Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR
BACKGROUND Propionibacterium sp. and Staphylococcus spp. are the most frequent bacteria cultured from prostatectomy specimens but are seldom detected by universal eubacterial PCR. MATERIALS AND METHODS We obtained from GenBank representative 16S rRNA gene sequences from Propionibacterium sp., Staphy...
Gespeichert in:
| Veröffentlicht in: | The Prostate 2008-10, Vol.68 (14), p.1487-1491 |
|---|---|
| Hauptverfasser: | , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 1491 |
|---|---|
| container_issue | 14 |
| container_start_page | 1487 |
| container_title | The Prostate |
| container_volume | 68 |
| creator | Shannon, Beverley A. Cohen, Ronald J. Garrett, Kerryn L. |
| description | BACKGROUND
Propionibacterium sp. and Staphylococcus spp. are the most frequent bacteria cultured from prostatectomy specimens but are seldom detected by universal eubacterial PCR.
MATERIALS AND METHODS
We obtained from GenBank representative 16S rRNA gene sequences from Propionibacterium sp., Staphylococcus spp. and from 34 bacterial genera that were recently detected in prostate tissues using universal eubacterial PCR. We compared these 16S rDNA sequences with the universal eubacterial 16S PCR primer sets chosen for detection of bacterial DNA in prostate tissues.
RESULTS
We show that failure to detect DNA from Propionibacterium sp. and Staphylococcus spp. in prostate tissues is strongly associated with the presence of mismatches near the 3′ termini of the16S rDNA primer sets used.
CONCLUSIONS
The choice of 16S PCR primers may play an important role in determining the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR. Prostate 68: 1487–1491, 2008. © 2008 Wiley‐Liss, Inc. |
| doi_str_mv | 10.1002/pros.20822 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_69475986</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>69475986</sourcerecordid><originalsourceid>FETCH-LOGICAL-c3652-e1b94648ac9d75f1b08ec7a039dd5326552faac589acae673e9b4209df12acd23</originalsourceid><addsrcrecordid>eNp9kEFP3DAUhC1EBQvlwg9APnGoFLAd24mPaFsoEoLVbrs9Wo7zwqZNsovtlO6P6H-uQ7Zw4_QO883ozSB0SskFJYRdbtzaXzCSM7aHJpSoLCGEi300ISwjCadpdoiOvP9JSMQJO0CHNJeCCskn6O9tVzU9dBbwusJULrD7fH-FN65uwWEPT6PW1r41wa7A43WHwwqw34ANrm8HW2FsAFebBj9CB87gEkJUocR1h4fvggmAQ-19D7jY4r6rf4PzkYf-zTubzj-iD5VpPJzs7jH6fv3l2_Rrcvdwczu9uktsKgVLgBaKS54bq8pMVLQgOdjMkFSVpUiZFIJVxliRK2MNyCwFVXBGVFlRZmzJ0mN0PubG52JDH3QsaKFpTAfr3mupeCZULiP4aQRtbOEdVHpYxritpkQP4-uhnn4ZP8Jnu9S-aKF8Q3drR4COwHPdwPadKD2bPyz-hyajp_YB_rx6jPulY7FM6B_3N3pJBefX-VLP039HDKDV</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>69475986</pqid></control><display><type>article</type><title>Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR</title><source>MEDLINE</source><source>Wiley Online Library All Journals</source><creator>Shannon, Beverley A. ; Cohen, Ronald J. ; Garrett, Kerryn L.</creator><creatorcontrib>Shannon, Beverley A. ; Cohen, Ronald J. ; Garrett, Kerryn L.</creatorcontrib><description>BACKGROUND
Propionibacterium sp. and Staphylococcus spp. are the most frequent bacteria cultured from prostatectomy specimens but are seldom detected by universal eubacterial PCR.
MATERIALS AND METHODS
We obtained from GenBank representative 16S rRNA gene sequences from Propionibacterium sp., Staphylococcus spp. and from 34 bacterial genera that were recently detected in prostate tissues using universal eubacterial PCR. We compared these 16S rDNA sequences with the universal eubacterial 16S PCR primer sets chosen for detection of bacterial DNA in prostate tissues.
RESULTS
We show that failure to detect DNA from Propionibacterium sp. and Staphylococcus spp. in prostate tissues is strongly associated with the presence of mismatches near the 3′ termini of the16S rDNA primer sets used.
CONCLUSIONS
The choice of 16S PCR primers may play an important role in determining the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR. Prostate 68: 1487–1491, 2008. © 2008 Wiley‐Liss, Inc.</description><identifier>ISSN: 0270-4137</identifier><identifier>EISSN: 1097-0045</identifier><identifier>DOI: 10.1002/pros.20822</identifier><identifier>PMID: 18651564</identifier><language>eng</language><publisher>Hoboken: Wiley Subscription Services, Inc., A Wiley Company</publisher><subject>bacterial detection ; bacterial infection ; benign prostatic hyperplasia ; DNA Primers - chemistry ; DNA Primers - genetics ; DNA, Bacterial - chemistry ; DNA, Bacterial - genetics ; Humans ; Male ; Polymerase Chain Reaction - methods ; Propionibacterium acnes - genetics ; Propionibacterium acnes - isolation & purification ; Prostate - microbiology ; prostate cancer ; prostatitis ; RNA, Ribosomal, 16S - chemistry ; RNA, Ribosomal, 16S - genetics ; Sequence Alignment ; Sequence Analysis, DNA ; Staphylococcus - genetics ; Staphylococcus - isolation & purification</subject><ispartof>The Prostate, 2008-10, Vol.68 (14), p.1487-1491</ispartof><rights>Copyright © 2008 Wiley‐Liss, Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c3652-e1b94648ac9d75f1b08ec7a039dd5326552faac589acae673e9b4209df12acd23</citedby><cites>FETCH-LOGICAL-c3652-e1b94648ac9d75f1b08ec7a039dd5326552faac589acae673e9b4209df12acd23</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1002%2Fpros.20822$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1002%2Fpros.20822$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1416,27923,27924,45573,45574</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/18651564$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Shannon, Beverley A.</creatorcontrib><creatorcontrib>Cohen, Ronald J.</creatorcontrib><creatorcontrib>Garrett, Kerryn L.</creatorcontrib><title>Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR</title><title>The Prostate</title><addtitle>Prostate</addtitle><description>BACKGROUND
Propionibacterium sp. and Staphylococcus spp. are the most frequent bacteria cultured from prostatectomy specimens but are seldom detected by universal eubacterial PCR.
MATERIALS AND METHODS
We obtained from GenBank representative 16S rRNA gene sequences from Propionibacterium sp., Staphylococcus spp. and from 34 bacterial genera that were recently detected in prostate tissues using universal eubacterial PCR. We compared these 16S rDNA sequences with the universal eubacterial 16S PCR primer sets chosen for detection of bacterial DNA in prostate tissues.
RESULTS
We show that failure to detect DNA from Propionibacterium sp. and Staphylococcus spp. in prostate tissues is strongly associated with the presence of mismatches near the 3′ termini of the16S rDNA primer sets used.
CONCLUSIONS
The choice of 16S PCR primers may play an important role in determining the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR. Prostate 68: 1487–1491, 2008. © 2008 Wiley‐Liss, Inc.</description><subject>bacterial detection</subject><subject>bacterial infection</subject><subject>benign prostatic hyperplasia</subject><subject>DNA Primers - chemistry</subject><subject>DNA Primers - genetics</subject><subject>DNA, Bacterial - chemistry</subject><subject>DNA, Bacterial - genetics</subject><subject>Humans</subject><subject>Male</subject><subject>Polymerase Chain Reaction - methods</subject><subject>Propionibacterium acnes - genetics</subject><subject>Propionibacterium acnes - isolation & purification</subject><subject>Prostate - microbiology</subject><subject>prostate cancer</subject><subject>prostatitis</subject><subject>RNA, Ribosomal, 16S - chemistry</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Sequence Alignment</subject><subject>Sequence Analysis, DNA</subject><subject>Staphylococcus - genetics</subject><subject>Staphylococcus - isolation & purification</subject><issn>0270-4137</issn><issn>1097-0045</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2008</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kEFP3DAUhC1EBQvlwg9APnGoFLAd24mPaFsoEoLVbrs9Wo7zwqZNsovtlO6P6H-uQ7Zw4_QO883ozSB0SskFJYRdbtzaXzCSM7aHJpSoLCGEi300ISwjCadpdoiOvP9JSMQJO0CHNJeCCskn6O9tVzU9dBbwusJULrD7fH-FN65uwWEPT6PW1r41wa7A43WHwwqw34ANrm8HW2FsAFebBj9CB87gEkJUocR1h4fvggmAQ-19D7jY4r6rf4PzkYf-zTubzj-iD5VpPJzs7jH6fv3l2_Rrcvdwczu9uktsKgVLgBaKS54bq8pMVLQgOdjMkFSVpUiZFIJVxliRK2MNyCwFVXBGVFlRZmzJ0mN0PubG52JDH3QsaKFpTAfr3mupeCZULiP4aQRtbOEdVHpYxritpkQP4-uhnn4ZP8Jnu9S-aKF8Q3drR4COwHPdwPadKD2bPyz-hyajp_YB_rx6jPulY7FM6B_3N3pJBefX-VLP039HDKDV</recordid><startdate>20081001</startdate><enddate>20081001</enddate><creator>Shannon, Beverley A.</creator><creator>Cohen, Ronald J.</creator><creator>Garrett, Kerryn L.</creator><general>Wiley Subscription Services, Inc., A Wiley Company</general><scope>BSCLL</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>20081001</creationdate><title>Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR</title><author>Shannon, Beverley A. ; Cohen, Ronald J. ; Garrett, Kerryn L.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c3652-e1b94648ac9d75f1b08ec7a039dd5326552faac589acae673e9b4209df12acd23</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2008</creationdate><topic>bacterial detection</topic><topic>bacterial infection</topic><topic>benign prostatic hyperplasia</topic><topic>DNA Primers - chemistry</topic><topic>DNA Primers - genetics</topic><topic>DNA, Bacterial - chemistry</topic><topic>DNA, Bacterial - genetics</topic><topic>Humans</topic><topic>Male</topic><topic>Polymerase Chain Reaction - methods</topic><topic>Propionibacterium acnes - genetics</topic><topic>Propionibacterium acnes - isolation & purification</topic><topic>Prostate - microbiology</topic><topic>prostate cancer</topic><topic>prostatitis</topic><topic>RNA, Ribosomal, 16S - chemistry</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>Sequence Alignment</topic><topic>Sequence Analysis, DNA</topic><topic>Staphylococcus - genetics</topic><topic>Staphylococcus - isolation & purification</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Shannon, Beverley A.</creatorcontrib><creatorcontrib>Cohen, Ronald J.</creatorcontrib><creatorcontrib>Garrett, Kerryn L.</creatorcontrib><collection>Istex</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>The Prostate</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Shannon, Beverley A.</au><au>Cohen, Ronald J.</au><au>Garrett, Kerryn L.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR</atitle><jtitle>The Prostate</jtitle><addtitle>Prostate</addtitle><date>2008-10-01</date><risdate>2008</risdate><volume>68</volume><issue>14</issue><spage>1487</spage><epage>1491</epage><pages>1487-1491</pages><issn>0270-4137</issn><eissn>1097-0045</eissn><abstract>BACKGROUND
Propionibacterium sp. and Staphylococcus spp. are the most frequent bacteria cultured from prostatectomy specimens but are seldom detected by universal eubacterial PCR.
MATERIALS AND METHODS
We obtained from GenBank representative 16S rRNA gene sequences from Propionibacterium sp., Staphylococcus spp. and from 34 bacterial genera that were recently detected in prostate tissues using universal eubacterial PCR. We compared these 16S rDNA sequences with the universal eubacterial 16S PCR primer sets chosen for detection of bacterial DNA in prostate tissues.
RESULTS
We show that failure to detect DNA from Propionibacterium sp. and Staphylococcus spp. in prostate tissues is strongly associated with the presence of mismatches near the 3′ termini of the16S rDNA primer sets used.
CONCLUSIONS
The choice of 16S PCR primers may play an important role in determining the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR. Prostate 68: 1487–1491, 2008. © 2008 Wiley‐Liss, Inc.</abstract><cop>Hoboken</cop><pub>Wiley Subscription Services, Inc., A Wiley Company</pub><pmid>18651564</pmid><doi>10.1002/pros.20822</doi><tpages>5</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0270-4137 |
| ispartof | The Prostate, 2008-10, Vol.68 (14), p.1487-1491 |
| issn | 0270-4137 1097-0045 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_69475986 |
| source | MEDLINE; Wiley Online Library All Journals |
| subjects | bacterial detection bacterial infection benign prostatic hyperplasia DNA Primers - chemistry DNA Primers - genetics DNA, Bacterial - chemistry DNA, Bacterial - genetics Humans Male Polymerase Chain Reaction - methods Propionibacterium acnes - genetics Propionibacterium acnes - isolation & purification Prostate - microbiology prostate cancer prostatitis RNA, Ribosomal, 16S - chemistry RNA, Ribosomal, 16S - genetics Sequence Alignment Sequence Analysis, DNA Staphylococcus - genetics Staphylococcus - isolation & purification |
| title | Influence of 16S rDNA primer sequence mismatches on the spectrum of bacterial genera detected in prostate tissue by universal eubacterial PCR |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-11T15%3A22%3A26IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Influence%20of%2016S%20rDNA%20primer%20sequence%20mismatches%20on%20the%20spectrum%20of%20bacterial%20genera%20detected%20in%20prostate%20tissue%20by%20universal%20eubacterial%20PCR&rft.jtitle=The%20Prostate&rft.au=Shannon,%20Beverley%20A.&rft.date=2008-10-01&rft.volume=68&rft.issue=14&rft.spage=1487&rft.epage=1491&rft.pages=1487-1491&rft.issn=0270-4137&rft.eissn=1097-0045&rft_id=info:doi/10.1002/pros.20822&rft_dat=%3Cproquest_cross%3E69475986%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=69475986&rft_id=info:pmid/18651564&rfr_iscdi=true |