1
|
Liu Y, Li H, Liu J, Wang Y, Jiang C, Zhou Z, Zhuo L, Li W, Fernie AR, Jackson D, Yan J, Luo Y. The additive function of YIGE2 and YIGE1 in regulating maize ear length. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024. [PMID: 38804053 DOI: 10.1111/tpj.16851] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Revised: 05/06/2024] [Accepted: 05/10/2024] [Indexed: 05/29/2024]
Abstract
Ear length (EL) is a key trait that greatly contributes to yield in maize. Although dozens of EL quantitative trait loci have been mapped, very few causal genes have been cloned, and the molecular mechanisms remain largely unknown. Our previous study showed that YIGE1 is involved in sugar and auxin pathways to regulate ear inflorescence meristem (IM) development and thus affects EL in maize. Here, we reveal that YIGE2, the paralog of YIGE1, regulates maize ear development and EL through auxin pathway. Knockout of YIGE2 causes a significant decrease of auxin level, IM length, floret number, EL, and grain yield. yige1 yige2 double mutants had even shorter IM and ears implying that these two genes redundantly regulate IM development and EL. The genes controlling auxin levels are differential expressed in yige1 yige2 double mutants, leading to lower auxin level. These results elucidated the critical role of YIGE2 and the redundancy between YIGE2 and YIGE1 in maize ear development, providing a new genetic resource for maize yield improvement.
Collapse
Affiliation(s)
- Yu Liu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Huinan Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Jie Liu
- Yazhouwan National Laboratory, Sanya, 572024, China
| | - Yuebin Wang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Chenglin Jiang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Ziqi Zhou
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Lin Zhuo
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Wenqiang Li
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| | - Alisdair R Fernie
- Department of Molecular Physiology, Max-Planck-Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - David Jackson
- Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, 11724, USA
| | - Jianbing Yan
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- Yazhouwan National Laboratory, Sanya, 572024, China
| | - Yun Luo
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
| |
Collapse
|
2
|
Bi Y, Jiang F, Zhang Y, Li Z, Kuang T, Shaw RK, Adnan M, Li K, Fan X. Identification of a novel marker and its associated laccase gene for regulating ear length in tropical and subtropical maize lines. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024; 137:94. [PMID: 38578443 PMCID: PMC10997716 DOI: 10.1007/s00122-024-04587-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2023] [Accepted: 02/20/2024] [Indexed: 04/06/2024]
Abstract
KEY MESSAGE This study revealed the identification of a novel gene, Zm00001d042906, that regulates maize ear length by modulating lignin synthesis and reported a molecular marker for selecting maize lines with elongated ears. Maize ear length has garnered considerable attention due to its high correlation with yield. In this study, six maize inbred lines of significant importance in maize breeding were used as parents. The temperate maize inbred line Ye107, characterized by a short ear, was crossed with five tropical or subtropical inbred lines featuring longer ears, creating a multi-parent population displaying significant variations in ear length. Through genome-wide association studies and mutation analysis, the A/G variation at SNP_183573532 on chromosome 3 was identified as an effective site for discriminating long-ear maize. Furthermore, the associated gene Zm00001d042906 was found to correlate with maize ear length. Zm00001d042906 was functionally annotated as a laccase (Lac4), which showed activity and influenced lignin synthesis in the midsection cells of the cob, thereby regulating maize ear length. This study further reports a novel molecular marker and a new gene that can assist maize breeding programs in selecting varieties with elongated ears.
Collapse
Affiliation(s)
- Yaqi Bi
- Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, 650093, China
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Fuyan Jiang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Yudong Zhang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Ziwei Li
- Dehong Teachers' College, Luxi, 678400, China
| | - Tianhui Kuang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Ranjan K Shaw
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Muhammad Adnan
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China
| | - Kunzhi Li
- Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, 650093, China.
| | - Xingming Fan
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, 650205, China.
| |
Collapse
|
3
|
Feng X, Guan H, Wen Y, Zhou H, Xing X, Li Y, Zheng D, Wang Q, Zhang W, Xiong H, Hu Y, Jia L, Luo S, Zhang X, Guo W, Wu F, Xu J, Liu Y, Lu Y. Profiling the selected hotspots for ear traits in two maize-teosinte populations. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2024; 137:74. [PMID: 38451289 DOI: 10.1007/s00122-024-04554-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Accepted: 01/12/2024] [Indexed: 03/08/2024]
Abstract
KEY MESSAGE Eight selected hotspots related to ear traits were identified from two maize-teosinte populations. Throughout the history of maize cultivation, ear-related traits have been selected. However, little is known about the specific genes involved in shaping these traits from their origins in the wild progenitor, teosinte, to the characteristics observed in modern maize. In this study, five ear traits (kernel row number [KRN], ear length [EL], kernel number per row [KNR], cob diameter [CD], and ear diameter [ED]) were investigated, and eight quantitative trait loci (QTL) hotspots were identified in two maize-teosinte populations. Notably, our findings revealed a significant enrichment of genes showing a selection signature and expressed in the ear in qbdCD1.1, qbdCD5.1, qbpCD2.1, qbdED1.1, qbpEL1.1, qbpEL5.1, qbdKNR1.1, and qbdKNR10.1, suggesting that these eight QTL are selected hotspots involved in shaping the maize ear. By combining the results of the QTL analysis with data from previous genome-wide association study (GWAS) involving two natural panels, we identified eight candidate selected genes related to KRN, KNR, CD, and ED. Among these, considering their expression pattern and sequence variation, Zm00001d025111, encoding a WD40/YVTN protein, was proposed as a positive regulator of KNR. This study presents a framework for understanding the genomic distribution of selected loci crucial in determining ear-related traits.
Collapse
Affiliation(s)
- Xuanjun Feng
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, 611130, Sichuan, China
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Huarui Guan
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Ying Wen
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Hanmei Zhou
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Xiaobin Xing
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Yinzhi Li
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Dan Zheng
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Qingjun Wang
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Weixiao Zhang
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Hao Xiong
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Yue Hu
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Li Jia
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Shuang Luo
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Xuemei Zhang
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Wei Guo
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Fengkai Wu
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Jie Xu
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Yaxi Liu
- Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China
| | - Yanli Lu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Wenjiang, 611130, Sichuan, China.
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, 611130, Sichuan, China.
| |
Collapse
|
4
|
Shanmugaraj N, Rajaraman J, Kale S, Kamal R, Huang Y, Thirulogachandar V, Garibay-Hernández A, Budhagatapalli N, Tandron Moya YA, Hajirezaei MR, Rutten T, Hensel G, Melzer M, Kumlehn J, von Wirén N, Mock HP, Schnurbusch T. Multilayered regulation of developmentally programmed pre-anthesis tip degeneration of the barley inflorescence. THE PLANT CELL 2023; 35:3973-4001. [PMID: 37282730 PMCID: PMC10615218 DOI: 10.1093/plcell/koad164] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Revised: 04/17/2023] [Accepted: 06/04/2023] [Indexed: 06/08/2023]
Abstract
Leaf and floral tissue degeneration is a common feature in plants. In cereal crops such as barley (Hordeum vulgare L.), pre-anthesis tip degeneration (PTD) starts with growth arrest of the inflorescence meristem dome, which is followed basipetally by the degeneration of floral primordia and the central axis. Due to its quantitative nature and environmental sensitivity, inflorescence PTD constitutes a complex, multilayered trait affecting final grain number. This trait appears to be highly predictable and heritable under standardized growth conditions, consistent with a developmentally programmed mechanism. To elucidate the molecular underpinnings of inflorescence PTD, we combined metabolomic, transcriptomic, and genetic approaches to show that barley inflorescence PTD is accompanied by sugar depletion, amino acid degradation, and abscisic acid responses involving transcriptional regulators of senescence, defense, and light signaling. Based on transcriptome analyses, we identified GRASSY TILLERS1 (HvGT1), encoding an HD-ZIP transcription factor, as an important modulator of inflorescence PTD. A gene-edited knockout mutant of HvGT1 delayed PTD and increased differentiated apical spikelets and final spikelet number, suggesting a possible strategy to increase grain number in cereals. We propose a molecular framework that leads to barley PTD, the manipulation of which may increase yield potential in barley and other related cereals.
Collapse
Affiliation(s)
- Nandhakumar Shanmugaraj
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Jeyaraman Rajaraman
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Sandip Kale
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Roop Kamal
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Yongyu Huang
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Venkatasubbu Thirulogachandar
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Adriana Garibay-Hernández
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Nagaveni Budhagatapalli
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Yudelsy Antonia Tandron Moya
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Mohammed R Hajirezaei
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Twan Rutten
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Götz Hensel
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Michael Melzer
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Jochen Kumlehn
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Nicolaus von Wirén
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Hans-Peter Mock
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
| | - Thorsten Schnurbusch
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, OT Gatersleben, Seeland 06466,Germany
- Faculty of Natural Sciences III, Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences, Halle 06120,Germany
| |
Collapse
|
5
|
Zhou M, Wang G, Bai R, Zhao H, Ge Z, Shi H. The self-association of cytoplasmic malate dehydrogenase 1 promotes malate biosynthesis and confers disease resistance in cassava. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 201:107814. [PMID: 37321041 DOI: 10.1016/j.plaphy.2023.107814] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2023] [Revised: 05/31/2023] [Accepted: 06/01/2023] [Indexed: 06/17/2023]
Abstract
Malate dehydrogenase (MDH) as an essential metabolic enzyme is widely involved in plant developmental processes. However, the direct relationship between its structural basis and in vivo roles especially in plant immunity remains elusive. In this study, we found that cytoplasmic cassava (Manihot esculenta, Me) MDH1 was essential for plant disease resistance against cassava bacterial blight (CBB). Further investigation revealed that MeMDH1 positively modulated cassava disease resistance, accompanying the regulation of salicylic acid (SA) accumulation and pathogensis-related protein 1 (MePR1) expression. Notably, the metabolic product of MeMDH1 (malate) also improved disease resistance in cassava, and its application rescued the disease susceptibility and decreased immune responses of MeMDH1-silenced plants, indicating that malate was responsible for MeMDH1-mediated disease resistance. Interestingly, MeMDH1 relied on Cys330 residues to form homodimer, which was directly related with MeMDH1 enzyme activity and the corresponding malate biosynthesis. The crucial role of Cys330 residue in MeMDH1 was further confirmed by in vivo functional comparison between overexpression of MeMDH1 and MeMDH1C330A in cassava disease resistance. Taken together, this study highlights that MeMDH1 confers improved plant disease resistance through protein self-association to promote malate biosynthesis, extending the knowledge of the relationship between its structure and cassava disease resistance.
Collapse
Affiliation(s)
- Mengmeng Zhou
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China
| | - Guanqi Wang
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China
| | - Ruoyu Bai
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China
| | - Huiping Zhao
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China
| | - Zhongyuan Ge
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China
| | - Haitao Shi
- Sanya Nanfan Research Institute of Hainan University, Key Laboratory of Biotechnology of Salt Tolerant Crops of Hainan Province, College of Tropical Crops, Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Hainan province, China; National Key Laboratory for Tropical Crop Breeding, Hainan University, Hainan province, China; Hainan Yazhou Bay Seed Laboratory, Sanya, Hainan province, China.
| |
Collapse
|
6
|
Dong Z, Wang Y, Bao J, Li Y, Yin Z, Long Y, Wan X. The Genetic Structures and Molecular Mechanisms Underlying Ear Traits in Maize ( Zea mays L.). Cells 2023; 12:1900. [PMID: 37508564 PMCID: PMC10378120 DOI: 10.3390/cells12141900] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 07/12/2023] [Accepted: 07/13/2023] [Indexed: 07/30/2023] Open
Abstract
Maize (Zea mays L.) is one of the world's staple food crops. In order to feed the growing world population, improving maize yield is a top priority for breeding programs. Ear traits are important determinants of maize yield, and are mostly quantitatively inherited. To date, many studies relating to the genetic and molecular dissection of ear traits have been performed; therefore, we explored the genetic loci of the ear traits that were previously discovered in the genome-wide association study (GWAS) and quantitative trait locus (QTL) mapping studies, and refined 153 QTL and 85 quantitative trait nucleotide (QTN) clusters. Next, we shortlisted 19 common intervals (CIs) that can be detected simultaneously by both QTL mapping and GWAS, and 40 CIs that have pleiotropic effects on ear traits. Further, we predicted the best possible candidate genes from 71 QTL and 25 QTN clusters that could be valuable for maize yield improvement.
Collapse
Affiliation(s)
- Zhenying Dong
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
- Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Zhongzhi International Institute of Agricultural Biosciences, Beijing 100192, China
| | - Yanbo Wang
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
| | - Jianxi Bao
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
| | - Ya’nan Li
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
| | - Zechao Yin
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
| | - Yan Long
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
- Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Zhongzhi International Institute of Agricultural Biosciences, Beijing 100192, China
| | - Xiangyuan Wan
- Research Institute of Biology and Agriculture, Shunde Innovation School, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China; (Z.D.)
- Beijing Engineering Laboratory of Main Crop Bio-Tech Breeding, Beijing International Science and Technology Cooperation Base of Bio-Tech Breeding, Zhongzhi International Institute of Agricultural Biosciences, Beijing 100192, China
| |
Collapse
|
7
|
Jiang F, Liu L, Li Z, Bi Y, Yin X, Guo R, Wang J, Zhang Y, Shaw RK, Fan X. Identification of Candidate QTLs and Genes for Ear Diameter by Multi-Parent Population in Maize. Genes (Basel) 2023; 14:1305. [PMID: 37372485 DOI: 10.3390/genes14061305] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2023] [Revised: 06/06/2023] [Accepted: 06/17/2023] [Indexed: 06/29/2023] Open
Abstract
Ear diameter (ED) is a critical component of grain yield (GY) in maize (Zea mays L.). Studying the genetic basis of ED in maize is of great significance in enhancing maize GY. Against this backdrop, this study was framed to (1) map the ED-related quantitative trait locus (QTL) and SNPs associated with ED; and (2) identify putative functional genes that may affect ED in maize. To accomplish this, an elite maize inbred line, Ye107, which belongs to the Reid heterotic group, was used as a common parent and crossed with seven elite inbred lines from three different heterotic groups (Suwan1, Reid, and nonReid) that exhibited abundant genetic variation in ED. This led to the construction of a multi-parent population consisting of 1215 F7 recombinant inbred lines (F7RILs). A genome-wide association study (GWAS) and linkage analysis were then conducted for the multi-parent population using 264,694 high-quality SNPs generated via the genotyping-by-sequencing method. Our study identified a total of 11 SNPs that were significantly associated with ED through the GWAS, and three QTLs were revealed by the linkage analysis for ED. The major QTL on chromosome 1 was co-identified in the region by the GWAS at SNP_143985532. SNP_143985532, located upstream of the Zm00001d030559 gene, encodes a callose synthase that is expressed in various tissues, with the highest expression level in the maize ear primordium. Haplotype analysis indicated that the haplotype B (allele AA) of Zm00001d030559 was positively correlated with ED. The candidate genes and SNPs identified in this study provide crucial insights for future studies on the genetic mechanism of maize ED formation, cloning of ED-related genes, and genetic improvement of ED. These results may help develop important genetic resources for enhancing maize yield through marker-assisted breeding.
Collapse
Affiliation(s)
- Fuyan Jiang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Li Liu
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Ziwei Li
- Yunnan Dehong Dai and Jingpo Nationality Institute of Agricultural Sciences, Mangshi 678400, China
| | - Yaqi Bi
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Xingfu Yin
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Ruijia Guo
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Jing Wang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Yudong Zhang
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Ranjan Kumar Shaw
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| | - Xingming Fan
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming 650205, China
| |
Collapse
|
8
|
Adel S, Carels N. Plant Tolerance to Drought Stress with Emphasis on Wheat. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12112170. [PMID: 37299149 DOI: 10.3390/plants12112170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Revised: 03/16/2023] [Accepted: 03/29/2023] [Indexed: 06/12/2023]
Abstract
Environmental stresses, such as drought, have negative effects on crop yield. Drought is a stress whose impact tends to increase in some critical regions. However, the worldwide population is continuously increasing and climate change may affect its food supply in the upcoming years. Therefore, there is an ongoing effort to understand the molecular processes that may contribute to improving drought tolerance of strategic crops. These investigations should contribute to delivering drought-tolerant cultivars by selective breeding. For this reason, it is worthwhile to review regularly the literature concerning the molecular mechanisms and technologies that could facilitate gene pyramiding for drought tolerance. This review summarizes achievements obtained using QTL mapping, genomics, synteny, epigenetics, and transgenics for the selective breeding of drought-tolerant wheat cultivars. Synthetic apomixis combined with the msh1 mutation opens the way to induce and stabilize epigenomes in crops, which offers the potential of accelerating selective breeding for drought tolerance in arid and semi-arid regions.
Collapse
Affiliation(s)
- Sarah Adel
- Genetic Department, Faculty of Agriculture, Ain Shams University, Cairo 11241, Egypt
| | - Nicolas Carels
- Laboratory of Biological System Modeling, Center of Technological Development for Health (CDTS), Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro 21040-361, Brazil
| |
Collapse
|
9
|
Franco J. From the archives: Ear apical degeneration 1 is essential for maize ear development, SHOOT MERISTEMLESS regulates floral fate, and the role of profilin in pollen tube growth. THE PLANT CELL 2023; 35:1956-1957. [PMID: 36929880 DOI: 10.1093/plcell/koad080] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Revised: 03/09/2023] [Accepted: 03/09/2023] [Indexed: 05/30/2023]
Affiliation(s)
- Jessica Franco
- Assistant Features Editor, The Plant Cell, American Society of Plant Biologists, USA
- Department of Plant Pathology, Washington State University, Pullman, WA, USA
| |
Collapse
|
10
|
Li Q, Liu N, Wu C. Novel insights into maize (Zea mays) development and organogenesis for agricultural optimization. PLANTA 2023; 257:94. [PMID: 37031436 DOI: 10.1007/s00425-023-04126-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Accepted: 03/22/2023] [Indexed: 06/19/2023]
Abstract
In maize, intrinsic hormone activities and sap fluxes facilitate organogenesis patterning and plant holistic development; these hormone movements should be a primary focus of developmental biology and agricultural optimization strategies. Maize (Zea mays) is an important crop plant with distinctive life history characteristics and structural features. Genetic studies have extended our knowledge of maize developmental processes, genetics, and molecular ecophysiology. In this review, the classical life cycle and life history strategies of maize are analyzed to identify spatiotemporal organogenesis properties and develop a definitive understanding of maize development. The actions of genes and hormones involved in maize organogenesis and sex determination, along with potential molecular mechanisms, are investigated, with findings suggesting central roles of auxin and cytokinins in regulating maize holistic development. Furthermore, investigation of morphological and structural characteristics of maize, particularly node ubiquity and the alternate attachment pattern of lateral organs, yields a novel regulatory model suggesting that maize organ initiation and subsequent development are derived from the stimulation and interaction of auxin and cytokinin fluxes. Propositions that hormone activities and sap flow pathways control organogenesis are thoroughly explored, and initiation and development processes of distinctive maize organs are discussed. Analysis of physiological factors driving hormone and sap movement implicates cues of whole-plant activity for hormone and sap fluxes to stimulate maize inflorescence initiation and organ identity determination. The physiological origins and biogenetic mechanisms underlying maize floral sex determination occurring at the tassel and ear spikelet are thoroughly investigated. The comprehensive outline of maize development and morphogenetic physiology developed in this review will enable farmers to optimize field management and will provide a reference for de novo crop domestication and germplasm improvement using genome editing biotechnologies, promoting agricultural optimization.
Collapse
Affiliation(s)
- Qinglin Li
- Crop Genesis and Novel Agronomy Center, Yangling, 712100, Shaanxi, China.
| | - Ning Liu
- Shandong ZhongnongTiantai Seed Co., Ltd, Pingyi, 273300, Shandong, China
| | - Chenglai Wu
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Tai'an, 271018, Shandong, China.
- College of Agronomy, Shandong Agricultural University, Tai'an, 271018, Shandong, China.
| |
Collapse
|
11
|
Wen YJ, Wu X, Wang S, Han L, Shen B, Wang Y, Zhang J. Identification of QTN-by-environment interactions for yield related traits in maize under multiple abiotic stresses. FRONTIERS IN PLANT SCIENCE 2023; 14:1050313. [PMID: 36875585 PMCID: PMC9975332 DOI: 10.3389/fpls.2023.1050313] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Accepted: 02/01/2023] [Indexed: 06/18/2023]
Abstract
INTRODUCTION Quantitative trait nucleotide (QTN)-by-environment interactions (QEIs) play an increasingly essential role in the genetic dissection of complex traits in crops as global climate change accelerates. The abiotic stresses, such as drought and heat, are the major constraints on maize yields. Multi-environment joint analysis can improve statistical power in QTN and QEI detection, and further help us to understand the genetic basis and provide implications for maize improvement. METHODS In this study, 3VmrMLM was applied to identify QTNs and QEIs for three yield-related traits (grain yield, anthesis date, and anthesis-silking interval) of 300 tropical and subtropical maize inbred lines with 332,641 SNPs under well-watered and drought and heat stresses. RESULTS Among the total 321 genes around 76 QTNs and 73 QEIs identified in this study, 34 known genes were reported in previous maize studies to be truly associated with these traits, such as ereb53 (GRMZM2G141638) and thx12 (GRMZM2G016649) associated with drought stress tolerance, and hsftf27 (GRMZM2G025685) and myb60 (GRMZM2G312419) associated with heat stress. In addition, among 127 homologs in Arabidopsis out of 287 unreported genes, 46 and 47 were found to be significantly and differentially expressed under drought vs well-watered treatments, and high vs. normal temperature treatments, respectively. Using functional enrichment analysis, 37 of these differentially expressed genes were involved in various biological processes. Tissue-specific expression and haplotype difference analysis further revealed 24 candidate genes with significantly phenotypic differences across gene haplotypes under different environments, of which the candidate genes GRMZM2G064159, GRMZM2G146192, and GRMZM2G114789 around QEIs may have gene-by-environment interactions for maize yield. DISCUSSION All these findings may provide new insights for breeding in maize for yield-related traits adapted to abiotic stresses.
Collapse
Affiliation(s)
- Yang-Jun Wen
- College of Science, Nanjing Agricultural University, Nanjing, China
- Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| | - Xinyi Wu
- College of Science, Nanjing Agricultural University, Nanjing, China
| | - Shengmeng Wang
- College of Science, Nanjing Agricultural University, Nanjing, China
| | - Le Han
- College of Science, Nanjing Agricultural University, Nanjing, China
| | - Bolin Shen
- College of Science, Nanjing Agricultural University, Nanjing, China
| | - Yuan Wang
- College of Science, Nanjing Agricultural University, Nanjing, China
| | - Jin Zhang
- College of Science, Nanjing Agricultural University, Nanjing, China
- Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China
| |
Collapse
|
12
|
Dai D, Zhang H, He L, Chen J, Du C, Liang M, Zhang M, Wang H, Ma L. Panicle Apical Abortion 7 Regulates Panicle Development in Rice ( Oryza sativa L.). Int J Mol Sci 2022; 23:ijms23169487. [PMID: 36012754 PMCID: PMC9409353 DOI: 10.3390/ijms23169487] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2022] [Revised: 08/08/2022] [Accepted: 08/19/2022] [Indexed: 11/16/2022] Open
Abstract
The number of grains per panicle significantly contributes to rice yield, but the regulatory mechanism remains largely unknown. Here, we reported a loss-of-function mutant, panicle apical abortion 7 (paa7), which exhibited panicle abortion and degeneration of spikelets on the apical panicles during the late stage of young panicle development in rice. High accumulations of H2O2 in paa7 caused programmed cell death (PCD) accompanied by nuclear DNA fragmentation in the apical spikelets. Map-based cloning revealed that the 3 bp "AGC" insertion and 4 bp "TCTC" deletion mutation of paa7 were located in the 3'-UTR regions of LOC_Os07g47330, which was confirmed through complementary assays and overexpressed lines. Interestingly, LOC_Os07g47330 is known as FRIZZY PANICLE (FZP). Thus, PAA7 could be a novel allele of FZP. Moreover, the severe damage for panicle phenotype in paa7/lax2 double mutant indicated that PAA7 could crosstalk with Lax Panicle 2 (LAX2). These findings suggest that PAA7 regulates the development of apical spikelets and interacts with LAX2 to regulate panicle development in rice.
Collapse
Affiliation(s)
- Dongqing Dai
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Huali Zhang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Lei He
- Institute of Food Crops, Key Laboratory of Jiangsu Province for Agrobiology, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China
| | - Junyu Chen
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Chengxing Du
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Minmin Liang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Meng Zhang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Huimei Wang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
| | - Liangyong Ma
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 310006, China
- Correspondence: ; Tel.: +86-0571-63370323
| |
Collapse
|
13
|
Ali A, Wu T, Xu Z, Riaz A, Alqudah AM, Iqbal MZ, Zhang H, Liao Y, Chen X, Liu Y, Mujtaba T, Zhou H, Wang W, Xu P, Wu X. Phytohormones and Transcriptome Analyses Revealed the Dynamics Involved in Spikelet Abortion and Inflorescence Development in Rice. Int J Mol Sci 2022; 23:ijms23147887. [PMID: 35887236 PMCID: PMC9324563 DOI: 10.3390/ijms23147887] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2022] [Revised: 07/06/2022] [Accepted: 07/13/2022] [Indexed: 02/05/2023] Open
Abstract
Panicle degeneration, sometimes known as abortion, causes heavy losses in grain yield. However, the mechanism of naturally occurring panicle abortion is still elusive. In a previous study, we characterized a mutant, apical panicle abortion1331 (apa1331), exhibiting abortion in apical spikelets starting from the 6 cm stage of panicle development. In this study, we have quantified the five phytohormones, gibberellins (GA), auxins (IAA), abscisic acid (ABA), cytokinins (CTK), and brassinosteroids (BR), in the lower, middle, and upper parts of apa1331 and compared these with those exhibited in its wild type (WT). In apa331, the lower and middle parts of the panicle showed contrasting concentrations of all studied phytohormones, but highly significant changes in IAA and ABA, compared to the upper part of the panicle. A comparative transcriptome of apa1331 and WT apical spikelets was performed to explore genes causing the physiological basis of spikelet abortion. The differential expression analysis revealed a significant downregulation and upregulation of 1587 and 978 genes, respectively. Hierarchical clustering of differentially expressed genes (DEGs) revealed the correlation of gene ontology (GO) terms associated with antioxidant activity, peroxidase activity, and oxidoreductase activity. KEGG pathway analysis using parametric gene set enrichment analysis (PGSEA) revealed the downregulation of the biological processes, including cell wall polysaccharides and fatty acids derivatives, in apa1331 compared to its WT. Based on fold change (FC) value and high variation in expression during late inflorescence, early inflorescence, and antherdevelopment, we predicted a list of novel genes, which presumably can be the potential targets of inflorescence development. Our study not only provides novel insights into the role of the physiological dynamics involved in panicle abortion, but also highlights the potential targets involved in reproductive development.
Collapse
Affiliation(s)
- Asif Ali
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Tingkai Wu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Zhengjun Xu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Asad Riaz
- College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Ahmad M. Alqudah
- Department of Agroecology, Aarhus University at Falkebjerg, Forsøgsvej 1, 4200 Slagelse, Denmark;
| | - Muhammad Zafar Iqbal
- Department of Grassland Science, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China;
| | - Hongyu Zhang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Yongxiang Liao
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Xiaoqiong Chen
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Yutong Liu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Tahir Mujtaba
- Department of Biotechnology, School of Natural Sciences and Engineering, University of Verona, 37134 Verona, Italy;
| | - Hao Zhou
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Wenming Wang
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
| | - Peizhou Xu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
- Correspondence: (P.X.); (X.W.)
| | - Xianjun Wu
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Rice Research Institute, Sichuan Agricultural University, Chengdu 611130, China; (A.A.); (T.W.); (Z.X.); (H.Z.); (Y.L.); (X.C.); (Y.L.); (H.Z.); (W.W.)
- Correspondence: (P.X.); (X.W.)
| |
Collapse
|