A platform for evaluating sperm RNA biomarkers: dysplasia of the fibrous sheath—testing the concept
Objective To investigate the potential use of correlative microarray-based transcript pairs as candidate markers for male fertility using dysplasia of the fibrous sheath (DFS) as an affected model. It is widely recognized that microarray technology may be limited by cost and that the quality of the...
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| Veröffentlicht in: | Fertility and sterility 2012-05, Vol.97 (5), p.1061-1066.e3 |
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| container_title | Fertility and sterility |
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| creator | Lima-Souza, Aletheia, D.V.M Anton, Ester, Ph.D Mao, Shihong, Ph.D Ho, Won Jin, M.S Krawetz, Stephen A., Ph.D |
| description | Objective To investigate the potential use of correlative microarray-based transcript pairs as candidate markers for male fertility using dysplasia of the fibrous sheath (DFS) as an affected model. It is widely recognized that microarray technology may be limited by cost and that the quality of the transcript remains relatively unknown. To address these issues, we analyzed the stable transcript pairs by qPCR with a systematic primer design process. Design Experimental study. Setting University. Patient(s) Men with proven fertility and men with a diagnosis of DFS. Intervention(s) None. Main Outcome Measure(s) Primer sequences for six genes of interest were designed using Oligo7 and Primer3Plus. Primer specificity was initially assessed in silico by searching the ENSEMBL, University of California Santa Cruz, and National Center for Biotechnology Information databases for nontarget complementary sequences throughout the genome. The ability of transcript pairs to classify samples from males of proven fertility away from DFS was assessed. Result(s) In conjunction with identifying four new stable transcript pairs, comparison of the DFS qPCR C(t) correlation coefficients revealed the disruption of four stable fertile sample transcript pairs. This suite of transcript pairs resolves DFS. Conclusion(s) The results show that with effectively designed primers, qPCR may provide an affordable molecular assay to assess male fertility status. |
| doi_str_mv | 10.1016/j.fertnstert.2012.02.013 |
| format | Article |
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It is widely recognized that microarray technology may be limited by cost and that the quality of the transcript remains relatively unknown. To address these issues, we analyzed the stable transcript pairs by qPCR with a systematic primer design process. Design Experimental study. Setting University. Patient(s) Men with proven fertility and men with a diagnosis of DFS. Intervention(s) None. Main Outcome Measure(s) Primer sequences for six genes of interest were designed using Oligo7 and Primer3Plus. Primer specificity was initially assessed in silico by searching the ENSEMBL, University of California Santa Cruz, and National Center for Biotechnology Information databases for nontarget complementary sequences throughout the genome. The ability of transcript pairs to classify samples from males of proven fertility away from DFS was assessed. Result(s) In conjunction with identifying four new stable transcript pairs, comparison of the DFS qPCR C(t) correlation coefficients revealed the disruption of four stable fertile sample transcript pairs. This suite of transcript pairs resolves DFS. Conclusion(s) The results show that with effectively designed primers, qPCR may provide an affordable molecular assay to assess male fertility status.</description><identifier>ISSN: 0015-0282</identifier><identifier>EISSN: 1556-5653</identifier><identifier>DOI: 10.1016/j.fertnstert.2012.02.013</identifier><identifier>PMID: 22385823</identifier><identifier>CODEN: FESTAS</identifier><language>eng</language><publisher>New York, NY: Elsevier Inc</publisher><subject>Biological and medical sciences ; Biomarker ; biomarkers ; Birth control ; Case-Control Studies ; correlation ; DNA Primers ; Fertility - genetics ; Gene Expression Profiling - methods ; genes ; Genetic Markers ; Genetic Predisposition to Disease ; Genetic Testing ; Gynecology. Andrology. Obstetrics ; Humans ; Infertility, Male - diagnosis ; Infertility, Male - genetics ; Infertility, Male - pathology ; Internal Medicine ; Male ; male fertility ; male infertility ; males ; Medical sciences ; men ; Michigan ; microarray technology ; National Center for Biotechnology Information ; Obstetrics and Gynecology ; Oligonucleotide Array Sequence Analysis ; patients ; Phenotype ; Predictive Value of Tests ; primer design ; process design ; quantitative polymerase chain reaction ; real-time PCR ; Real-Time Polymerase Chain Reaction ; Reproducibility of Results ; RNA ; RNA - analysis ; Sperm Tail - chemistry ; Sperm Tail - pathology ; spermatozoa ; Spermatozoa - chemistry ; Spermatozoa - pathology ; Sterility. Assisted procreation</subject><ispartof>Fertility and sterility, 2012-05, Vol.97 (5), p.1061-1066.e3</ispartof><rights>American Society for Reproductive Medicine</rights><rights>2012 American Society for Reproductive Medicine</rights><rights>2015 INIST-CNRS</rights><rights>Copyright © 2012 American Society for Reproductive Medicine. Published by Elsevier Inc. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c533t-6e9fc39f502c0494440f1940360246a973987d3a00e37799f5f9bbca9a420eb13</citedby><cites>FETCH-LOGICAL-c533t-6e9fc39f502c0494440f1940360246a973987d3a00e37799f5f9bbca9a420eb13</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.fertnstert.2012.02.013$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,777,781,3537,27905,27906,45976</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=25863350$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22385823$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Lima-Souza, Aletheia, D.V.M</creatorcontrib><creatorcontrib>Anton, Ester, Ph.D</creatorcontrib><creatorcontrib>Mao, Shihong, Ph.D</creatorcontrib><creatorcontrib>Ho, Won Jin, M.S</creatorcontrib><creatorcontrib>Krawetz, Stephen A., Ph.D</creatorcontrib><title>A platform for evaluating sperm RNA biomarkers: dysplasia of the fibrous sheath—testing the concept</title><title>Fertility and sterility</title><addtitle>Fertil Steril</addtitle><description>Objective To investigate the potential use of correlative microarray-based transcript pairs as candidate markers for male fertility using dysplasia of the fibrous sheath (DFS) as an affected model. It is widely recognized that microarray technology may be limited by cost and that the quality of the transcript remains relatively unknown. To address these issues, we analyzed the stable transcript pairs by qPCR with a systematic primer design process. Design Experimental study. Setting University. Patient(s) Men with proven fertility and men with a diagnosis of DFS. Intervention(s) None. Main Outcome Measure(s) Primer sequences for six genes of interest were designed using Oligo7 and Primer3Plus. Primer specificity was initially assessed in silico by searching the ENSEMBL, University of California Santa Cruz, and National Center for Biotechnology Information databases for nontarget complementary sequences throughout the genome. The ability of transcript pairs to classify samples from males of proven fertility away from DFS was assessed. Result(s) In conjunction with identifying four new stable transcript pairs, comparison of the DFS qPCR C(t) correlation coefficients revealed the disruption of four stable fertile sample transcript pairs. This suite of transcript pairs resolves DFS. Conclusion(s) The results show that with effectively designed primers, qPCR may provide an affordable molecular assay to assess male fertility status.</description><subject>Biological and medical sciences</subject><subject>Biomarker</subject><subject>biomarkers</subject><subject>Birth control</subject><subject>Case-Control Studies</subject><subject>correlation</subject><subject>DNA Primers</subject><subject>Fertility - genetics</subject><subject>Gene Expression Profiling - methods</subject><subject>genes</subject><subject>Genetic Markers</subject><subject>Genetic Predisposition to Disease</subject><subject>Genetic Testing</subject><subject>Gynecology. Andrology. Obstetrics</subject><subject>Humans</subject><subject>Infertility, Male - diagnosis</subject><subject>Infertility, Male - genetics</subject><subject>Infertility, Male - pathology</subject><subject>Internal Medicine</subject><subject>Male</subject><subject>male fertility</subject><subject>male infertility</subject><subject>males</subject><subject>Medical sciences</subject><subject>men</subject><subject>Michigan</subject><subject>microarray technology</subject><subject>National Center for Biotechnology Information</subject><subject>Obstetrics and Gynecology</subject><subject>Oligonucleotide Array Sequence Analysis</subject><subject>patients</subject><subject>Phenotype</subject><subject>Predictive Value of Tests</subject><subject>primer design</subject><subject>process design</subject><subject>quantitative polymerase chain reaction</subject><subject>real-time PCR</subject><subject>Real-Time Polymerase Chain Reaction</subject><subject>Reproducibility of Results</subject><subject>RNA</subject><subject>RNA - analysis</subject><subject>Sperm Tail - chemistry</subject><subject>Sperm Tail - pathology</subject><subject>spermatozoa</subject><subject>Spermatozoa - chemistry</subject><subject>Spermatozoa - pathology</subject><subject>Sterility. Assisted procreation</subject><issn>0015-0282</issn><issn>1556-5653</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkt-KEzEUxoMobq2-guZG8Kb1JJlkZrwQ6uI_WBRc9zpkMifbdKczNZlZ6J0P4RP6JJ7a6oJXQkgg-X3Jl-8cxriApQBhXm6WAdPY55HmpQQhl0BDqHtsJrQ2C220us9mAEIvQFbyjD3KeQMARpTyITuTUlW6kmrGcMV3nRvDkLacJo63rpvcGPtrnndIm18-rXgTh61LN5jyK97uMwlydHwIfFwjD7FJw5R5XqMb1z-__xgx_9YfDv3Qe9yNj9mD4LqMT07rnF29e_v1_MPi4vP7j-eri4XXSo0Lg3Xwqg4apIeiLooCgqgLUAZkYVxdqroqW-UAUJVlTWCom8a72hUSsBFqzl4c792l4dtEPuw2Zo9d53okj5bCg6I0hSkIrY6oT0POCYPdpUi_3BN04Izd2LuQ7SFkCzSEIunT0ytTs8X2r_BPqgQ8PwEue9eF5Hof8x2nK6OUBuKeHbngBuuuEzFXl_SSpsLJStF_5-zNkUBK7TZistlHpEzbmNCPth3i__h9_c8lvot9JGc3uMe8GabUU1WssJkE9vLQNoeuERJAyhLUL1PjvrY</recordid><startdate>20120501</startdate><enddate>20120501</enddate><creator>Lima-Souza, Aletheia, D.V.M</creator><creator>Anton, Ester, Ph.D</creator><creator>Mao, Shihong, Ph.D</creator><creator>Ho, Won Jin, M.S</creator><creator>Krawetz, Stephen A., Ph.D</creator><general>Elsevier Inc</general><general>Elsevier</general><scope>FBQ</scope><scope>IQODW</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>20120501</creationdate><title>A platform for evaluating sperm RNA biomarkers: dysplasia of the fibrous sheath—testing the concept</title><author>Lima-Souza, Aletheia, D.V.M ; Anton, Ester, Ph.D ; Mao, Shihong, Ph.D ; Ho, Won Jin, M.S ; Krawetz, Stephen A., Ph.D</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c533t-6e9fc39f502c0494440f1940360246a973987d3a00e37799f5f9bbca9a420eb13</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Biological and medical sciences</topic><topic>Biomarker</topic><topic>biomarkers</topic><topic>Birth control</topic><topic>Case-Control Studies</topic><topic>correlation</topic><topic>DNA Primers</topic><topic>Fertility - genetics</topic><topic>Gene Expression Profiling - methods</topic><topic>genes</topic><topic>Genetic Markers</topic><topic>Genetic Predisposition to Disease</topic><topic>Genetic Testing</topic><topic>Gynecology. Andrology. Obstetrics</topic><topic>Humans</topic><topic>Infertility, Male - diagnosis</topic><topic>Infertility, Male - genetics</topic><topic>Infertility, Male - pathology</topic><topic>Internal Medicine</topic><topic>Male</topic><topic>male fertility</topic><topic>male infertility</topic><topic>males</topic><topic>Medical sciences</topic><topic>men</topic><topic>Michigan</topic><topic>microarray technology</topic><topic>National Center for Biotechnology Information</topic><topic>Obstetrics and Gynecology</topic><topic>Oligonucleotide Array Sequence Analysis</topic><topic>patients</topic><topic>Phenotype</topic><topic>Predictive Value of Tests</topic><topic>primer design</topic><topic>process design</topic><topic>quantitative polymerase chain reaction</topic><topic>real-time PCR</topic><topic>Real-Time Polymerase Chain Reaction</topic><topic>Reproducibility of Results</topic><topic>RNA</topic><topic>RNA - analysis</topic><topic>Sperm Tail - chemistry</topic><topic>Sperm Tail - pathology</topic><topic>spermatozoa</topic><topic>Spermatozoa - chemistry</topic><topic>Spermatozoa - pathology</topic><topic>Sterility. Assisted procreation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lima-Souza, Aletheia, D.V.M</creatorcontrib><creatorcontrib>Anton, Ester, Ph.D</creatorcontrib><creatorcontrib>Mao, Shihong, Ph.D</creatorcontrib><creatorcontrib>Ho, Won Jin, M.S</creatorcontrib><creatorcontrib>Krawetz, Stephen A., Ph.D</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</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>Fertility and sterility</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Lima-Souza, Aletheia, D.V.M</au><au>Anton, Ester, Ph.D</au><au>Mao, Shihong, Ph.D</au><au>Ho, Won Jin, M.S</au><au>Krawetz, Stephen A., Ph.D</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A platform for evaluating sperm RNA biomarkers: dysplasia of the fibrous sheath—testing the concept</atitle><jtitle>Fertility and sterility</jtitle><addtitle>Fertil Steril</addtitle><date>2012-05-01</date><risdate>2012</risdate><volume>97</volume><issue>5</issue><spage>1061</spage><epage>1066.e3</epage><pages>1061-1066.e3</pages><issn>0015-0282</issn><eissn>1556-5653</eissn><coden>FESTAS</coden><abstract>Objective To investigate the potential use of correlative microarray-based transcript pairs as candidate markers for male fertility using dysplasia of the fibrous sheath (DFS) as an affected model. It is widely recognized that microarray technology may be limited by cost and that the quality of the transcript remains relatively unknown. To address these issues, we analyzed the stable transcript pairs by qPCR with a systematic primer design process. Design Experimental study. Setting University. Patient(s) Men with proven fertility and men with a diagnosis of DFS. Intervention(s) None. Main Outcome Measure(s) Primer sequences for six genes of interest were designed using Oligo7 and Primer3Plus. Primer specificity was initially assessed in silico by searching the ENSEMBL, University of California Santa Cruz, and National Center for Biotechnology Information databases for nontarget complementary sequences throughout the genome. The ability of transcript pairs to classify samples from males of proven fertility away from DFS was assessed. Result(s) In conjunction with identifying four new stable transcript pairs, comparison of the DFS qPCR C(t) correlation coefficients revealed the disruption of four stable fertile sample transcript pairs. This suite of transcript pairs resolves DFS. Conclusion(s) The results show that with effectively designed primers, qPCR may provide an affordable molecular assay to assess male fertility status.</abstract><cop>New York, NY</cop><pub>Elsevier Inc</pub><pmid>22385823</pmid><doi>10.1016/j.fertnstert.2012.02.013</doi><tpages>6</tpages><oa>free_for_read</oa></addata></record> |
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| source | MEDLINE; Elsevier ScienceDirect Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Alma/SFX Local Collection |
| subjects | Biological and medical sciences Biomarker biomarkers Birth control Case-Control Studies correlation DNA Primers Fertility - genetics Gene Expression Profiling - methods genes Genetic Markers Genetic Predisposition to Disease Genetic Testing Gynecology. Andrology. Obstetrics Humans Infertility, Male - diagnosis Infertility, Male - genetics Infertility, Male - pathology Internal Medicine Male male fertility male infertility males Medical sciences men Michigan microarray technology National Center for Biotechnology Information Obstetrics and Gynecology Oligonucleotide Array Sequence Analysis patients Phenotype Predictive Value of Tests primer design process design quantitative polymerase chain reaction real-time PCR Real-Time Polymerase Chain Reaction Reproducibility of Results RNA RNA - analysis Sperm Tail - chemistry Sperm Tail - pathology spermatozoa Spermatozoa - chemistry Spermatozoa - pathology Sterility. Assisted procreation |
| title | A platform for evaluating sperm RNA biomarkers: dysplasia of the fibrous sheath—testing the concept |
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