{"title":"脐带血骨质疏松相关基因启动子DNA甲基化评估程序：伊朗（波斯）出生队列前瞻性流行病学研究","authors":"Sadegh Baradaran Mahdavi, Seyed Morteza Javadirad, Mahsa Rafieian, Parnian Poursafa, Vajihe Azimian Zavareh, Seyede Shahrbanoo Daniali, Motahar Heidari-Beni, Masoomeh Goodarzi-Khoigani, Babak Vahdatpour, Hossein Mirhendi, Roya Kelishadi","doi":"10.34172/bi.30095","DOIUrl":null,"url":null,"abstract":"<p><p></p><p><strong>Introduction: </strong>It is believed that DNA methylation can modify disease susceptibility in response to environmental factors as early as the perinatal period. In this study, we aimed to present a streamlined DNA methylation analysis procedure for osteoporosis-related gene promoters in the umbilical cord blood.</p><p><strong>Methods: </strong>The Prospective Epidemiological Research Studies in Iran (PERSIAN) birth cohort was established in 2016. In this study, a total of 300 umbilical cord blood samples were collected at the time of delivery. For all samples, DNA was extracted and converted using sodium bisulfite. Multiple primer sets were designed for <i>Wnt1, Wnt10b</i>, β-catenin, <i>OPG</i>, and <i>RANKL</i> gene promoters in the online MethPrimer platform. Next, bisulfite sequencing PCR (BSP), as the gold standard method for exploring methylated and unmethylated cytosines, was performed in a gradient-controlled setting. The PCR products were then purified and directly sequenced. Subsequently, the chromatograms were interpreted.</p><p><strong>Results: </strong>For <i>Wnt10b</i>, β-catenin, and <i>OPG</i> genes, the converted DNA could be successfully amplified. The frequency of acceptable chromatograms for analysis was 195 for <i>Wnt10b</i> (195/300, 0.65%), 198 for β-catenin (198/300, 0.66%), and 50 for <i>OPG</i> (50/50, 100%).</p><p><strong>Conclusion: </strong>BSP can be efficiently used to investigate the methylation of target gene promoters in umbilical cord blood DNA.</p>","PeriodicalId":48614,"journal":{"name":"Bioimpacts","volume":"15 ","pages":"30095"},"PeriodicalIF":2.2000,"publicationDate":"2024-06-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11954747/pdf/","citationCount":"0","resultStr":"{\"title\":\"A procedure for DNA methylation assessment in osteoporosis-related gene promoters of umbilical cord blood: A study on the Prospective Epidemiological Research Studies in Iran (PERSIAN) birth cohort.\",\"authors\":\"Sadegh Baradaran Mahdavi, Seyed Morteza Javadirad, Mahsa Rafieian, Parnian Poursafa, Vajihe Azimian Zavareh, Seyede Shahrbanoo Daniali, Motahar Heidari-Beni, Masoomeh Goodarzi-Khoigani, Babak Vahdatpour, Hossein Mirhendi, Roya Kelishadi\",\"doi\":\"10.34172/bi.30095\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p></p><p><strong>Introduction: </strong>It is believed that DNA methylation can modify disease susceptibility in response to environmental factors as early as the perinatal period. In this study, we aimed to present a streamlined DNA methylation analysis procedure for osteoporosis-related gene promoters in the umbilical cord blood.</p><p><strong>Methods: </strong>The Prospective Epidemiological Research Studies in Iran (PERSIAN) birth cohort was established in 2016. In this study, a total of 300 umbilical cord blood samples were collected at the time of delivery. For all samples, DNA was extracted and converted using sodium bisulfite. Multiple primer sets were designed for <i>Wnt1, Wnt10b</i>, β-catenin, <i>OPG</i>, and <i>RANKL</i> gene promoters in the online MethPrimer platform. Next, bisulfite sequencing PCR (BSP), as the gold standard method for exploring methylated and unmethylated cytosines, was performed in a gradient-controlled setting. The PCR products were then purified and directly sequenced. Subsequently, the chromatograms were interpreted.</p><p><strong>Results: </strong>For <i>Wnt10b</i>, β-catenin, and <i>OPG</i> genes, the converted DNA could be successfully amplified. The frequency of acceptable chromatograms for analysis was 195 for <i>Wnt10b</i> (195/300, 0.65%), 198 for β-catenin (198/300, 0.66%), and 50 for <i>OPG</i> (50/50, 100%).</p><p><strong>Conclusion: </strong>BSP can be efficiently used to investigate the methylation of target gene promoters in umbilical cord blood DNA.</p>\",\"PeriodicalId\":48614,\"journal\":{\"name\":\"Bioimpacts\",\"volume\":\"15 \",\"pages\":\"30095\"},\"PeriodicalIF\":2.2000,\"publicationDate\":\"2024-06-29\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11954747/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Bioimpacts\",\"FirstCategoryId\":\"5\",\"ListUrlMain\":\"https://doi.org/10.34172/bi.30095\",\"RegionNum\":4,\"RegionCategory\":\"工程技术\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2025/1/1 0:00:00\",\"PubModel\":\"eCollection\",\"JCR\":\"Q3\",\"JCRName\":\"PHARMACOLOGY & PHARMACY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Bioimpacts","FirstCategoryId":"5","ListUrlMain":"https://doi.org/10.34172/bi.30095","RegionNum":4,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2025/1/1 0:00:00","PubModel":"eCollection","JCR":"Q3","JCRName":"PHARMACOLOGY & PHARMACY","Score":null,"Total":0}
A procedure for DNA methylation assessment in osteoporosis-related gene promoters of umbilical cord blood: A study on the Prospective Epidemiological Research Studies in Iran (PERSIAN) birth cohort.
Introduction: It is believed that DNA methylation can modify disease susceptibility in response to environmental factors as early as the perinatal period. In this study, we aimed to present a streamlined DNA methylation analysis procedure for osteoporosis-related gene promoters in the umbilical cord blood.
Methods: The Prospective Epidemiological Research Studies in Iran (PERSIAN) birth cohort was established in 2016. In this study, a total of 300 umbilical cord blood samples were collected at the time of delivery. For all samples, DNA was extracted and converted using sodium bisulfite. Multiple primer sets were designed for Wnt1, Wnt10b, β-catenin, OPG, and RANKL gene promoters in the online MethPrimer platform. Next, bisulfite sequencing PCR (BSP), as the gold standard method for exploring methylated and unmethylated cytosines, was performed in a gradient-controlled setting. The PCR products were then purified and directly sequenced. Subsequently, the chromatograms were interpreted.
Results: For Wnt10b, β-catenin, and OPG genes, the converted DNA could be successfully amplified. The frequency of acceptable chromatograms for analysis was 195 for Wnt10b (195/300, 0.65%), 198 for β-catenin (198/300, 0.66%), and 50 for OPG (50/50, 100%).
Conclusion: BSP can be efficiently used to investigate the methylation of target gene promoters in umbilical cord blood DNA.
BioimpactsPharmacology, Toxicology and Pharmaceutics-Pharmaceutical Science
CiteScore
4.80
自引率
7.70%
发文量
36
审稿时长
5 weeks
期刊介绍：
BioImpacts (BI) is a peer-reviewed multidisciplinary international journal, covering original research articles, reviews, commentaries, hypotheses, methodologies, and visions/reflections dealing with all aspects of biological and biomedical researches at molecular, cellular, functional and translational dimensions.
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