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Bhupenchandra I, Chongtham SK, Gangarani Devi A, Dutta P, Lamalakshmi E, Mohanty S, Choudhary AK, Das A, Sarika K, Kumar S, Yumnam S, Sagolsem D, Rupert Anand Y, Bhutia DD, Victoria M, Vinodh S, Tania C, Dhanachandra Sharma A, Deb L, Sahoo MR, Seth CS, Swapnil P, Meena M. Harnessing weedy rice as functional food and source of novel traits for crop improvement. PLANT, CELL & ENVIRONMENT 2024. [PMID: 38436101 DOI: 10.1111/pce.14868] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Revised: 02/12/2024] [Accepted: 02/15/2024] [Indexed: 03/05/2024]
Abstract
A relative of cultivated rice (Oryza sativa L.), weedy or red rice (Oryza spp.) is currently recognized as the dominant weed, leading to a drastic loss of yield of cultivated rice due to its highly competitive abilities like producing more tillers, panicles, and biomass with better nutrient uptake. Due to its high nutritional value, antioxidant properties (anthocyanin and proanthocyanin), and nutrient absorption ability, weedy rice is gaining immense research attentions to understand its genetic constitution to augment future breeding strategies and to develop nutrition-rich functional foods. Consequently, this review focuses on the unique gene source of weedy rice to enhance the cultivated rice for its crucial features like water use efficiency, abiotic and biotic stress tolerance, early flowering, and the red pericarp of the seed. It explores the debating issues on the origin and evolution of weedy rice, including its high diversity, signalling aspects, quantitative trait loci (QTL) mapping under stress conditions, the intricacy of the mechanism in the expression of the gene flow, and ecological challenges of nutrient removal by weedy rice. This review may create a foundation for future researchers to understand the gene flow between cultivated crops and weedy traits and support an improved approach for the applicability of several models in predicting multiomics variables.
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Affiliation(s)
- Ingudam Bhupenchandra
- ICAR-Farm Science Centre Tamenglong, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, Manipur, India
| | - Sunil Kumar Chongtham
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - Ayam Gangarani Devi
- ICAR Research Complex for North Eastern Hill Region, Tripura Centre Lembucherra, Tripura, India
| | - Pranab Dutta
- School of Crop Protection, College of Post Graduate Studies in Agricultural Sciences, Central Agricultural University (Imphal), Umiam, Meghalaya, India
| | - Elangbam Lamalakshmi
- ICAR Research Complex for North Eastern Hill Region, Sikkim Centre, Tadong, Sikkim, India
| | - Sansuta Mohanty
- Molecular Biology and Biotechnology Department, Faculty of Agricultural Sciences, Siksha O Anusandhan University, Bhubaneswar, Odisha, India
| | - Anil K Choudhary
- Division of Crop Production, ICAR-Central Potato Research Institute, Shimla, Himachal Pradesh, India
| | - Anup Das
- ICAR Research Complex for North Eastern Hill Region, Lembucherra, Tripura, India
| | - Konsam Sarika
- ICAR Research Complex for North Eastern Hill Region, Manipur Centre, Imphal, Manipur, India
| | - Sumit Kumar
- Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, Uttar Pradesh, India
- Department of Plant Pathology, B.M. College of Agriculture, Khandwa, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior, Madhya Pradesh, India
| | - Sonika Yumnam
- All India Coordinated Research Project on Chickpea, Central Agricultural University, Imphal, Manipur, India
| | - Diana Sagolsem
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - Y Rupert Anand
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - Dawa Dolma Bhutia
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - M Victoria
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - S Vinodh
- Multi Technology Testing Centre and Vocational Training Centre, College of Horticulture, Central Agricultural University, Bermiok, Sikkim, India
| | - Chongtham Tania
- ICAR Research Complex for North Eastern Hill Region, Manipur Centre, Imphal, Manipur, India
| | | | - Lipa Deb
- School of Crop Protection, College of Post Graduate Studies in Agricultural Sciences, Central Agricultural University (Imphal), Umiam, Meghalaya, India
| | - Manas Ranjan Sahoo
- ICAR Research Complex for North Eastern Hill Region, Manipur Centre, Imphal, Manipur, India
| | | | - Prashant Swapnil
- Department of Botany, School of Basic Science, Central University of Punjab, Bhatinda, Punjab, India
| | - Mukesh Meena
- Laboratory of Phytopathology and Microbial Biotechnology, Department of Botany, Mohanlal Sukhadia University, Udaipur, Rajasthan, India
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Jiang J, Song S, Hu C, Jing C, Xu Q, Li X, Zhang M, Hai M, Shen J, Zhang Y, Wang D, Dang X. QTL Detection and Candidate Gene Identification for Eating and Cooking Quality Traits in Rice ( Oryza sativa L.) via a Genome-Wide Association Study. Int J Mol Sci 2024; 25:630. [PMID: 38203801 PMCID: PMC10779416 DOI: 10.3390/ijms25010630] [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: 11/20/2023] [Revised: 12/25/2023] [Accepted: 12/30/2023] [Indexed: 01/12/2024] Open
Abstract
The eating and cooking quality (ECQ) directly affects the taste of rice, being closely related to factors such as gelatinization temperature (GT), gel consistency (GC) and amylose content (AC). Mining the quantitative trait loci (QTLs), and gene loci controlling ECQ-related traits is vital. A genome-wide association study on ECQ-related traits was conducted, combining 1.2 million single nucleotide polymorphisms (SNPs) with the phenotypic data of 173 rice accessions. Two QTLs for GT, one for GC and five for AC were identified, of which two were found in previously reported genes, and six were newly found. There were 28 positional candidate genes in the region of qAC11. Based on a linkage disequilibrium (LD) analysis, three candidate genes were screened within the LD region associated with AC. There were significant differences between the haplotypes of LOC_Os11g10170, but no significant differences were found for the other two genes. The qRT-PCR results showed that the gene expression levels in the accessions with high ACs were significantly larger than those in the accessions with low ACs at 35d and 42d after flowering. Hap 2 and Hap 3 of LOC_Os11g10170 reduced the AC by 13.09% and 10.77%, respectively. These results provide a theoretical and material basis for improving the ECQ of rice.
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Affiliation(s)
- Jianhua Jiang
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Shaojie Song
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Changmin Hu
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Chunyu Jing
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Qing Xu
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Xinru Li
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Mengyuan Zhang
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Mei Hai
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Jiaming Shen
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
- College of Agronomy, Anhui Agricultural University, Hefei 230036, China
| | - Ying Zhang
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Dezheng Wang
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
| | - Xiaojing Dang
- Anhui Province Key Laboratory of Rice Genetics and Breeding (Rice Research Institute), Anhui Academy of Agricultural Sciences, Hefei 230031, China
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Wang H, Peng J, Li Y, Xu L, Dai W, Zhao S. The role of walnut bZIP genes in explant browning. BMC Genomics 2023; 24:377. [PMID: 37407925 DOI: 10.1186/s12864-023-09492-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Accepted: 06/29/2023] [Indexed: 07/07/2023] Open
Abstract
BACKGROUND Basic leucine zipper (bZIP) proteins are important transcription factors in plants. To study the role of bZIP transcription factors in walnut explant browning, this study used bioinformatics software to analyze walnut bZIP gene family members, along with their transcript levels in different walnut tissues, to evaluate the transcriptional expression of this gene family during the primary culture of walnut explants and to reveal the mechanism of action of walnut bZIP genes in walnut explant browning. RESULTS The results identified 65 JrbZIP genes in the walnut genome, which were divided into 8 subfamilies and distributed on 16 chromosomes. The results of transcriptome data analysis showed that there were significant differences in the expression of four genes, namely, JrbZIP55, JrbZIP70, JrbZIP72, and JrbZIP88, under both vermiculite and agar culture conditions. There were multiple hormone (salicylic acid, abscisic acid, auxin, and gibberellin) signaling and regulatory elements that are responsive to stress (low temperature, stress, and defense) located in the promoter regions of JrbZIP55, JrbZIP70, JrbZIP72, and JrbZIP88. The walnut JrbZIP55 protein and Arabidopsis bZIP42 protein are highly homologous, and the proteins interacting with Arabidopsis bZIP42 include the AT2G19940 oxidoreductases, which act on aldehyde or oxygen-containing donors. CONCLUSION It is speculated that JrbZIP55 may participate in the regulation of browning in walnut explants.
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Affiliation(s)
- Hui Wang
- College of Life Sciences, Hebei Agricultural University, Baoding, 071001, China
| | - Jiali Peng
- College of Horticulture, Hebei Agricultural University, Baoding, 071001, China
| | - Yaoling Li
- College of Life Sciences, Hebei Agricultural University, Baoding, 071001, China
| | - Lishan Xu
- College of Life Sciences, Hebei Agricultural University, Baoding, 071001, China
| | - Wenqiang Dai
- College of Life Sciences, Hebei Agricultural University, Baoding, 071001, China
| | - Shugang Zhao
- College of Life Sciences, Hebei Agricultural University, Baoding, 071001, China.
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Dai L, Lu X, Shen L, Guo L, Zhang G, Gao Z, Zhu L, Hu J, Dong G, Ren D, Zhang Q, Zeng D, Qian Q, Li Q. Genome-wide association study reveals novel QTLs and candidate genes for seed vigor in rice. FRONTIERS IN PLANT SCIENCE 2022; 13:1005203. [PMID: 36388599 PMCID: PMC9645239 DOI: 10.3389/fpls.2022.1005203] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Accepted: 10/13/2022] [Indexed: 06/16/2023]
Abstract
Highly seed vigor (SV) is essential for rice direct seeding (DS). Understanding the genetic mechanism of SV-related traits could contribute to increasing the efficiency of DS. However, only a few genes responsible for SV have been determined in rice, and the regulatory network of SV remains obscure. In this study, the seed germination rate (GR), seedling shoot length (SL), and shoot fresh weight (FW) related to SV traits were measured, and a genome-wide association study (GWAS) was conducted to detect high-quality loci responsible for SV using a panel of 346 diverse accessions. A total of 51 significant SNPs were identified and arranged into six quantitative trait locus (QTL) regions, including one (qGR1-1), two (qSL1-1, qSL1-2), and three (qFW1-1, qFW4-1, and qFW7-1) QTLs associated with GR, SL, and FW respectively, which were further validated using chromosome segment substitution lines (CSSLs). Integrating gene expression, gene annotation, and haplotype analysis, we found 21 strong candidate genes significantly associated with SV. In addition, the SV-related functions of LOC_Os01g11270 and LOC_Os01g55240 were further verified by corresponding CRISPR/Cas9 gene-edited mutants. Thus, these results provide clues for elucidating the genetic basis of SV control. The candidate genes or QTLs would be helpful for improving DS by molecular marker-assisted selection (MAS) breeding in rice.
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Affiliation(s)
- Liping Dai
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Xueli Lu
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Lan Shen
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Longbiao Guo
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Guangheng Zhang
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Zhenyu Gao
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Li Zhu
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Jiang Hu
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Guojun Dong
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Deyong Ren
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Qiang Zhang
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Dali Zeng
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A & F University, Hangzhou, China
| | - Qian Qian
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
| | - Qing Li
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
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5
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Huang Y, Du L, Wang M, Ren M, Yu S, Yang Q. Multifaceted roles of zinc finger proteins in regulating various agronomic traits in rice. FRONTIERS IN PLANT SCIENCE 2022; 13:974396. [PMID: 35958192 PMCID: PMC9359907 DOI: 10.3389/fpls.2022.974396] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 06/28/2022] [Indexed: 06/15/2023]
Abstract
Rice is an important cereal crop, which provides staple food for more than half of the world's population. To meet the demand of the ever-growing population in the next few decades, an extra increase in rice yield is an urgent need. Given that various agronomic traits contribute to the yield of rice, deciphering the key regulators involved in multiple agronomic trait formation is particularly important. As a superfamily of transcription factors, zinc finger proteins participate in regulating multiple genes in almost every stage of rice growth and development. Therefore, understanding zinc finger proteins underlying regulatory network would provide insights into the regulation of agronomic traits in rice. To this end, we intend to summarize the current advances in zinc finger proteins, with emphasis on C2H2 and CCCH proteins, and then discuss their potential in improving rice yield.
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Affiliation(s)
- Yifeng Huang
- Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Science, Hangzhou, China
- Guangdong Province Key Laboratory of Plant Molecular Breeding, Guangzhou, China
| | - Longgang Du
- Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Science, Hangzhou, China
| | - Meixi Wang
- Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Science, Hangzhou, China
| | - Mengyun Ren
- Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Science, Hangzhou, China
| | - Shouwu Yu
- Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Science, Hangzhou, China
| | - Qianying Yang
- Division of Integrative Bioscience and Biotechnology, Department of Life Sciences, Pohang University of Science and Technology (POSTECH), Pohang-si, South Korea
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Gong D, He F, Liu J, Zhang C, Wang Y, Tian S, Sun C, Zhang X. Understanding of Hormonal Regulation in Rice Seed Germination. LIFE (BASEL, SWITZERLAND) 2022; 12:life12071021. [PMID: 35888110 PMCID: PMC9324290 DOI: 10.3390/life12071021] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 07/01/2022] [Accepted: 07/02/2022] [Indexed: 01/06/2023]
Abstract
Seed germination is a critical stage during the life cycle of plants. It is well known that germination is regulated by a series of internal and external factors, especially plant hormones. In Arabidopsis, many germination-related factors have been identified, while in rice, the important crop and monocot model species and the further molecular mechanisms and regulatory networks controlling germination still need to be elucidated. Hormonal signals, especially those of abscisic acid (ABA) and gibberellin (GA), play a dominant role in determining whether a seed germinates or not. The balance between the content and sensitivity of these two hormones is the key to the regulation of germination. In this review, we present the foundational knowledge of ABA and GA pathways obtained from germination research in Arabidopsis. Then, we highlight the current advances in the identification of the regulatory genes involved in ABA- or GA-mediated germination in rice. Furthermore, other plant hormones regulate seed germination, most likely by participating in the ABA or GA pathways. Finally, the results from some regulatory layers, including transcription factors, post-transcriptional regulations, and reactive oxygen species, are also discussed. This review aims to summarize our current understanding of the complex molecular networks involving the key roles of plant hormones in regulating the seed germination of rice.
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Affiliation(s)
- Diankai Gong
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
| | - Fei He
- Tianjin Key Laboratory of Crop Genetics and Breeding, Tianjin Crop Research Institute, Tianjin Academy of Agricultural Sciences, Tianjin 300384, China; (F.H.); (J.L.)
| | - Jingyan Liu
- Tianjin Key Laboratory of Crop Genetics and Breeding, Tianjin Crop Research Institute, Tianjin Academy of Agricultural Sciences, Tianjin 300384, China; (F.H.); (J.L.)
| | - Cheng Zhang
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
| | - Yanrong Wang
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
| | - Shujun Tian
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
| | - Chi Sun
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
| | - Xue Zhang
- Liaoning Rice Research Institute, Shenyang 110115, China; (D.G.); (C.Z.); (Y.W.); (S.T.); (C.S.)
- Correspondence: ; Tel.: +86-150-4020-6835
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7
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Xin W, Liu H, Yang L, Ma T, Wang J, Zheng H, Liu W, Zou D. BSA-Seq and Fine Linkage Mapping for the Identification of a Novel Locus (qPH9) for Mature Plant Height in Rice (Oryza sativa). RICE (NEW YORK, N.Y.) 2022; 15:26. [PMID: 35596038 PMCID: PMC9123124 DOI: 10.1186/s12284-022-00576-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Accepted: 05/13/2022] [Indexed: 05/11/2023]
Abstract
BACKGROUND Plant height is a key factor in the determination of rice yield since excessive height can easily cause lodging and reduce yield. Therefore, the identification and analysis of plant height-related genes to elucidate their physiological, biochemical, and molecular mechanisms have significant implications for rice breeding and production. RESULTS High-throughput quantitative trait locus (QTL) sequencing analysis of a 638-individual F2:3 mapping population resulted in the identification of a novel height-related QTL (qPH9), which was mapped to a 2.02-Mb region of Chromosome 9. Local QTL mapping, which was conducted using 13 single nucleotide polymorphism (SNP)-based Kompetitive allele-specific PCR (KASP) markers for the qPH9 region, and traditional linkage analysis, facilitated the localization of qPH9 to a 126-kb region that contained 15 genes. Subsequent haplotype and sequence analyses indicated that OsPH9 was the most probable candidate gene for plant height at this locus, and functional analysis of osph9 CRISPR/Cas9-generated OsPH9 knockout mutants supported this conclusion. CONCLUSION OsPH9 was identified as a novel regulatory gene associated with plant height in rice, along with a height-reducing allele in 'Dongfu-114' rice, thereby representing an important molecular target for rice improvement. The findings of the present study are expected to spur the investigation of genetic mechanisms underlying rice plant height and further the improvement of rice plant height through marker-assisted selection.
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Affiliation(s)
- Wei Xin
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - HuaLong Liu
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Luomiao Yang
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Tianze Ma
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Jingguo Wang
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Hongliang Zheng
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Wenxing Liu
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China
| | - Detang Zou
- Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China.
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Zhao J, Liu X, Wang M, Xie L, Wu Z, Yu J, Wang Y, Zhang Z, Jia Y, Liu Q. The miR528-D3 Module Regulates Plant Height in Rice by Modulating the Gibberellin and Abscisic Acid Metabolisms. RICE (NEW YORK, N.Y.) 2022; 15:27. [PMID: 35596029 PMCID: PMC9123139 DOI: 10.1186/s12284-022-00575-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Accepted: 05/13/2022] [Indexed: 05/02/2023]
Abstract
Plant height, as one of the important agronomic traits of rice, is closely related to yield. In recent years, plant height-related genes have been characterized and identified, among which the DWARF3 (D3) gene is one of the target genes of miR528, and regulates rice plant height and tillering mainly by affecting strigolactone (SL) signal transduction. However, it remains unknown whether the miR528 and D3 interaction functions in controlling plant height, and the underlying regulatory mechanism in rice. In this study, we found that the plant height, internode length, and cell length of internodes of d3 mutants and miR528-overexpressing (OE-miR528) lines were greatly shorter than WT, D3-overexpressing (OE-D3), and miR528 target mimicry (OE-MIM528) transgenic plants. Knockout of D3 gene (d3 mutants) or miR528-overexpressing (OE-miR528) triggers a substantial reduction of gibberellin (GA) content, but a significant increase of abscisic acid (ABA) accumulation than in WT. The d3 and OE-miR528 transgenic plants were much more sensitive to GA, but less sensitive to ABA than WT. Moreover, the expression level of GA biosynthesis-related key genes, including OsCPS1, OsCPS2, OsKO2 and OsKAO was remarkably higher in OE-D3 plants, while the NECD2 expression, a key gene involved in ABA biosynthesis, was significantly higher in d3 mutants than in WT and OE-D3 plants. The results indicate that the miR528-D3 module negatively regulates plant height in rice by modulating the GA and ABA homeostasis, thereby further affecting the elongation of internodes, and resulting in lower plant height, which adds a new regulatory role to the D3-mediated plant height controlling in rice.
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Affiliation(s)
- Juan Zhao
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Xing Liu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Mei Wang
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Lingjuan Xie
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Zhengxin Wu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Jiuming Yu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Yuchen Wang
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Zhiqiao Zhang
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Yufang Jia
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China
| | - Qingpo Liu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Advanced Agricultural Sciences, Zhejiang A&F University, Lin'an Hangzhou, 311300, People's Republic of China.
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Li M, Zhang H, He D, Damaris RN, Yang P. A stress-associated protein OsSAP8 modulates gibberellic acid biosynthesis by reducing the promotive effect of transcription factor OsbZIP58 on OsKO2. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:2420-2433. [PMID: 35084453 DOI: 10.1093/jxb/erac027] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 01/25/2022] [Indexed: 06/14/2023]
Abstract
Gibberellic acid (GA) is a vital phytohormone for plant growth and development. GA biosynthesis is a complex pathway regulated by various transcription factors. Here we report a stress-associated protein 8 (OsSAP8), negatively involved in GA biosynthesis. Overexpression of OsSAP8 in rice resulted in a semi-dwarfism phenotype and reduced endogenous GA3 content. In contrast, an OsSAP8 knockout mutant exhibited higher endogenous GA3 content and slightly increased plant height. Sub-cellular localization analysis of OsSAP8 showed that it could enter the nucleus. Based on electrophoretic mobility shift assay and yeast one hybrid experiments, OsSAP8 was found to bind to the cis-acting regulatory element GADOWNAT of ent-kaurene oxidases (KO2, KO3, KO5). The results from dual-luciferase reporter assays showed that OsSAP8 does not activate LUC reporter gene expression. However, it could interact with basic leucine zipper 58 (OsbZIP58), which has strong transcriptional activation potential on OsKO2. Moreover, the interaction between OsSAP8, rice lesion simulating disease 1-like 1 (OsLOL1), and OsbZIP58 could reduce the promotive effect of transcription factor OsbZIP58 on OsKO2. These results provide some new insights on the regulation of GA biosynthesis in rice.
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Affiliation(s)
- Ming Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
| | - Hui Zhang
- National Key Laboratory of Crop Genetic Improvement and National Centre of Plant Gene Research, Huazhong Agricultural University, Wuhan, China
| | - Dongli He
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
| | - Rebecca Njeri Damaris
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
| | - Pingfang Yang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
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10
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14-3-3 gene of Zostera japonica ZjGRF1 participates in gibberellin signaling pathway. Mol Biol Rep 2022; 49:4795-4803. [DOI: 10.1007/s11033-022-07330-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 02/07/2022] [Accepted: 03/02/2022] [Indexed: 11/26/2022]
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11
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Rui P, Yang X, Xu S, Wang Z, Zhou X, Jiang L, Jiang T. FvZFP1 confers transgenic Nicotiana benthamiana resistance against plant pathogens and improves tolerance to abiotic stresses. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 316:111176. [PMID: 35151459 DOI: 10.1016/j.plantsci.2021.111176] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2021] [Revised: 10/22/2021] [Accepted: 12/30/2021] [Indexed: 06/14/2023]
Abstract
Zinc finger proteins can induce plant resistance and activate the expression of molecules involved in the resistance pathway in response to harsh environmental conditions. Previously, we found that a novel Fragaria vesca zinc finger protein interacts with the P6 protein encoded by a strawberry vein banding virus. However, the molecular mechanism of the zinc finger protein in plant stress resistance is still unknown. In this study, we reported the identification and functional characterization of the RING finger and CHY zinc finger domain-containing protein 1 (FvZFP1). The overexpression of FvZFP1 in Nicotiana benthamiana enhanced resistance to tobacco mosaic virus (TMV) and Pseudomonas syringae pv. tomato DC3000 (Pst DC3000) infection by increasing ROS content. Additionally, FvZFP1 overexpression upregulated salicylic acid (SA) response-related gene expression as well as SA accumulation following TMV and Pst DC3000 infection. Furthermore, FvZFP1 overexpression resulted in increased salinity and drought stress tolerance by increasing SOD activity and decreasing MDA content. Overexpression of FvZFP1 also activated the ABA pathway under salinity or drought conditions. To our knowledge, this is the first study on the involvement of F. vesca zinc finger protein in crosstalk between biotic and abiotic stress signaling pathways, suggesting that FvZFP1 is a candidate gene for the improvement of resistance in response to multiple stresses.
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Affiliation(s)
- Penghuan Rui
- School of Plant Protection, Anhui Agricultural University, Hefei, 230036, People's Republic of China
| | - Xianchu Yang
- School of Plant Protection, Anhui Agricultural University, Hefei, 230036, People's Republic of China
| | - Shiqiang Xu
- School of Plant Protection, Anhui Agricultural University, Hefei, 230036, People's Republic of China
| | - Zhanqi Wang
- Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, College of Life Sciences, Huzhou University, Huzhou, 313000, People's Republic of China
| | - Xueping Zhou
- State Key Laboratory for Plant Disease and Insect Pest, Institute of Plant Protection, China Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China
| | - Lei Jiang
- School of Plant Protection, Anhui Agricultural University, Hefei, 230036, People's Republic of China; Anhui Province Key Laboratory of Integrated Pest Management on Crops, Hefei, 230036, People's Republic of China; Key Laboratory of Biology and Sustainable Management of Plant Diseases and Pests of Anhui Higher Education Institutes, Anhui Agricultural University, Hefei, 230036, People's Republic of China.
| | - Tong Jiang
- School of Plant Protection, Anhui Agricultural University, Hefei, 230036, People's Republic of China; Anhui Province Key Laboratory of Integrated Pest Management on Crops, Hefei, 230036, People's Republic of China; Key Laboratory of Biology and Sustainable Management of Plant Diseases and Pests of Anhui Higher Education Institutes, Anhui Agricultural University, Hefei, 230036, People's Republic of China.
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12
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Gao Y, Xiang X, Zhang Y, Cao Y, Wang B, Zhang Y, Wang C, Jiang M, Duan W, Chen D, Zhan X, Cheng S, Liu Q, Cao L. Disruption of OsPHD1, Encoding a UDP-Glucose Epimerase, Causes JA Accumulation and Enhanced Bacterial Blight Resistance in Rice. Int J Mol Sci 2022; 23:ijms23020751. [PMID: 35054937 PMCID: PMC8775874 DOI: 10.3390/ijms23020751] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Revised: 01/05/2022] [Accepted: 01/06/2022] [Indexed: 02/01/2023] Open
Abstract
Lesion mimic mutants (LMMs) have been widely used in experiments in recent years for studying plant physiological mechanisms underlying programmed cell death (PCD) and defense responses. Here, we identified a lesion mimic mutant, lm212-1, which cloned the causal gene by a map-based cloning strategy, and verified this by complementation. The causal gene, OsPHD1, encodes a UDP-glucose epimerase (UGE), and the OsPHD1 was located in the chloroplast. OsPHD1 was constitutively expressed in all organs, with higher expression in leaves and other green tissues. lm212-1 exhibited decreased chlorophyll content, and the chloroplast structure was destroyed. Histochemistry results indicated that H2O2 is highly accumulated and cell death is occurred around the lesions in lm212-1. Compared to the wild type, expression levels of defense-related genes were up-regulated, and resistance to bacterial pathogens Xanthomonas oryzae pv. oryzae (Xoo) was enhanced, indicating that the defense response was activated in lm212-1, ROS production was induced by flg22, and chitin treatment also showed the same result. Jasmonic acid (JA) and methyl jasmonate (MeJA) increased, and the JA signaling pathways appeared to be disordered in lm212-1. Additionally, the overexpression lines showed the same phenotype as the wild type. Overall, our findings demonstrate that OsPHD1 is involved in the regulation of PCD and defense response in rice.
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Affiliation(s)
- Yu Gao
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Xiaojiao Xiang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Yingxin Zhang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Yongrun Cao
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Beifang Wang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Yue Zhang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Chen Wang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Min Jiang
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Wenjing Duan
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Daibo Chen
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Xiaodeng Zhan
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Shihua Cheng
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
| | - Qunen Liu
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
- Correspondence: (Q.L.); (L.C.); Tel.: +86-0571-6337-0218 (Q.L.); +86-0571-6337-0329 (L.C.)
| | - Liyong Cao
- State Key Laboratory of Rice Biology and Chinese National Center for Rice Improvement, China National Rice Research Institute, Hangzhou 311401, China; (Y.G.); (X.X.); (Y.Z.); (Y.C.); (B.W.); (Y.Z.); (C.W.); (M.J.); (W.D.); (D.C.); (X.Z.); (S.C.)
- Northern Center of China National Rice Research Institute, China National Rice Research Institute, Shuangyashan 155100, China
- Correspondence: (Q.L.); (L.C.); Tel.: +86-0571-6337-0218 (Q.L.); +86-0571-6337-0329 (L.C.)
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Imaizumi T, Ebana K, Kawahara Y, Muto C, Kobayashi H, Koarai A, Olsen KM. Genomic divergence during feralization reveals both conserved and distinct mechanisms of parallel weediness evolution. Commun Biol 2021; 4:952. [PMID: 34376793 PMCID: PMC8355325 DOI: 10.1038/s42003-021-02484-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Accepted: 07/23/2021] [Indexed: 12/28/2022] Open
Abstract
Agricultural weeds are the most important biotic constraints to global crop production, and chief among these is weedy rice. Despite increasing yield losses from weedy rice in recent years worldwide, the genetic basis of weediness evolution remains unclear. Using whole-genome sequence analyses, we examined the origins and adaptation of Japanese weedy rice. We find evidence for a weed origin from tropical japonica crop ancestry, which has not previously been documented in surveys of weedy rice worldwide. We further show that adaptation occurs largely through different genetic mechanisms between independently-evolved temperate japonica- and tropical japonica-derived strains; most genomic signatures of positive selection are unique within weed types. In addition, some weedy rice strains have evolved through hybridization between weedy and cultivated rice with adaptive introgression from the crop. Surprisingly, introgression from cultivated rice confers not only crop-like adaptive traits (such as shorter plant height, facilitating crop mimicry) but also weedy-like traits (such as seed dormancy). These findings reveal how hybridization with cultivated rice can promote persistence and proliferation of weedy rice.
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Affiliation(s)
- Toshiyuki Imaizumi
- Institute for Plant Protection, National Agriculture and Food Research Organization, Tsukuba, Japan.
| | - Kaworu Ebana
- Research Center of Genetic Resources, National Agriculture and Food Research Organization, Tsukuba, Japan
| | - Yoshihiro Kawahara
- Research Center for Advanced Analysis, National Agriculture and Food Research Organization, Tsukuba, Japan
| | - Chiaki Muto
- Research Center of Genetic Resources, National Agriculture and Food Research Organization, Tsukuba, Japan
| | - Hiroyuki Kobayashi
- Central Region Agricultural Research Center, National Agriculture and Food Research Organization, Tsukuba, Japan
- Center for Weed and Wildlife Management, Utsunomiya University, Utsunomiya, Japan
| | - Akira Koarai
- Institute for Plant Protection, National Agriculture and Food Research Organization, Tsukuba, Japan
| | - Kenneth M Olsen
- Department of Biology, Washington University in St. Louis, St. Louis, USA
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14
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Xie Q, Xu J, Huang K, Su Y, Tong J, Huang Z, Huang C, Wei M, Lin W, Xiao L. Dynamic formation and transcriptional regulation mediated by phytohormones during chalkiness formation in rice. BMC PLANT BIOLOGY 2021; 21:308. [PMID: 34193032 PMCID: PMC8247166 DOI: 10.1186/s12870-021-03109-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2021] [Accepted: 06/21/2021] [Indexed: 05/02/2023]
Abstract
BACKGROUND Rice (Oryza sativa L.) Chalkiness, the opaque part in the kernel endosperm formed by loosely piled starch and protein bodies. Chalkiness is a complex quantitative trait regulated by multiple genes and various environmental factors. Phytohormones play important roles in the regulation of chalkiness formation but the underlying molecular mechanism is still unclear at present. RESULTS In this research, Xiangzaoxian24 (X24, pure line of indica rice with high-chalkiness) and its origin parents Xiangzaoxian11 (X11, female parent, pure line of indica rice with high-chalkiness) and Xiangzaoxian7 (X7, male parent, pure line of indica rice with low-chalkiness) were used as materials. The phenotype, physiological and biochemical traits combined with transcriptome analysis were conducted to illustrate the dynamic process and transcriptional regulation of rice chalkiness formation. Impressively, phytohormonal contents and multiple phytohormonal signals were significantly different in chalky caryopsis, suggesting the involvement of phytohormones, particularly ABA and auxin, in the regulation of rice chalkiness formation, through the interaction of multiple transcription factors and their downstream regulators. CONCLUSION These results indicated that chalkiness formation is a dynamic process associated with multiple genes, forming a complex regulatory network in which phytohormones play important roles. These results provided informative clues for illustrating the regulatory mechanisms of chalkiness formation in rice.
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Affiliation(s)
- Qin Xie
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Jinke Xu
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
| | - Ke Huang
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
| | - Yi Su
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Jianhua Tong
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
| | - Zhigang Huang
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Chao Huang
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Manlin Wei
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China
| | - Wanhuang Lin
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China.
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China.
| | - Langtao Xiao
- Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, 410128, China.
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China.
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15
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Genome-Wide Identification and Genetic Variations of the Starch Synthase Gene Family in Rice. PLANTS 2021; 10:plants10061154. [PMID: 34204124 PMCID: PMC8227427 DOI: 10.3390/plants10061154] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Revised: 06/04/2021] [Accepted: 06/04/2021] [Indexed: 11/17/2022]
Abstract
Starch is a major ingredient in rice, and the amylose content of starch significantly impacts rice quality. OsSS (starch synthase) is a gene family related to the synthesis of amylose and amylopectin, and 10 members have been reported. In the present study, a synteny analysis of a novel family member belonging to the OsSSIV subfamily that contained a starch synthase catalytic domain showed that three segmental duplications and multiple duplications were identified in rice and other species. Expression data showed that the OsSS gene family is involved in diverse expression patterns. The prediction of miRNA targets suggested that OsSS are possibly widely regulated by miRNA functions, with miR156s targeted to OsSSII-3, especially. Haplotype analysis exhibited the relationship between amylose content and diverse genotypes. These results give new insight and a theoretical basis for the improved amylose content and eating quality of rice.
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Wu B, Sun M, Zhang H, Yang D, Lin C, Khan I, Wang X, Zhang X, Nie G, Feng G, Yan Y, Li Z, Peng Y, Huang L. Transcriptome analysis revealed the regulation of gibberellin and the establishment of photosynthetic system promote rapid seed germination and early growth of seedling in pearl millet. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:94. [PMID: 33840392 PMCID: PMC8040237 DOI: 10.1186/s13068-021-01946-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Accepted: 04/01/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND Seed germination is the most important stage for the formation of a new plant. This process starts when the dry seed begins to absorb water and ends when the radicle protrudes. The germination rate of seed from different species varies. The rapid germination of seed from species that grow on marginal land allows seedlings to compete with surrounding species, which is also the guarantee of normal plant development and high yield. Pearl millet is an important cereal crop that is used worldwide, and it can also be used to extract bioethanol. Previous germination experiments have shown that pearl millet has a fast seed germination rate, but the molecular mechanisms behind pearl millet are unclear. Therefore, this study explored the expression patterns of genes involved in pearl millet growth from the germination of dry seed to the early growth stages. RESULTS Through the germination test and the measurement of the seedling radicle length, we found that pearl millet seed germinated after 24 h of swelling of the dry seed. Using transcriptome sequencing, we characterized the gene expression patterns of dry seed, water imbibed seed, germ and radicle, and found more differentially expressed genes (DEGs) in radicle than germ. Further analysis showed that different genome clusters function specifically at different tissues and time periods. Weighted gene co-expression network analysis (WGCNA) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis showed that many genes that positively regulate plant growth and development are highly enriched and expressed, especially the gibberellin signaling pathway, which can promote seed germination. We speculated that the activation of these key genes promotes the germination of pearl millet seed and the growth of seedlings. To verify this, we measured the content of gibberellin and found that the gibberellin content after seed imbibition rose sharply and remained at a high level. CONCLUSIONS In this study, we identified the key genes that participated in the regulation of seed germination and seedling growth. The activation of key genes in these pathways may contribute to the rapid germination and growth of seed and seedlings in pearl millet. These results provided new insight into accelerating the germination rate and seedling growth of species with slow germination.
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Affiliation(s)
- Bingchao Wu
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Min Sun
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Huan Zhang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Dan Yang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Chuang Lin
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Imran Khan
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Xiaoshan Wang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Xinquan Zhang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Gang Nie
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Guangyan Feng
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Yanhong Yan
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Zhou Li
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Yan Peng
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China
| | - Linkai Huang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu, 6111130, China.
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17
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Tai L, Wang HJ, Xu XJ, Sun WH, Ju L, Liu WT, Li WQ, Sun J, Chen KM. Pre-harvest sprouting in cereals: genetic and biochemical mechanisms. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:2857-2876. [PMID: 33471899 DOI: 10.1093/jxb/erab024] [Citation(s) in RCA: 44] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Accepted: 01/18/2021] [Indexed: 05/22/2023]
Abstract
With the growth of the global population and the increasing frequency of natural disasters, crop yields must be steadily increased to enhance human adaptability to risks. Pre-harvest sprouting (PHS), a term mainly used to describe the phenomenon in which grains germinate on the mother plant directly before harvest, is a serious global problem for agricultural production. After domestication, the dormancy level of cultivated crops was generally lower than that of their wild ancestors. Although the shortened dormancy period likely improved the industrial performance of cereals such as wheat, barley, rice, and maize, the excessive germination rate has caused frequent PHS in areas with higher rainfall, resulting in great economic losses. Here, we systematically review the causes of PHS and its consequences, the major indicators and methods for PHS assessment, and emphasize the biological significance of PHS in crop production. Wheat quantitative trait loci functioning in the control of PHS are also comprehensively summarized in a meta-analysis. Finally, we use Arabidopsis as a model plant to develop more complete PHS regulatory networks for wheat. The integration of this information is conducive to the development of custom-made cultivated lines suitable for different demands and regions, and is of great significance for improving crop yields and economic benefits.
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Affiliation(s)
- Li Tai
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Hong-Jin Wang
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Xiao-Jing Xu
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Wei-Hang Sun
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Lan Ju
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Wen-Ting Liu
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Wen-Qiang Li
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
| | - Jiaqiang Sun
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Kun-Ming Chen
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling 712100, Shaanxi, China
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Duan M, Ke XJ, Lan HX, Yuan X, Huang P, Xu ES, Gao XY, Wang RQ, Tang HJ, Zhang HS, Huang J. A Cys2/His2 Zinc Finger Protein Acts as a Repressor of the Green Revolution Gene SD1/OsGA20ox2 in Rice (Oryza sativa L.). PLANT & CELL PHYSIOLOGY 2021; 61:2055-2066. [PMID: 32966570 DOI: 10.1093/pcp/pcaa120] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2020] [Accepted: 09/08/2020] [Indexed: 06/11/2023]
Abstract
Gibberellins (GAs) play important roles in the regulation of plant growth and development. The green revolution gene SD1 encoding gibberellin 20-oxidase 2 (GA20ox2) has been widely used in modern rice breeding. However, the molecular mechanism of how SD1/OsGA20ox2 expression is regulated remains unclear. Here, we report a Cys2/His2 zinc finger protein ZFP207 acting as a transcriptional repressor of OsGA20ox2. ZFP207 was mainly accumulated in young tissues and more specifically in culm nodes. ZFP207-overexpression (ZFP207OE) plants displayed semidwarfism phenotype and small grains by modulating cell length. RNA interference of ZFP207 caused increased plant height and grain length. The application of exogenous GA3 could rescue the semidwarf phenotype of ZFP207OE rice seedlings. Moreover, ZFP207 repressed the expression of OsGA20ox2 via binding to its promoter region. Taken together, ZFP207 acts as a transcriptional repressor of SD1/OsGA20ox2 and it may play a critical role in plant growth and development in rice through the fine-tuning of GA biosynthesis .
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Affiliation(s)
- Min Duan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
- Crop Research Institute, Taizhou Academy of Agricultural Sciences, Linhai, Zhejiang 317000, China
| | - Xiao-Juan Ke
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Hong-Xia Lan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Xi Yuan
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Peng Huang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - En-Shun Xu
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiu-Ying Gao
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Ru-Qin Wang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Hai-Juan Tang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Hong-Sheng Zhang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Ji Huang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
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OsbHLH073 Negatively Regulates Internode Elongation and Plant Height by Modulating GA Homeostasis in Rice. PLANTS 2020; 9:plants9040547. [PMID: 32340222 PMCID: PMC7238965 DOI: 10.3390/plants9040547] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Revised: 04/20/2020] [Accepted: 04/21/2020] [Indexed: 11/16/2022]
Abstract
Internode elongation is one of the key agronomic traits determining a plant’s height and biomass. However, our understanding of the molecular mechanisms controlling internode elongation is still limited in crop plant species. Here, we report the functional identification of an atypical basic helix-loop-helix transcription factor (OsbHLH073) through gain-of-function studies using overexpression (OsbHLH073-OX) and activation tagging (osbhlh073-D) lines of rice. The expression of OsbHLH073 was significantly increased in the osbhlh073-D line. The phenotype of osbhlh073-D showed semi-dwarfism due to deficient elongation of the first internode and poor panicle exsertion. Transgenic lines overexpressing OsbHLH073 confirmed the phenotype of the osbhlh073-D line. Exogenous gibberellic acid (GA3) treatment recovered the semi-dwarf phenotype of osbhlh073-D plants at the seedling stage. In addition, quantitative expression analysis of genes involving in GA biosynthetic and signaling pathway revealed that the transcripts of rice ent-kaurene oxidases 1 and 2 (OsKO1 and OsKO2) encoding the GA biosynthetic enzyme were significantly downregulated in osbhlh073-D and OsbHLH073-OX lines. Yeast two-hybrid and localization assays showed that the OsbHLH073 protein is a nuclear localized-transcriptional activator. We report that OsbHLH073 participates in regulating plant height, internode elongation, and panicle exsertion by regulating GA biosynthesis associated with the OsKO1 and OsKO2 genes.
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Zhang H, Li M, He D, Wang K, Yang P. Mutations on ent-kaurene oxidase 1 encoding gene attenuate its enzyme activity of catalyzing the reaction from ent-kaurene to ent-kaurenoic acid and lead to delayed germination in rice. PLoS Genet 2020; 16:e1008562. [PMID: 31923187 PMCID: PMC6977763 DOI: 10.1371/journal.pgen.1008562] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Revised: 01/23/2020] [Accepted: 12/11/2019] [Indexed: 01/01/2023] Open
Abstract
Rice seed germination is a critical step that determines its entire life circle, with seeds failing to germinate or pre-harvest sprouting both reduce grain yield. Nevertheless, the mechanisms underlying this complex biological event remain unclear. Previously, gibberellin has been shown to promote seed germination. In this study, a delayed seed germination rice mutant was obtained through screening of the EMS induced mutants. Besides of delayed germination, it also shows semi-dwarfism phenotype, which could be recovered by exogenous GA. Through re-sequencing on the mutant, wild-type and their F2 populations, we identified two continuous mutated sites on ent-kaurene oxidase 1 (OsKO1) gene, which result in the conversion from Thr to Met in the cytochrome P450 domain. Genetic complementary analysis and enzyme assay verified that the mutations in OsKO1 gene block the biosynthesis of GA and result in the defect phenotypes. Further analyses proved that OsKO1 could catalyze the reaction from ent-kaurene into ent-kaurenoic acid in GA biosynthesis mainly at seed germination and seedling stages, and the mutations decrease its activity to catalyze the step from ent-kaurenol to ent-kaurenoic acid in this reaction. Transcriptomic and proteomic data indicate that the defect on GA biosynthesis decreases its ability to mobilize starch and attenuate ABA signaling, therefore delay the germination process. The results provide some new insights into both GA biosynthesis and seed germination regulatory pathway in rice.
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Affiliation(s)
- Hui Zhang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
- National Key Laboratory of Crop Genetic Improvement and National Centre of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan, China
| | - Ming Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
| | - Dongli He
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
| | - Kun Wang
- School of Life Sciences, Wuhan University, Wuhan, China
| | - Pingfang Yang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, China
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Borovsky Y, Monsonego N, Mohan V, Shabtai S, Kamara I, Faigenboim A, Hill T, Chen S, Stoffel K, Van Deynze A, Paran I. The zinc-finger transcription factor CcLOL1 controls chloroplast development and immature pepper fruit color in Capsicum chinense and its function is conserved in tomato. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 99:41-55. [PMID: 30828904 DOI: 10.1111/tpj.14305] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2018] [Revised: 02/14/2019] [Accepted: 02/25/2019] [Indexed: 05/03/2023]
Abstract
Chloroplast development and chlorophyll content in the immature fruit has a major impact on the morphology and quality in pepper (Capsicum spp.) fruit. Two major quantitative trait loci (QTLs), pc1 and pc10 that affect chlorophyll content in the pepper fruit by modulation of chloroplast compartment size were previously identified in chromosomes 1 and 10, respectively. The pepper homolog of GOLDEN2-LIKE transcription factor (CaGLK2) has been found as underlying pc10, similar to its effect on tomato chloroplast development. In the present study, we identified the pepper homolog of the zinc-finger transcription factor LOL1 (LSD ONE LIKE1; CcLOL1) as the gene underlying pc1. LOL1 has been identified in Arabidopsis as a positive regulator of programmed cell death and we report here on its role in controlling fruit development in the Solanaceae in a fruit-specific manner. The light-green C. chinense parent used for QTL mapping was found to carry a null mutation in CcLOL1. Verification of the function of the gene was done by generating CRISPR/Cas9 knockout mutants of the orthologous tomato gene resulting in light-green tomato fruits, indicating functional conservation of the orthologous genes in controlling chlorophyll content in the Solanaceae. Transcriptome profiling of light and dark-green bulks differing for pc1, showed that the QTL affects multiple photosynthesis and oxidation-reduction associated genes in the immature green fruit. Allelic diversity of three known genes CcLOL1, CaGLK2, and CcAPRR2 that influence pepper immature fruit color, was found to be associated with variation in chlorophyll content primarily in C. chinense.
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Affiliation(s)
- Yelena Borovsky
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Noam Monsonego
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Vijee Mohan
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Sara Shabtai
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Itzhak Kamara
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Adi Faigenboim
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Theresa Hill
- Seed Biotechnology Center, University of California, Davis, CA, USA
| | - Shiyu Chen
- Seed Biotechnology Center, University of California, Davis, CA, USA
| | - Kevin Stoffel
- Seed Biotechnology Center, University of California, Davis, CA, USA
| | - Allen Van Deynze
- Seed Biotechnology Center, University of California, Davis, CA, USA
| | - Ilan Paran
- Institute of Plant Science, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
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Wang J, Wang R, Wang Y, Zhang L, Zhang L, Xu Y, Yao S. Short and Solid Culm/RFL/APO2 for culm development in rice. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2017; 91:85-96. [PMID: 28370563 DOI: 10.1111/tpj.13548] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2016] [Accepted: 03/20/2017] [Indexed: 05/14/2023]
Abstract
The culm development of rice is characterized by elongation and medullary cavity (MC) formation, which are determined by node formation meristem and residual meristem, respectively. Although many factors have been shown to affect culm elongation, molecules involved in MC formation remained to be identified. In this study, we show that a point mutation in SHORT and SOLID CULM (SSC), the rice homologue of Arabidopsis LFY, resulted in plants with drastically reduced culm length and completely abolished MC formation. Analysis of transgenic plants with moderately enhanced SSC expression revealed significant decreases in plant height and MC size in contrast to slight changes in heading date, indicating that the culm developmental process is much more tightly monitored by the gene. Transcriptomic analysis revealed the differential expression of knotted-1 like homeobox (KNOX) protein genes and gibberellin (GA) metabolic genes in the ssc mutant background, and most of the genes contained well-conserved LFY-binding cis-elements that could be effectively recognized by SSC. Genetic analysis found that the reduced culm length of the mutant could be largely rescued by the GA-accumulating mutation eui, whereas MC formation remained unchanged in the double mutant plants. Taken together, our results suggest that SSC affects culm elongation mainly through maintaining GA homeostasis, while functions in MC formation by mediating residual meristem activity possibly via the KNOX pathway. The present study provides a potential strategy for improving the culm morphology and plant architecture in rice by manipulating SSC and/or its downstream components.
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Affiliation(s)
- Juan Wang
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Ruci Wang
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
| | - Yueming Wang
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
| | - Li Zhang
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
| | - Li Zhang
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yufang Xu
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shanguo Yao
- State Key Laboratory of Plant Genomics and National Plant Gene Research Center, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
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23
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Gao C, Ding L, Li Y, Chen Y, Zhu J, Gu M, Li Y, Xu G, Shen Q, Guo S. Nitrate increases ethylene production and aerenchyma formation in roots of lowland rice plants under water stress. FUNCTIONAL PLANT BIOLOGY : FPB 2017; 44:430-442. [PMID: 32480576 DOI: 10.1071/fp16258] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2016] [Accepted: 12/09/2016] [Indexed: 06/11/2023]
Abstract
Ethylene increases root cortical aerenchyma formation in maize (Zea mays L.), rice (Oryza sativa L.) and other species. To further investigate the effects of nitrate, ammonium and water stress on ethylene production and aerenchyma formation in roots, two lowland rice cultivars (Shanyou 63, hybrid indica, and Yangdao 6, inbred indica) were cultured hydroponically with 10% (w/v) polyethylene glycol to simulate water stress. Water stress decreased shoot biomass, stomatal conductivity and leaf water potential in cultivars fed with nitrate but not with ammonium. Water stress induced more aerenchyma formation in cultivars fed with nitrate rather than ammonium, and increased cortical aerenchyma was found in Yangdao 6. Endogenous ethylene production by roots increased significantly under water stress in plants fed with nitrate rather than ammonium. Exogenous ethylene stimulated root cortical aerenchyma formation. Expression of the ethylene biosynthesis gene 1-aminocyclo-propane-1-carboxylic acid (ACC) synthase (ACS5) was greater in roots fed with nitrate rather than ammonium in the presence and absence of water stress. The expression of ethylene signalling pathway genes involved in programmed cell death (lesion-simulating disease (L.S.D.)1.1 and L.S.D.2; enhanced disease susceptibility (EDS) and phytoalexin-deficient (PAD4)) were regulated by the N form and water stress. In plants of cultivars fed with ammonium, L.S.D.1.1 expression increased under water stress, whereas L.S.D.2, EDS and PAD4 expression decreased. In conclusion, nitrate increases ethylene production and cortical aerenchyma formation in roots of water-stressed lowland rice. However, ammonium increased L.S.D.1.1 expression in water-stressed roots, and decreased ACS5, EDS and PAD4 expression, which would inhibit ethylene production and aerenchyma formation.
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Affiliation(s)
- Cuimin Gao
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Lei Ding
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Yingrui Li
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Yupei Chen
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Jingwen Zhu
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Mian Gu
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Yong Li
- Crop Physiology and Production Center, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Guohua Xu
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Qirong Shen
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
| | - Shiwei Guo
- College of Resources and Environmental Sciences, Nanjing Agricultural University, National Engineering Research Center for Organic-based Fertilizers, Nanjing 210095, China
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Wang J, Xu H, Li N, Fan F, Wang L, Zhu Y, Li S. Artificial Selection of Gn1a Plays an Important role in Improving Rice Yields Across Different Ecological Regions. RICE (NEW YORK, N.Y.) 2015; 8:37. [PMID: 26677125 PMCID: PMC4681714 DOI: 10.1186/s12284-015-0071-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2015] [Accepted: 12/01/2015] [Indexed: 05/24/2023]
Abstract
BACKGROUND Rice is one of the most important crops, and it is essential to improve rice productivity to satisfy the future global food supply demands. Gn1a (OsCKX2), which encodes cytokinin oxidase/dehydrogenase, plays an important role in regulating rice grain yield. RESULTS In this study, we analyzed the genetic variation of Gn1a, which influences grain yield through controlling the number of spikelets in rice. The allelic variations in the promoter, 5' untranslated region (UTR) and coding sequence (CDS) of Gn1a were investigated in 175 cultivars and 21 wild rice accessions. We found that Gn1a showed less sequence variation in the cultivars, but exhibited significant nucleotide diversity in wild rice. A total of 14 alleles, named AP1 to AP14, were identified in the cultivars based on the amino acid divergence of GN1A. Association analysis revealed that the number of spikelets and grain yield were significantly different between the different alleles. Phylogenetic analysis indicated that the three main alleles, AP3, AP8 and AP9, in the cultivars might originate from a common ancestor allele, AP1, in wild rice. CONCLUSIONS Of these alleles in the cultivars, AP9 was suggested as the best allele in indica, as it has shown strong artificial selection in breeding high-yield rice in the past. It might be valuable to explore the high-yield-related alleles of Gn1a to develop high-yield rice cultivars in future breeding programs.
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Affiliation(s)
- Jie Wang
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Huaxue Xu
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Nengwu Li
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Fengfeng Fan
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Liuting Wang
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Yingguo Zhu
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China
| | - Shaoqing Li
- State Key Laboratory of Hybrid Rice; Key Laboratory for Research and Utilization of Heterosis in Indica Rice of Ministry of Agriculture; Engineering Research Center for Plant Biotechnology and Germplasm Utilization of Ministry of Education; College of Life Science, Wuhan University, Wuhan, 430072, China.
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25
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Stress-Responsive Expression, Subcellular Localization and Protein-Protein Interactions of the Rice Metacaspase Family. Int J Mol Sci 2015; 16:16216-41. [PMID: 26193260 PMCID: PMC4519946 DOI: 10.3390/ijms160716216] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2015] [Revised: 06/17/2015] [Accepted: 07/03/2015] [Indexed: 02/01/2023] Open
Abstract
Metacaspases, a class of cysteine-dependent proteases like caspases in animals, are important regulators of programmed cell death (PCD) during development and stress responses in plants. The present study was focused on comprehensive analyses of expression patterns of the rice metacaspase (OsMC) genes in response to abiotic and biotic stresses and stress-related hormones. Results indicate that members of the OsMC family displayed differential expression patterns in response to abiotic (e.g., drought, salt, cold, and heat) and biotic (e.g., infection by Magnaporthe oryzae, Xanthomonas oryzae pv. oryzae and Rhizoctonia solani) stresses and stress-related hormones such as abscisic acid, salicylic acid, jasmonic acid, and 1-amino cyclopropane-1-carboxylic acid (a precursor of ethylene), although the responsiveness to these stresses or hormones varies to some extent. Subcellular localization analyses revealed that OsMC1 was solely localized and OsMC2 was mainly localized in the nucleus. Whereas OsMC3, OsMC4, and OsMC7 were evenly distributed in the cells, OsMC5, OsMC6, and OsMC8 were localized in cytoplasm. OsMC1 interacted with OsLSD1 and OsLSD3 while OsMC3 only interacted with OsLSD1 and that the zinc finger domain in OsMC1 is responsible for the interaction activity. The systematic expression and biochemical analyses of the OsMC family provide valuable information for further functional studies on the biological roles of OsMCs in PCD that is related to abiotic and biotic stress responses.
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26
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Li M, Yin X, Sakata K, Yang P, Komatsu S. Proteomic Analysis of Phosphoproteins in the Rice Nucleus During the Early Stage of Seed Germination. J Proteome Res 2015; 14:2884-96. [DOI: 10.1021/acs.jproteome.5b00215] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Ming Li
- Key
Laboratory of Plant Germplasm Enhancement and Specialty Agriculture,
Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China
- National
Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan
| | - Xiaojian Yin
- National
Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan
| | - Katsumi Sakata
- Department
of Life Science and Informatics, Maebashi Institute of Technology, Maebashi 371-0816, Japan
| | - Pingfang Yang
- Key
Laboratory of Plant Germplasm Enhancement and Specialty Agriculture,
Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China
| | - Setsuko Komatsu
- National
Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba 305-8518, Japan
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