Genome-wide association study presents insights into the genetic architecture of drought tolerance in maize seedlings under field water-deficit conditions
Drought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yie...
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| Published in | Frontiers in plant science Vol. 14; p. 1165582 |
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| Main Authors | , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
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Frontiers Media S.A
08.05.2023
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| Abstract | Drought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yield in arid and semi-arid zones and in the erratic rainfall or occasional drought areas. Therefore, to a great degree, the adverse impact of drought on maize yield can be mitigated by developing drought-resistant or -tolerant varieties. However, the efficacy of traditional breeding solely relying on phenotypic selection is not adequate for the need of maize drought-resistant varieties. Revealing the genetic basis enables to guide the genetic improvement of maize drought tolerance.
We utilized a maize association panel of 379 inbred lines with tropical, subtropical and temperate backgrounds to analyze the genetic structure of maize drought tolerance at seedling stage. We obtained the high quality 7837 SNPs from DArT's and 91,003 SNPs from GBS, and a resultant combination of 97,862 SNPs of GBS with DArT's. The maize population presented the lower her-itabilities of the seedling emergence rate (ER), seedling plant height (SPH) and grain yield (GY) under field drought conditions.
GWAS analysis by MLM and BLINK models with the phenotypic data and 97862 SNPs revealed 15 variants that were significantly independent related to drought-resistant traits at the seedling stage above the threshold of P < 1.02 × 10-5. We found 15 candidate genes for drought resistance at the seedling stage that may involve in (1) metabolism (
,
,
); (2) programmed cell death (
); (3) transcriptional regulation (
,
,
,
,
,
and
); (4) autophagy (
); and (5) cell growth and development (
). The most of them in B73 maize line were shown to change the expression pattern in response to drought stress. These results provide useful information for understanding the genetic basis of drought stress tolerance of maize at seedling stage. |
|---|---|
| AbstractList | Drought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yield in arid and semi-arid zones and in the erratic rainfall or occasional drought areas. Therefore, to a great degree, the adverse impact of drought on maize yield can be mitigated by developing drought-resistant or -tolerant varieties. However, the efficacy of traditional breeding solely relying on phenotypic selection is not adequate for the need of maize drought-resistant varieties. Revealing the genetic basis enables to guide the genetic improvement of maize drought tolerance.
We utilized a maize association panel of 379 inbred lines with tropical, subtropical and temperate backgrounds to analyze the genetic structure of maize drought tolerance at seedling stage. We obtained the high quality 7837 SNPs from DArT's and 91,003 SNPs from GBS, and a resultant combination of 97,862 SNPs of GBS with DArT's. The maize population presented the lower her-itabilities of the seedling emergence rate (ER), seedling plant height (SPH) and grain yield (GY) under field drought conditions.
GWAS analysis by MLM and BLINK models with the phenotypic data and 97862 SNPs revealed 15 variants that were significantly independent related to drought-resistant traits at the seedling stage above the threshold of P < 1.02 × 10-5. We found 15 candidate genes for drought resistance at the seedling stage that may involve in (1) metabolism (
,
,
); (2) programmed cell death (
); (3) transcriptional regulation (
,
,
,
,
,
and
); (4) autophagy (
); and (5) cell growth and development (
). The most of them in B73 maize line were shown to change the expression pattern in response to drought stress. These results provide useful information for understanding the genetic basis of drought stress tolerance of maize at seedling stage. Drought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yield in arid and semi-arid zones and in the erratic rainfall or occasional drought areas. Therefore, to a great degree, the adverse impact of drought on maize yield can be mitigated by developing drought-resistant or -tolerant varieties. However, the efficacy of traditional breeding solely relying on phenotypic selection is not adequate for the need of maize drought-resistant varieties. Revealing the genetic basis enables to guide the genetic improvement of maize drought tolerance.IntroductionDrought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yield in arid and semi-arid zones and in the erratic rainfall or occasional drought areas. Therefore, to a great degree, the adverse impact of drought on maize yield can be mitigated by developing drought-resistant or -tolerant varieties. However, the efficacy of traditional breeding solely relying on phenotypic selection is not adequate for the need of maize drought-resistant varieties. Revealing the genetic basis enables to guide the genetic improvement of maize drought tolerance.We utilized a maize association panel of 379 inbred lines with tropical, subtropical and temperate backgrounds to analyze the genetic structure of maize drought tolerance at seedling stage. We obtained the high quality 7837 SNPs from DArT's and 91,003 SNPs from GBS, and a resultant combination of 97,862 SNPs of GBS with DArT's. The maize population presented the lower her-itabilities of the seedling emergence rate (ER), seedling plant height (SPH) and grain yield (GY) under field drought conditions.MethodsWe utilized a maize association panel of 379 inbred lines with tropical, subtropical and temperate backgrounds to analyze the genetic structure of maize drought tolerance at seedling stage. We obtained the high quality 7837 SNPs from DArT's and 91,003 SNPs from GBS, and a resultant combination of 97,862 SNPs of GBS with DArT's. The maize population presented the lower her-itabilities of the seedling emergence rate (ER), seedling plant height (SPH) and grain yield (GY) under field drought conditions.GWAS analysis by MLM and BLINK models with the phenotypic data and 97862 SNPs revealed 15 variants that were significantly independent related to drought-resistant traits at the seedling stage above the threshold of P < 1.02 × 10-5. We found 15 candidate genes for drought resistance at the seedling stage that may involve in (1) metabolism (Zm00001d012176, Zm00001d012101, Zm00001d009488); (2) programmed cell death (Zm00001d053952); (3) transcriptional regulation (Zm00001d037771, Zm00001d053859, Zm00001d031861, Zm00001d038930, Zm00001d049400, Zm00001d045128 and Zm00001d043036); (4) autophagy (Zm00001d028417); and (5) cell growth and development (Zm00001d017495). The most of them in B73 maize line were shown to change the expression pattern in response to drought stress. These results provide useful information for understanding the genetic basis of drought stress tolerance of maize at seedling stage.ResultsGWAS analysis by MLM and BLINK models with the phenotypic data and 97862 SNPs revealed 15 variants that were significantly independent related to drought-resistant traits at the seedling stage above the threshold of P < 1.02 × 10-5. We found 15 candidate genes for drought resistance at the seedling stage that may involve in (1) metabolism (Zm00001d012176, Zm00001d012101, Zm00001d009488); (2) programmed cell death (Zm00001d053952); (3) transcriptional regulation (Zm00001d037771, Zm00001d053859, Zm00001d031861, Zm00001d038930, Zm00001d049400, Zm00001d045128 and Zm00001d043036); (4) autophagy (Zm00001d028417); and (5) cell growth and development (Zm00001d017495). The most of them in B73 maize line were shown to change the expression pattern in response to drought stress. These results provide useful information for understanding the genetic basis of drought stress tolerance of maize at seedling stage. IntroductionDrought stress is one of the most serious abiotic stresses leading to crop yield reduction. Due to the wide range of planting areas, the production of maize is particularly affected by global drought stress. The cultivation of drought-resistant maize varieties can achieve relatively high, stable yield in arid and semi-arid zones and in the erratic rainfall or occasional drought areas. Therefore, to a great degree, the adverse impact of drought on maize yield can be mitigated by developing drought-resistant or -tolerant varieties. However, the efficacy of traditional breeding solely relying on phenotypic selection is not adequate for the need of maize drought-resistant varieties. Revealing the genetic basis enables to guide the genetic improvement of maize drought tolerance.MethodsWe utilized a maize association panel of 379 inbred lines with tropical, subtropical and temperate backgrounds to analyze the genetic structure of maize drought tolerance at seedling stage. We obtained the high quality 7837 SNPs from DArT's and 91,003 SNPs from GBS, and a resultant combination of 97,862 SNPs of GBS with DArT's. The maize population presented the lower her-itabilities of the seedling emergence rate (ER), seedling plant height (SPH) and grain yield (GY) under field drought conditions.ResultsGWAS analysis by MLM and BLINK models with the phenotypic data and 97862 SNPs revealed 15 variants that were significantly independent related to drought-resistant traits at the seedling stage above the threshold of P < 1.02 × 10-5. We found 15 candidate genes for drought resistance at the seedling stage that may involve in (1) metabolism (Zm00001d012176, Zm00001d012101, Zm00001d009488); (2) programmed cell death (Zm00001d053952); (3) transcriptional regulation (Zm00001d037771, Zm00001d053859, Zm00001d031861, Zm00001d038930, Zm00001d049400, Zm00001d045128 and Zm00001d043036); (4) autophagy (Zm00001d028417); and (5) cell growth and development (Zm00001d017495). The most of them in B73 maize line were shown to change the expression pattern in response to drought stress. These results provide useful information for understanding the genetic basis of drought stress tolerance of maize at seedling stage. |
| Author | Dong, Xiaomei Liu, Yubo Zhang, Ao Zhao, Chenghao Ji, Shuwen Li, Cong Dang, Dongdong Ruan, Yanye Chen, Shan Guan, Yuan Zheng, Hongjian |
| AuthorAffiliation | 3 International Maize and Wheat Improvement Center (CIMMYT) , Texcoco , Mexico 2 CIMMYT-China Specialty Maize Research Center, Crop Breeding and Cultivation Research Institute, Shang-hai Academy of Agricultural Sciences , Shanghai , China 4 Dandong Academy of Agricultural Sciences , Fengcheng, Liaoning , China 1 Shenyang City Key Laboratory of Maize Genomic Selection Breeding, College of Bioscience and Biotechnology, Shenyang Agricultural University , Shenyang, Liaoning , China |
| AuthorAffiliation_xml | – name: 3 International Maize and Wheat Improvement Center (CIMMYT) , Texcoco , Mexico – name: 4 Dandong Academy of Agricultural Sciences , Fengcheng, Liaoning , China – name: 2 CIMMYT-China Specialty Maize Research Center, Crop Breeding and Cultivation Research Institute, Shang-hai Academy of Agricultural Sciences , Shanghai , China – name: 1 Shenyang City Key Laboratory of Maize Genomic Selection Breeding, College of Bioscience and Biotechnology, Shenyang Agricultural University , Shenyang, Liaoning , China |
| Author_xml | – sequence: 1 givenname: Shan surname: Chen fullname: Chen, Shan – sequence: 2 givenname: Dongdong surname: Dang fullname: Dang, Dongdong – sequence: 3 givenname: Yubo surname: Liu fullname: Liu, Yubo – sequence: 4 givenname: Shuwen surname: Ji fullname: Ji, Shuwen – sequence: 5 givenname: Hongjian surname: Zheng fullname: Zheng, Hongjian – sequence: 6 givenname: Chenghao surname: Zhao fullname: Zhao, Chenghao – sequence: 7 givenname: Xiaomei surname: Dong fullname: Dong, Xiaomei – sequence: 8 givenname: Cong surname: Li fullname: Li, Cong – sequence: 9 givenname: Yuan surname: Guan fullname: Guan, Yuan – sequence: 10 givenname: Ao surname: Zhang fullname: Zhang, Ao – sequence: 11 givenname: Yanye surname: Ruan fullname: Ruan, Yanye |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/37223800$$D View this record in MEDLINE/PubMed |
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| CitedBy_id | crossref_primary_10_3390_life14040453 crossref_primary_10_1007_s42535_024_00901_8 crossref_primary_10_3390_ijms25031918 crossref_primary_10_3389_fsufs_2024_1391989 crossref_primary_10_1007_s00425_024_04517_9 |
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| Copyright | Copyright © 2023 Chen, Dang, Liu, Ji, Zheng, Zhao, Dong, Li, Guan, Zhang and Ruan. Copyright © 2023 Chen, Dang, Liu, Ji, Zheng, Zhao, Dong, Li, Guan, Zhang and Ruan 2023 Chen, Dang, Liu, Ji, Zheng, Zhao, Dong, Li, Guan, Zhang and Ruan |
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| Keywords | seedling stage SNPs field drought tolerance genome-wide association study maize (Zea mays L.) |
| Language | English |
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| Title | Genome-wide association study presents insights into the genetic architecture of drought tolerance in maize seedlings under field water-deficit conditions |
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