A genome-scale metabolic model of potato late blight suggests a photosynthesis suppression mechanism.
Identifieur interne : 000868 ( Main/Exploration ); précédent : 000867; suivant : 000869A genome-scale metabolic model of potato late blight suggests a photosynthesis suppression mechanism.
Auteurs : Kelly Botero [Colombie] ; Silvia Restrepo [Colombie] ; Andres Pinz N [Colombie]Source :
- BMC genomics [ 1471-2164 ] ; 2018.
Descripteurs français
- KwdFr :
- Feuilles de plante (génétique), Feuilles de plante (métabolisme), Feuilles de plante (parasitologie), Génome végétal (MeSH), Interactions hôte-parasite (MeSH), Maladies des plantes (parasitologie), Modèles biologiques (MeSH), Photosynthèse (MeSH), Phytophthora infestans (physiologie), Protéines végétales (génétique), Protéines végétales (métabolisme), Solanum tuberosum (génétique), Solanum tuberosum (parasitologie), Solanum tuberosum (physiologie), Transcriptome (MeSH), Voies et réseaux métaboliques (MeSH).
- MESH :
- génétique : Feuilles de plante, Protéines végétales, Solanum tuberosum.
- métabolisme : Feuilles de plante, Protéines végétales.
- parasitologie : Feuilles de plante, Maladies des plantes, Solanum tuberosum.
- physiologie : Phytophthora infestans, Solanum tuberosum.
- Génome végétal, Interactions hôte-parasite, Modèles biologiques, Photosynthèse, Transcriptome, Voies et réseaux métaboliques.
English descriptors
- KwdEn :
- Genome, Plant (MeSH), Host-Parasite Interactions (MeSH), Metabolic Networks and Pathways (MeSH), Models, Biological (MeSH), Photosynthesis (MeSH), Phytophthora infestans (physiology), Plant Diseases (parasitology), Plant Leaves (genetics), Plant Leaves (metabolism), Plant Leaves (parasitology), Plant Proteins (genetics), Plant Proteins (metabolism), Solanum tuberosum (genetics), Solanum tuberosum (parasitology), Solanum tuberosum (physiology), Transcriptome (MeSH).
- MESH :
- chemical , genetics : Plant Proteins.
- genetics : Plant Leaves, Solanum tuberosum.
- metabolism : Plant Leaves, Plant Proteins.
- parasitology : Plant Diseases, Plant Leaves, Solanum tuberosum.
- physiology : Phytophthora infestans, Solanum tuberosum.
- Genome, Plant, Host-Parasite Interactions, Metabolic Networks and Pathways, Models, Biological, Photosynthesis, Transcriptome.
Abstract
BACKGROUND
Phytophthora infestans is a plant pathogen that causes an important plant disease known as late blight in potato plants (Solanum tuberosum) and several other solanaceous hosts. This disease is the main factor affecting potato crop production worldwide. In spite of the importance of the disease, the molecular mechanisms underlying the compatibility between the pathogen and its hosts are still unknown.
RESULTS
To explain the metabolic response of late blight, specifically photosynthesis inhibition in infected plants, we reconstructed a genome-scale metabolic network of the S. tuberosum leaf, PstM1. This metabolic network simulates the effect of this disease in the leaf metabolism. PstM1 accounts for 2751 genes, 1113 metabolic functions, 1773 gene-protein-reaction associations and 1938 metabolites involved in 2072 reactions. The optimization of the model for biomass synthesis maximization in three infection time points suggested a suppression of the photosynthetic capacity related to the decrease of metabolic flux in light reactions and carbon fixation reactions. In addition, a variation pattern in the flux of carboxylation to oxygenation reactions catalyzed by RuBisCO was also identified, likely to be associated to a defense response in the compatible interaction between P. infestans and S. tuberosum.
CONCLUSIONS
In this work, we introduced simultaneously the first metabolic network of S. tuberosum and the first genome-scale metabolic model of the compatible interaction of a plant with P. infestans.
DOI: 10.1186/s12864-018-5192-x
PubMed: 30537923
PubMed Central: PMC6288859
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá, Colombia.</nlm:affiliation><country xml:lang="fr">Colombie</country><wicri:regionArea>Grupo de Bioinformática y Biología de Sistemas, Universidad Nacional del Colombia - Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá</wicri:regionArea><wicri:noRegion>Bogotá</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Centro de Bioinformática y Biología Computacional, Manizales, Colombia.</nlm:affiliation><country xml:lang="fr">Colombie</country><wicri:regionArea>Centro de Bioinformática y Biología Computacional, Manizales</wicri:regionArea><wicri:noRegion>Manizales</wicri:noRegion></affiliation></author><author><name sortKey="Restrepo, Silvia" sort="Restrepo, Silvia" uniqKey="Restrepo S" first="Silvia" last="Restrepo">Silvia Restrepo</name><affiliation wicri:level="1"><nlm:affiliation>Laboratorio de Micología y Fitopatología, Universidad de los Andes, Bogotá, Colombia.</nlm:affiliation><country xml:lang="fr">Colombie</country><wicri:regionArea>Laboratorio de Micología y Fitopatología, Universidad de los Andes, Bogotá</wicri:regionArea><wicri:noRegion>Bogotá</wicri:noRegion></affiliation></author><author><name sortKey="Pinz N, Andres" sort="Pinz N, Andres" uniqKey="Pinz N A" first="Andres" last="Pinz N">Andres Pinz N</name><affiliation wicri:level="1"><nlm:affiliation>Grupo de Bioinformática y Biología de Sistemas, Universidad Nacional del Colombia - Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá, Colombia. ampinzon@unal.edu.co.</nlm:affiliation><country xml:lang="fr">Colombie</country><wicri:regionArea>Grupo de Bioinformática y Biología de Sistemas, Universidad Nacional del Colombia - Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá</wicri:regionArea><wicri:noRegion>Bogotá</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Genome, Plant (MeSH)</term><term>Host-Parasite Interactions (MeSH)</term><term>Metabolic Networks and Pathways (MeSH)</term><term>Models, Biological (MeSH)</term><term>Photosynthesis (MeSH)</term><term>Phytophthora infestans (physiology)</term><term>Plant Diseases (parasitology)</term><term>Plant Leaves (genetics)</term><term>Plant Leaves (metabolism)</term><term>Plant Leaves (parasitology)</term><term>Plant Proteins (genetics)</term><term>Plant Proteins (metabolism)</term><term>Solanum tuberosum (genetics)</term><term>Solanum tuberosum (parasitology)</term><term>Solanum tuberosum (physiology)</term><term>Transcriptome (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Feuilles de plante (génétique)</term><term>Feuilles de plante (métabolisme)</term><term>Feuilles de plante (parasitologie)</term><term>Génome végétal (MeSH)</term><term>Interactions hôte-parasite (MeSH)</term><term>Maladies des plantes (parasitologie)</term><term>Modèles biologiques (MeSH)</term><term>Photosynthèse (MeSH)</term><term>Phytophthora infestans (physiologie)</term><term>Protéines végétales (génétique)</term><term>Protéines végétales (métabolisme)</term><term>Solanum tuberosum (génétique)</term><term>Solanum tuberosum (parasitologie)</term><term>Solanum tuberosum (physiologie)</term><term>Transcriptome (MeSH)</term><term>Voies et réseaux métaboliques (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Plant Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Leaves</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Feuilles de plante</term><term>Protéines végétales</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Plant Leaves</term><term>Plant Proteins</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Feuilles de plante</term><term>Protéines végétales</term></keywords><keywords scheme="MESH" qualifier="parasitologie" xml:lang="fr"><term>Feuilles de plante</term><term>Maladies des plantes</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="parasitology" xml:lang="en"><term>Plant Diseases</term><term>Plant Leaves</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="physiologie" xml:lang="fr"><term>Phytophthora infestans</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Phytophthora infestans</term><term>Solanum tuberosum</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Genome, Plant</term><term>Host-Parasite Interactions</term><term>Metabolic Networks and Pathways</term><term>Models, Biological</term><term>Photosynthesis</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Génome végétal</term><term>Interactions hôte-parasite</term><term>Modèles biologiques</term><term>Photosynthèse</term><term>Transcriptome</term><term>Voies et réseaux métaboliques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Phytophthora infestans is a plant pathogen that causes an important plant disease known as late blight in potato plants (Solanum tuberosum) and several other solanaceous hosts. This disease is the main factor affecting potato crop production worldwide. In spite of the importance of the disease, the molecular mechanisms underlying the compatibility between the pathogen and its hosts are still unknown.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>To explain the metabolic response of late blight, specifically photosynthesis inhibition in infected plants, we reconstructed a genome-scale metabolic network of the S. tuberosum leaf, PstM1. This metabolic network simulates the effect of this disease in the leaf metabolism. PstM1 accounts for 2751 genes, 1113 metabolic functions, 1773 gene-protein-reaction associations and 1938 metabolites involved in 2072 reactions. The optimization of the model for biomass synthesis maximization in three infection time points suggested a suppression of the photosynthetic capacity related to the decrease of metabolic flux in light reactions and carbon fixation reactions. In addition, a variation pattern in the flux of carboxylation to oxygenation reactions catalyzed by RuBisCO was also identified, likely to be associated to a defense response in the compatible interaction between P. infestans and S. tuberosum.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS</b></p><p>In this work, we introduced simultaneously the first metabolic network of S. tuberosum and the first genome-scale metabolic model of the compatible interaction of a plant with P. infestans.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">30537923</PMID><DateCompleted><Year>2019</Year><Month>02</Month><Day>21</Day></DateCompleted><DateRevised><Year>2019</Year><Month>02</Month><Day>21</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2164</ISSN><JournalIssue CitedMedium="Internet"><Volume>19</Volume><Issue>Suppl 8</Issue><PubDate><Year>2018</Year><Month>Dec</Month><Day>11</Day></PubDate></JournalIssue><Title>BMC genomics</Title><ISOAbbreviation>BMC Genomics</ISOAbbreviation></Journal><ArticleTitle>A genome-scale metabolic model of potato late blight suggests a photosynthesis suppression mechanism.</ArticleTitle><Pagination><MedlinePgn>863</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/s12864-018-5192-x</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Phytophthora infestans is a plant pathogen that causes an important plant disease known as late blight in potato plants (Solanum tuberosum) and several other solanaceous hosts. This disease is the main factor affecting potato crop production worldwide. In spite of the importance of the disease, the molecular mechanisms underlying the compatibility between the pathogen and its hosts are still unknown.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">To explain the metabolic response of late blight, specifically photosynthesis inhibition in infected plants, we reconstructed a genome-scale metabolic network of the S. tuberosum leaf, PstM1. This metabolic network simulates the effect of this disease in the leaf metabolism. PstM1 accounts for 2751 genes, 1113 metabolic functions, 1773 gene-protein-reaction associations and 1938 metabolites involved in 2072 reactions. The optimization of the model for biomass synthesis maximization in three infection time points suggested a suppression of the photosynthetic capacity related to the decrease of metabolic flux in light reactions and carbon fixation reactions. In addition, a variation pattern in the flux of carboxylation to oxygenation reactions catalyzed by RuBisCO was also identified, likely to be associated to a defense response in the compatible interaction between P. infestans and S. tuberosum.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">In this work, we introduced simultaneously the first metabolic network of S. tuberosum and the first genome-scale metabolic model of the compatible interaction of a plant with P. infestans.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Botero</LastName><ForeName>Kelly</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>Grupo de Bioinformática y Biología de Sistemas, Universidad Nacional del Colombia - Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá, Colombia.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Centro de Bioinformática y Biología Computacional, Manizales, Colombia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Restrepo</LastName><ForeName>Silvia</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Laboratorio de Micología y Fitopatología, Universidad de los Andes, Bogotá, Colombia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pinzón</LastName><ForeName>Andres</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Grupo de Bioinformática y Biología de Sistemas, Universidad Nacional del Colombia - Instituto de Genética, Calle 53- Carrera 32, Edificio 426, Bogotá, Colombia. ampinzon@unal.edu.co.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>12</Month><Day>11</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Genomics</MedlineTA><NlmUniqueID>100965258</NlmUniqueID><ISSNLinking>1471-2164</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="Y">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006790" MajorTopicYN="N">Host-Parasite Interactions</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D053858" MajorTopicYN="N">Metabolic Networks and Pathways</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008954" MajorTopicYN="Y">Models, Biological</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010788" MajorTopicYN="N">Photosynthesis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D055750" MajorTopicYN="N">Phytophthora infestans</DescriptorName><QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000469" MajorTopicYN="Y">parasitology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018515" MajorTopicYN="N">Plant Leaves</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName><QualifierName UI="Q000469" MajorTopicYN="N">parasitology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011198" MajorTopicYN="N">Solanum tuberosum</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000469" MajorTopicYN="N">parasitology</QualifierName><QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="N">Transcriptome</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Compatible interaction</Keyword><Keyword MajorTopicYN="N">Flux balance analysis</Keyword><Keyword MajorTopicYN="N">Metabolic reconstruction</Keyword><Keyword MajorTopicYN="N">Phytophthora infestans</Keyword><Keyword MajorTopicYN="N">Solanum tuberosum</Keyword><Keyword MajorTopicYN="N">Systems biology</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2018</Year><Month>12</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2018</Year><Month>12</Month><Day>13</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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