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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. [PMID: 38255870 PMCID: PMC10815252 DOI: 10.3390/ijms25020796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2023] [Revised: 01/01/2024] [Accepted: 01/03/2024] [Indexed: 01/24/2024] Open
Abstract
Biomass yield is one of the important traits of sorghum, which is greatly affected by leaf morphology. In this study, a lobed-leaf mutant (sblob) was screened and identified, and its F2 inbred segregating line was constructed. Subsequently, MutMap and whole-genome sequencing were employed to identify the candidate gene (sblob1), the locus of which is Sobic.003G010300. Pfam and homologous analysis indicated that sblob1 encodes a Cytochrome P450 protein and plays a crucial role in the plant serotonin/melatonin biosynthesis pathway. Structural and functional changes in the sblob1 protein were elucidated. Hormone measurements revealed that sblob1 regulates both leaf morphology and sorghum biomass through regulation of the melatonin metabolic pathway. These findings provide valuable insights for further research and the enhancement of breeding programs, emphasizing the potential to optimize biomass yield in sorghum cultivation.
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Affiliation(s)
- Mao Li
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Life Sciences, Shanxi Agricultural University, Taigu, Jinzhong 030800, China;
| | - Qizhe Cai
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Agriculture, Shanxi Agricultural University, Taigu, Jinzhong 030800, China
| | - Yinpei Liang
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Agriculture, Shanxi Agricultural University, Taigu, Jinzhong 030800, China
| | - Yaofei Zhao
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Agriculture, Shanxi Agricultural University, Taigu, Jinzhong 030800, China
| | - Yaoshan Hao
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Life Sciences, Shanxi Agricultural University, Taigu, Jinzhong 030800, China;
| | - Yingying Qin
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Life Sciences, Shanxi Agricultural University, Taigu, Jinzhong 030800, China;
| | - Xinrui Qiao
- College of Life Sciences, Shanxi Agricultural University, Taigu, Jinzhong 030800, China;
| | - Yuanhuai Han
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Agriculture, Shanxi Agricultural University, Taigu, Jinzhong 030800, China
| | - Hongying Li
- Shanxi Key Laboratory of Minor Crops Germplasm Innovation and Molecular Breeding, Shanxi Agricultural University, Taigu, Jinzhong 030800, China; (M.L.); (Q.C.); (Y.L.); (Y.Z.); (Y.H.); (Y.Q.)
- College of Agriculture, Shanxi Agricultural University, Taigu, Jinzhong 030800, China
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Penta-Primer Amplification Refractory Mutation System (PARMS) with Direct PCR-Based SNP Marker-Assisted Selection (D-MAS). Methods Mol Biol 2023; 2638:327-336. [PMID: 36781653 DOI: 10.1007/978-1-0716-3024-2_23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/15/2023]
Abstract
The penta-primer amplification refractory mutation system (PARMS) is a high-throughput, low-cost, and automated genotyping assay system that utilizes competitive allele-specific polymerase chain reaction (AS-PCR) combined with a homogeneous fluorescence-based reporting system to detect genetic variation occurring at single-nucleotide polymorphism (SNP). It is flexible in terms of the number of SNPs and samples to be analyzed, and the whole process only needs standard liquid handling, thermal cycling instruments, and plate reading instruments, which are present in many labs. Its compatibility with DNA samples prepared from a variety of sources and extraction technologies, such as alkaline lysis, makes it suitable for a direct PCR-based SNP marker-assisted selection system (D-MAS), a simple, cost- and labor-saving, and robust SNP genotyping system. It combines rapid and high-throughput DNA extraction through modified alkaline lysis with PARMS to dramatically reduce the time of manual operation and result analysis in the molecular breeding of major crops.
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Liang H, He Q, Zhang H, Zhi H, Tang S, Wang H, Meng Q, Jia G, Chang J, Diao X. Identification and haplotype analysis of SiCHLI: a gene for yellow-green seedling as morphological marker to accelerate foxtail millet (Setaria italica) hybrid breeding. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2023; 136:24. [PMID: 36739566 DOI: 10.1007/s00122-023-04309-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2022] [Accepted: 01/27/2023] [Indexed: 06/18/2023]
Abstract
We cloned and developed functional markers for the SiCHLI gene, which is responsible for the yellow-green color of leaves in foxtail millet, a frequently used marker trait in the hybrid breeding of foxtail millet by using bulked segregant analysis sequencing and haplotype analysis on the F2 and core-collected nature populations. The color of leaves has been widely used as a marker for the hybrid breeding of foxtail millet; however, few related gene have been cloned to date. Here, we used two F2 populations generated from crosses between the highly male-sterile material 125A with yellow-green leaves, and CG58 and S410, which have green leaves, to identify the genes underlying the yellow-green color of the leaves of foxtail millet. The leaves of 125A seedlings were yellow-green, but they became green at the heading stage. The content of chlorophyll a and chlorophyll b was lower, the number of thylakoid lamellae and grana was reduced, and the chloroplasts was more rounded in 125A than in S410 at the yellow-green leaf stage; however, no differences were observed between 125A and S410 in these traits and photosynthetic at the heading stage. Bulked segregant analysis and map-based cloning revealed that the SiCHLI gene is responsible for the leaf colors of 125A. A nonsynonymous mutation (C/T) in exon 3 causes yellow-green leaves in 125A at the seedling stage. Haplotype analysis of the SiCHLI gene in 596 core collected accessions revealed a new haplotype associated with high photosynthetic metabolic potential at the heading and mature stages, which could be used to enhance sterile lines with yellow-green leaves. We developed a functional marker that will facilitate the identification of foxtail millet accessions with the different types of yellow-green leaves. Generally, our study provides new genetic resources to guide the future marker-assisted or target-base editing in foxtail millet hybrid breeding.
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Affiliation(s)
- Hongkai Liang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Qiang He
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Hui Zhang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Hui Zhi
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Sha Tang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Hailong Wang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Qiang Meng
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Guanqing Jia
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China
| | - Jinhua Chang
- College of Agronomy, Agricultural University of Hebei, Baoding, 071001, China
| | - Xianmin Diao
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, Haidian, China.
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