The effect on the transcriptome of Anemone coronaria following infection with rust (Tranzschelia discolor).
Identifieur interne : 000445 ( Main/Exploration ); précédent : 000444; suivant : 000446The effect on the transcriptome of Anemone coronaria following infection with rust (Tranzschelia discolor).
Auteurs : Marina Laura [Italie] ; Cristina Borghi [Italie] ; Valentina Bobbio [Italie] ; Andrea Allavena [Italie]Source :
- PloS one [ 1932-6203 ] ; 2015.
Descripteurs français
- KwdFr :
- Alignement de séquences (méthodes), Analyse de profil d'expression de gènes (méthodes), Analyse de séquence d'ADN (MeSH), Anemone (génétique), Anemone (microbiologie), Banque de gènes (MeSH), Basidiomycota (pathogénicité), Données de séquences moléculaires (MeSH), Gènes de plante (génétique), Maladies des plantes (génétique), Maladies des plantes (microbiologie), Mycoses (génétique), Mycoses (microbiologie), Régulation de l'expression des gènes végétaux (génétique), Régulation positive (génétique), Résistance à la maladie (génétique), Séquence d'acides aminés (MeSH), Transcriptome (génétique).
- MESH :
- génétique : Anemone, Gènes de plante, Maladies des plantes, Mycoses, Régulation de l'expression des gènes végétaux, Régulation positive, Résistance à la maladie, Transcriptome.
- microbiologie : Anemone, Maladies des plantes, Mycoses.
- méthodes : Alignement de séquences, Analyse de profil d'expression de gènes.
- pathogénicité : Basidiomycota.
- Analyse de séquence d'ADN, Banque de gènes, Données de séquences moléculaires, Séquence d'acides aminés.
English descriptors
- KwdEn :
- Amino Acid Sequence (MeSH), Anemone (genetics), Anemone (microbiology), Basidiomycota (pathogenicity), Disease Resistance (genetics), Gene Expression Profiling (methods), Gene Expression Regulation, Plant (genetics), Gene Library (MeSH), Genes, Plant (genetics), Molecular Sequence Data (MeSH), Mycoses (genetics), Mycoses (microbiology), Plant Diseases (genetics), Plant Diseases (microbiology), Sequence Alignment (methods), Sequence Analysis, DNA (MeSH), Transcriptome (genetics), Up-Regulation (genetics).
- MESH :
- genetics : Anemone, Disease Resistance, Gene Expression Regulation, Plant, Genes, Plant, Mycoses, Plant Diseases, Transcriptome, Up-Regulation.
- methods : Gene Expression Profiling, Sequence Alignment.
- microbiology : Anemone, Mycoses, Plant Diseases.
- pathogenicity : Basidiomycota.
- Amino Acid Sequence, Gene Library, Molecular Sequence Data, Sequence Analysis, DNA.
Abstract
In order to understand plant/pathogen interaction, the transcriptome of uninfected (1S) and infected (2I) plant was sequenced at 3'end by the GS FLX 454 platform. De novo assembly of high-quality reads generated 27,231 contigs leaving 37,191 singletons in the 1S and 38,393 in the 2I libraries. ESTcalc tool suggested that 71% of the transcriptome had been captured, with 99% of the genes present being represented by at least one read. Unigene annotation showed that 50.5% of the predicted translation products shared significant homology with protein sequences in GenBank. In all 253 differential transcript abundance (DTAs) were in higher abundance and 52 in lower abundance in the 2I library. 128 higher abundance DTA genes were of fungal origin and 49 were clearly plant sequences. A tBLASTn-based search of the sequences using as query the full length predicted polypeptide product of 50 R genes identified 16 R gene products. Only one R gene (PGIP) was up-regulated. The response of the plant to fungal invasion included the up-regulation of several pathogenesis related protein (PR) genes involved in JA signaling and other genes associated with defense response and down regulation of cell wall associated genes, non-race-specific disease resistance1 (NDR1) and other genes like myb, presqualene diphosphate phosphatase (PSDPase), a UDP-glycosyltransferase 74E2-like (UGT). The DTA genes identified here should provide a basis for understanding the A. coronaria/T. discolor interaction and leads for biotechnology-based disease resistance breeding.
DOI: 10.1371/journal.pone.0118565
PubMed: 25768012
PubMed Central: PMC4359109
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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(methods)</term><term>Gene Expression Regulation, Plant (genetics)</term><term>Gene Library (MeSH)</term><term>Genes, Plant (genetics)</term><term>Molecular Sequence Data (MeSH)</term><term>Mycoses (genetics)</term><term>Mycoses (microbiology)</term><term>Plant Diseases (genetics)</term><term>Plant Diseases (microbiology)</term><term>Sequence Alignment (methods)</term><term>Sequence Analysis, DNA (MeSH)</term><term>Transcriptome (genetics)</term><term>Up-Regulation (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences (méthodes)</term><term>Analyse de profil d'expression de gènes (méthodes)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Anemone (génétique)</term><term>Anemone (microbiologie)</term><term>Banque de gènes (MeSH)</term><term>Basidiomycota (pathogénicité)</term><term>Données de séquences moléculaires (MeSH)</term><term>Gènes de plante (génétique)</term><term>Maladies des plantes (génétique)</term><term>Maladies des plantes (microbiologie)</term><term>Mycoses (génétique)</term><term>Mycoses (microbiologie)</term><term>Régulation de l'expression des gènes végétaux (génétique)</term><term>Régulation positive (génétique)</term><term>Résistance à la maladie (génétique)</term><term>Séquence d'acides aminés (MeSH)</term><term>Transcriptome (génétique)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Anemone</term><term>Disease Resistance</term><term>Gene Expression Regulation, Plant</term><term>Genes, Plant</term><term>Mycoses</term><term>Plant Diseases</term><term>Transcriptome</term><term>Up-Regulation</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Anemone</term><term>Gènes de plante</term><term>Maladies des plantes</term><term>Mycoses</term><term>Régulation de l'expression des gènes végétaux</term><term>Régulation positive</term><term>Résistance à la maladie</term><term>Transcriptome</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Gene Expression Profiling</term><term>Sequence Alignment</term></keywords><keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr"><term>Anemone</term><term>Maladies des plantes</term><term>Mycoses</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Anemone</term><term>Mycoses</term><term>Plant Diseases</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Alignement de séquences</term><term>Analyse de profil d'expression de gènes</term></keywords><keywords scheme="MESH" qualifier="pathogenicity" xml:lang="en"><term>Basidiomycota</term></keywords><keywords scheme="MESH" qualifier="pathogénicité" xml:lang="fr"><term>Basidiomycota</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Gene Library</term><term>Molecular Sequence Data</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Banque de gènes</term><term>Données de séquences moléculaires</term><term>Séquence d'acides aminés</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">In order to understand plant/pathogen interaction, the transcriptome of uninfected (1S) and infected (2I) plant was sequenced at 3'end by the GS FLX 454 platform. De novo assembly of high-quality reads generated 27,231 contigs leaving 37,191 singletons in the 1S and 38,393 in the 2I libraries. ESTcalc tool suggested that 71% of the transcriptome had been captured, with 99% of the genes present being represented by at least one read. Unigene annotation showed that 50.5% of the predicted translation products shared significant homology with protein sequences in GenBank. In all 253 differential transcript abundance (DTAs) were in higher abundance and 52 in lower abundance in the 2I library. 128 higher abundance DTA genes were of fungal origin and 49 were clearly plant sequences. A tBLASTn-based search of the sequences using as query the full length predicted polypeptide product of 50 R genes identified 16 R gene products. Only one R gene (PGIP) was up-regulated. The response of the plant to fungal invasion included the up-regulation of several pathogenesis related protein (PR) genes involved in JA signaling and other genes associated with defense response and down regulation of cell wall associated genes, non-race-specific disease resistance1 (NDR1) and other genes like myb, presqualene diphosphate phosphatase (PSDPase), a UDP-glycosyltransferase 74E2-like (UGT). The DTA genes identified here should provide a basis for understanding the A. coronaria/T. discolor interaction and leads for biotechnology-based disease resistance breeding. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25768012</PMID><DateCompleted><Year>2016</Year><Month>01</Month><Day>21</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>06</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><Issue>3</Issue><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>The effect on the transcriptome of Anemone coronaria following infection with rust (Tranzschelia discolor).</ArticleTitle><Pagination><MedlinePgn>e0118565</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0118565</ELocationID><Abstract><AbstractText>In order to understand plant/pathogen interaction, the transcriptome of uninfected (1S) and infected (2I) plant was sequenced at 3'end by the GS FLX 454 platform. De novo assembly of high-quality reads generated 27,231 contigs leaving 37,191 singletons in the 1S and 38,393 in the 2I libraries. ESTcalc tool suggested that 71% of the transcriptome had been captured, with 99% of the genes present being represented by at least one read. Unigene annotation showed that 50.5% of the predicted translation products shared significant homology with protein sequences in GenBank. In all 253 differential transcript abundance (DTAs) were in higher abundance and 52 in lower abundance in the 2I library. 128 higher abundance DTA genes were of fungal origin and 49 were clearly plant sequences. A tBLASTn-based search of the sequences using as query the full length predicted polypeptide product of 50 R genes identified 16 R gene products. Only one R gene (PGIP) was up-regulated. The response of the plant to fungal invasion included the up-regulation of several pathogenesis related protein (PR) genes involved in JA signaling and other genes associated with defense response and down regulation of cell wall associated genes, non-race-specific disease resistance1 (NDR1) and other genes like myb, presqualene diphosphate phosphatase (PSDPase), a UDP-glycosyltransferase 74E2-like (UGT). The DTA genes identified here should provide a basis for understanding the A. coronaria/T. discolor interaction and leads for biotechnology-based disease resistance breeding. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Laura</LastName><ForeName>Marina</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>CRA-Unità di Ricerca per la Floricoltura e le Specie Ornamentali, Corso Inglesi 508, 18038 Sanremo (IM), Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Borghi</LastName><ForeName>Cristina</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>CRA-Unità di Ricerca per la Floricoltura e le Specie Ornamentali, Corso Inglesi 508, 18038 Sanremo (IM), Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bobbio</LastName><ForeName>Valentina</ForeName><Initials>V</Initials><AffiliationInfo><Affiliation>CRA-Unità di Ricerca per la Floricoltura e le Specie Ornamentali, Corso Inglesi 508, 18038 Sanremo (IM), Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Allavena</LastName><ForeName>Andrea</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>CRA-Unità di Ricerca per la Floricoltura e le Specie Ornamentali, Corso Inglesi 508, 18038 Sanremo (IM), Italy.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>03</Month><Day>13</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000595" MajorTopicYN="N">Amino Acid Sequence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D031883" MajorTopicYN="N">Anemone</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName><QualifierName UI="Q000472" MajorTopicYN="Y">pathogenicity</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D060467" MajorTopicYN="N">Disease Resistance</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015723" MajorTopicYN="N">Gene Library</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D008969" MajorTopicYN="N">Molecular Sequence Data</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009181" MajorTopicYN="N">Mycoses</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D059467" MajorTopicYN="N">Transcriptome</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015854" MajorTopicYN="N">Up-Regulation</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2014</Year><Month>08</Month><Day>01</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2015</Year><Month>01</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2015</Year><Month>3</Month><Day>14</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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