Bacteriome and Mycobiome in Nicotiana tabacum Fields Affected by Black Shank Disease.
Identifieur interne : 000288 ( Main/Exploration ); précédent : 000287; suivant : 000289Bacteriome and Mycobiome in Nicotiana tabacum Fields Affected by Black Shank Disease.
Auteurs : Xiaoyulong Chen [République populaire de Chine] ; Baoyu He [République populaire de Chine] ; Hong Yang [République populaire de Chine] ; Tomislav Cernava [République populaire de Chine, Autriche]Source :
- Plant disease [ 0191-2917 ] ; 2020.
Descripteurs français
- KwdFr :
- MESH :
- Wicri :
- geographic : République populaire de Chine.
English descriptors
- KwdEn :
- MESH :
- geographic : China.
- Mycobiome, Phytophthora, Plant Diseases, Tobacco.
Abstract
Phytophthora nicotianae is a widespread cause of black shank disease of tobacco plants and causes substantial harvest losses in all major cultivation areas. The oomycete primarily affects plant roots and the stem, where it leads to a progressing decay of the diseased tissues. In this resource announcement, we provide two complementary datasets comprising 16S gene fragment amplicons (bacteriome) and ITS1 region amplicons (mycobiome) that were sequenced on an Illumina-based platform. Soil samples were obtained from disease-affected fields in Guizhou province (China) and include control samples from adhering fields without previous disease incidence. Both datasets were acquired at a high sequencing depth and accompanied by detailed metadata, which facilitate their implementation in comparative studies. The resource announcement provides a basis for disease-specific biomarker detection and correlation studies that include the microbiome.
DOI: 10.1094/PDIS-07-19-1342-A
PubMed: 31809254
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Bacteriome and Mycobiome in <i>Nicotiana tabacum</i> Fields Affected by Black Shank Disease.</title><author><name sortKey="Chen, Xiaoyulong" sort="Chen, Xiaoyulong" uniqKey="Chen X" first="Xiaoyulong" last="Chen">Xiaoyulong Chen</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="He, Baoyu" sort="He, Baoyu" uniqKey="He B" first="Baoyu" last="He">Baoyu He</name><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Hong" sort="Yang, Hong" uniqKey="Yang H" first="Hong" last="Yang">Hong Yang</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="Cernava, Tomislav" sort="Cernava, Tomislav" uniqKey="Cernava T" first="Tomislav" last="Cernava">Tomislav Cernava</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Institute of Environmental Biotechnology, Graz University of Technology, 8010 Graz, Austria.</nlm:affiliation><country xml:lang="fr">Autriche</country><wicri:regionArea>Institute of Environmental Biotechnology, Graz University of Technology, 8010 Graz</wicri:regionArea><wicri:noRegion>8010 Graz</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2020">2020</date><idno type="RBID">pubmed:31809254</idno><idno type="pmid">31809254</idno><idno type="doi">10.1094/PDIS-07-19-1342-A</idno><idno type="wicri:Area/Main/Corpus">000332</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000332</idno><idno type="wicri:Area/Main/Curation">000332</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000332</idno><idno type="wicri:Area/Main/Exploration">000332</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Bacteriome and Mycobiome in <i>Nicotiana tabacum</i> Fields Affected by Black Shank Disease.</title><author><name sortKey="Chen, Xiaoyulong" sort="Chen, Xiaoyulong" uniqKey="Chen X" first="Xiaoyulong" last="Chen">Xiaoyulong Chen</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="He, Baoyu" sort="He, Baoyu" uniqKey="He B" first="Baoyu" last="He">Baoyu He</name><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Hong" sort="Yang, Hong" uniqKey="Yang H" first="Hong" last="Yang">Hong Yang</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation></author><author><name sortKey="Cernava, Tomislav" sort="Cernava, Tomislav" uniqKey="Cernava T" first="Tomislav" last="Cernava">Tomislav Cernava</name><affiliation wicri:level="1"><nlm:affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Tobacco Science, Guizhou University, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang</wicri:regionArea><wicri:noRegion>Guiyang</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:affiliation>Institute of Environmental Biotechnology, Graz University of Technology, 8010 Graz, Austria.</nlm:affiliation><country xml:lang="fr">Autriche</country><wicri:regionArea>Institute of Environmental Biotechnology, Graz University of Technology, 8010 Graz</wicri:regionArea><wicri:noRegion>8010 Graz</wicri:noRegion></affiliation></author></analytic><series><title level="j">Plant disease</title><idno type="ISSN">0191-2917</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>China (MeSH)</term><term>Mycobiome (MeSH)</term><term>Phytophthora (MeSH)</term><term>Plant Diseases (MeSH)</term><term>Tobacco (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Chine (MeSH)</term><term>Maladies des plantes (MeSH)</term><term>Mycobiome (MeSH)</term><term>Phytophthora (MeSH)</term><term>Tabac (MeSH)</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>China</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Mycobiome</term><term>Phytophthora</term><term>Plant Diseases</term><term>Tobacco</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Chine</term><term>Maladies des plantes</term><term>Mycobiome</term><term>Phytophthora</term><term>Tabac</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>République populaire de Chine</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><i>Phytophthora nicotianae</i> is a widespread cause of black shank disease of tobacco plants and causes substantial harvest losses in all major cultivation areas. The oomycete primarily affects plant roots and the stem, where it leads to a progressing decay of the diseased tissues. In this resource announcement, we provide two complementary datasets comprising 16S gene fragment amplicons (bacteriome) and ITS1 region amplicons (mycobiome) that were sequenced on an Illumina-based platform. Soil samples were obtained from disease-affected fields in Guizhou province (China) and include control samples from adhering fields without previous disease incidence. Both datasets were acquired at a high sequencing depth and accompanied by detailed metadata, which facilitate their implementation in comparative studies. The resource announcement provides a basis for disease-specific biomarker detection and correlation studies that include the microbiome.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Automated" Owner="NLM"><PMID Version="1">31809254</PMID><DateCompleted><Year>2020</Year><Month>02</Month><Day>21</Day></DateCompleted><DateRevised><Year>2020</Year><Month>02</Month><Day>21</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0191-2917</ISSN><JournalIssue CitedMedium="Print"><Volume>104</Volume><Issue>2</Issue><PubDate><Year>2020</Year><Month>Feb</Month></PubDate></JournalIssue><Title>Plant disease</Title><ISOAbbreviation>Plant Dis</ISOAbbreviation></Journal><ArticleTitle>Bacteriome and Mycobiome in <i>Nicotiana tabacum</i> Fields Affected by Black Shank Disease.</ArticleTitle><Pagination><MedlinePgn>315-319</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1094/PDIS-07-19-1342-A</ELocationID><Abstract><AbstractText><i>Phytophthora nicotianae</i> is a widespread cause of black shank disease of tobacco plants and causes substantial harvest losses in all major cultivation areas. The oomycete primarily affects plant roots and the stem, where it leads to a progressing decay of the diseased tissues. In this resource announcement, we provide two complementary datasets comprising 16S gene fragment amplicons (bacteriome) and ITS1 region amplicons (mycobiome) that were sequenced on an Illumina-based platform. Soil samples were obtained from disease-affected fields in Guizhou province (China) and include control samples from adhering fields without previous disease incidence. Both datasets were acquired at a high sequencing depth and accompanied by detailed metadata, which facilitate their implementation in comparative studies. The resource announcement provides a basis for disease-specific biomarker detection and correlation studies that include the microbiome.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Xiaoyulong</ForeName><Initials>X</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-7524-1149</Identifier><AffiliationInfo><Affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>He</LastName><ForeName>Baoyu</ForeName><Initials>B</Initials><AffiliationInfo><Affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Hong</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cernava</LastName><ForeName>Tomislav</ForeName><Initials>T</Initials><Identifier Source="ORCID">http://orcid.org/0000-0001-7772-4080</Identifier><AffiliationInfo><Affiliation>College of Tobacco Science, Guizhou University, 550025, Guiyang, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Region, 550025, Guiyang, China.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Institute of Environmental Biotechnology, Graz University of Technology, 8010 Graz, Austria.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2019</Year><Month>12</Month><Day>06</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Plant Dis</MedlineTA><NlmUniqueID>9882809</NlmUniqueID><ISSNLinking>0191-2917</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D002681" MajorTopicYN="N" Type="Geographic">China</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D000072761" MajorTopicYN="Y">Mycobiome</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010838" MajorTopicYN="Y">Phytophthora</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014026" MajorTopicYN="N">Tobacco</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Phytophthora nicotianae</Keyword><Keyword MajorTopicYN="N">Solanaceae</Keyword><Keyword MajorTopicYN="N">biomarkers</Keyword><Keyword MajorTopicYN="N">microbiome</Keyword><Keyword MajorTopicYN="N">oomycetes</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2019</Year><Month>12</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2020</Year><Month>2</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2019</Year><Month>12</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">31809254</ArticleId><ArticleId IdType="doi">10.1094/PDIS-07-19-1342-A</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Autriche</li><li>République populaire de Chine</li></country></list><tree><country name="République populaire de Chine"><noRegion><name sortKey="Chen, Xiaoyulong" sort="Chen, Xiaoyulong" uniqKey="Chen X" first="Xiaoyulong" last="Chen">Xiaoyulong Chen</name></noRegion><name sortKey="Cernava, Tomislav" sort="Cernava, Tomislav" uniqKey="Cernava T" first="Tomislav" last="Cernava">Tomislav Cernava</name><name sortKey="Cernava, Tomislav" sort="Cernava, Tomislav" uniqKey="Cernava T" first="Tomislav" last="Cernava">Tomislav Cernava</name><name sortKey="Chen, Xiaoyulong" sort="Chen, Xiaoyulong" uniqKey="Chen X" first="Xiaoyulong" last="Chen">Xiaoyulong Chen</name><name sortKey="He, Baoyu" sort="He, Baoyu" uniqKey="He B" first="Baoyu" last="He">Baoyu He</name><name sortKey="Yang, Hong" sort="Yang, Hong" uniqKey="Yang H" first="Hong" last="Yang">Hong Yang</name><name sortKey="Yang, Hong" sort="Yang, Hong" uniqKey="Yang H" first="Hong" last="Yang">Hong Yang</name></country><country name="Autriche"><noRegion><name sortKey="Cernava, Tomislav" sort="Cernava, Tomislav" uniqKey="Cernava T" first="Tomislav" last="Cernava">Tomislav Cernava</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PhytophthoraV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000288 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000288 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PhytophthoraV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:31809254
|texte= Bacteriome and Mycobiome in Nicotiana tabacum Fields Affected by Black Shank Disease.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:31809254" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PhytophthoraV1
| This area was generated with Dilib version V0.6.38. |  |