Whole-genome comparative analysis of virulence genes unveils similarities and differences between endophytes and other symbiotic bacteria.
Identifieur interne : 000422 ( Main/Exploration ); précédent : 000421; suivant : 000423Whole-genome comparative analysis of virulence genes unveils similarities and differences between endophytes and other symbiotic bacteria.
Auteurs : Sebastiàn L Pez-Fernàndez [Italie] ; Paolo Sonego [Italie] ; Marco Moretto [Italie] ; Michael Pancher [Italie] ; Kristof Engelen [Italie] ; Ilaria Pertot [Italie] ; Andrea Campisano [Italie]Source :
- Frontiers in microbiology [ 1664-302X ] ; 2015.
Abstract
Plant pathogens and endophytes co-exist and often interact with the host plant and within its microbial community. The outcome of these interactions may lead to healthy plants through beneficial interactions, or to disease through the inducible production of molecules known as virulence factors. Unravelling the role of virulence in endophytes may crucially improve our understanding of host-associated microbial communities and their correlation with host health. Virulence is the outcome of a complex network of interactions, and drawing the line between pathogens and endophytes has proven to be conflictive, as strain-level differences in niche overlapping, ecological interactions, state of the host's immune system and environmental factors are seldom taken into account. Defining genomic differences between endophytes and plant pathogens is decisive for understanding the boundaries between these two groups. Here we describe the major differences at the genomic level between seven grapevine endophytic test bacteria, and 12 reference strains. We describe the virulence factors detected in the genomes of the test group, as compared to endophytic and non-endophytic references, to better understand the distribution of these traits in endophytic genomes. To do this, we adopted a comparative whole-genome approach, encompassing BLAST-based searches through the GUI-based tools Mauve and BRIG as well as calculating the core and accessory genomes of three genera of enterobacteria. We outline divergences in metabolic pathways of these endophytes and reference strains, with the aid of the online platform RAST. We present a summary of the major differences that help in the drawing of the boundaries between harmless and harmful bacteria, in the spirit of contributing to a microbiological definition of endophyte.
DOI: 10.3389/fmicb.2015.00419
PubMed: 26074885
PubMed Central: PMC4443252
Affiliations:
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Trento</wicri:regionArea><wicri:noRegion>Fondazione Edmund Mach Trento</wicri:noRegion></affiliation></author></analytic><series><title level="j">Frontiers in microbiology</title><idno type="ISSN">1664-302X</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Plant pathogens and endophytes co-exist and often interact with the host plant and within its microbial community. The outcome of these interactions may lead to healthy plants through beneficial interactions, or to disease through the inducible production of molecules known as virulence factors. Unravelling the role of virulence in endophytes may crucially improve our understanding of host-associated microbial communities and their correlation with host health. Virulence is the outcome of a complex network of interactions, and drawing the line between pathogens and endophytes has proven to be conflictive, as strain-level differences in niche overlapping, ecological interactions, state of the host's immune system and environmental factors are seldom taken into account. Defining genomic differences between endophytes and plant pathogens is decisive for understanding the boundaries between these two groups. Here we describe the major differences at the genomic level between seven grapevine endophytic test bacteria, and 12 reference strains. We describe the virulence factors detected in the genomes of the test group, as compared to endophytic and non-endophytic references, to better understand the distribution of these traits in endophytic genomes. To do this, we adopted a comparative whole-genome approach, encompassing BLAST-based searches through the GUI-based tools Mauve and BRIG as well as calculating the core and accessory genomes of three genera of enterobacteria. We outline divergences in metabolic pathways of these endophytes and reference strains, with the aid of the online platform RAST. We present a summary of the major differences that help in the drawing of the boundaries between harmless and harmful bacteria, in the spirit of contributing to a microbiological definition of endophyte. </div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">26074885</PMID><DateCompleted><Year>2015</Year><Month>06</Month><Day>15</Day></DateCompleted><DateRevised><Year>2020</Year><Month>09</Month><Day>30</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-302X</ISSN><JournalIssue CitedMedium="Print"><Volume>6</Volume><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>Frontiers in microbiology</Title><ISOAbbreviation>Front Microbiol</ISOAbbreviation></Journal><ArticleTitle>Whole-genome comparative analysis of virulence genes unveils similarities and differences between endophytes and other symbiotic bacteria.</ArticleTitle><Pagination><MedlinePgn>419</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fmicb.2015.00419</ELocationID><Abstract><AbstractText>Plant pathogens and endophytes co-exist and often interact with the host plant and within its microbial community. The outcome of these interactions may lead to healthy plants through beneficial interactions, or to disease through the inducible production of molecules known as virulence factors. Unravelling the role of virulence in endophytes may crucially improve our understanding of host-associated microbial communities and their correlation with host health. Virulence is the outcome of a complex network of interactions, and drawing the line between pathogens and endophytes has proven to be conflictive, as strain-level differences in niche overlapping, ecological interactions, state of the host's immune system and environmental factors are seldom taken into account. Defining genomic differences between endophytes and plant pathogens is decisive for understanding the boundaries between these two groups. Here we describe the major differences at the genomic level between seven grapevine endophytic test bacteria, and 12 reference strains. We describe the virulence factors detected in the genomes of the test group, as compared to endophytic and non-endophytic references, to better understand the distribution of these traits in endophytic genomes. To do this, we adopted a comparative whole-genome approach, encompassing BLAST-based searches through the GUI-based tools Mauve and BRIG as well as calculating the core and accessory genomes of three genera of enterobacteria. We outline divergences in metabolic pathways of these endophytes and reference strains, with the aid of the online platform RAST. We present a summary of the major differences that help in the drawing of the boundaries between harmless and harmful bacteria, in the spirit of contributing to a microbiological definition of endophyte. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Lòpez-Fernàndez</LastName><ForeName>Sebastiàn</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sonego</LastName><ForeName>Paolo</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Moretto</LastName><ForeName>Marco</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pancher</LastName><ForeName>Michael</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Engelen</LastName><ForeName>Kristof</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pertot</LastName><ForeName>Ilaria</ForeName><Initials>I</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Campisano</LastName><ForeName>Andrea</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Research and Innovation Center, Fondazione Edmund Mach Trento, Italy.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>05</Month><Day>26</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Microbiol</MedlineTA><NlmUniqueID>101548977</NlmUniqueID><ISSNLinking>1664-302X</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">comparative genomics</Keyword><Keyword MajorTopicYN="N">core genome</Keyword><Keyword MajorTopicYN="N">endophyte</Keyword><Keyword MajorTopicYN="N">niche occupation</Keyword><Keyword MajorTopicYN="N">synteny</Keyword><Keyword MajorTopicYN="N">virulence</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>01</Month><Day>23</Day></PubMedPubDate><PubMedPubDate 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IdType="pubmed">3711302</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Italie</li></country></list><tree><country name="Italie"><noRegion><name sortKey="L Pez Fernandez, Sebastian" sort="L Pez Fernandez, Sebastian" uniqKey="L Pez Fernandez S" first="Sebastiàn" last="L Pez-Fernàndez">Sebastiàn L Pez-Fernàndez</name></noRegion><name sortKey="Campisano, Andrea" sort="Campisano, Andrea" uniqKey="Campisano A" first="Andrea" last="Campisano">Andrea Campisano</name><name sortKey="Engelen, Kristof" sort="Engelen, Kristof" uniqKey="Engelen K" first="Kristof" last="Engelen">Kristof Engelen</name><name sortKey="Moretto, Marco" sort="Moretto, Marco" uniqKey="Moretto M" first="Marco" last="Moretto">Marco Moretto</name><name sortKey="Pancher, Michael" sort="Pancher, Michael" uniqKey="Pancher M" first="Michael" last="Pancher">Michael Pancher</name><name sortKey="Pertot, Ilaria" sort="Pertot, Ilaria" uniqKey="Pertot I" first="Ilaria" last="Pertot">Ilaria Pertot</name><name sortKey="Sonego, Paolo" sort="Sonego, Paolo" uniqKey="Sonego P" first="Paolo" last="Sonego">Paolo Sonego</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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