Improving the yield and quality of DNA isolated from white-rot fungi.
Identifieur interne : 000875 ( Main/Exploration ); précédent : 000874; suivant : 000876Improving the yield and quality of DNA isolated from white-rot fungi.
Auteurs : R C Kuhad [Inde] ; R K Kapoor ; R. LalSource :
- Folia microbiologica [ 0015-5632 ] ; 2004.
Descripteurs français
- KwdFr :
- ADN fongique (analyse), ADN fongique (isolement et purification), ADN fongique (métabolisme), Basidiomycota (composition chimique), Bromure de cétrimonium (MeSH), Chitinase (métabolisme), Composés de cétrimonium (composition chimique), DNA restriction enzymes (métabolisme), Détergents (MeSH), Mycologie (méthodes), Phanerochaete (composition chimique), Phénol (composition chimique), Pleurotus (composition chimique), Polyosides (composition chimique), Précipitation fractionnée (MeSH).
- MESH :
- analyse : ADN fongique.
- composition chimique : Basidiomycota, Composés de cétrimonium, Phanerochaete, Phénol, Pleurotus, Polyosides.
- isolement et purification : ADN fongique.
- métabolisme : ADN fongique, Chitinase, DNA restriction enzymes.
- méthodes : Mycologie.
- Bromure de cétrimonium, Détergents, Précipitation fractionnée.
English descriptors
- KwdEn :
- Basidiomycota (chemistry), Cetrimonium (MeSH), Cetrimonium Compounds (chemistry), Chitinases (metabolism), DNA Restriction Enzymes (metabolism), DNA, Fungal (analysis), DNA, Fungal (isolation & purification), DNA, Fungal (metabolism), Detergents (MeSH), Fractional Precipitation (MeSH), Mycology (methods), Phanerochaete (chemistry), Phenol (chemistry), Pleurotus (chemistry), Polysaccharides (chemistry).
- MESH :
- chemical , analysis : DNA, Fungal.
- chemical , chemistry : Cetrimonium Compounds, Phenol, Polysaccharides.
- chemical , isolation & purification : DNA, Fungal.
- chemical , metabolism : Chitinases, DNA Restriction Enzymes, DNA, Fungal.
- chemical : Cetrimonium, Detergents.
- chemistry : Basidiomycota, Phanerochaete, Pleurotus.
- methods : Mycology.
- Fractional Precipitation.
Abstract
A new simple method used to eliminate polysaccharides that cause problems during DNA isolation was established for 6 different white-rot fungi using 1% hexadecyltrimethylammonium bromide (CTAB) as wash buffer and followed by centrifugation. Variation in the DNA yield and quality was ascertained using precipitating agents, detergents and cell-wall-hydrolyzing chitinase. Considerable amount of exopolysaccharides from fungal biomass was removed with the use of 1% CTAB wash buffer followed by centrifugation. The DNA varied in terms of yield and quality. For the DNA extraction use of 2% SDS in extraction buffer worked best for Pycnoporus cinnabarinus, Cyathus bulleri, Cyathus striatus and Cyathus stercoreus, while 2% CTAB worked best for Phanerochaete chrysosporium and Pleurotus ostreatus. Elimination of phenol and use of absolute ethanol for precipitating DNA resulted in good yield and quality of DNA. This DNA was amenable to restriction endonuclease digestion.
DOI: 10.1007/BF02931383
PubMed: 15227780
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Improving the yield and quality of DNA isolated from white-rot fungi.</title><author><name sortKey="Kuhad, R C" sort="Kuhad, R C" uniqKey="Kuhad R" first="R C" last="Kuhad">R C Kuhad</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, University of Delhi South Campus, New Delhi-110 021, India. kuhad@hotmail.com</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Microbiology, University of Delhi South Campus, New Delhi-110 021</wicri:regionArea><wicri:noRegion>New Delhi-110 021</wicri:noRegion></affiliation></author><author><name sortKey="Kapoor, R K" sort="Kapoor, R K" uniqKey="Kapoor R" first="R K" last="Kapoor">R K Kapoor</name></author><author><name sortKey="Lal, R" sort="Lal, R" uniqKey="Lal R" first="R" last="Lal">R. Lal</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2004">2004</date><idno type="RBID">pubmed:15227780</idno><idno type="pmid">15227780</idno><idno type="doi">10.1007/BF02931383</idno><idno type="wicri:Area/Main/Corpus">000897</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000897</idno><idno type="wicri:Area/Main/Curation">000897</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000897</idno><idno type="wicri:Area/Main/Exploration">000897</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Improving the yield and quality of DNA isolated from white-rot fungi.</title><author><name sortKey="Kuhad, R C" sort="Kuhad, R C" uniqKey="Kuhad R" first="R C" last="Kuhad">R C Kuhad</name><affiliation wicri:level="1"><nlm:affiliation>Department of Microbiology, University of Delhi South Campus, New Delhi-110 021, India. kuhad@hotmail.com</nlm:affiliation><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Microbiology, University of Delhi South Campus, New Delhi-110 021</wicri:regionArea><wicri:noRegion>New Delhi-110 021</wicri:noRegion></affiliation></author><author><name sortKey="Kapoor, R K" sort="Kapoor, R K" uniqKey="Kapoor R" first="R K" last="Kapoor">R K Kapoor</name></author><author><name sortKey="Lal, R" sort="Lal, R" uniqKey="Lal R" first="R" last="Lal">R. Lal</name></author></analytic><series><title level="j">Folia microbiologica</title><idno type="ISSN">0015-5632</idno><imprint><date when="2004" type="published">2004</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Basidiomycota (chemistry)</term><term>Cetrimonium (MeSH)</term><term>Cetrimonium Compounds (chemistry)</term><term>Chitinases (metabolism)</term><term>DNA Restriction Enzymes (metabolism)</term><term>DNA, Fungal (analysis)</term><term>DNA, Fungal (isolation & purification)</term><term>DNA, Fungal (metabolism)</term><term>Detergents (MeSH)</term><term>Fractional Precipitation (MeSH)</term><term>Mycology (methods)</term><term>Phanerochaete (chemistry)</term><term>Phenol (chemistry)</term><term>Pleurotus (chemistry)</term><term>Polysaccharides (chemistry)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN fongique (analyse)</term><term>ADN fongique (isolement et purification)</term><term>ADN fongique (métabolisme)</term><term>Basidiomycota (composition chimique)</term><term>Bromure de cétrimonium (MeSH)</term><term>Chitinase (métabolisme)</term><term>Composés de cétrimonium (composition chimique)</term><term>DNA restriction enzymes (métabolisme)</term><term>Détergents (MeSH)</term><term>Mycologie (méthodes)</term><term>Phanerochaete (composition chimique)</term><term>Phénol (composition chimique)</term><term>Pleurotus (composition chimique)</term><term>Polyosides (composition chimique)</term><term>Précipitation fractionnée (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>DNA, Fungal</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Cetrimonium Compounds</term><term>Phenol</term><term>Polysaccharides</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>DNA, Fungal</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Chitinases</term><term>DNA Restriction Enzymes</term><term>DNA, Fungal</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Cetrimonium</term><term>Detergents</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>ADN fongique</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Basidiomycota</term><term>Phanerochaete</term><term>Pleurotus</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Basidiomycota</term><term>Composés de cétrimonium</term><term>Phanerochaete</term><term>Phénol</term><term>Pleurotus</term><term>Polyosides</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>ADN fongique</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Mycology</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>ADN fongique</term><term>Chitinase</term><term>DNA restriction enzymes</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Mycologie</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Fractional Precipitation</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Bromure de cétrimonium</term><term>Détergents</term><term>Précipitation fractionnée</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">A new simple method used to eliminate polysaccharides that cause problems during DNA isolation was established for 6 different white-rot fungi using 1% hexadecyltrimethylammonium bromide (CTAB) as wash buffer and followed by centrifugation. Variation in the DNA yield and quality was ascertained using precipitating agents, detergents and cell-wall-hydrolyzing chitinase. Considerable amount of exopolysaccharides from fungal biomass was removed with the use of 1% CTAB wash buffer followed by centrifugation. The DNA varied in terms of yield and quality. For the DNA extraction use of 2% SDS in extraction buffer worked best for Pycnoporus cinnabarinus, Cyathus bulleri, Cyathus striatus and Cyathus stercoreus, while 2% CTAB worked best for Phanerochaete chrysosporium and Pleurotus ostreatus. Elimination of phenol and use of absolute ethanol for precipitating DNA resulted in good yield and quality of DNA. This DNA was amenable to restriction endonuclease digestion.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">15227780</PMID><DateCompleted><Year>2005</Year><Month>01</Month><Day>28</Day></DateCompleted><DateRevised><Year>2019</Year><Month>09</Month><Day>01</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Print">0015-5632</ISSN><JournalIssue CitedMedium="Print"><Volume>49</Volume><Issue>2</Issue><PubDate><Year>2004</Year></PubDate></JournalIssue><Title>Folia microbiologica</Title><ISOAbbreviation>Folia Microbiol (Praha)</ISOAbbreviation></Journal><ArticleTitle>Improving the yield and quality of DNA isolated from white-rot fungi.</ArticleTitle><Pagination><MedlinePgn>112-6</MedlinePgn></Pagination><Abstract><AbstractText>A new simple method used to eliminate polysaccharides that cause problems during DNA isolation was established for 6 different white-rot fungi using 1% hexadecyltrimethylammonium bromide (CTAB) as wash buffer and followed by centrifugation. Variation in the DNA yield and quality was ascertained using precipitating agents, detergents and cell-wall-hydrolyzing chitinase. Considerable amount of exopolysaccharides from fungal biomass was removed with the use of 1% CTAB wash buffer followed by centrifugation. The DNA varied in terms of yield and quality. For the DNA extraction use of 2% SDS in extraction buffer worked best for Pycnoporus cinnabarinus, Cyathus bulleri, Cyathus striatus and Cyathus stercoreus, while 2% CTAB worked best for Phanerochaete chrysosporium and Pleurotus ostreatus. Elimination of phenol and use of absolute ethanol for precipitating DNA resulted in good yield and quality of DNA. This DNA was amenable to restriction endonuclease digestion.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kuhad</LastName><ForeName>R C</ForeName><Initials>RC</Initials><AffiliationInfo><Affiliation>Department of Microbiology, University of Delhi South Campus, New Delhi-110 021, India. kuhad@hotmail.com</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kapoor</LastName><ForeName>R K</ForeName><Initials>RK</Initials></Author><Author ValidYN="Y"><LastName>Lal</LastName><ForeName>R</ForeName><Initials>R</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Folia Microbiol (Praha)</MedlineTA><NlmUniqueID>0376757</NlmUniqueID><ISSNLinking>0015-5632</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D002593">Cetrimonium Compounds</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004271">DNA, Fungal</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D003902">Detergents</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D011134">Polysaccharides</NameOfSubstance></Chemical><Chemical><RegistryNumber>339NCG44TV</RegistryNumber><NameOfSubstance UI="D019800">Phenol</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.1.21.-</RegistryNumber><NameOfSubstance UI="D004262">DNA Restriction Enzymes</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 3.2.1.14</RegistryNumber><NameOfSubstance UI="D002688">Chitinases</NameOfSubstance></Chemical><Chemical><RegistryNumber>Z7FF1XKL7A</RegistryNumber><NameOfSubstance UI="D000077286">Cetrimonium</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D000077286" MajorTopicYN="N">Cetrimonium</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002593" MajorTopicYN="N">Cetrimonium Compounds</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D002688" MajorTopicYN="N">Chitinases</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004262" MajorTopicYN="N">DNA Restriction Enzymes</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004271" MajorTopicYN="N">DNA, Fungal</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName><QualifierName UI="Q000302" MajorTopicYN="Y">isolation & purification</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D003902" MajorTopicYN="N">Detergents</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D005590" MajorTopicYN="N">Fractional Precipitation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009172" MajorTopicYN="N">Mycology</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="Y">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020075" MajorTopicYN="N">Phanerochaete</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019800" MajorTopicYN="N">Phenol</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020076" MajorTopicYN="N">Pleurotus</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D011134" MajorTopicYN="N">Polysaccharides</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2004</Year><Month>7</Month><Day>2</Day><Hour>5</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2005</Year><Month>1</Month><Day>29</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2004</Year><Month>7</Month><Day>2</Day><Hour>5</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">15227780</ArticleId><ArticleId IdType="doi">10.1007/BF02931383</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>Folia Microbiol (Praha). 2002;47(6):691-5</Citation><ArticleIdList><ArticleId IdType="pubmed">12630321</ArticleId></ArticleIdList></Reference><Reference><Citation>Folia Microbiol (Praha). 2002;47(4):417-21</Citation><ArticleIdList><ArticleId IdType="pubmed">12422521</ArticleId></ArticleIdList></Reference><Reference><Citation>Nucleic Acids Res. 1980 Oct 10;8(19):4321-5</Citation><ArticleIdList><ArticleId IdType="pubmed">7433111</ArticleId></ArticleIdList></Reference><Reference><Citation>Biotechniques. 1997 Jan;22(1):47, 50-2</Citation><ArticleIdList><ArticleId IdType="pubmed">8994644</ArticleId></ArticleIdList></Reference><Reference><Citation>J Gen Microbiol. 1978 Jun;106(2):387-9</Citation><ArticleIdList><ArticleId IdType="pubmed">353226</ArticleId></ArticleIdList></Reference><Reference><Citation>Folia Microbiol (Praha). 2002;47(4):385-90</Citation><ArticleIdList><ArticleId IdType="pubmed">12422515</ArticleId></ArticleIdList></Reference><Reference><Citation>Biotechniques. 1991 Feb;10(2):162, 164, 166</Citation><ArticleIdList><ArticleId IdType="pubmed">2059438</ArticleId></ArticleIdList></Reference><Reference><Citation>FEMS Microbiol Lett. 1990 Jan 1;54(1-3):113-7</Citation><ArticleIdList><ArticleId IdType="pubmed">2323536</ArticleId></ArticleIdList></Reference><Reference><Citation>Anal Biochem. 1983 Dec;135(2):416-22</Citation><ArticleIdList><ArticleId IdType="pubmed">6318603</ArticleId></ArticleIdList></Reference><Reference><Citation>Prep Biochem. 1995 Nov;25(4):171-81</Citation><ArticleIdList><ArticleId IdType="pubmed">8570567</ArticleId></ArticleIdList></Reference><Reference><Citation>Anal Biochem. 1982 Jan 1;119(1):158-63</Citation><ArticleIdList><ArticleId IdType="pubmed">7041693</ArticleId></ArticleIdList></Reference><Reference><Citation>Folia Microbiol (Praha). 2003;48(3):413-6</Citation><ArticleIdList><ArticleId IdType="pubmed">12879757</ArticleId></ArticleIdList></Reference><Reference><Citation>Gene. 1997 Sep 1;196(1-2):113-9</Citation><ArticleIdList><ArticleId IdType="pubmed">9322748</ArticleId></ArticleIdList></Reference><Reference><Citation>Annu Rev Microbiol. 1987;41:465-505</Citation><ArticleIdList><ArticleId IdType="pubmed">3318677</ArticleId></ArticleIdList></Reference><Reference><Citation>Adv Biochem Eng Biotechnol. 1997;57:45-125</Citation><ArticleIdList><ArticleId IdType="pubmed">9204751</ArticleId></ArticleIdList></Reference><Reference><Citation>Appl Environ Microbiol. 1999 Nov;65(11):4943-8</Citation><ArticleIdList><ArticleId IdType="pubmed">10543807</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Inde</li></country></list><tree><noCountry><name sortKey="Kapoor, R K" sort="Kapoor, R K" uniqKey="Kapoor R" first="R K" last="Kapoor">R K Kapoor</name><name sortKey="Lal, R" sort="Lal, R" uniqKey="Lal R" first="R" last="Lal">R. Lal</name></noCountry><country name="Inde"><noRegion><name sortKey="Kuhad, R C" sort="Kuhad, R C" uniqKey="Kuhad R" first="R C" last="Kuhad">R C Kuhad</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PhanerochaeteV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000875 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 000875 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PhanerochaeteV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:15227780
|texte= Improving the yield and quality of DNA isolated from white-rot fungi.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:15227780" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PhanerochaeteV1
| This area was generated with Dilib version V0.6.37. |  |