Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.
Identifieur interne : 002E29 ( Main/Exploration ); précédent : 002E28; suivant : 002E30Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.
Auteurs : Lanhua Guan [Japon] ; Susumu ShiraishiSource :
- Molecular ecology resources [ 1755-0998 ] ; 2011.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : DNA Primers.
- genetics : Cryptomeria, Genome, Plant, Oryza, Pinus, Populus.
- methods : Amplified Fragment Length Polymorphism Analysis, Polymerase Chain Reaction.
- Species Specificity.
Abstract
To improve the amplified fragment length polymorphism assay, dual-suppression PCR was introduced into the preamplification step of the assay. The dual-suppression PCR blocked completely the amplification of fragments with the same sequence (Bsp1407I-Bsp1407I or NlaIII-NlaIII) at both ends and amplified selectively fragments with different adaptor sequences (Bsp1407I-NlaIII) at each end. Two protocols, referred to as A and B, were established for species with medium- and large-sized genomes, respectively. Both protocols incorporated the dual-suppression PCR. Protocol A resulted in high-quality electrophoretic profiles for black cottonwood and rice, which have medium-sized genomes. In protocol B, an intensely selective PCR step was added to protocol A. Protocol B yielded profiles for Japanese black pine and Japanese cedar that were improved significantly relative to protocol A: the number of strong peaks increased and that of low peaks decreased. Japanese black pine and Japanese cedar have large genomes. The optimal profiles were generated with a total of eight or nine selective nucleotides.
DOI: 10.1111/j.1755-0998.2011.03029.x
PubMed: 21676205
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.</title><author><name sortKey="Guan, Lanhua" sort="Guan, Lanhua" uniqKey="Guan L" first="Lanhua" last="Guan">Lanhua Guan</name><affiliation wicri:level="4"><nlm:affiliation>Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka 812-8581, Japan.</nlm:affiliation><country xml:lang="fr">Japon</country><wicri:regionArea>Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka 812-8581</wicri:regionArea><orgName type="university">Université de Kyūshū</orgName><placeName><settlement type="city">Fukuoka</settlement><region type="province">Kyūshū</region><region type="prefecture">Préfecture de Fukuoka</region></placeName></affiliation></author><author><name sortKey="Shiraishi, Susumu" sort="Shiraishi, Susumu" uniqKey="Shiraishi S" first="Susumu" last="Shiraishi">Susumu Shiraishi</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2011">2011</date><idno type="RBID">pubmed:21676205</idno><idno type="pmid">21676205</idno><idno type="doi">10.1111/j.1755-0998.2011.03029.x</idno><idno type="wicri:Area/Main/Corpus">002D71</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002D71</idno><idno type="wicri:Area/Main/Curation">002D71</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002D71</idno><idno type="wicri:Area/Main/Exploration">002D71</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.</title><author><name sortKey="Guan, Lanhua" sort="Guan, Lanhua" uniqKey="Guan L" first="Lanhua" last="Guan">Lanhua Guan</name><affiliation wicri:level="4"><nlm:affiliation>Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka 812-8581, Japan.</nlm:affiliation><country xml:lang="fr">Japon</country><wicri:regionArea>Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka 812-8581</wicri:regionArea><orgName type="university">Université de Kyūshū</orgName><placeName><settlement type="city">Fukuoka</settlement><region type="province">Kyūshū</region><region type="prefecture">Préfecture de Fukuoka</region></placeName></affiliation></author><author><name sortKey="Shiraishi, Susumu" sort="Shiraishi, Susumu" uniqKey="Shiraishi S" first="Susumu" last="Shiraishi">Susumu Shiraishi</name></author></analytic><series><title level="j">Molecular ecology resources</title><idno type="eISSN">1755-0998</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amplified Fragment Length Polymorphism Analysis (methods)</term><term>Cryptomeria (genetics)</term><term>DNA Primers (genetics)</term><term>Genome, Plant (genetics)</term><term>Oryza (genetics)</term><term>Pinus (genetics)</term><term>Polymerase Chain Reaction (methods)</term><term>Populus (genetics)</term><term>Species Specificity (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Amorces ADN (génétique)</term><term>Analyse de polymorphisme de longueur de fragments amplifiés (méthodes)</term><term>Cryptomeria (génétique)</term><term>Génome végétal (génétique)</term><term>Oryza (génétique)</term><term>Pinus (génétique)</term><term>Populus (génétique)</term><term>Réaction de polymérisation en chaîne (méthodes)</term><term>Spécificité d'espèce (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA Primers</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Cryptomeria</term><term>Genome, Plant</term><term>Oryza</term><term>Pinus</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Amorces ADN</term><term>Cryptomeria</term><term>Génome végétal</term><term>Oryza</term><term>Pinus</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Amplified Fragment Length Polymorphism Analysis</term><term>Polymerase Chain Reaction</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Analyse de polymorphisme de longueur de fragments amplifiés</term><term>Réaction de polymérisation en chaîne</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Species Specificity</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Spécificité d'espèce</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">To improve the amplified fragment length polymorphism assay, dual-suppression PCR was introduced into the preamplification step of the assay. The dual-suppression PCR blocked completely the amplification of fragments with the same sequence (Bsp1407I-Bsp1407I or NlaIII-NlaIII) at both ends and amplified selectively fragments with different adaptor sequences (Bsp1407I-NlaIII) at each end. Two protocols, referred to as A and B, were established for species with medium- and large-sized genomes, respectively. Both protocols incorporated the dual-suppression PCR. Protocol A resulted in high-quality electrophoretic profiles for black cottonwood and rice, which have medium-sized genomes. In protocol B, an intensely selective PCR step was added to protocol A. Protocol B yielded profiles for Japanese black pine and Japanese cedar that were improved significantly relative to protocol A: the number of strong peaks increased and that of low peaks decreased. Japanese black pine and Japanese cedar have large genomes. The optimal profiles were generated with a total of eight or nine selective nucleotides.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21676205</PMID><DateCompleted><Year>2011</Year><Month>12</Month><Day>05</Day></DateCompleted><DateRevised><Year>2015</Year><Month>11</Month><Day>19</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1755-0998</ISSN><JournalIssue CitedMedium="Internet"><Volume>11</Volume><Issue>5</Issue><PubDate><Year>2011</Year><Month>Sep</Month></PubDate></JournalIssue><Title>Molecular ecology resources</Title><ISOAbbreviation>Mol Ecol Resour</ISOAbbreviation></Journal><ArticleTitle>Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.</ArticleTitle><Pagination><MedlinePgn>854-61</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1755-0998.2011.03029.x</ELocationID><Abstract><AbstractText>To improve the amplified fragment length polymorphism assay, dual-suppression PCR was introduced into the preamplification step of the assay. The dual-suppression PCR blocked completely the amplification of fragments with the same sequence (Bsp1407I-Bsp1407I or NlaIII-NlaIII) at both ends and amplified selectively fragments with different adaptor sequences (Bsp1407I-NlaIII) at each end. Two protocols, referred to as A and B, were established for species with medium- and large-sized genomes, respectively. Both protocols incorporated the dual-suppression PCR. Protocol A resulted in high-quality electrophoretic profiles for black cottonwood and rice, which have medium-sized genomes. In protocol B, an intensely selective PCR step was added to protocol A. Protocol B yielded profiles for Japanese black pine and Japanese cedar that were improved significantly relative to protocol A: the number of strong peaks increased and that of low peaks decreased. Japanese black pine and Japanese cedar have large genomes. The optimal profiles were generated with a total of eight or nine selective nucleotides.</AbstractText><CopyrightInformation>© 2011 Blackwell Publishing Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Guan</LastName><ForeName>Lanhua</ForeName><Initials>L</Initials><AffiliationInfo><Affiliation>Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, Fukuoka 812-8581, Japan.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Shiraishi</LastName><ForeName>Susumu</ForeName><Initials>S</Initials></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>2011</Year><Month>06</Month><Day>15</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Mol Ecol Resour</MedlineTA><NlmUniqueID>101465604</NlmUniqueID><ISSNLinking>1755-098X</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D017931">DNA Primers</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D054458" MajorTopicYN="N">Amplified Fragment Length Polymorphism Analysis</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032485" MajorTopicYN="N">Cryptomeria</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017931" MajorTopicYN="N">DNA Primers</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012275" MajorTopicYN="N">Oryza</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D028223" MajorTopicYN="N">Pinus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016133" MajorTopicYN="N">Polymerase Chain Reaction</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D013045" MajorTopicYN="N">Species Specificity</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2011</Year><Month>6</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2011</Year><Month>6</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2011</Year><Month>12</Month><Day>13</Day><Hour>0</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">21676205</ArticleId><ArticleId IdType="doi">10.1111/j.1755-0998.2011.03029.x</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Japon</li></country><region><li>Kyūshū</li><li>Préfecture de Fukuoka</li></region><settlement><li>Fukuoka</li></settlement><orgName><li>Université de Kyūshū</li></orgName></list><tree><noCountry><name sortKey="Shiraishi, Susumu" sort="Shiraishi, Susumu" uniqKey="Shiraishi S" first="Susumu" last="Shiraishi">Susumu Shiraishi</name></noCountry><country name="Japon"><region name="Kyūshū"><name sortKey="Guan, Lanhua" sort="Guan, Lanhua" uniqKey="Guan L" first="Lanhua" last="Guan">Lanhua Guan</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 002E29 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 002E29 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PoplarV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:21676205
|texte= Improved AFLP protocol using dual-suppression PCR and its application to species with large genomes.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:21676205" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |