Mapping and Screening of Candidate Gene Regulating the Biomass Yield of Sorghum (Sorghum bicolor L.)
Abstract
:1. Introduction
2. Results
2.1. Phenotypic and Physiology Analysis of sblob and WT Plants
2.2. Genetic Analysis of the sblob Mutant
2.3. Mapping of the sblob1 Gene by Whole-Genome Resequencing
2.4. Identification and Validation of Candidate Gene Accounting for sblob Mutant
2.5. Structure Prediction and Molecular Docking
2.6. Determination of the Melatonin and Auxin Content in Both the WT Plant and sblob Mutant
3. Discussion
3.1. Abnormal Leaf Phenotype and Cell Development Are Responsible for sblob Mutant
3.2. Detection of Candidate Gene Accounting for sblob by MutMap
3.3. Single Nucleotide Mutations Result in Gene Functional Inactivation of sblob1
3.4. Sblob1 Regulates Sorghum Biomass by Influencing Melatonin Synthesis
4. Materials and Methods
4.1. Construction of Mapping Population
4.2. Field Experiment and Phenotype Analysis
4.3. Histological Analysis
4.4. DNA Extraction and Whole-Genome Sequence
4.5. SNP Calling and Annotation
4.6. Association Analysis Based on Euclidean Distance (ED)
4.7. Candidate Mutation Site Sequence
4.8. Bioinformatics Analysis and Function Prediction of Candidate Genes
4.9. 3D Structural Prediction and Molecular Docking
4.10. Detection of Tryptamine, Melatonin and Various Hormone Contents
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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WT | sblob | Total | χ2 (df = 1) | |
---|---|---|---|---|
actual | 118 | 294 | 412 | |
expected | 103 | 309 | 412 | 2.63 |
Clean Reads | Clean Bases (bp) | Clean Q30 (%) | Mapped Ratio (%) | Proper Ratio (%) | Average Depths | |
---|---|---|---|---|---|---|
WT | 190,778,008 | 28,728,254,222 | 94.49 | 99.12 | 95.68 | 44.16 |
sblob | 177,743,206 | 26,767,472,954 | 94.75 | 98.49 | 95.13 | 40.98 |
Region | Start Position (Mb) | End Position (Mb) | Region Size | Transcripts | Gene Number |
---|---|---|---|---|---|
chr10 | 57.91461 | 58.149969 | 0.235359 | 30 | 24 |
chr1 | 1.154111 | 1.34952 | 0.195409 | 46 | 39 |
chr1 | 1.409762 | 1.532592 | 0.12283 | 49 | 30 |
chr1 | 1.623681 | 1.691337 | 0.067656 | 15 | 14 |
chr1 | 1.812801 | 1.938655 | 0.125854 | 38 | 31 |
chr1 | 4.068754 | 4.498218 | 0.429464 | 63 | 52 |
chr1 | 58.306682 | 59.217158 | 0.910476 | 87 | 65 |
chr1 | 65.020891 | 65.164125 | 0.143234 | 16 | 15 |
chr1 | 6.504078 | 6.639419 | 0.135341 | 24 | 16 |
chr1 | 67.295568 | 67.722791 | 0.427223 | 57 | 49 |
chr1 | 72.061557 | 72.655387 | 0.59383 | 85 | 67 |
chr1 | 8.567085 | 8.898033 | 0.330948 | 63 | 29 |
chr2 | 4.668026 | 5.149803 | 0.481777 | 76 | 59 |
chr2 | 5.400013 | 5.487665 | 0.087652 | 7 | 5 |
chr2 | 5.664728 | 5.793508 | 0.12878 | 21 | 11 |
chr2 | 71.663212 | 72.648182 | 0.98497 | 190 | 116 |
chr3 | 0.703708 | 1.323768 | 0.62006 | 104 | 85 |
chr3 | 70.882922 | 72.678683 | 1.795761 | 285 | 199 |
chr4 | 60.551245 | 60.866205 | 0.31496 | 45 | 29 |
chr6 | 23.890052 | 24.617971 | 0.727919 | 0 | 0 |
chr6 | 59.233376 | 59.338064 | 0.104688 | 22 | 20 |
chr8 | 58.306666 | 58.339277 | 0.032611 | 5 | 5 |
total | 8.996802 | 1328 | 960 |
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Li, M.; Cai, Q.; Liang, Y.; Zhao, Y.; Hao, Y.; Qin, Y.; Qiao, X.; Han, Y.; Li, H. Mapping and Screening of Candidate Gene Regulating the Biomass Yield of Sorghum (Sorghum bicolor L.). Int. J. Mol. Sci. 2024, 25, 796. https://doi.org/10.3390/ijms25020796
Li M, Cai Q, Liang Y, Zhao Y, Hao Y, Qin Y, Qiao X, Han Y, Li H. Mapping and Screening of Candidate Gene Regulating the Biomass Yield of Sorghum (Sorghum bicolor L.). International Journal of Molecular Sciences. 2024; 25(2):796. https://doi.org/10.3390/ijms25020796
Chicago/Turabian StyleLi, Mao, Qizhe Cai, Yinpei Liang, Yaofei Zhao, Yaoshan Hao, Yingying Qin, Xinrui Qiao, Yuanhuai Han, and Hongying Li. 2024. "Mapping and Screening of Candidate Gene Regulating the Biomass Yield of Sorghum (Sorghum bicolor L.)" International Journal of Molecular Sciences 25, no. 2: 796. https://doi.org/10.3390/ijms25020796