Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean
Phosphorus (P) deficiency is one of the major factors limiting soybean production, and approximately 90% of P absorbed by plants occurs during the reproductive stage. Thus, it is important to understand the genetic mechanism underlying soybean low-P tolerance, especially in the mature period. Here,...
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MDPI AG
2022-08-01
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| Series: | Agronomy |
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| Online Access: | https://www.mdpi.com/2073-4395/12/9/2031 |
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| author | Qing Wang Lihua Ning Wenqing Yu Wei Zhao Fang Huang Deyue Yu Hui Wang Hao Cheng |
| author_facet | Qing Wang Lihua Ning Wenqing Yu Wei Zhao Fang Huang Deyue Yu Hui Wang Hao Cheng |
| author_sort | Qing Wang |
| collection | DOAJ |
| description | Phosphorus (P) deficiency is one of the major factors limiting soybean production, and approximately 90% of P absorbed by plants occurs during the reproductive stage. Thus, it is important to understand the genetic mechanism underlying soybean low-P tolerance, especially in the mature period. Here, we evaluated six P-efficiency-related traits at maturity of 219 soybean accessions, namely, plant height (PH), node number of the main shoot (NN), branch number of the main shoot (BN), pod number per plant (PN), 100-seed weight (100SW), and seed yield per plant (SY), under normal-phosphorus (NP) and low-phosphorus (LP) conditions across two environments. Then, a genome-wide association study (GWAS) in conjunction with a high-density NJAU 355 K SoySNP array was performed. As a result, 27 P-efficiency-related single nucleotide polymorphisms (SNPs) were identified. Furthermore, two repeated SNPs, AX-93897192 and AX-93897200, located on chromosome 19 that were associated with both PH and NN were considered as stable SNPs associated with P deficiency, and the candidate gene <i>GmABCG39</i> was identified. This work will be helpful in breeding high-P-efficiency soybean varieties. |
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| issn | 2073-4395 |
| language | English |
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| publishDate | 2022-08-01 |
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| spelling | doaj.art-4c838ecc8b2140b089987d1c91f7b16f2023-11-23T14:36:13ZengMDPI AGAgronomy2073-43952022-08-01129203110.3390/agronomy12092031Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in SoybeanQing Wang0Lihua Ning1Wenqing Yu2Wei Zhao3Fang Huang4Deyue Yu5Hui Wang6Hao Cheng7National Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaInstitute of Crop Germplasm and Biotechnology, Provincial Key Laboratory of Agrobiology, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaNational Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, ChinaPhosphorus (P) deficiency is one of the major factors limiting soybean production, and approximately 90% of P absorbed by plants occurs during the reproductive stage. Thus, it is important to understand the genetic mechanism underlying soybean low-P tolerance, especially in the mature period. Here, we evaluated six P-efficiency-related traits at maturity of 219 soybean accessions, namely, plant height (PH), node number of the main shoot (NN), branch number of the main shoot (BN), pod number per plant (PN), 100-seed weight (100SW), and seed yield per plant (SY), under normal-phosphorus (NP) and low-phosphorus (LP) conditions across two environments. Then, a genome-wide association study (GWAS) in conjunction with a high-density NJAU 355 K SoySNP array was performed. As a result, 27 P-efficiency-related single nucleotide polymorphisms (SNPs) were identified. Furthermore, two repeated SNPs, AX-93897192 and AX-93897200, located on chromosome 19 that were associated with both PH and NN were considered as stable SNPs associated with P deficiency, and the candidate gene <i>GmABCG39</i> was identified. This work will be helpful in breeding high-P-efficiency soybean varieties.https://www.mdpi.com/2073-4395/12/9/2031soybeanP efficiencytraits at maturityGWAS<i>GmABCG39</i> |
| spellingShingle | Qing Wang Lihua Ning Wenqing Yu Wei Zhao Fang Huang Deyue Yu Hui Wang Hao Cheng Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean Agronomy soybean P efficiency traits at maturity GWAS <i>GmABCG39</i> |
| title | Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean |
| title_full | Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean |
| title_fullStr | Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean |
| title_full_unstemmed | Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean |
| title_short | Detection of Candidate Loci and Genes Related to Phosphorus Efficiency at Maturity through a Genome-Wide Association Study in Soybean |
| title_sort | detection of candidate loci and genes related to phosphorus efficiency at maturity through a genome wide association study in soybean |
| topic | soybean P efficiency traits at maturity GWAS <i>GmABCG39</i> |
| url | https://www.mdpi.com/2073-4395/12/9/2031 |
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