A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach
Spinach is a significant source of vitamins, minerals, and antioxidants. These nutrients make it delicious and beneficial for human health. However, the genetic mechanism underlying the accumulation of nutrients in spinach remains unclear. In this study, we analyzed the content of chlorophyll a, chl...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2024-01-01
|
| Series: | Genes |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2073-4425/15/2/172 |
| _version_ | 1797298129401282560 |
|---|---|
| author | Ni Ji Zhiyuan Liu Hongbing She Zhaosheng Xu Helong Zhang Zhengwu Fang Wei Qian |
| author_facet | Ni Ji Zhiyuan Liu Hongbing She Zhaosheng Xu Helong Zhang Zhengwu Fang Wei Qian |
| author_sort | Ni Ji |
| collection | DOAJ |
| description | Spinach is a significant source of vitamins, minerals, and antioxidants. These nutrients make it delicious and beneficial for human health. However, the genetic mechanism underlying the accumulation of nutrients in spinach remains unclear. In this study, we analyzed the content of chlorophyll a, chlorophyll b, oxalate, nitrate, crude fiber, soluble sugars, manganese, copper, and iron in 62 different spinach accessions. Additionally, 3,356,182 high-quality, single-nucleotide polymorphisms were found using resequencing and used in a genome-wide association study. A total of 2077 loci were discovered that significantly correlated with the concentrations of the nutritional elements. Data mining identified key genes in these intervals for four traits: chlorophyll, oxalate, soluble sugar, and Fe. Our study provides insights into the genetic architecture of nutrient variation and facilitates spinach breeding for good nutrition. |
| first_indexed | 2024-03-07T22:31:25Z |
| format | Article |
| id | doaj.art-31f7da0860c24684a4565316003b1aeb |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-07T22:31:25Z |
| publishDate | 2024-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-31f7da0860c24684a4565316003b1aeb2024-02-23T15:17:43ZengMDPI AGGenes2073-44252024-01-0115217210.3390/genes15020172A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in SpinachNi Ji0Zhiyuan Liu1Hongbing She2Zhaosheng Xu3Helong Zhang4Zhengwu Fang5Wei Qian6MARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-Construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou 434025, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaMARA Key Laboratory of Sustainable Crop Production in the Middle Reaches of the Yangtze River (Co-Construction by Ministry and Province), College of Agriculture, Yangtze University, Jingzhou 434025, ChinaState Key Laboratory of Vegetable Biobreeding, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, ChinaSpinach is a significant source of vitamins, minerals, and antioxidants. These nutrients make it delicious and beneficial for human health. However, the genetic mechanism underlying the accumulation of nutrients in spinach remains unclear. In this study, we analyzed the content of chlorophyll a, chlorophyll b, oxalate, nitrate, crude fiber, soluble sugars, manganese, copper, and iron in 62 different spinach accessions. Additionally, 3,356,182 high-quality, single-nucleotide polymorphisms were found using resequencing and used in a genome-wide association study. A total of 2077 loci were discovered that significantly correlated with the concentrations of the nutritional elements. Data mining identified key genes in these intervals for four traits: chlorophyll, oxalate, soluble sugar, and Fe. Our study provides insights into the genetic architecture of nutrient variation and facilitates spinach breeding for good nutrition.https://www.mdpi.com/2073-4425/15/2/172spinachnutrientsgenome-wide association studysingle-nucleotide polymorphismcandidate genes |
| spellingShingle | Ni Ji Zhiyuan Liu Hongbing She Zhaosheng Xu Helong Zhang Zhengwu Fang Wei Qian A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach Genes spinach nutrients genome-wide association study single-nucleotide polymorphism candidate genes |
| title | A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach |
| title_full | A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach |
| title_fullStr | A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach |
| title_full_unstemmed | A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach |
| title_short | A Genome-Wide Association Study Reveals the Genetic Mechanisms of Nutrient Accumulation in Spinach |
| title_sort | genome wide association study reveals the genetic mechanisms of nutrient accumulation in spinach |
| topic | spinach nutrients genome-wide association study single-nucleotide polymorphism candidate genes |
| url | https://www.mdpi.com/2073-4425/15/2/172 |
| work_keys_str_mv | AT niji agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhiyuanliu agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT hongbingshe agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhaoshengxu agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT helongzhang agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhengwufang agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT weiqian agenomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT niji genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhiyuanliu genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT hongbingshe genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhaoshengxu genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT helongzhang genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT zhengwufang genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach AT weiqian genomewideassociationstudyrevealsthegeneticmechanismsofnutrientaccumulationinspinach |