1
|
Cardoso JMS, Manadas B, Abrantes I, Robertson L, Arcos SC, Troya MT, Navas A, Fonseca L. Pine wilt disease: what do we know from proteomics? BMC PLANT BIOLOGY 2024; 24:98. [PMID: 38331735 PMCID: PMC10854151 DOI: 10.1186/s12870-024-04771-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Accepted: 01/26/2024] [Indexed: 02/10/2024]
Abstract
Pine wilt disease (PWD) is a devastating forest disease caused by the pinewood nematode (PWN), Bursaphelenchus xylophilus, a migratory endoparasite that infects several coniferous species. During the last 20 years, advances have been made for understanding the molecular bases of PWN-host trees interactions. Major advances emerged from transcriptomic and genomic studies, which revealed some unique features related to PWN pathogenicity and constituted fundamental data that allowed the development of postgenomic studies. Here we review the proteomic approaches that were applied to study PWD and integrated the current knowledge on the molecular basis of the PWN pathogenicity. Proteomics has been useful for understanding cellular activities and protein functions involved in PWN-host trees interactions, shedding light into the mechanisms associated with PWN pathogenicity and being promising tools to better clarify host trees PWN resistance/susceptibility.
Collapse
Affiliation(s)
- Joana M S Cardoso
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal.
| | - Bruno Manadas
- CNC-Center for Neuroscience and Cell Biology, University of Coimbra, Rua Larga, Polo I, Coimbra, 3004-504, Portugal
- CIBB - Centre for Innovative Biomedicine and Biotechnology, University of Coimbra, Rua Larga - Faculdade de Medicina, 1ºandar - POLO I, Coimbra, 3004-504, Portugal
| | - Isabel Abrantes
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal
| | - Lee Robertson
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, CSIC. Instituto de Ciencias Forestales (ICIFOR), Ctra. de La Coruña Km 7.5, Madrid, 28040, Spain
| | - Susana C Arcos
- Museo Nacional de Ciencias Naturales, CSIC. Dpto Biodiversidad y Biología Evolutiva, C/ José Gutiérrez Abascal 2, Madrid, 28006, Spain
| | - Maria Teresa Troya
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, CSIC. Instituto de Ciencias Forestales (ICIFOR), Ctra. de La Coruña Km 7.5, Madrid, 28040, Spain
| | - Alfonso Navas
- Museo Nacional de Ciencias Naturales, CSIC. Dpto Biodiversidad y Biología Evolutiva, C/ José Gutiérrez Abascal 2, Madrid, 28006, Spain
| | - Luís Fonseca
- Centre for Functional Ecology, Associate Laboratory TERRA, Department of Life Sciences, University of Coimbra, Calçada Martins de Freitas, Coimbra, 3000-456, Portugal
| |
Collapse
|
2
|
C. Arcos S, Robertson L, Ciordia S, Sánchez-Alonso I, Careche M, Carballeda-Sanguiao N, Gonzalez-Muñoz M, Navas A. Quantitative Proteomics Comparison of Total Expressed Proteomes of Anisakis simplex Sensu Stricto, A. pegreffii, and Their Hybrid Genotype. Genes (Basel) 2020; 11:E913. [PMID: 32785065 PMCID: PMC7465371 DOI: 10.3390/genes11080913] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2020] [Revised: 08/05/2020] [Accepted: 08/07/2020] [Indexed: 01/18/2023] Open
Abstract
The total proteomes of Anisakis simplex s.s., A. pegreffii and their hybrid genotype have been compared by quantitative proteomics (iTRAQ approach), which considers the level of expressed proteins. Comparison was made by means of two independent experiments considering four biological replicates of A. simplex and two each for A. pegreffii and hybrid between both species. A total of 1811 and 1976 proteins have been respectively identified in the experiments using public databases. One hundred ninety-six proteins were found significantly differentially expressed, and their relationships with the nematodes' biological replicates were estimated by a multidimensional statistical approach. Results of pairwise Log2 ratio comparisons among them were statistically treated and supported in order to convert them into discrete character states. Principal component analysis (PCA) confirms the validity of the method. This comparison selected thirty seven proteins as discriminant taxonomic biomarkers among A. simplex, A. pegreffii and their hybrid genotype; 19 of these biomarkers, encoded by ten loci, are specific allergens of Anisakis (Ani s7, Ani s8, Ani s12, and Ani s14) and other (Ancylostoma secreted) is a common nematodes venom allergen. The rest of the markers comprise four unknown or non-characterized proteins; five different proteins (leucine) related to innate immunity, four proteolytic proteins (metalloendopeptidases), a lipase, a mitochondrial translocase protein, a neurotransmitter, a thyroxine transporter, and a structural collagen protein. The proposed methodology (proteomics and statistical) solidly characterize a set of proteins that are susceptible to take advantage of the new targeted proteomics.
Collapse
Affiliation(s)
- Susana C. Arcos
- Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias 8 Naturales, CSIC, calle José Gutiérrez Abascal 2, 28006 Madrid, Spain; (S.C.A.); (L.R.)
| | - Lee Robertson
- Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias 8 Naturales, CSIC, calle José Gutiérrez Abascal 2, 28006 Madrid, Spain; (S.C.A.); (L.R.)
- Departamento de Protección Vegetal, INIA. Ctra La Coruña Km 7’5, 28040 Madrid, Spain
| | - Sergio Ciordia
- Unidad de Proteómica Centro Nacional de Biotecnología, CSIC, calle Darwin 3, Campus 11 de Cantoblanco, 28049 Madrid, Spain;
| | - Isabel Sánchez-Alonso
- Instituto de Ciencia y Tecnología de Alimentos y Nutrición, CSIC. Calle José Antonio 13 Novais, 10, 28040 Madrid, Spain; (I.S.-A.); (M.C.); (N.C.-S.)
| | - Mercedes Careche
- Instituto de Ciencia y Tecnología de Alimentos y Nutrición, CSIC. Calle José Antonio 13 Novais, 10, 28040 Madrid, Spain; (I.S.-A.); (M.C.); (N.C.-S.)
| | - Noelia Carballeda-Sanguiao
- Instituto de Ciencia y Tecnología de Alimentos y Nutrición, CSIC. Calle José Antonio 13 Novais, 10, 28040 Madrid, Spain; (I.S.-A.); (M.C.); (N.C.-S.)
- Servicio de Immunología, Hospital Universitario La Paz. Paseo de la Castellana, 261, 28046 Madrid, Spain;
| | - Miguel Gonzalez-Muñoz
- Servicio de Immunología, Hospital Universitario La Paz. Paseo de la Castellana, 261, 28046 Madrid, Spain;
| | - Alfonso Navas
- Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias 8 Naturales, CSIC, calle José Gutiérrez Abascal 2, 28006 Madrid, Spain; (S.C.A.); (L.R.)
| |
Collapse
|
3
|
Mougin C, Artige E, Marchand F, Mondy S, Ratié C, Sellier N, Castagnone-Sereno P, D'Acier AC, Esmenjaud D, Faivre-Primot C, Granjon L, Hamelet V, Lange F, Pagès S, Rimet F, Ris N, Sallé G. BRC4Env, a network of Biological Resource Centres for research in environmental and agricultural sciences. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2018; 25:33849-33857. [PMID: 29675816 PMCID: PMC6245002 DOI: 10.1007/s11356-018-1973-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/13/2018] [Accepted: 04/05/2018] [Indexed: 06/08/2023]
Abstract
The Biological Resource Centre for the Environment BRC4Env is a network of Biological Resource Centres (BRCs) and collections whose leading objectives are to improve the visibility of genetic and biological resources maintained by its BRCs and collections and to facilitate their use by a large research community, from agriculture research to life sciences and environmental sciences. Its added value relies on sharing skills, harmonizing practices, triggering projects in comparative biology, and ultimately proposing a single-entry portal to facilitate access to documented samples, taking into account the partnership policies of research institutions as well as the legal frame which varies with the biological nature of resources. BRC4Env currently includes three BRCs: the Centre for Soil Genetic Resources of the platform GenoSol, in partnership with the European Conservatory of Soil Samples; the Egg Parasitoids Collection (EP-Coll); and the collection of ichthyological samples, Colisa. BRC4Env is also associated to several biological collections: microbial consortia (entomopathogenic bacteria, freshwater microalgae…), terrestrial arthropods, nematodes (plant parasitic, entomopathogenic, animal parasitic...), and small mammals. The BRCs and collections of BRC4Env are involved in partnership with academic scientists, as well as private companies, in the fields of medicinal mining, biocontrol, sustainable agriculture, and additional sectors. Moreover, the staff of the BRCs is involved in many training courses for students from French licence degree to Ph.D, engineers, as well as ongoing training.
Collapse
Affiliation(s)
- Christian Mougin
- UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78026, Versailles, France.
| | - Emmanuelle Artige
- UMR CBGP, INRA, CIRAD, IRD, Montpellier SupAgro, 34988, Montferrier-sur-Lez, France
| | | | - Samuel Mondy
- Agroécologie, AgroSup Dijon, INRA, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France
| | | | - Nadine Sellier
- INRA, Université Côte d'Azur, CNRS, ISA, 06900, Sophia Antipolis, France
| | | | - Armelle Cœur D'Acier
- UMR CBGP, INRA, CIRAD, IRD, Montpellier SupAgro, 34988, Montferrier-sur-Lez, France
| | - Daniel Esmenjaud
- INRA, Université Côte d'Azur, CNRS, ISA, 06900, Sophia Antipolis, France
| | - Céline Faivre-Primot
- Agroécologie, AgroSup Dijon, INRA, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France
| | - Laurent Granjon
- UMR CBGP, INRA, CIRAD, IRD, Montpellier SupAgro, 34988, Montferrier-sur-Lez, France
| | - Valérie Hamelet
- UMR CARRTEL, INRA, Université de Savoie, 74203, Thonon-les-Bains, France
| | - Frederic Lange
- UMR ECOBIOP, INRA, Université Pau & Pays Adour, pôle AFB-INRA Gest'Aqua, 64310, Saint-Pee-sur-Nivelle, France
| | - Sylvie Pagès
- UMR DGIMI, INRA, Université de Montpellier, 34095, Montpellier, France
| | - Frédéric Rimet
- UMR CARRTEL, INRA, Université de Savoie, 74203, Thonon-les-Bains, France
| | - Nicolas Ris
- INRA, Université Côte d'Azur, CNRS, ISA, 06900, Sophia Antipolis, France
| | - Guillaume Sallé
- UMR ISP, INRA, Université François Rabelais, 37380, Nouzilly, France
| |
Collapse
|
4
|
Martínez‐Turiño S, Pérez JDJ, Hervás M, Navajas R, Ciordia S, Udeshi ND, Shabanowitz J, Hunt DF, García JA. Phosphorylation coexists with O-GlcNAcylation in a plant virus protein and influences viral infection. MOLECULAR PLANT PATHOLOGY 2018; 19:1427-1443. [PMID: 29024291 PMCID: PMC5895533 DOI: 10.1111/mpp.12626] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2017] [Revised: 09/29/2017] [Accepted: 10/09/2017] [Indexed: 06/07/2023]
Abstract
Phosphorylation and O-GlcNAcylation are two widespread post-translational modifications (PTMs), often affecting the same eukaryotic target protein. Plum pox virus (PPV) is a member of the genus Potyvirus which infects a wide range of plant species. O-GlcNAcylation of the capsid protein (CP) of PPV has been studied extensively, and some evidence of CP phosphorylation has also been reported. Here, we use proteomics analyses to demonstrate that PPV CP is phosphorylated in vivo at the N-terminus and the beginning of the core region. In contrast with the 'yin-yang' mechanism that applies to some mammalian proteins, PPV CP phosphorylation affects residues different from those that are O-GlcNAcylated (serines Ser-25, Ser-81, Ser-101 and Ser-118). Our findings show that PPV CP can be concurrently phosphorylated and O-GlcNAcylated at nearby residues. However, an analysis using a differential proteomics strategy based on iTRAQ (isobaric tags for relative and absolute quantitation) showed a significant enhancement of phosphorylation at Ser-25 in virions recovered from O-GlcNAcylation-deficient plants, suggesting that crosstalk between O-GlcNAcylation and phosphorylation in PPV CP takes place. Although the preclusion of phosphorylation at the four identified phosphotarget sites only had a limited impact on viral infection, the mimicking of phosphorylation prevents PPV infection in Prunus persica and weakens infection in Nicotiana benthamiana and other herbaceous hosts, prompting the emergence of potentially compensatory second mutations. We postulate that the joint action of phosphorylation and O-GlcNAcylation in the N-proximal segment of CP allows a fine-tuning of protein stability, providing the amount of CP required in each step of viral infection.
Collapse
Affiliation(s)
- Sandra Martínez‐Turiño
- Department of Plant Molecular GeneticsCentro Nacional de Biotecnología (CNB‐CSIC), Campus Universidad Autónoma de MadridMadrid 28049Spain
| | - José De Jesús Pérez
- Department of Plant Molecular GeneticsCentro Nacional de Biotecnología (CNB‐CSIC), Campus Universidad Autónoma de MadridMadrid 28049Spain
- Present address:
División de Biología MolecularInstituto Potosino de Investigación Científica y Tecnológica A.C.Camino a la Presa San José 2055San Luis PotosíSLPMéxico
| | - Marta Hervás
- Department of Plant Molecular GeneticsCentro Nacional de Biotecnología (CNB‐CSIC), Campus Universidad Autónoma de MadridMadrid 28049Spain
| | - Rosana Navajas
- Proteomics UnitCentro Nacional de Biotecnología (CNB‐CSIC), ProteoRed ISCIIIMadrid 28049Spain
| | - Sergio Ciordia
- Proteomics UnitCentro Nacional de Biotecnología (CNB‐CSIC), ProteoRed ISCIIIMadrid 28049Spain
| | - Namrata D. Udeshi
- Department of ChemistryUniversity of VirginiaCharlottesvilleVA 22904USA
- Present address:
Proteomics Platform, The Broad Institute of MIT and Harvard, 7 Cambridge Center, Room 5033CambridgeMA 02142USA
| | | | - Donald F. Hunt
- Department of ChemistryUniversity of VirginiaCharlottesvilleVA 22904USA
| | - Juan Antonio García
- Department of Plant Molecular GeneticsCentro Nacional de Biotecnología (CNB‐CSIC), Campus Universidad Autónoma de MadridMadrid 28049Spain
| |
Collapse
|