Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci
Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative hei...
Ausführliche Beschreibung
Gespeichert in:
| Autor*in: |
Sintayehu D. Daba [verfasserIn] Priyanka Tyagi [verfasserIn] Gina Brown-Guedira [verfasserIn] Mohsen Mohammadi [verfasserIn] |
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| Format: |
E-Artikel |
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| Sprache: |
Englisch |
| Erschienen: |
2020 |
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| Übergeordnetes Werk: |
In: Crop Journal - KeAi Communications Co., Ltd., 2015, 8(2020), 2, Seite 243-251 |
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| Übergeordnetes Werk: |
volume:8 ; year:2020 ; number:2 ; pages:243-251 |
| Links: |
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| DOI / URN: |
10.1016/j.cj.2019.09.005 |
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DOAJ073134554 |
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| 520 | |a Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures | ||
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10.1016/j.cj.2019.09.005 doi (DE-627)DOAJ073134554 (DE-599)DOAJcb72ff392c7747eca8b2548f57ba2233 DE-627 ger DE-627 rakwb eng S1-972 Sintayehu D. Daba verfasserin aut Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci 2020 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures Agriculture S Agriculture (General) Priyanka Tyagi verfasserin aut Gina Brown-Guedira verfasserin aut Mohsen Mohammadi verfasserin aut In Crop Journal KeAi Communications Co., Ltd., 2015 8(2020), 2, Seite 243-251 (DE-627)774106883 (DE-600)2745450-2 22145141 nnns volume:8 year:2020 number:2 pages:243-251 https://doi.org/10.1016/j.cj.2019.09.005 kostenfrei https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 kostenfrei http://www.sciencedirect.com/science/article/pii/S2214514119301266 kostenfrei https://doaj.org/toc/2214-5141 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_105 GBV_ILN_110 GBV_ILN_120 GBV_ILN_121 GBV_ILN_138 GBV_ILN_150 GBV_ILN_151 GBV_ILN_152 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_374 GBV_ILN_602 GBV_ILN_647 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2018 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2031 GBV_ILN_2034 GBV_ILN_2036 GBV_ILN_2037 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2119 GBV_ILN_2129 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_2817 GBV_ILN_4012 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4277 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_4326 GBV_ILN_4333 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4346 GBV_ILN_4367 GBV_ILN_4392 GBV_ILN_4393 GBV_ILN_4700 GBV_ILN_4753 AR 8 2020 2 243-251 |
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10.1016/j.cj.2019.09.005 doi (DE-627)DOAJ073134554 (DE-599)DOAJcb72ff392c7747eca8b2548f57ba2233 DE-627 ger DE-627 rakwb eng S1-972 Sintayehu D. Daba verfasserin aut Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci 2020 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures Agriculture S Agriculture (General) Priyanka Tyagi verfasserin aut Gina Brown-Guedira verfasserin aut Mohsen Mohammadi verfasserin aut In Crop Journal KeAi Communications Co., Ltd., 2015 8(2020), 2, Seite 243-251 (DE-627)774106883 (DE-600)2745450-2 22145141 nnns volume:8 year:2020 number:2 pages:243-251 https://doi.org/10.1016/j.cj.2019.09.005 kostenfrei https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 kostenfrei http://www.sciencedirect.com/science/article/pii/S2214514119301266 kostenfrei https://doaj.org/toc/2214-5141 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_105 GBV_ILN_110 GBV_ILN_120 GBV_ILN_121 GBV_ILN_138 GBV_ILN_150 GBV_ILN_151 GBV_ILN_152 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_374 GBV_ILN_602 GBV_ILN_647 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2018 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2031 GBV_ILN_2034 GBV_ILN_2036 GBV_ILN_2037 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2119 GBV_ILN_2129 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_2817 GBV_ILN_4012 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4277 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_4326 GBV_ILN_4333 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4346 GBV_ILN_4367 GBV_ILN_4392 GBV_ILN_4393 GBV_ILN_4700 GBV_ILN_4753 AR 8 2020 2 243-251 |
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10.1016/j.cj.2019.09.005 doi (DE-627)DOAJ073134554 (DE-599)DOAJcb72ff392c7747eca8b2548f57ba2233 DE-627 ger DE-627 rakwb eng S1-972 Sintayehu D. Daba verfasserin aut Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci 2020 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures Agriculture S Agriculture (General) Priyanka Tyagi verfasserin aut Gina Brown-Guedira verfasserin aut Mohsen Mohammadi verfasserin aut In Crop Journal KeAi Communications Co., Ltd., 2015 8(2020), 2, Seite 243-251 (DE-627)774106883 (DE-600)2745450-2 22145141 nnns volume:8 year:2020 number:2 pages:243-251 https://doi.org/10.1016/j.cj.2019.09.005 kostenfrei https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 kostenfrei http://www.sciencedirect.com/science/article/pii/S2214514119301266 kostenfrei https://doaj.org/toc/2214-5141 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_105 GBV_ILN_110 GBV_ILN_120 GBV_ILN_121 GBV_ILN_138 GBV_ILN_150 GBV_ILN_151 GBV_ILN_152 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_374 GBV_ILN_602 GBV_ILN_647 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2018 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2031 GBV_ILN_2034 GBV_ILN_2036 GBV_ILN_2037 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2119 GBV_ILN_2129 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_2817 GBV_ILN_4012 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4277 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_4326 GBV_ILN_4333 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4346 GBV_ILN_4367 GBV_ILN_4392 GBV_ILN_4393 GBV_ILN_4700 GBV_ILN_4753 AR 8 2020 2 243-251 |
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10.1016/j.cj.2019.09.005 doi (DE-627)DOAJ073134554 (DE-599)DOAJcb72ff392c7747eca8b2548f57ba2233 DE-627 ger DE-627 rakwb eng S1-972 Sintayehu D. Daba verfasserin aut Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci 2020 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures Agriculture S Agriculture (General) Priyanka Tyagi verfasserin aut Gina Brown-Guedira verfasserin aut Mohsen Mohammadi verfasserin aut In Crop Journal KeAi Communications Co., Ltd., 2015 8(2020), 2, Seite 243-251 (DE-627)774106883 (DE-600)2745450-2 22145141 nnns volume:8 year:2020 number:2 pages:243-251 https://doi.org/10.1016/j.cj.2019.09.005 kostenfrei https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 kostenfrei http://www.sciencedirect.com/science/article/pii/S2214514119301266 kostenfrei https://doaj.org/toc/2214-5141 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_105 GBV_ILN_110 GBV_ILN_120 GBV_ILN_121 GBV_ILN_138 GBV_ILN_150 GBV_ILN_151 GBV_ILN_152 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_374 GBV_ILN_602 GBV_ILN_647 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2018 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2031 GBV_ILN_2034 GBV_ILN_2036 GBV_ILN_2037 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2119 GBV_ILN_2129 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_2817 GBV_ILN_4012 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4277 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_4326 GBV_ILN_4333 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4346 GBV_ILN_4367 GBV_ILN_4392 GBV_ILN_4393 GBV_ILN_4700 GBV_ILN_4753 AR 8 2020 2 243-251 |
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10.1016/j.cj.2019.09.005 doi (DE-627)DOAJ073134554 (DE-599)DOAJcb72ff392c7747eca8b2548f57ba2233 DE-627 ger DE-627 rakwb eng S1-972 Sintayehu D. Daba verfasserin aut Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci 2020 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures Agriculture S Agriculture (General) Priyanka Tyagi verfasserin aut Gina Brown-Guedira verfasserin aut Mohsen Mohammadi verfasserin aut In Crop Journal KeAi Communications Co., Ltd., 2015 8(2020), 2, Seite 243-251 (DE-627)774106883 (DE-600)2745450-2 22145141 nnns volume:8 year:2020 number:2 pages:243-251 https://doi.org/10.1016/j.cj.2019.09.005 kostenfrei https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 kostenfrei http://www.sciencedirect.com/science/article/pii/S2214514119301266 kostenfrei https://doaj.org/toc/2214-5141 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_105 GBV_ILN_110 GBV_ILN_120 GBV_ILN_121 GBV_ILN_138 GBV_ILN_150 GBV_ILN_151 GBV_ILN_152 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_374 GBV_ILN_602 GBV_ILN_647 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2018 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2031 GBV_ILN_2034 GBV_ILN_2036 GBV_ILN_2037 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2119 GBV_ILN_2129 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_2817 GBV_ILN_4012 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4277 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_4326 GBV_ILN_4333 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4346 GBV_ILN_4367 GBV_ILN_4392 GBV_ILN_4393 GBV_ILN_4700 GBV_ILN_4753 AR 8 2020 2 243-251 |
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Daba</subfield><subfield code="e">verfasserin</subfield><subfield code="4">aut</subfield></datafield><datafield tag="245" ind1="1" ind2="0"><subfield code="a">Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci</subfield></datafield><datafield tag="264" ind1=" " ind2="1"><subfield code="c">2020</subfield></datafield><datafield tag="336" ind1=" " ind2=" "><subfield code="a">Text</subfield><subfield code="b">txt</subfield><subfield code="2">rdacontent</subfield></datafield><datafield tag="337" ind1=" " ind2=" "><subfield code="a">Computermedien</subfield><subfield code="b">c</subfield><subfield code="2">rdamedia</subfield></datafield><datafield tag="338" ind1=" " ind2=" "><subfield code="a">Online-Ressource</subfield><subfield code="b">cr</subfield><subfield code="2">rdacarrier</subfield></datafield><datafield tag="520" ind1=" " ind2=" "><subfield code="a">Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. 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S1-972 Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci |
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genome-wide association study in historical and contemporary u.s. winter wheats identifies height-reducing loci |
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Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci |
| abstract |
Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures |
| abstractGer |
Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures |
| abstract_unstemmed |
Plant height has been a major target for selection of high-yielding varieties in wheat. Two height-reducing loci (Rht-B1 and Rht-D1) have been widely used since the Green Revolution. However, these genes also negatively affect other agronomic traits such as kernel weight. Identifying alternative height-reducing loci could benefit wheat improvement. This study focused on the genetics of plant height in 260 historical and contemporary winter wheat accessions via genome-wide association studies using 38,693 single nucleotide polymorphism (SNP) markers generated through genotyping by sequencing, two Kompetitive Allele Specific Polymorphism markers, and phenotypic data recorded in two seasons (2016 and 2018). The 260 accessions showed wide variation in plant height. Most accessions developed after 1960 were shorter than earlier accessions. The broad-sense heritability for plant height was high (H2 = 0.82), which was also supported by a high correlation (r = 0.82, P < 0.0001) between heights from the two years. We detected a total of 16 marker–trait associations (MTAs) for plant height at –lg (P) ≥ 4.0 on chromosomes 1A, 2B, 2D, 3B, 4D, 5A, 5D, 6A, 6B, 7A, and 7D. We detected three of the MTAs (QPLH-2D, QPLH-4B.2, and QPLH-4D) consistently in individual-year and combined-year analyses. These MTAs individually explained 10%–16% of phenotypic variation. The height-reducing alleles at these three MTAs appeared after 1960 and increased in frequency thereafter. Among the genes near these loci were gibberellic acid insensitive (GAI) and GRAS transcription factor (GIBBERELLIC-ACID INSENSITIVE (GAI), REPRESSOR of GAI (RGA), and SCARECROW (SCR)). The evidence from this study and previous reports suggests that QPLH-2D is Rht8. A gene encoding a GRAS transcription factor is located near QPLH-2D. Validation of the QPLH-2D locus and associated candidate genes awaits further study. Keywords: GWAS, Marker–trait associations, Rht-B1, Rht-D1, Candidate genes, Position-dependent procedures |
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| title_short |
Genome-wide association study in historical and contemporary U.S. winter wheats identifies height-reducing loci |
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https://doi.org/10.1016/j.cj.2019.09.005 https://doaj.org/article/cb72ff392c7747eca8b2548f57ba2233 http://www.sciencedirect.com/science/article/pii/S2214514119301266 https://doaj.org/toc/2214-5141 |
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Priyanka Tyagi Gina Brown-Guedira Mohsen Mohammadi |
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Priyanka Tyagi Gina Brown-Guedira Mohsen Mohammadi |
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10.1016/j.cj.2019.09.005 |
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2024-07-03T16:02:19.423Z |
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| score |
7.398242 |