Genome-Wide Association Studies of Maize Seedling Root Traits under Different Nitrogen Levels
Abstract
:1. Introduction
2. Materials and Methods
2.1. Plant Materials
2.2. Experimental Design
2.3. Root and Shoot Phenotype Measurement
2.4. Phenotypic Data Analysis
2.5. Genome-Wide Association Studies
2.6. Candidate Gene Analysis
2.7. Candidate Gene Expression Analysis
- RNA extraction and cDNA preparation
- 2.
- Real-time fluorescent quantitative PCR
3. Results
3.1. Phenotypic Analysis of Shoot and Root Traits
3.2. Population Structure and Linkage Disequilibrium Decay
3.3. Genome-Wide Association Studies
3.4. Tentative Candidate Genes for the Identified SNPs
3.5. Candidate Gene Expression Results
4. Discussion
4.1. Phenotypic Evaluation of Traits Related to N Efficiency in Maize under Two N Levels
4.2. The Influence of Population Structure and Kinship on Association Analysis
4.3. Genome-Wide Association Studies for Different Traits under Two N Levels
4.4. Complex Molecular Mechanisms of Root and Shoot Growth under Different N Conditions
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Trait Name | Abbreviations | Trait Measurements and Descriptions |
---|---|---|
SPAD value of the 2nd leaf | SPAD | Measured with a chlorophyll meter |
Plant height (cm) | PH | Measured with a ruler |
Shoot dry weight (g) | SDW | Dried and weighed on a balance (0.001 g) |
Root dry weight (g) | RDW | Dried and weighed on a balance (0.001 g) |
Root-to-shoot ratio | RSR | Root dry weight/shoot dry weight |
Total root length (cm) | TRL | Length of the whole root system |
Total root surface area (cm2) | TRSA | Surface area of the whole root system |
Total root volume (cm3) | TRV | Volume of the whole root system |
Crown root number | CRN | Count of the axial first whorl crown roots |
Crown root length (cm) | CRL | Measured with a ruler |
Crown root surface area (cm2) | CRSA | Measured with root scanner |
Crown root volume (cm3) | CRV | Measured with root scanner |
Seminal root number | SRN | Count of the axial seminal roots |
Seminal root length (cm) | SRL | Measured with a ruler |
Seminal root surface area (cm2) | SRSA | Measured with root scanner |
Seminal root volume (cm3) | SRV | Measured with root scanner |
Primary root length (cm) | PRL | Measured with a ruler |
Primary root surface area (cm2) | PRSA | Surface area of the whole primary root |
Primary root volume (cm3) | PRV | Volume of the whole primary root |
Total lateral root length | TLRL | The total length of all of the lateral roots of the entire root system |
Traits | Env | Total | |
---|---|---|---|
CK | LN | ||
SPAD | 7 | 2 | 9 |
PH | 9 | 2 | 11 |
SDW | 6 | 1 | 7 |
RDW | 2 | 4 | 6 |
RSR | 0 | 9 | 9 |
TRL | 1 | 7 | 8 |
TRSA | 1 | 2 | 3 |
TRV | 2 | 1 | 3 |
CRN | 14 | 1 | 15 |
CRL | 3 | 6 | 9 |
CRSA | 3 | 2 | 5 |
CRV | 6 | 3 | 9 |
SRN | 3 | 1 | 4 |
SRL | 2 | 4 | 6 |
SRSA | 4 | 3 | 7 |
SRV | 1 | 4 | 5 |
PRL | 10 | 0 | 10 |
PRSA | 5 | 3 | 8 |
PRV | 11 | 13 | 24 |
TLRL | 11 | 16 | 27 |
Total | 101 | 84 | 185 |
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Fu, Y.; Liu, J.; Xia, Z.; Wang, Q.; Zhang, S.; Zhang, G.; Lu, H. Genome-Wide Association Studies of Maize Seedling Root Traits under Different Nitrogen Levels. Plants 2022, 11, 1417. https://doi.org/10.3390/plants11111417
Fu Y, Liu J, Xia Z, Wang Q, Zhang S, Zhang G, Lu H. Genome-Wide Association Studies of Maize Seedling Root Traits under Different Nitrogen Levels. Plants. 2022; 11(11):1417. https://doi.org/10.3390/plants11111417
Chicago/Turabian StyleFu, Yafang, Jianchao Liu, Zhenqing Xia, Qi Wang, Shibo Zhang, Guixin Zhang, and Haidong Lu. 2022. "Genome-Wide Association Studies of Maize Seedling Root Traits under Different Nitrogen Levels" Plants 11, no. 11: 1417. https://doi.org/10.3390/plants11111417