1
|
Li J, Li J, Cheng X, Yang Z, Pang Y, Wang C, Wu J, Ji W, Chen X, Zhao J. The addition of Psathyrostachys Huashanica Keng 6Ns large segment chromosomes has positive impact on stripe rust resistance and plant spikelet number of common wheat. BMC PLANT BIOLOGY 2024; 24:685. [PMID: 39026182 PMCID: PMC11256485 DOI: 10.1186/s12870-024-05395-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2023] [Accepted: 07/09/2024] [Indexed: 07/20/2024]
Abstract
BACKGROUND Developing novel germplasm by using wheat wild related species is an effective way to rebuild the wheat resource bank. The Psathyrostachys huashanica Keng (P. huashanica, 2n = 2x = 14, NsNs) is regarded as a superior species to improve wheat breeding because of its multi-resistance, early maturation and numerous tiller traits. Introducing genetic components of P. huashanica into the common wheat background is the most important step in achieving the effective use. Therefore, the cytogenetic characterization and influence of the introgressed P. huashanica large segment chromosomes in the wheat background is necessary to be explored. RESULTS In this study, we characterized a novel derived line, named D88-2a, a progeny of the former characterized wheat-P. huashanica partial amphiploid line H8911 (2n = 7x = 49, AABBDDNs). Cytological identification showed that the chromosomal composition of D88-2a was 2n = 44 = 22II, indicating the addition of exogenous chromosomes. Genomic in situ hybridization demonstrated that the supernumerary chromosomes were a pair of homologues from the P. huashanica and could be stably inherited in the common wheat background. Molecular markers and 15 K SNP array indicated that the additional chromosomes were derived from the sixth homoeologous group (i.e., 6Ns) of P. huashanica. Based on the distribution of the heterozygous single-nucleotide polymorphism sites and fluorescence in situ hybridization karyotype of each chromosome, this pair of additional chromosomes was confirmed as P. huashanica 6Ns large segment chromosomes, which contained the entire short arm and the proximal centromere portion of the long arm. In terms of the agronomic traits, the addition line D88-2a exhibited enhanced stripe rust resistance, improved spike characteristics and increased protein content than its wheat parent line 7182. CONCLUSIONS The new wheat germplasm D88-2a is a novel cytogenetically stable wheat-P. huashanica 6Ns large segment addition line, and the introgressed large segment alien chromosome has positive impact on plant spikelet number and stripe rust resistance. Thus, this germplasm can be used for genetic improvement of cultivated wheat and the study of functional alien chromosome segment.
Collapse
Affiliation(s)
- Jiaojiao Li
- College of Agronomy, Henan University of Science and Technology, Luoyang, Henan, 471023, China
| | - Jiachuang Li
- College of Agronomy, Henan University of Science and Technology, Luoyang, Henan, 471023, China
| | - Xueni Cheng
- College of Life Science, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Zujun Yang
- School of Life Sciences and Technology, University of Electronic Science and Technology of China, Chengdu, Sichuan, 610000, China
| | - Yuhui Pang
- College of Agronomy, Henan University of Science and Technology, Luoyang, Henan, 471023, China
| | - Chunping Wang
- College of Agronomy, Henan University of Science and Technology, Luoyang, Henan, 471023, China
| | - Jun Wu
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Wanquan Ji
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Xinhong Chen
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| | - Jixin Zhao
- College of Agronomy, Northwest A&F University, Yangling, Shaanxi, 712100, China.
| |
Collapse
|
2
|
Zhang Y, Abalos D, Cheng X. Addressing challenges associated with nitrification inhibitors. Trends Microbiol 2024:S0966-842X(24)00165-3. [PMID: 38987051 DOI: 10.1016/j.tim.2024.06.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 06/15/2024] [Accepted: 06/19/2024] [Indexed: 07/12/2024]
Abstract
Despite global yield benefits from the use of nitrification inhibitors (NIs), the uncertainties and limitations surrounding NIs warrant more attention. Understanding the impacts of NIs on the health of organisms, people, and ecosystems is also crucial. Here we present a global budget, current challenges, and future research priorities of NIs.
Collapse
Affiliation(s)
- Yong Zhang
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, School of Ecology and Environmental Science, Yunnan University, Kunming, China
| | - Diego Abalos
- Department of Agroecology, Land-CRAFT, Aarhus University, Tjele, Denmark
| | - Xiaoli Cheng
- Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, School of Ecology and Environmental Science, Yunnan University, Kunming, China; Yunnan Key Laboratory of Soil Erosion Prevention and Green Development, Yunnan University, Kunming, China.
| |
Collapse
|
3
|
Kuppe CW, Postma JA. Benefits and limits of biological nitrification inhibitors for plant nitrogen uptake and the environment. Sci Rep 2024; 14:15027. [PMID: 38951138 PMCID: PMC11217430 DOI: 10.1038/s41598-024-65247-2] [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: 08/29/2023] [Accepted: 06/18/2024] [Indexed: 07/03/2024] Open
Abstract
Plant growth and high yields are secured by intensive use of nitrogen (N) fertilizer, which, however, pollutes the environment, especially when N is in the form of nitrate. Ammonium is oxidized to nitrate by nitrifiers, but roots can release biological nitrification inhibitors (BNIs). Under what conditions does root-exudation of BNIs facilitate nitrogen N uptake and reduce pollution by N loss to the environment? We modeled the spatial-temporal dynamics of nitrifiers, ammonium, nitrate, and BNIs around a root and simulated root N uptake and net rhizosphere N loss over the plant's life cycle. We determined the sensitivity of N uptake and loss to variations in the parameter values, testing a broad range of soil-plant-microbial conditions, including concentrations, diffusion, sorption, nitrification, population growth, and uptake kinetics. An increase in BNI exudation reduces net N loss and, under most conditions, increases plant N uptake. BNIs decrease uptake in the case of (1) low ammonium concentrations, (2) high ammonium adsorption to the soil, (3) rapid nitrate- or slow ammonium uptake by the plant, and (4) a slowly growing or (5) fast-declining nitrifier population. Bactericidal inhibitors facilitate uptake more than bacteriostatic ones. Some nitrification, however, is necessary to maximize uptake by both ammonium and nitrate transporter systems. An increase in BNI exudation should be co-selected with improved ammonium uptake. BNIs can reduce N uptake, which may explain why not all species exude BNIs but have a generally positive effect on the environment by increasing rhizosphere N retention.
Collapse
Affiliation(s)
- Christian W Kuppe
- Institute of Bio- and Geosciences-Plant Sciences (IBG-2), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany.
- Faculty 1, RWTH Aachen University, Aachen, Germany.
| | - Johannes A Postma
- Institute of Bio- and Geosciences-Plant Sciences (IBG-2), Forschungszentrum Jülich GmbH, 52425, Jülich, Germany
| |
Collapse
|
4
|
Hou F, Chen H, Zhang T, Jin Y, Kong L, Liu X, Xing L, Cao A, Zhang R. Introgression of an All-Stage and Broad-Spectrum Powdery Mildew Resistance Gene Pm3VS from Dasypyrum villosum Chromosome 3V into Wheat. PLANT DISEASE 2024; 108:2073-2080. [PMID: 38389384 DOI: 10.1094/pdis-11-23-2495-re] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/24/2024]
Abstract
Powdery mildew, caused by Blumeria graminis f. sp. tritici (Bgt), is a serious disease that threatens wheat production globally. It is imperative to explore novel resistance genes to control this disease by developing and planting resistant varieties. Here, we identified a wheat-Dasypyrum villosum 3V (3D) disomic substitution line, NAU3815 (2n = 42), with a high level of powdery mildew resistance at both the seedling and adult-plant stages. Subsequently, NAU3815 was used to generate recombination between chromosomes 3V and 3D. Through genomic in situ hybridization (GISH), fluorescence in situ hybridization (FISH), and 3VS- and 3VL-specific markers analysis, four introgression lines were developed from the selfing progenies of 3V and 3D double monosomic line NAU3816, which was derived from the F1 hybrids of NAU3815/NAU0686. There were t3VS (3D) ditelosomic substitution line NAU3817, t3VL (3D) ditelosomic substitution line NAU3818, homozygous T3DL·3VS translocation line NAU3819, and homozygous T3DS·3VL translocation line NAU3820. Powdery mildew tests of these lines confirmed the presence of an all-stage and broad-spectrum powdery mildew resistance gene, Pm3VS, located on chromosome arm 3VS. When compared with the recurrent parent NAU0686 plants, the T3DL·3VS translocation line NAU3819 showed no obvious negative effect on yield-related traits. However, the introduction of the T3DL·3VS translocated chromosome had a strong effect on reducing the flag-leaf length. Consequently, the T3DL·3VS translocation line NAU3819 provides a new germplasm in breeding for both resistance and plant architecture.
Collapse
Affiliation(s)
- Fu Hou
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
- Huaiyin Institute of Agricultural Sciences of Xuhuai Area in Jiangsu, Huaian 223001, China
| | - Heyu Chen
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
| | - Ting Zhang
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
| | - Yinyu Jin
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
| | - Lingna Kong
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
| | - Xiaoxue Liu
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
| | - Liping Xing
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
- Zhongshan Biological Breeding Laboratory, Nanjing, Jiangsu 210014, China
| | - Aizhong Cao
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
- Zhongshan Biological Breeding Laboratory, Nanjing, Jiangsu 210014, China
| | - Ruiqi Zhang
- College of Agronomy of Nanjing Agricultural University/State Key Laboratory of Crop Genetics and Germplasm Enhancement and Application/JCIC-MCP, Nanjing 210095, P.R. China
- Zhongshan Biological Breeding Laboratory, Nanjing, Jiangsu 210014, China
| |
Collapse
|
5
|
Martre P, Dueri S, Guarin JR, Ewert F, Webber H, Calderini D, Molero G, Reynolds M, Miralles D, Garcia G, Brown H, George M, Craigie R, Cohan JP, Deswarte JC, Slafer G, Giunta F, Cammarano D, Ferrise R, Gaiser T, Gao Y, Hochman Z, Hoogenboom G, Hunt LA, Kersebaum KC, Nendel C, Padovan G, Ruane AC, Srivastava AK, Stella T, Supit I, Thorburn P, Wang E, Wolf J, Zhao C, Zhao Z, Asseng S. Global needs for nitrogen fertilizer to improve wheat yield under climate change. NATURE PLANTS 2024; 10:1081-1090. [PMID: 38965400 DOI: 10.1038/s41477-024-01739-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Accepted: 06/04/2024] [Indexed: 07/06/2024]
Abstract
Increasing global food demand will require more food production1 without further exceeding the planetary boundaries2 while simultaneously adapting to climate change3. We used an ensemble of wheat simulation models with improved sink and source traits from the highest-yielding wheat genotypes4 to quantify potential yield gains and associated nitrogen requirements. This was explored for current and climate change scenarios across representative sites of major world wheat producing regions. The improved sink and source traits increased yield by 16% with current nitrogen fertilizer applications under both current climate and mid-century climate change scenarios. To achieve the full yield potential-a 52% increase in global average yield under a mid-century high warming climate scenario (RCP8.5), fertilizer use would need to increase fourfold over current use, which would unavoidably lead to higher environmental impacts from wheat production. Our results show the need to improve soil nitrogen availability and nitrogen use efficiency, along with yield potential.
Collapse
Affiliation(s)
- Pierre Martre
- LEPSE, Univ Montpellier, INRAE, Institut Agro Montpellier, Montpellier, France.
| | - Sibylle Dueri
- LEPSE, Univ Montpellier, INRAE, Institut Agro Montpellier, Montpellier, France
| | - Jose Rafael Guarin
- Center for Climate Systems Research, Columbia University, New York, NY, USA
- NASA Goddard Institute for Space Studies, New York, NY, USA
- Agricultural and Biological Engineering Department, University of Florida, Gainesville, FL, USA
| | - Frank Ewert
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Institute of Crop Science and Resource Conservation, University of Bonn, Bonn, Germany
| | - Heidi Webber
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Brandenburg University of Technology Faculty of Environment and Natural Sciences, Cottbus, Germany
| | - Daniel Calderini
- Institute of Plant Production and Protection, Austral University of Chile, Valdivia, Chile
| | | | | | - Daniel Miralles
- Department of Plant Production, University of Buenos Aires, IFEVA-CONICET, Buenos Aires, Argentina
| | - Guillermo Garcia
- Department of Plant Production, University of Buenos Aires, IFEVA-CONICET, Buenos Aires, Argentina
| | - Hamish Brown
- The New Zealand Institute for Plant and Food Research Limited, Lincoln, New Zealand
| | - Mike George
- The New Zealand Institute for Plant and Food Research Limited, Lincoln, New Zealand
| | - Rob Craigie
- The New Zealand Institute for Plant and Food Research Limited, Lincoln, New Zealand
| | | | | | - Gustavo Slafer
- Department of Agricultural and Forest Sciences and Engineering, University of Lleida, AGROTECNIO-CERCA Center, Lleida, Spain
- Catalonian Institution for Research and Advanced Studies, Lleida, Spain
| | - Francesco Giunta
- Department of Agricultural Sciences, University of Sassari, Sassari, Italy
| | - Davide Cammarano
- Department of Agroecology, iClimate, CBIO, Aarhus University, Tjele, Denmark
| | - Roberto Ferrise
- Department of Agriculture, Food, Environment and Forestry, University of Florence, Florence, Italy
| | - Thomas Gaiser
- Institute of Crop Science and Resource Conservation, University of Bonn, Bonn, Germany
| | - Yujing Gao
- Agricultural and Biological Engineering Department, University of Florida, Gainesville, FL, USA
| | - Zvi Hochman
- CSIRO Agriculture and Food, Brisbane, Queensland, Australia
- University of Melbourne, Melbourne, Victoria, Australia
| | - Gerrit Hoogenboom
- Agricultural and Biological Engineering Department, University of Florida, Gainesville, FL, USA
- Global Food Systems Institute, University of Florida, Gainesville, FL, USA
| | - Leslie A Hunt
- Department of Plant Agriculture, University of Guelph, Guelph, Ontario, Canada
| | - Kurt C Kersebaum
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Tropical Plant Production and Agricultural Systems Modelling, University of Göttingen, Göttingen, Germany
- Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
| | - Claas Nendel
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
- Global Change Research Institute, Academy of Sciences of the Czech Republic, Brno, Czech Republic
| | - Gloria Padovan
- Department of Agriculture, Food, Environment and Forestry, University of Florence, Florence, Italy
| | - Alex C Ruane
- Climate Impacts Group, National Aeronautics and Space Administration Goddard Institute for Space Studies, New York, NY, USA
| | - Amit Kumar Srivastava
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Institute of Crop Science and Resource Conservation, University of Bonn, Bonn, Germany
| | - Tommaso Stella
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
| | - Iwan Supit
- Earth Systems and Global Change Group, Wageningen University, Wageningen, the Netherlands
| | - Peter Thorburn
- CSIRO Agriculture and Food, Brisbane, Queensland, Australia
| | - Enli Wang
- CSIRO Agriculture and Food, Canberra, Australian Capital Territory, Australia
| | - Joost Wolf
- Plant Production Systems, Wageningen University, Wageningen, the Netherlands
| | - Chuang Zhao
- College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Zhigan Zhao
- CSIRO Agriculture and Food, Canberra, Australian Capital Territory, Australia
- Department of Agronomy and Biotechnology, China Agricultural University, Beijing, China
| | - Senthold Asseng
- Technical University of Munich, Department of Life Science Engineering, Digital Agriculture, HEF World Agricultural Systems Center, Freising, Germany
| |
Collapse
|
6
|
Rojas-Pinzon PA, Prommer J, Sedlacek CJ, Sandén T, Spiegel H, Pjevac P, Fuchslueger L, Giguere AT. Inhibition profile of three biological nitrification inhibitors and their response to soil pH modification in two contrasting soils. FEMS Microbiol Ecol 2024; 100:fiae072. [PMID: 38702852 PMCID: PMC11110862 DOI: 10.1093/femsec/fiae072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 03/28/2024] [Accepted: 05/02/2024] [Indexed: 05/06/2024] Open
Abstract
Up to 70% of the nitrogen (N) fertilizer applied to agricultural soils is lost through microbially mediated processes, such as nitrification. This can be counteracted by synthetic and biological compounds that inhibit nitrification. However, for many biological nitrification inhibitors (BNIs), the interaction with soil properties, nitrifier specificity, and effective concentrations are unclear. Here, we investigated three synthetic nitrification inhibitors (SNIs) (DCD, DMPP, and nitrapyrin) and three BNIs [methyl 3(4-hydroxyphenyl) propionate (MHPP), methyl 3(4-hydroxyphenyl) acrylate (MHPA), and limonene] in two agricultural soils differing in pH and nitrifier communities. The efficacies of SNIs and BNIs were resilient to short-term pH changes in the neutral pH soil, whereas the efficacy of some BNIs increased by neutralizing the alkaline soil. Among the BNIs, MHPA showed the highest inhibition and was, together with MHPP, identified as a putative AOB/comammox-selective inhibitor. Additionally, MHPA and limonene effectively inhibited nitrification at concentrations comparable to those used for DCD. Moreover, we identified the effective concentrations at which 50% and 80% of inhibition is observed (EC50 and EC80) for the BNIs, and similar EC80 values were observed in both soils. Overall, our results show that these BNIs could potentially serve as effective alternatives to SNIs currently used.
Collapse
Affiliation(s)
- Paula A Rojas-Pinzon
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
- Doctoral School in Microbiology and Environmental Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
| | - Judith Prommer
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
| | - Christopher J Sedlacek
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
| | - Taru Sandén
- Department for Soil Health and Plant Nutrition, Austrian Agency for Health and Food Safety (AGES), Spargelfeldstraße 191, 1220 Vienna, Austria
| | - Heide Spiegel
- Department for Soil Health and Plant Nutrition, Austrian Agency for Health and Food Safety (AGES), Spargelfeldstraße 191, 1220 Vienna, Austria
| | - Petra Pjevac
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
- Joint Microbiome Facility of the Medical University of Vienna and the University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
- Environment and Climate Hub, University of Vienna, Augasse 2/6, 1090 Vienna, Austria
| | - Lucia Fuchslueger
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
- Environment and Climate Hub, University of Vienna, Augasse 2/6, 1090 Vienna, Austria
| | - Andrew T Giguere
- Centre for Microbiology and Environmental Systems Science, Department for Microbiology and Ecosystem Science, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
| |
Collapse
|
7
|
Lu Y, Wang F, Min J, Kronzucker HJ, Hua Y, Yu H, Zhou F, Shi W. Biological mitigation of soil nitrous oxide emissions by plant metabolites. GLOBAL CHANGE BIOLOGY 2024; 30:e17333. [PMID: 38798169 DOI: 10.1111/gcb.17333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Revised: 04/11/2024] [Accepted: 04/15/2024] [Indexed: 05/29/2024]
Abstract
Plant metabolites significantly affect soil nitrogen (N) cycling, but their influence on nitrous oxide (N2O) emissions has not been quantitatively analyzed on a global scale. We conduct a comprehensive meta-analysis of 173 observations from 42 articles to evaluate global patterns of and principal factors controlling N2O emissions in the presence of root exudates and extracts. Overall, plant metabolites promoted soil N2O emissions by about 10%. However, the effects of plant metabolites on N2O emissions from soils varied with experimental conditions and properties of both metabolites and soils. Primary metabolites, such as sugars, amino acids, and organic acids, strongly stimulated soil N2O emissions, by an average of 79%, while secondary metabolites, such as phenolics, terpenoids, and flavonoids, often characterized as both biological nitrification inhibitors (BNIs) and biological denitrification inhibitors (BDIs), reduced soil N2O emissions by an average of 41%. The emission mitigation effects of BNIs/BDIs were closely associated with soil texture and pH, increasing with increasing soil clay content and soil pH on acidic and neutral soils, and with decreasing soil pH on alkaline soils. We furthermore present soil incubation experiments that show that three secondary metabolite types act as BNIs to reduce N2O emissions by 32%-45%, while three primary metabolite classes possess a stimulatory effect of 56%-63%, confirming the results of the meta-analysis. Our results highlight the potential role and application range of specific secondary metabolites in biomitigation of global N2O emissions and provide new biological parameters for N2O emission models that should help improve the accuracy of model predictions.
Collapse
Affiliation(s)
- Yufang Lu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Fangjia Wang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Ju Min
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Herbert J Kronzucker
- School of BioSciences, The University of Melbourne, Parkville, Victoria, Australia
| | - Yao Hua
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Haoming Yu
- Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Feng Zhou
- Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing, China
- Jiangsu Province Engineering Research Center of Watershed Geospatial Intelligence, College of Geography and Remote Sensing, Hohai University, Nanjing, China
- Southwest United Graduate School, Kunming, China
| | - Weiming Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
- International Research Centre for Environmental Membrane Biology, Foshan University, Foshan, China
| |
Collapse
|
8
|
Zeng H, Chen H, Zhang M, Ding M, Xu F, Yan F, Kinoshita T, Zhu Y. Plasma membrane H +-ATPases in mineral nutrition and crop improvement. TRENDS IN PLANT SCIENCE 2024:S1360-1385(24)00052-9. [PMID: 38582687 DOI: 10.1016/j.tplants.2024.02.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 02/19/2024] [Accepted: 02/22/2024] [Indexed: 04/08/2024]
Abstract
Plasma membrane H+-ATPases (PMAs) pump H+ out of the cytoplasm by consuming ATP to generate a membrane potential and proton motive force for the transmembrane transport of nutrients into and out of plant cells. PMAs are involved in nutrient acquisition by regulating root growth, nutrient uptake, and translocation, as well as the establishment of symbiosis with arbuscular mycorrhizas. Under nutrient stresses, PMAs are activated to pump more H+ and promote organic anion excretion, thus improving nutrient availability in the rhizosphere. Herein we review recent progress in the physiological functions and the underlying molecular mechanisms of PMAs in the efficient acquisition and utilization of various nutrients in plants. We also discuss perspectives for the application of PMAs in improving crop production and quality.
Collapse
Affiliation(s)
- Houqing Zeng
- College of Life and Environmental Sciences, Kharkiv Institute at Hangzhou Normal University, Hangzhou Normal University, Hangzhou 311121, China.
| | - Huiying Chen
- College of Life and Environmental Sciences, Kharkiv Institute at Hangzhou Normal University, Hangzhou Normal University, Hangzhou 311121, China
| | - Maoxing Zhang
- International Research Centre for Environmental Membrane Biology, Department of Horticulture, Foshan University, Foshan 528000, China
| | - Ming Ding
- College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, 225009, China
| | - Feiyun Xu
- Center for Plant Water-Use and Nutrition Regulation, College of JunCao Science and Ecology (College of Carbon Neutrality), Fujian Agriculture and Forestry University, Fuzhou, China
| | - Feng Yan
- Institute of Agronomy and Plant Breeding, Justus Liebig University of Giessen, Giessen, Germany
| | - Toshinori Kinoshita
- Institute of Transformative Bio-Molecules (WPI-ITbM), Nagoya University, Nagoya 4660824, Japan.
| | - Yiyong Zhu
- College of Resource and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China.
| |
Collapse
|
9
|
Lu Y, Kronzucker HJ, Yu M, Shabala S, Shi W. Nitrogen-loss and carbon-footprint reduction by plant-rhizosphere exudates. TRENDS IN PLANT SCIENCE 2024; 29:469-481. [PMID: 37802692 DOI: 10.1016/j.tplants.2023.09.007] [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: 07/09/2023] [Revised: 09/02/2023] [Accepted: 09/08/2023] [Indexed: 10/08/2023]
Abstract
Low-carbon approaches to agriculture constitute a pivotal measure to address the challenge of global climate change. In agroecosystems, rhizosphere exudates are significantly involved in regulating the nitrogen (N) cycle and facilitating belowground chemical communication between plants and soil microbes to reduce direct and indirect emissions of greenhouse gases (GHGs) and control N runoff from cultivated sites into natural water bodies. Here, we discuss specific rhizosphere exudates from plants and microorganisms and the mechanisms by which they reduce N loss and subsequent N pollution in terrestrial and aquatic environments, including biological nitrification inhibitors (BNIs), biological denitrification inhibitors (BDIs), and biological denitrification promoters (BDPs). We also highlight promising application scenarios and challenges in relation to rhizosphere exudates in terrestrial and aquatic environments.
Collapse
Affiliation(s)
- Yufang Lu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China
| | - Herbert J Kronzucker
- School of BioSciences, The University of Melbourne, Parkville, VIC 3010, Australia
| | - Min Yu
- International Research Centre for Environmental Membrane Biology, Foshan University, Foshan 528000, China
| | - Sergey Shabala
- International Research Centre for Environmental Membrane Biology, Foshan University, Foshan 528000, China; School of Biological Sciences, University of Western Australia, Crawley, WA 6009, Australia
| | - Weiming Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| |
Collapse
|
10
|
Pixley KV, Cairns JE, Lopez-Ridaura S, Ojiewo CO, Dawud MA, Drabo I, Mindaye T, Nebie B, Asea G, Das B, Daudi H, Desmae H, Batieno BJ, Boukar O, Mukankusi CTM, Nkalubo ST, Hearne SJ, Dhugga KS, Gandhi H, Snapp S, Zepeda-Villarreal EA. Redesigning crop varieties to win the race between climate change and food security. MOLECULAR PLANT 2023; 16:1590-1611. [PMID: 37674314 DOI: 10.1016/j.molp.2023.09.003] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2023] [Revised: 08/17/2023] [Accepted: 09/03/2023] [Indexed: 09/08/2023]
Abstract
Climate change poses daunting challenges to agricultural production and food security. Rising temperatures, shifting weather patterns, and more frequent extreme events have already demonstrated their effects on local, regional, and global agricultural systems. Crop varieties that withstand climate-related stresses and are suitable for cultivation in innovative cropping systems will be crucial to maximize risk avoidance, productivity, and profitability under climate-changed environments. We surveyed 588 expert stakeholders to predict current and novel traits that may be essential for future pearl millet, sorghum, maize, groundnut, cowpea, and common bean varieties, particularly in sub-Saharan Africa. We then review the current progress and prospects for breeding three prioritized future-essential traits for each of these crops. Experts predict that most current breeding priorities will remain important, but that rates of genetic gain must increase to keep pace with climate challenges and consumer demands. Importantly, the predicted future-essential traits include innovative breeding targets that must also be prioritized; for example, (1) optimized rhizosphere microbiome, with benefits for P, N, and water use efficiency, (2) optimized performance across or in specific cropping systems, (3) lower nighttime respiration, (4) improved stover quality, and (5) increased early vigor. We further discuss cutting-edge tools and approaches to discover, validate, and incorporate novel genetic diversity from exotic germplasm into breeding populations with unprecedented precision, accuracy, and speed. We conclude that the greatest challenge to developing crop varieties to win the race between climate change and food security might be our innovativeness in defining and boldness to breed for the traits of tomorrow.
Collapse
Affiliation(s)
- Kevin V Pixley
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico.
| | - Jill E Cairns
- International Maize and Wheat Improvement Center (CIMMYT), Harare, Zimbabwe
| | | | - Chris O Ojiewo
- International Maize and Wheat Improvement Center (CIMMYT), Nairobi, Kenya
| | | | - Inoussa Drabo
- International Maize and Wheat Improvement Center (CIMMYT), Dakar, Senegal
| | - Taye Mindaye
- Ethiopian Institute of Agricultural Research (EIAR), Addis Ababa, Ethiopia
| | - Baloua Nebie
- International Maize and Wheat Improvement Center (CIMMYT), Dakar, Senegal
| | - Godfrey Asea
- National Agricultural Research Organization (NARO), Kampala, Uganda
| | - Biswanath Das
- International Maize and Wheat Improvement Center (CIMMYT), Nairobi, Kenya
| | - Happy Daudi
- Tanzania Agricultural Research Institute (TARI), Naliendele, Tanzania
| | - Haile Desmae
- International Maize and Wheat Improvement Center (CIMMYT), Dakar, Senegal
| | - Benoit Joseph Batieno
- Institut de l'Environnement et de Recherches Agricoles (INERA), Ouagadougou, Burkina Faso
| | - Ousmane Boukar
- International Institute of Tropicl Agriculture (IITA), Kano, Nigeria
| | | | | | - Sarah J Hearne
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Kanwarpal S Dhugga
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Harish Gandhi
- International Maize and Wheat Improvement Center (CIMMYT), Nairobi, Kenya
| | - Sieglinde Snapp
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | |
Collapse
|
11
|
Vega-Mas I, Ascencio-Medina E, Bozal-Leorri A, González-Murua C, Marino D, González-Moro MB. Will crops with biological nitrification inhibition capacity be favored under future atmospheric CO 2? FRONTIERS IN PLANT SCIENCE 2023; 14:1245427. [PMID: 37692431 PMCID: PMC10484480 DOI: 10.3389/fpls.2023.1245427] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Accepted: 08/03/2023] [Indexed: 09/12/2023]
Affiliation(s)
- Izargi Vega-Mas
- *Correspondence: Izargi Vega-Mas, ; María Begoña González-Moro,
| | | | | | | | | | | |
Collapse
|
12
|
Petroli CD, Subbarao GV, Burgueño JA, Yoshihashi T, Li H, Franco Duran J, Pixley KV. Genetic variation among elite inbred lines suggests potential to breed for BNI-capacity in maize. Sci Rep 2023; 13:13422. [PMID: 37591891 PMCID: PMC10435450 DOI: 10.1038/s41598-023-39720-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Accepted: 07/29/2023] [Indexed: 08/19/2023] Open
Abstract
Biological nitrification inhibition (BNI) is a plant function where root systems release antibiotic compounds (BNIs) specifically aimed at suppressing nitrifiers to limit soil-nitrate formation in the root zone. Little is known about BNI-activity in maize (Zea mays L.), the most important food, feed, and energy crop. Two categories of BNIs are released from maize roots; hydrophobic and hydrophilic BNIs, that determine BNI-capacity in root systems. Zeanone is a recently discovered hydrophobic compound with BNI-activity, released from maize roots. The objectives of this study were to understand/quantify the relationship between zeanone activity and hydrophobic BNI-capacity. We assessed genetic variability among 250 CIMMYT maize lines (CMLs) characterized for hydrophobic BNI-capacity and zeanone activity, towards developing genetic markers linked to this trait in maize. CMLs with high BNI-capacity and ability to release zeanone from roots were identified. GWAS was performed using 27,085 SNPs (with unique positions on the B73v.4 reference genome, and false discovery rate = 10), and phenotypic information for BNI-capacity and zeanone production from root systems. Eighteen significant markers were identified; three associated with specific BNI-activity (SBNI), four with BNI-activity per plant (BNIPP), another ten were common between SBNI and BNIPP, and one with zeanone release. Further, 30 annotated genes were associated with the significant SNPs; most of these genes are involved in pathways of "biological process", and one (AMT5) in ammonium regulation in maize roots. Although the inbred lines in this study were not developed for BNI-traits, the identification of markers associated with BNI-capacity suggests the possibility of using these genomic tools in marker-assisted selection to improve hydrophobic BNI-capacity in maize.
Collapse
Affiliation(s)
- César D Petroli
- International Maize and Wheat Improvement Center (CIMMYT), Carretera México-Veracruz, Km. 45, El Batán, Texcoco, C.P. 56237, Mexico.
| | - Guntur V Subbarao
- Japan International Research Center for Agricultural Science, 1-1 Ohwashi, Tsukuba, Ibaraki, 305-8686, Japan
| | - Juan A Burgueño
- International Maize and Wheat Improvement Center (CIMMYT), Carretera México-Veracruz, Km. 45, El Batán, Texcoco, C.P. 56237, Mexico
| | - Tadashi Yoshihashi
- Japan International Research Center for Agricultural Science, 1-1 Ohwashi, Tsukuba, Ibaraki, 305-8686, Japan
| | - Huihui Li
- International Maize and Wheat Improvement Center (CIMMYT), Carretera México-Veracruz, Km. 45, El Batán, Texcoco, C.P. 56237, Mexico
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), No 12 Zhongguancun South Street, Beijing, 10081, China
| | - Jorge Franco Duran
- Departamento de Biometría y Estadística, Facultad de Agronomía, Universidad de la República, Ruta 3, Km 363, C.P. 60000, Paysandú, Uruguay
| | - Kevin V Pixley
- International Maize and Wheat Improvement Center (CIMMYT), Carretera México-Veracruz, Km. 45, El Batán, Texcoco, C.P. 56237, Mexico
| |
Collapse
|
13
|
Jáuregui I, Vega-Mas I, Delaplace P, Vanderschuren H, Thonar C. An optimized hydroponic pipeline for large-scale identification of wheat genotypes with resilient biological nitrification inhibition activity. THE NEW PHYTOLOGIST 2023; 238:1711-1721. [PMID: 36764923 DOI: 10.1111/nph.18807] [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: 09/05/2022] [Accepted: 01/26/2023] [Indexed: 06/18/2023]
Abstract
Several plant species have been reported to inhibit nitrification via their root exudates, the so-called biological nitrification inhibition (BNI). Given the potential of BNI-producing plants to sustainably mitigate N losses in agrosystems, identification of BNI activity in existing germplasms is of paramount importance. A hydroponic system was combined with an optimized Nitrosomonas europaea-based bioassay to determine the BNI activity of root exudates. The pipeline allows collecting and processing hundreds of root exudates simultaneously. An additional assay was established to assess the potential bactericide effect of the root exudates. The pipeline was used to unravel the impact of developmental stage, temperature and osmotic stress on the BNI trait in selected wheat genotypes. Biological nitrification inhibition activity appeared consistently higher in wheat at the pretillering stage as compared to the tillering stage. While low-temperatures did not alter BNI activities in root exudates, osmotic stress appeared to change the BNI activity in a genotype-dependent manner. Further analysis of Nitrosomonas culture after pre-exposure to root exudates suggested that BNI activity has no or limited bactericide effects. The present pipeline will be instrumental to further investigating the dynamics of BNI activity and to uncover the diversity of the BNI trait in plant species.
Collapse
Affiliation(s)
- Iván Jáuregui
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
| | - Izargi Vega-Mas
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Department of Plant Biology and Ecology, University of the Basque Country (UPV/EHU), 48940, Bilbao, Spain
| | - Pierre Delaplace
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
| | - Hervé Vanderschuren
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Tropical Crop Improvement Laboratory, Biosystems Department, KU Leuven, B-3001, Leuven, Belgium
| | - Cécile Thonar
- Plant Genetics and Rhizosphere Processes laboratory, Gembloux Agro-Bio Tech, TERRA Teaching and Research Centre, University of Liège, B-5030, Gembloux, Belgium
- Agroecology Lab, Université Libre de Bruxelles (ULB), B-1050, Brussels, Belgium
| |
Collapse
|
14
|
Ghatak A, Chaturvedi P, Waldherr S, Subbarao GV, Weckwerth W. PANOMICS at the interface of root-soil microbiome and BNI. TRENDS IN PLANT SCIENCE 2023; 28:106-122. [PMID: 36229336 DOI: 10.1016/j.tplants.2022.08.016] [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: 03/01/2022] [Revised: 08/10/2022] [Accepted: 08/19/2022] [Indexed: 06/16/2023]
Abstract
Nitrification and denitrification are soil biological processes responsible for large nitrogen losses from agricultural soils and generation of the greenhouse gas (GHG) N2O. Increased use of nitrogen fertilizer and the resulting decline in nitrogen use efficiency (NUE) are a major concern in agroecosystems. This nitrogen cycle in the rhizosphere is influenced by an intimate soil microbiome-root exudate interaction and biological nitrification inhibition (BNI). A PANOMICS approach can dissect these processes. We review breakthroughs in this area, including identification and characterization of root exudates by metabolomics and proteomics, which facilitate better understanding of belowground chemical communications and help identify new biological nitrification inhibitors (BNIs). We also address challenges for advancing the understanding of the role root exudates play in biotic and abiotic stresses.
Collapse
Affiliation(s)
- Arindam Ghatak
- Molecular Systems Biology Lab (MOSYS), Department of Functional and Evolutionary Ecology, University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria
| | - Palak Chaturvedi
- Molecular Systems Biology Lab (MOSYS), Department of Functional and Evolutionary Ecology, University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria.
| | - Steffen Waldherr
- Molecular Systems Biology Lab (MOSYS), Department of Functional and Evolutionary Ecology, University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria
| | - Guntur Venkata Subbarao
- Crop, Livestock and Environment Division, Japan International Research Center for Agricultural Sciences (JIRCAS), Ibaraki 305-8686, Japan
| | - Wolfram Weckwerth
- Molecular Systems Biology Lab (MOSYS), Department of Functional and Evolutionary Ecology, University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria; Vienna Metabolomics Center (VIME), University of Vienna, Djerassiplatz 1, 1030 Vienna, Austria.
| |
Collapse
|
15
|
Kasemsap P, Bloom AJ. Breeding for Higher Yields of Wheat and Rice through Modifying Nitrogen Metabolism. PLANTS (BASEL, SWITZERLAND) 2022; 12:85. [PMID: 36616214 PMCID: PMC9823454 DOI: 10.3390/plants12010085] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2022] [Revised: 12/21/2022] [Accepted: 12/21/2022] [Indexed: 06/17/2023]
Abstract
Wheat and rice produce nutritious grains that provide 32% of the protein in the human diet globally. Here, we examine how genetic modifications to improve assimilation of the inorganic nitrogen forms ammonium and nitrate into protein influence grain yield of these crops. Successful breeding for modified nitrogen metabolism has focused on genes that coordinate nitrogen and carbon metabolism, including those that regulate tillering, heading date, and ammonium assimilation. Gaps in our current understanding include (1) species differences among candidate genes in nitrogen metabolism pathways, (2) the extent to which relative abundance of these nitrogen forms across natural soil environments shape crop responses, and (3) natural variation and genetic architecture of nitrogen-mediated yield improvement. Despite extensive research on the genetics of nitrogen metabolism since the rise of synthetic fertilizers, only a few projects targeting nitrogen pathways have resulted in development of cultivars with higher yields. To continue improving grain yield and quality, breeding strategies need to focus concurrently on both carbon and nitrogen assimilation and consider manipulating genes with smaller effects or that underlie regulatory networks as well as genes directly associated with nitrogen metabolism.
Collapse
|
16
|
Lu Y, Hua Y, Lv N, Zu W, Kronzucker HJ, Dong G, Shi W. Syringic acid from rice roots inhibits soil nitrification and N 2O emission under red and paddy soils but not a calcareous soil. FRONTIERS IN PLANT SCIENCE 2022; 13:1099689. [PMID: 36605956 PMCID: PMC9808040 DOI: 10.3389/fpls.2022.1099689] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 11/30/2022] [Indexed: 06/17/2023]
Abstract
Syringic acid (SA) is a novel biological nitrification inhibitor (BNIs) discovered in rice root exudates with significant inhibition of Nitrosomonas strains. However, the inhibitory effect of SA on nitrification and nitrous oxide (N2O) emissions in different soils and the environmental factors controlling the degree of inhibition have not been studied. Using 14-day microcosm incubation, we investigated the effects of different concentrations of SA on nitrification activity, abundance of ammonia-oxidizing microorganisms, and N2O emissions in three typical agricultural soils. The nitrification inhibitory efficacy of SA was strongest in acidic red soil, followed by weakly acidic paddy soil, with no significant effect in an alkaline calcareous soil. Potential nitrification activity (PNA) were also greatly reduced by SA additions in paddy and red soil. Pearson correlation analysis showed that the inhibitory efficacy of SA might be negatively correlated with soil pH and positively correlated with clay percentage. SA treatments significantly reduced N2O emissions by 69.1-79.3% from paddy soil and by 40.8%-46.4% from red soil, respectively, but no effect was recorded in the calcareous soil. SA addition possessed dual inhibition of both ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) abundance in paddy and red soil. Structural equation modelling revealed that soil ammonium (NH4 +) and dissolved organic carbon content (DOC) were the key variables explaining AOA and AOB abundance and subsequent N2O emissions. Our results support the potential for the use of the BNI SA in mitigating N2O emissions and enhancing N utilization in red and paddy soils.
Collapse
Affiliation(s)
- Yufang Lu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yao Hua
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Na Lv
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Weijun Zu
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Herbert J. Kronzucker
- School of BioSciences, The University of Melbourne, Parkville, VIC, Australia
- Faculty of Land and Food Systems, University of British Columbia, Vancouver, BC, Canada
| | | | - Weiming Shi
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
- University of Chinese Academy of Sciences, Beijing, China
| |
Collapse
|
17
|
Zhao J, Zheng X, Qiao L, Yang C, Wu B, He Z, Tang Y, Li G, Yang Z, Zheng J, Qi Z. Genome-wide association study reveals structural chromosome variations with phenotypic effects in wheat (Triticum aestivum L.). THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 112:1447-1461. [PMID: 36345647 DOI: 10.1111/tpj.16023] [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: 04/01/2022] [Revised: 10/26/2022] [Accepted: 11/01/2022] [Indexed: 06/16/2023]
Abstract
Structural chromosome variations (SCVs) are large-scale genomic variations that can be detected by fluorescence in situ hybridization (FISH). SCVs have played important roles in the genome evolution of wheat (Triticum aestivum L.), but little is known about their genetic effects. In this study, a total of 543 wheat accessions from the Chinese wheat mini-core collection and the Shanxi Province wheat collection were used for chromosome analysis using oligonucleotide probe multiplex FISH. A total of 139 SCVs including translocations, pericentric inversions, presence/absence variations (PAVs), and copy number variations (CNVs) in heterochromatin were identified at 230 loci. The distribution frequency of SCVs varied between ecological regions and between landraces and modern cultivars. Structural analysis using SCVs as markers clearly divided the landraces and modern cultivars into different groups. There are very clear instances illustrating alien introgression and wide application of foreign germplasms improved the chromosome diversity of Chinese modern wheat cultivars. A genome-wide association study (GWAS) identified 29 SCVs associated with 12 phenotypic traits, and five (RT4AS•4AL-1DS/1DL•1DS-4AL, Mg2A-3, Mr3B-10, Mr7B-13, and Mr4A-7) of them were further validated using a doubled haploid population and advanced sib-lines, implying the potential value of these SCVs. Importantly, the number of favored SCVs that were associated with agronomic trait improvement was significantly higher in modern cultivars compared to landraces, indicating positive selection in wheat breeding. This study demonstrates the significant effects of SCVs during wheat breeding and provides an efficient method of mining favored SCVs in wheat and other crops.
Collapse
Affiliation(s)
- Jiajia Zhao
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xingwei Zheng
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
| | - Ling Qiao
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
| | - Chenkang Yang
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
| | - Bangbang Wu
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
| | - Ziming He
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yuqing Tang
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Guangrong Li
- Center for Informational Biology, School of Life Science and Technology, University of Electronic and Technology of China, Chengdu, 611731, China
| | - Zujun Yang
- Center for Informational Biology, School of Life Science and Technology, University of Electronic and Technology of China, Chengdu, 611731, China
| | - Jun Zheng
- Institute of Wheat Research, State Key Laboratory of Sustainable Dryland Agriculture, Shanxi Agricultural University, Linfen, 041000, China
| | - Zengjun Qi
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| |
Collapse
|
18
|
Hartman MD, Burnham M, Parton WJ, Finzi A, DeLucia EH, Yang WH. In silico evaluation of plant nitrification suppression effects on agroecosystem nitrogen loss. Ecosphere 2022. [DOI: 10.1002/ecs2.4292] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/07/2022] Open
Affiliation(s)
- Melannie D. Hartman
- Center for Advanced Bioenergy and Bioproducts Innovation, Natural Resource Ecology Laboratory Colorado State University Fort Collins Colorado USA
| | - Mark Burnham
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - William J. Parton
- Center for Advanced Bioenergy and Bioproducts Innovation, Natural Resource Ecology Laboratory Colorado State University Fort Collins Colorado USA
| | - Adrien Finzi
- Center for Advanced Bioenergy and Bioproducts Innovation, Department of Biology Boston University Boston Massachusetts USA
| | - Evan H. DeLucia
- Center for Advanced Bioenergy and Bioproducts Innovation, Institute for Sustainability, Energy, and Environment, Department of Plant Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - Wendy H. Yang
- Center for Advanced Bioenergy and Bioproducts Innovation, Institute for Sustainability, Energy, and Environment, Department of Plant Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
- Center for Advanced Bioenergy and Bioproducts Innovation, Institute for Sustainability, Energy, and Environment, Department of Geology University of Illinois at Urbana‐Champaign Urbana Illinois USA
| |
Collapse
|
19
|
Jian L, Yan J, Liu J. De Novo Domestication in the Multi-Omics Era. PLANT & CELL PHYSIOLOGY 2022; 63:1592-1606. [PMID: 35762778 DOI: 10.1093/pcp/pcac077] [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: 01/14/2022] [Accepted: 06/27/2022] [Indexed: 06/15/2023]
Abstract
Most cereal crops were domesticated within the last 12,000 years and subsequently spread around the world. These crops have been nourishing the world by supplying a primary energy and nutrient source, thereby playing a critical role in determining the status of human health and sustaining the global population. Here, we review the major challenges of future agriculture and emphasize the utilization of wild germplasm. De novo domestication is one of the most straightforward strategies to manipulate domestication-related and/or other genes with known function, and thereby introduce desired traits into wild plants. We also summarize known causal variations and their corresponding pathways in order to better understand the genetic basis of crop evolution, and how this knowledge could facilitate de novo domestication. Indeed knowledge-driven de novo domestication has great potential for the development of new sustainable crops that have climate-resilient high yield with low resource input and meet individual nutrient needs. Finally, we discuss current opportunities for and barriers to knowledge-driven de novo domestication.
Collapse
Affiliation(s)
- Liumei Jian
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China
| | - Jianbing Yan
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China
- Hubei Hongshan Laboratory, Wuhan 430070, China
| | - Jie Liu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China
| |
Collapse
|
20
|
Bozal-Leorri A, Subbarao GV, Kishii M, Urmeneta L, Kommerell V, Karwat H, Braun HJ, Aparicio-Tejo PM, Ortiz-Monasterio I, González-Murua C, González-Moro MB. Biological nitrification inhibitor-trait enhances nitrogen uptake by suppressing nitrifier activity and improves ammonium assimilation in two elite wheat varieties. FRONTIERS IN PLANT SCIENCE 2022; 13:1034219. [PMID: 36438125 PMCID: PMC9695736 DOI: 10.3389/fpls.2022.1034219] [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: 09/01/2022] [Accepted: 10/19/2022] [Indexed: 06/16/2023]
Abstract
Synthetic nitrification inhibitors (SNI) and biological nitrification inhibitors (BNI) are promising tools to limit nitrogen (N) pollution derived from agriculture. Modern wheat cultivars lack sufficient capacity to exude BNIs, but, fortunately, the chromosome region (Lr#n-SA) controlling BNI production in Leymus racemosus, a wild relative of wheat, was introduced into two elite wheat cultivars, ROELFS and MUNAL. Using BNI-isogenic-lines could become a cost-effective, farmer-friendly, and globally scalable technology that incentivizes more sustainable and environmentally friendly agronomic practices. We studied how BNI-trait improves N-uptake, and N-use, both with ammonium and nitrate fertilization, analysing representative indicators of soil nitrification inhibition, and plant metabolism. Synthesizing BNI molecules did not mean a metabolic cost since Control and BNI-isogenic-lines from ROELFS and MUNAL presented similar agronomic performance and plant development. In the soil, ROELFS-BNI and MUNAL-BNI plants decreased ammonia-oxidizing bacteria (AOB) abundance by 60% and 45% respectively, delaying ammonium oxidation without reducing the total abundance of bacteria or archaea. Interestingly, BNI-trait presented a synergistic effect with SNIs since made it also possible to decrease the AOA abundance. ROELFS-BNI and MUNAL-BNI plants showed a reduced leaf nitrate reductase (NR) activity as a consequence of lower soil NO 3 - formation and a higher amino acid content compared to BNI-trait lacking lines, indicating that the transfer of Lr#-SA was able to induce a higher capacity to assimilate ammonium. Moreover, the impact of the BNI-trait in wheat cultivars was also noticeable for nitrate fertilization, with improved N absorption, and therefore, reducing soil nitrate content.
Collapse
Affiliation(s)
- Adrián Bozal-Leorri
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Guntur V. Subbarao
- Crop, Livestock and Environment Division, Japan International Research Center for Agricultural Sciences, Ibaraki, Japan
| | - Masahiro Kishii
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Leyre Urmeneta
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Víctor Kommerell
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Hannes Karwat
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Hans-Joachim Braun
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Pedro Mª Aparicio-Tejo
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Public University of Navarre, Pamplona, Spain
| | - Iván Ortiz-Monasterio
- Global Wheat Program, International Maize and Wheat Improvement Center, Texcoco, Mexico
| | - Carmen González-Murua
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Mª Begoña González-Moro
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| |
Collapse
|
21
|
Zhang R, Lu C, Meng X, Fan Y, Du J, Liu R, Feng Y, Xing L, Cápal P, Holušová K, Doležel J, Wang Y, Mu H, Sun B, Hou F, Yao R, Xiong C, Wang Y, Chen P, Cao A. Fine mapping of powdery mildew and stripe rust resistance genes Pm5V/Yr5V transferred from Dasypyrum villosum into wheat without yield penalty. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:3629-3642. [PMID: 36038638 DOI: 10.1007/s00122-022-04206-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Accepted: 08/22/2022] [Indexed: 06/15/2023]
Abstract
The novel wheat powdery mildew and stripe rust resistance genes Pm5V/Yr5V are introgressed from Dasypyrum villosum and fine mapped to a narrowed region in 5VS, and their effects on yield-related traits were characterized. The powdery mildew and stripe rust seriously threaten wheat production worldwide. Dasypyrum villosum (2n = 2x = 14, VV), a relative of wheat, is a valuable resource of resistance genes for wheat improvement. Here, we describe a platform for rapid introgression of the resistance genes from D. villosum into the wheat D genome. A complete set of new wheat-D. villosum V (D) disomic substitution lines and 11 D/V Robertsonian translocation lines are developed and characterized by molecular cytogenetic method. A new T5DL·5V#5S line NAU1908 shows resistance to both powdery mildew and stripe rust, and the resistances associated with 5VS are confirmed to be conferred by seedling resistance gene Pm5V and adult-plant resistance gene Yr5V, respectively. We flow-sort chromosome arm 5VS and sequence it using the Illumina NovaSeq 6000 system that allows us to generate 5VS-specific markers for genetic mapping of Pm5V/Yr5V. Fine mapping shows that Pm5V and Yr5V are closely linked and the location is narrowed to an approximately 0.9 Mb region referencing the sequence of Chinese Spring 5DS. In this region, a NLR gene in scaffold 24,874 of 5VS orthologous to TraesCS5D02G044300 is the most likely candidate gene for Pm5V. Soft- and hard-grained T5DL·5V#5S introgressions confer resistance to both powdery mildew and stripe rust in diverse wheat genetic backgrounds without yield penalty. Meanwhile, significant decrease in plant height and increase in yield were observed in NIL-5DL·5V#5S compared with that in NIL-5DL·5DS. These results indicate that Pm5V/Yr5V lines might have the potential value to facilitate wheat breeding for disease resistance.
Collapse
Affiliation(s)
- Ruiqi Zhang
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China.
| | - Chuntian Lu
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Xiangru Meng
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Yali Fan
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Jie Du
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Runran Liu
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Yigao Feng
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Liping Xing
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Petr Cápal
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany of the Czech Academy of Sciences, Šlechtitelů 31, 77900, Olomouc, Czech Republic
| | - Kateřina Holušová
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany of the Czech Academy of Sciences, Šlechtitelů 31, 77900, Olomouc, Czech Republic
| | - Jaroslav Doležel
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany of the Czech Academy of Sciences, Šlechtitelů 31, 77900, Olomouc, Czech Republic
| | - Yiwei Wang
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Huanqing Mu
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Bingxiao Sun
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Fu Hou
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Ruonan Yao
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Chuanxi Xiong
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Yang Wang
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Peidu Chen
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| | - Aizhong Cao
- College of Agronomy of Nanjing Agricultural University/National Key Laboratory of Crop Genetics and Germplasm Enhancement /JCIC-MCP, Nanjing, 210095, People's Republic of China
| |
Collapse
|
22
|
Wheat genomic study for genetic improvement of traits in China. SCIENCE CHINA. LIFE SCIENCES 2022; 65:1718-1775. [PMID: 36018491 DOI: 10.1007/s11427-022-2178-7] [Citation(s) in RCA: 55] [Impact Index Per Article: 27.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2022] [Accepted: 08/10/2022] [Indexed: 01/17/2023]
Abstract
Bread wheat (Triticum aestivum L.) is a major crop that feeds 40% of the world's population. Over the past several decades, advances in genomics have led to tremendous achievements in understanding the origin and domestication of wheat, and the genetic basis of agronomically important traits, which promote the breeding of elite varieties. In this review, we focus on progress that has been made in genomic research and genetic improvement of traits such as grain yield, end-use traits, flowering regulation, nutrient use efficiency, and biotic and abiotic stress responses, and various breeding strategies that contributed mainly by Chinese scientists. Functional genomic research in wheat is entering a new era with the availability of multiple reference wheat genome assemblies and the development of cutting-edge technologies such as precise genome editing tools, high-throughput phenotyping platforms, sequencing-based cloning strategies, high-efficiency genetic transformation systems, and speed-breeding facilities. These insights will further extend our understanding of the molecular mechanisms and regulatory networks underlying agronomic traits and facilitate the breeding process, ultimately contributing to more sustainable agriculture in China and throughout the world.
Collapse
|
23
|
Zhao J, Yang J, Wang X, Xiong Y, Xiong Y, Dong Z, Lei X, Yan L, Ma X. Selection and Validation of Reference Genes for qRT-PCR Gene Expression Analysis in Kengyilia melanthera. Genes (Basel) 2022; 13:genes13081445. [PMID: 36011356 PMCID: PMC9408421 DOI: 10.3390/genes13081445] [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: 07/31/2022] [Revised: 08/11/2022] [Accepted: 08/12/2022] [Indexed: 11/16/2022] Open
Abstract
Kengyilia is a newly established genus. Most species in this genus survive in hash environment, which might be an indicator of an acquirement of stress resistance genes and the potential for molecular breeding in Triticeae species. Quantitative real-time PCR (qRT-PCR) is a widely used technique with varied sensitivity heavily dependent on the optimal level of the reference genes. K. melanthera is a typical psammophyte species which has high drought resistance. The reference genes of K. melanthera are not yet reported. This study aims to evaluate the expression stability of 14 candidate reference genes (EF1A, GAPDH, ACT1, UBI, TUBB3, TIPRL, CACS, PPP2R1B, TUBA1A, EIF4A1, CYPA3, TCTP, ABCG11L, and FBXO6L) under five treatments (drought, heat, cold, salt, and ABA) and find the most stable and suitable one even upon stressed conditions. The software NormFinder, GeNorm, BestKeeper, and RefFinder were used for data analysis. In general, the genes CACS and PPP2R1B are concluded to have the best overall performance under the various treatments. With the ABA treatment, TCTP and TIPRL show the best stability. CACS and TCTP, as well as TIPRL and CYPA3, were most stable under the treatments of cold and salt, respectively. CACS and FBXO6L were ranked the highest with the heat treatment and drought treatment, respectively. Finally, the Catalase-1 (CAT1) gene was used to verify the reliability of the above reference genes. Accordingly, CAT1’s expression pattern remained unchanged after normalization with stable reference genes. This study provides beneficial information about the stability and reliability of potential reference genes for qRT-PCR in K. melanthera.
Collapse
Affiliation(s)
- Junming Zhao
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Jian Yang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiaoyun Wang
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Yanli Xiong
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Yi Xiong
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Zhixiao Dong
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiong Lei
- Sichuan Academy of Grassland Science, Chengdu 611731, China
| | - Lijun Yan
- Sichuan Academy of Grassland Science, Chengdu 611731, China
- Correspondence: (L.Y.); (X.M.)
| | - Xiao Ma
- College of Grassland Science and Technology, Sichuan Agricultural University, Chengdu 611130, China
- Correspondence: (L.Y.); (X.M.)
| |
Collapse
|
24
|
Wang X, Han B, Sun Y, Kang X, Zhang M, Han H, Zhou S, Liu W, Lu Y, Yang X, Li X, Zhang J, Liu X, Li L. Introgression of chromosome 1P from Agropyron cristatum reduces leaf size and plant height to improve the plant architecture of common wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2022; 135:1951-1963. [PMID: 35378599 DOI: 10.1007/s00122-022-04086-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 03/16/2022] [Indexed: 06/14/2023]
Abstract
Introducing Agropyron cristatum chromosome 1P into common wheat can significantly reduce the plant height and leaf size, which can improve the plant architecture of common wheat. A new direction in crop breeding is the improvement of plant architecture for dense plantings to obtain higher yields. Wild relatives carry an abundant genetic variation that can increase the diversity of genes for crop genetic improvement. In this study, the A. cristatum 1P addition line, 1PS and 1PL telosomic addition lines were obtained by backcrossing the addition/substitution line II-3-1 (2n = 20'' W + 1P" + 2P") with the commercial recurrent parent cv. Jimai 22. Four continuous years of agronomic trait investigation in the genetic populations suggested that the introduction of A. cristatum chromosome 1P into wheat can significantly improve wheat plant architecture by reducing the plant height, leaf length and leaf width. A. cristatum chromosome arm 1PS reduced the plant height and leaf length of wheat, whereas introducing A. cristatum chromosome arm 1PL reduced the plant height, leaf length and leaf width. Altogether, our results demonstrated that A. cristatum chromosome 1P carries the dominant genes for small leaves and a dwarf habit for the enhancement of plant architecture in wheat. This study highlights wild relative donors as new gene resources for improving wheat plant architecture for dense planting.
Collapse
Affiliation(s)
- Xiao Wang
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Bohui Han
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yangyang Sun
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Xilu Kang
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Meng Zhang
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Haiming Han
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Shenghui Zhou
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Weihua Liu
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yuqing Lu
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Xinming Yang
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Xiuquan Li
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Jinpeng Zhang
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Xu Liu
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Lihui Li
- National Crop Genebank, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| |
Collapse
|
25
|
Zhao Q, Jin K, Hu W, Qian C, Li J, Zhang W, Lou Q, Chen J. Rapid and visual monitoring of alien sequences using crop wild relatives specific oligo-painting: The case of cucumber chromosome engineering. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 319:111199. [PMID: 35487648 DOI: 10.1016/j.plantsci.2022.111199] [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: 11/26/2021] [Revised: 01/26/2022] [Accepted: 01/28/2022] [Indexed: 06/14/2023]
Abstract
Wild species related to domesticated crops (crop wild relatives, or CWRs) represent a high level of genetic diversity that provides a practical gene pool for crop pre-breeding employed to address climate change and food demand challenges globally. Nevertheless, rapid identifying and visual tracking of alien chromosomes and sequences derived from CWRs have been a technical challenge for crop chromosome engineering. Here, a species-specific oligonucleotide (oligo) pool was developed by using the reference genome of Cucumis hystrix (HH, 2n = 2x = 24), a wild species carrying many favorable traits and interspecific compatibility with cultivated cucumber (C. sativus, CC, 2n = 2x = 14). These synthetic double-stranded oligo probes were applied to validate the assembly and characterize the chromosome architectures of C. hystrix, as well as to rapidly identify C. hystrix-chromosomes in diverse C. sativus-hystrix chromosome-engineered germplasms, including interspecific hybrid F1 (HC), synthetic allopolyploids (HHCC, CHC, and HCH) and alien additional lines (CC-H). Moreover, a ∼2Mb of C. hystrix-specific sequences, introduced into cultivated cucumber, were visualized by CWR-specific oligo-painting. These results demonstrate that the CWR-specific oligo-painting technique holds broad applicability for chromosome engineering of numerous crops, as it allows rapid identification of alien chromosomes, reliable detection of homoeologous recombination, and visual tracking of the introgression process. It is promising to achieve directed and high-precision crop pre-breeding combined with other breeding techniques, such as CRISPR/Cas9-mediated chromosome engineering.
Collapse
Affiliation(s)
- Qinzheng Zhao
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Kailing Jin
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Wei Hu
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Chuntao Qian
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Ji Li
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
| | - Wenli Zhang
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, JiangSu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, China
| | - Qunfeng Lou
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
| | - Jinfeng Chen
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
| |
Collapse
|
26
|
Song W, Zhang L, Li Y, Zhang W, Wang L, Niu L, Zhang H, Ji Y, Liao Z. Hydrodynamic zones and the influence of microorganisms on nitrogen transformation in the diverging area of branched rivers. ENVIRONMENTAL RESEARCH 2022; 208:112778. [PMID: 35065067 DOI: 10.1016/j.envres.2022.112778] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2021] [Revised: 12/20/2021] [Accepted: 01/17/2022] [Indexed: 06/14/2023]
Abstract
Diverging area is widespread in river networks, and understanding its biogeochemical process characteristics is of great significance to river ecological restoration and environmental quality improvement. Microbial communities affected by hydrodynamics play an important role in biogeochemical processes, but their relationship in diverging area is little known. Here, the composition of microbial community and its feedback to hydrodynamics and nitrogen conversion in the diverging area of river networks were first studied by coupling ecological theory, biogeochemical theory, microbial DNA sequencing and mathematical model of water environment. The results showed that there were five hydrodynamic zones with significant velocity differences in the diverging area, namely low velocity zone, maximum velocity zone, stagnant zone, separation zone, and deflection zone. According to the flow velocity grouping, there were significant differences in the microbial diversity and abundance among low velocity group, maximum velocity group and stagnant group had significant differences (p < 0.05, stress = 0.1207). In the low velocity group, Firmicutes was the dominant phylum which had a highest abundance and may promot the conversion of organic nitrogen into ammonia nitrogen. In the maximum velocity group, Bdellovibrionota was the dominant phylum which had a highest abundance and may promot the conversion of nitrate and nitric oxide to nitrogen. In the stagnant zone, Methylomirabilota was the dominant phylum which had a highest abundance and may promot the conversion of nitrogen into nitrate and ammonium. In addition, dissolved oxygen was the most sensitive environmental factor for shaping microorganisms and nitrogen conversion in the diverging area of the river networks by canonical correlation analysis. The denitrifying bacteria Rhodocyclaceae, was shown to negatively correlated with the flow velocity. This research improves the scientific basis for the study of the ecosystem in river networks, which will guide the construction of river ecological projects.
Collapse
Affiliation(s)
- Weiwei Song
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Liyan Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Yi Li
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Wenlong Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Longfei Wang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Lihua Niu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Huanjun Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Yuang Ji
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| | - Ziying Liao
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, 210098, China.
| |
Collapse
|
27
|
Nehe A, King J, King IP, Murchie EH, Foulkes MJ. Identifying variation for N-use efficiency and associated traits in amphidiploids derived from hybrids of bread wheat and the genera Aegilops, Secale, Thinopyrum and Triticum. PLoS One 2022; 17:e0266924. [PMID: 35427365 PMCID: PMC9012389 DOI: 10.1371/journal.pone.0266924] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 03/29/2022] [Indexed: 11/19/2022] Open
Abstract
Future genetic progress in wheat grain yield will depend on increasing biomass and this must be achieved without commensurate increases in nitrogen (N) fertilizer inputs to minimize environmental impacts. In recent decades there has been a loss of genetic diversity in wheat through plant breeding. However, new genetic diversity can be created by incorporating genes into bread wheat from wild wheat relatives. Our objectives were to investigate amphidiploids derived from hybrids of bread wheat (Triticum aestivum L.) and related species from the genera Aegilops, Secale, Thinopyrum and Triticum for expression of higher biomass, N-use efficiency (NUE) and leaf photosynthesis rate compared to their bread wheat parents under high and low N conditions. Eighteen amphidiploid lines and their bread wheat parents were examined in high N (HN) and low N (LN) treatments under glasshouse conditions in two years. Averaged across years, grain yield reduced by 38% under LN compared to HN conditions (P = 0.004). Three amphidiploid lines showed positive transgressive segregation compared to their bread wheat parent for biomass per plant under HN conditions. Positive transgressive segregation was also identified for flag-leaf photosynthesis both pre-anthesis and post-anthesis under HN and LN conditions. For N uptake per plant at maturity positive transgressive segregation was identified for one amphidiploid line under LN conditions. Our results indicated that introgressing traits from wild relatives into modern bread wheat germplasm offers scope to raise biomass and N-use effciency in both optimal and low N availability environments.
Collapse
Affiliation(s)
- Ajit Nehe
- Division of Plant and Crop Science, School of Biosciences, University of Nottingham, Loughborough, Leicestershire, United Kingdom
| | - Julie King
- Division of Plant and Crop Science, School of Biosciences, University of Nottingham, Loughborough, Leicestershire, United Kingdom
| | - Ian P. King
- Division of Plant and Crop Science, School of Biosciences, University of Nottingham, Loughborough, Leicestershire, United Kingdom
| | - Erik H. Murchie
- Division of Plant and Crop Science, School of Biosciences, University of Nottingham, Loughborough, Leicestershire, United Kingdom
| | - M. John Foulkes
- Division of Plant and Crop Science, School of Biosciences, University of Nottingham, Loughborough, Leicestershire, United Kingdom
| |
Collapse
|
28
|
Moore VM, Schlautman B, Fei SZ, Roberts LM, Wolfe M, Ryan MR, Wells S, Lorenz AJ. Plant Breeding for Intercropping in Temperate Field Crop Systems: A Review. FRONTIERS IN PLANT SCIENCE 2022; 13:843065. [PMID: 35432391 PMCID: PMC9009171 DOI: 10.3389/fpls.2022.843065] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Accepted: 03/07/2022] [Indexed: 05/14/2023]
Abstract
Monoculture cropping systems currently dominate temperate agroecosystems. However, intercropping can provide valuable benefits, including greater yield stability, increased total productivity, and resilience in the face of pest and disease outbreaks. Plant breeding efforts in temperate field crops are largely focused on monoculture production, but as intercropping becomes more widespread, there is a need for cultivars adapted to these cropping systems. Cultivar development for intercropping systems requires a systems approach, from the decision to breed for intercropping systems through the final stages of variety testing and release. Design of a breeding scheme should include information about species variation for performance in intercropping, presence of genotype × management interaction, observation of key traits conferring success in intercropping systems, and the specificity of intercropping performance. Together this information can help to identify an optimal selection scheme. Agronomic and ecological knowledge are critical in the design of selection schemes in cropping systems with greater complexity, and interaction with other researchers and key stakeholders inform breeding decisions throughout the process. This review explores the above considerations through three case studies: (1) forage mixtures, (2) perennial groundcover systems (PGC), and (3) soybean-pennycress intercropping. We provide an overview of each cropping system, identify relevant considerations for plant breeding efforts, describe previous breeding focused on the cropping system, examine the extent to which proposed theoretical approaches have been implemented in breeding programs, and identify areas for future development.
Collapse
Affiliation(s)
- Virginia M. Moore
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
- *Correspondence: Virginia M. Moore,
| | | | - Shui-zhang Fei
- Department of Horticulture, Iowa State University, Ames, IA, United States
| | - Lucas M. Roberts
- Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, United States
| | - Marnin Wolfe
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
- Department of Crop, Soil and Environmental Sciences, College of Agriculture, Auburn University, Auburn, AL, United States
| | - Matthew R. Ryan
- Soil and Crop Sciences Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Samantha Wells
- Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, United States
| | - Aaron J. Lorenz
- Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, United States
| |
Collapse
|
29
|
Leon A, Guntur V S, Kishii M, Matsumoto N, Kruseman G. An ex ante life cycle assessment of wheat with high biological nitrification inhibition capacity. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:7153-7169. [PMID: 34472025 DOI: 10.1007/s11356-021-16132-2] [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: 05/12/2021] [Accepted: 08/19/2021] [Indexed: 06/13/2023]
Abstract
It is essential to increase food production to meet the projected population increase while reducing environmental loads. Biological nitrification inhibition (BNI)-enabled wheat genetic stocks are under development through chromosome engineering by transferring chromosomal regions carrying the BNI trait from a wild relative (Leymus racemosus (Lam.) Tzvelev) into elite wheat varieties; field evaluation of these newly developed BNI-wheat varieties has started. Ten years from now, BNI-enabled elite wheat varieties are expected to be deployed in wheat production systems. This study aims to evaluate the impacts of introducing these novel genetic solutions on life cycle greenhouse gas (LC-GHG) emissions, nitrogen (N) fertilizer application rates and N-use efficiency (NUE). Scenarios were developed based on evidence of nitrification inhibition and nitrous oxide (N2O) emission reduction by BNI crops and by synthetic nitrification inhibitors (SNIs), as both BNI-wheat and SNIs slow the nitrification process. Scenarios including BNI-wheat will inhibit nitrification by 30% by 2030 and 40% by 2050. It was assumed that N fertilizer application rates can potentially be reduced, as N losses through N2O emissions, leaching and runoff are expected to be lower. The results show that the impacts from BNI-wheat with 40% nitrification inhibition by 2050 are assessed to be positive: a 15.0% reduction in N fertilization, a 15.9% reduction in LC-GHG emissions, and a 16.7% improvement in NUE at the farm level. An increase in ammonia volatilization had little influence on the reduction in LC-GHG emissions. The GHG emissions associated with N fertilizer production and soil N2O emissions can be reduced between 7.3 and 9.5% across the wheat-harvested area worldwide by BNI-wheat with 30% and 40% nitrification inhibition, respectively. However, the present study recommends further technological developments (e.g. further developments in BNI-wheat and the development of more powerful SNIs) to reduce environmental impacts while improving wheat production to meet the increasing worldwide demand.
Collapse
Affiliation(s)
- Ai Leon
- Japan International Research Center for Agricultural Sciences, Ohwashi, Tsukuba, Ibaraki, 305-8686, Japan.
| | - Subbarao Guntur V
- Japan International Research Center for Agricultural Sciences, Ohwashi, Tsukuba, Ibaraki, 305-8686, Japan
| | - Masahiro Kishii
- International Maize and Wheat Improvement Center, Carretera Mexico-Veracruz Km.45 El Batán, Texcoco, C.P, 56237, Mexico
| | - Naruo Matsumoto
- Japan International Research Center for Agricultural Sciences, Ohwashi, Tsukuba, Ibaraki, 305-8686, Japan
| | - Gideon Kruseman
- International Maize and Wheat Improvement Center, Carretera Mexico-Veracruz Km.45 El Batán, Texcoco, C.P, 56237, Mexico
| |
Collapse
|
30
|
Effects of Hillslope Trenching on Surface Water Infiltration in Subalpine Forested Catchments. HYDROLOGY 2021. [DOI: 10.3390/hydrology8040147] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Concerns over freshwater scarcity for agriculture, ecosystems, and human consumption are driving the construction of infiltration trenches in many mountain protected areas. This study examines the effectiveness of infiltration trenches in a subalpine forested catchment in central Mexico, where public and private organizations have been constructing trenches for ~60 years. We rely on empirical data to develop rainfall-runoff models for two scenarios: a baseline (no trenches) and a trenched scenario. Field measurements of infiltration capacities in forested and trenched soils (n = 56) and two years of meteorological data are integrated into a semi-distributed runoff model of 28 trenched sub-catchments. Sensitivity analysis and hydrographs are used to evaluate differences in total runoff and infiltration between the two scenarios. Multiple logistic regression is used to evaluate the effects of environmental and management variables on the likelihood of runoff response and trench overtopping. The findings show that soil infiltration capacity and rainfall intensity are primary drivers of runoff and trench overtopping. However, trenches provided only a 1.2% increase in total infiltration over the two-year period. This marginal benefit is discussed in relation to the potential adverse environmental impacts of trench construction. Overall, our study finds that as a means of runoff harvesting in these forested catchments, trenches provide negligible infiltration benefits. As a result, this study cautions against further construction of infiltration trenches in forested catchments without careful ex ante assessment of rainfall-runoff relationships. The results of this study have important implications for forest water management in Mexico and elsewhere, where similar earthworks are employed to enhance runoff harvesting and surface water infiltration.
Collapse
|