Screening and Validation of Leaf Width-Related Genes in Inbred Maize Lines
Abstract
:1. Introduction
2. Materials and Methods
2.1. Study Population
2.2. Leaf Width Phenotypic Data Analysis
2.3. Whole-Genome Sequencing
2.4. GWAS
2.5. Candidate Gene Validation
3. Results
3.1. Study Population Phenotypic Characteristics
3.2. NGS Data Quality and LD Analysis
3.3. Leaf Width-Related SNP Identification
3.4. Identification and Functional Annotation of Leaf Width-Related Candidate Genes
3.5. Functional Confirmation of SNP-Associated Gene Variants
3.6. qPCR Analysis of the Zm00001d044327 Candidate Gene
3.7. Assessment of the Phenotypic Impact of Zm00001d044327 Candidate Gene Mutations
4. Discussion
4.1. Leaf Width-Related SNP Markers
4.2. Candidate Gene Functional Analysis
5. Conclusions
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Primer | Sequence (5′-3′) | Candidate Gene |
---|---|---|
QLWS | TGCTCAGTCAGCAGCATATC | Zm00001d044327 |
QLWAS | CCTTCCTTCCTCCCTACTTCTA |
Year | SNP | Physical Position | Chr | Genotype | MAF | log10 (P) | Distance (bp) | Contribution (r2) | Candidate Gene | Functional Annotation |
---|---|---|---|---|---|---|---|---|---|---|
2015 | sLW-226131901 | 226131901 | 2 | A/G | 0.05 | 6.31 | −9706 | 6.20% | Zm00001d007267 | Chlorophyll a-b binding protein CP26, chloroplastic |
sLW-225322565 | 225322565 | 3 | C/T | 0.07 | 6.33 | 6% | ||||
sLW-225305520 | 225305520 | 3 | C/T | 0.30 | 6.35 | 0 | 13.20% | Zm00001d044327 | Cytokinin riboside 5′-monophosphate phosphoribohydrolase LOG7 | |
sLW-141511859 | 141511859 | 5 | G/A | 0.11 | 6.11 | 4.90% | ||||
sLW-150065211 | 150065211 | 6 | T/A | 0.06 | 6.07 | 0.40% | ||||
sLW-30006587 | 30006587 | 7 | T/G | 0.34 | 6.73 | 3.20% | ||||
sLW-104304481 | 104304481 | 7 | C/A | 0.05 | 6.17 | 3128 | 7.10% | Zm00001d020285 | Putative pumilio homolog 7, chloroplastic | |
sLW-104304481 | 104304481 | 7 | C/A | 0.05 | 6.17 | −2528 | 7.10% | Zm00001d020287 | hypothetical protein ZEAMMB73 | |
sLW-68332493 | 68332493 | 8 | C/T | 0.12 | 6.04 | 1.90% | ||||
2016 | sLW-20566973 | 20566973 | 1 | G/T | 0.07 | 8.60 | 3.10% | |||
sLW-186867035 | 186867035 | 2 | C/A | 0.07 | 12.81 | 2768 | 13.60% | Zm00001d005758 | ||
sLW-153643898 | 153643898 | 5 | G/T | 0.13 | 8.38 | 14.20% | ||||
sLW-11019663 | 11019663 | 8 | C/T | 0.49 | 9.26 | 7.20% | ||||
sLW-12911742 | 12911742 | 9 | T/A | 0.10 | 13.09 | 3.70% | ||||
sLW-100159475 | 100159475 | 9 | T/A | 0.13 | 10.23 | 11.60% |
Mutant | Leaf Width above the Uppermost Ear (cm) | Sig. |
---|---|---|
wild type (B73) | 9.8 | A |
ZMLW-1 | 7.2 | B |
ZMLW-2 | 6.8 | B |
ZMLW-3 | 7.4 | B |
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Lu, S.; Wang, Q.; Yin, J.; Zheng, S.; Gao, T.; Zhou, X.; Zhang, J.; Xing, Y.; Ma, Y.; Wang, M.; et al. Screening and Validation of Leaf Width-Related Genes in Inbred Maize Lines. Life 2024, 14, 1057. https://doi.org/10.3390/life14091057
Lu S, Wang Q, Yin J, Zheng S, Gao T, Zhou X, Zhang J, Xing Y, Ma Y, Wang M, et al. Screening and Validation of Leaf Width-Related Genes in Inbred Maize Lines. Life. 2024; 14(9):1057. https://doi.org/10.3390/life14091057
Chicago/Turabian StyleLu, Shi, Qi Wang, Junqi Yin, Shubo Zheng, Tingting Gao, Xudong Zhou, Jianxin Zhang, Yuexian Xing, Yingjie Ma, Min Wang, and et al. 2024. "Screening and Validation of Leaf Width-Related Genes in Inbred Maize Lines" Life 14, no. 9: 1057. https://doi.org/10.3390/life14091057