Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions
Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing v...
Ausführliche Beschreibung
Autor*in: |
Tianyu Zou [verfasserIn] Betsy Foxman [verfasserIn] Daniel W. McNeil [verfasserIn] Seth M. Weinberg [verfasserIn] Mary L. Marazita [verfasserIn] John R. Shaffer [verfasserIn] |
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E-Artikel |
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Sprache: |
Englisch |
Erschienen: |
2023 |
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Übergeordnetes Werk: |
In: Genes - MDPI AG, 2010, 14(2023), 3, p 736 |
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Übergeordnetes Werk: |
volume:14 ; year:2023 ; number:3, p 736 |
Links: |
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DOI / URN: |
10.3390/genes14030736 |
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Katalog-ID: |
DOAJ087357542 |
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10.3390/genes14030736 doi (DE-627)DOAJ087357542 (DE-599)DOAJ960c8076f01a4716ab5c8d594a04ca4a DE-627 ger DE-627 rakwb eng QH426-470 Tianyu Zou verfasserin aut Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. genome-wide vQTL genotype-by-environment interactions dental caries Genetics Betsy Foxman verfasserin aut Daniel W. McNeil verfasserin aut Seth M. Weinberg verfasserin aut Mary L. Marazita verfasserin aut John R. Shaffer verfasserin aut In Genes MDPI AG, 2010 14(2023), 3, p 736 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:14 year:2023 number:3, p 736 https://doi.org/10.3390/genes14030736 kostenfrei https://doaj.org/article/960c8076f01a4716ab5c8d594a04ca4a kostenfrei https://www.mdpi.com/2073-4425/14/3/736 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023 3, p 736 |
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10.3390/genes14030736 doi (DE-627)DOAJ087357542 (DE-599)DOAJ960c8076f01a4716ab5c8d594a04ca4a DE-627 ger DE-627 rakwb eng QH426-470 Tianyu Zou verfasserin aut Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. genome-wide vQTL genotype-by-environment interactions dental caries Genetics Betsy Foxman verfasserin aut Daniel W. McNeil verfasserin aut Seth M. Weinberg verfasserin aut Mary L. Marazita verfasserin aut John R. Shaffer verfasserin aut In Genes MDPI AG, 2010 14(2023), 3, p 736 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:14 year:2023 number:3, p 736 https://doi.org/10.3390/genes14030736 kostenfrei https://doaj.org/article/960c8076f01a4716ab5c8d594a04ca4a kostenfrei https://www.mdpi.com/2073-4425/14/3/736 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023 3, p 736 |
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10.3390/genes14030736 doi (DE-627)DOAJ087357542 (DE-599)DOAJ960c8076f01a4716ab5c8d594a04ca4a DE-627 ger DE-627 rakwb eng QH426-470 Tianyu Zou verfasserin aut Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. genome-wide vQTL genotype-by-environment interactions dental caries Genetics Betsy Foxman verfasserin aut Daniel W. McNeil verfasserin aut Seth M. Weinberg verfasserin aut Mary L. Marazita verfasserin aut John R. Shaffer verfasserin aut In Genes MDPI AG, 2010 14(2023), 3, p 736 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:14 year:2023 number:3, p 736 https://doi.org/10.3390/genes14030736 kostenfrei https://doaj.org/article/960c8076f01a4716ab5c8d594a04ca4a kostenfrei https://www.mdpi.com/2073-4425/14/3/736 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023 3, p 736 |
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10.3390/genes14030736 doi (DE-627)DOAJ087357542 (DE-599)DOAJ960c8076f01a4716ab5c8d594a04ca4a DE-627 ger DE-627 rakwb eng QH426-470 Tianyu Zou verfasserin aut Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. genome-wide vQTL genotype-by-environment interactions dental caries Genetics Betsy Foxman verfasserin aut Daniel W. McNeil verfasserin aut Seth M. Weinberg verfasserin aut Mary L. Marazita verfasserin aut John R. Shaffer verfasserin aut In Genes MDPI AG, 2010 14(2023), 3, p 736 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:14 year:2023 number:3, p 736 https://doi.org/10.3390/genes14030736 kostenfrei https://doaj.org/article/960c8076f01a4716ab5c8d594a04ca4a kostenfrei https://www.mdpi.com/2073-4425/14/3/736 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023 3, p 736 |
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10.3390/genes14030736 doi (DE-627)DOAJ087357542 (DE-599)DOAJ960c8076f01a4716ab5c8d594a04ca4a DE-627 ger DE-627 rakwb eng QH426-470 Tianyu Zou verfasserin aut Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions 2023 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. genome-wide vQTL genotype-by-environment interactions dental caries Genetics Betsy Foxman verfasserin aut Daniel W. McNeil verfasserin aut Seth M. Weinberg verfasserin aut Mary L. Marazita verfasserin aut John R. Shaffer verfasserin aut In Genes MDPI AG, 2010 14(2023), 3, p 736 (DE-627)614096537 (DE-600)2527218-4 20734425 nnns volume:14 year:2023 number:3, p 736 https://doi.org/10.3390/genes14030736 kostenfrei https://doaj.org/article/960c8076f01a4716ab5c8d594a04ca4a kostenfrei https://www.mdpi.com/2073-4425/14/3/736 kostenfrei https://doaj.org/toc/2073-4425 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 14 2023 3, p 736 |
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Genome-Wide Analysis of Dental Caries Variability Reveals Genotype-by-Environment Interactions |
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Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. |
abstractGer |
Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. |
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Genotype-by-environment interactions (GEI) may influence dental caries, although their effects are difficult to detect. Variance quantitative trait loci (vQTL) may serve as an indicator of underlying GEI effects. The aim of this study was to investigate GEI effects on dental caries by prioritizing variants from genome-wide vQTL analysis. First, we identified vQTLs from ~4.3 M genome-wide variants in three cohorts of white children aged 3–5 (n = 396, n = 328, n = 773) using Levene’s test. A total of 39 independent vQTLs with <i<p</i< < 1 × 10<sup<−6</sup< were identified, some of which were located in or near genes with plausible biological roles in dental caries (<i<IGFBP7</i<, <i<SLC5A8</i<, and <i<SHH</i< involved in tooth development and enamel mineralization). Next, we used linear regression to test GEI effects on dental caries with the 39 prioritized variants and self-reported environmental factors (demographic, socioeconomic, behavioral, and dietary factors) in the three cohorts separately. We identified eight significant GEIs indicating that children with vQTL risk genotypes had higher caries experience if they had less educated parents, lower household/parental income, brushed their teeth less frequently, consumed sugar-sweetened beverages more frequently, were not breastfed, and were female. We reported the first genome-wide vQTL analysis of dental caries in children nominating several novel genes and GEI for further investigations. |
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