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A Comprehensive Transcriptional Profiling of Pepper Responses to Root-Knot Nematode
Article

Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes

1
INRAE, Institut Sophia Agrobiotech, Université Côte d’Azur, CNRS, 06903 Sophia Antipolis, France
2
Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK
3
School of Medicine, Medical & Biological Sciences, University of St. Andrews, St Andrews KY16 9AJ, UK
4
Embrapa Genetic Resources and Biotechnology, Brasília 70770-917, DF, Brazil
*
Authors to whom correspondence should be addressed.
These authors contributed equally to the work presented in this manuscript.
Academic Editor: Frank L.W. Takken
Genes 2021, 12(5), 771; https://doi.org/10.3390/genes12050771
Received: 26 April 2021 / Revised: 4 May 2021 / Accepted: 10 May 2021 / Published: 18 May 2021
(This article belongs to the Special Issue Genomics of Plant-Nematode Interactions)
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. View Full-Text
Keywords: genome; transcriptome; phytoparasitism; gene expression regulation; Meloidogyne; nematode genome; transcriptome; phytoparasitism; gene expression regulation; Meloidogyne; nematode
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MDPI and ACS Style

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, E.G.J. Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes. Genes 2021, 12, 771. https://doi.org/10.3390/genes12050771

AMA Style

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. Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes. Genes. 2021; 12(5):771. https://doi.org/10.3390/genes12050771

Chicago/Turabian Style

Da Rocha, Martine, Caroline Bournaud, Julie Dazenière, Peter Thorpe, Marc Bailly-Bechet, Clément Pellegrin, Arthur Péré, Priscila Grynberg, Laetitia Perfus-Barbeoch, Sebastian Eves-van den Akker, and Etienne G.J. Danchin. 2021. "Genome Expression Dynamics Reveal the Parasitism Regulatory Landscape of the Root-Knot Nematode Meloidogyne incognita and a Promoter Motif Associated with Effector Genes" Genes 12, no. 5: 771. https://doi.org/10.3390/genes12050771

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