental transitions. Focusing on effectors, we identify a putative cis-regulatory motif associated with expression in the dorsal glands, providing an insight into effector regulation. We combine the presence of this motif with several other criteria to predict a novel set of putative dorsal gland effectors. Finally, we show this motif, and thereby its utility, is broadly conserved across the Meloidogyne genus, and we name it Mel-DOG. Taken together, we provide the first genome-wide analysis of spatio-temporal gene expression in a root-knot nematode and identify a new set of candidate effector genes that will guide future functional analyses.
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DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
12.3
作者：
Eves-van den Akker S;Laetsch DR;Thorpe P;Lilley CJ;Danchin EG;Da Rocha M;Rancurel C;Holroyd NE;Cotton JA;Szitenberg A;Grenier E;Montarry J;Mimee B;Duceppe MO;Boyes I;Marvin JM;Jones LM;Yusup HB;Lafond-Lapalme J;Esquibet M;Sabeh M;Rott M;Overmars H;Finkers-Tomczak A;Smant G;Koutsovoulos G;Blok V;Mantelin S;Cock PJ;Phillips W;Henrissat B;Urwin PE;Blaxter M;Jones JT
通讯作者：
Jones JT
小麦和谷类胞囊线虫燕麦异皮线虫早期接触阶段的转录反应
影响因子：
4.6
作者：
Chen C;Cui L;Chen Y;Zhang H;Liu P;Wu P;Qiu D;Zou J;Yang D;Yang L;Liu H;Zhou Y;Li H
通讯作者：
Li H
影响因子：
3.7
作者：
Antonino de Souza Júnior JD;Ramos Coelho R;Tristan Lourenço I;da Rocha Fragoso R;Barbosa Viana AA;Lima Pepino de Macedo L;Mattar da Silva MC;Gomes Carneiro RM;Engler G;de Almeida-Engler J;Grossi-de-Sa MF
通讯作者：
Grossi-de-Sa MF
影响因子：
4.6
作者：
Alvarez-Ortega, Sergio;Brito, Janete A.;Subbotin, Sergei A.
通讯作者：
Subbotin, Sergei A.