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Ren Z, Yin X, Liu L, Zhang L, Shen W, Fang Z, Yu Q, Qin L, Chen L, Jia R, Wang X, Liu B. Flavonoid localization in soybean seeds: Comparative analysis of wild (Glycine soja) and cultivated (Glycine max) varieties. Food Chem 2024; 456:139883. [PMID: 38870803 DOI: 10.1016/j.foodchem.2024.139883] [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: 12/31/2023] [Revised: 05/24/2024] [Accepted: 05/27/2024] [Indexed: 06/15/2024]
Abstract
Wild soybean (Glycine soja) is known for its high flavonoid contents, yet the distribution of flavonoids in the seeds is not well understood. Herein, we utilized matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI) and metabolomics methods to systematically investigate flavonoid differences in the seed coats and embryos of G. soja and G. max. The results of flavonoid profiles and total flavonoid content analyses revealed that flavonoid diversity and abundance in G. soja seed coats were significantly higher than those in G. max whereas the levels were similar in embryos. Specifically, 23 unique flavonoids were identified in the seed coats of G. soja, including procyanidins, epicatechin derivatives, and isoflavones. Using MALDI-MSI, we further delineated the distribution of the important flavonoids in the cotyledons, hypocotyls, and radicles of the two species. These findings imply that G. soja holds considerable breeding potential to enhance the nutritional and stress resistance traits of G. max.
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Affiliation(s)
- Zhentao Ren
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Xin Yin
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Laipan Liu
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Li Zhang
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Wenjing Shen
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Zhixiang Fang
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Qi Yu
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China
| | - Liang Qin
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), State Ethnic Affairs Commission, Beijing 100081, China
| | - Lulu Chen
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), State Ethnic Affairs Commission, Beijing 100081, China
| | - Ruizong Jia
- Sanya Research Institution/Hainan Key Laboratory for Biosafety Monitoring and Molecular Breeding in off-Season Reproduction Regions, Chinese Academy of Tropical Agricultural Sciences, Sanya 572011, China
| | - Xiaodong Wang
- Key Laboratory of Mass Spectrometry Imaging and Metabolomics (Minzu University of China), State Ethnic Affairs Commission, Beijing 100081, China.
| | - Biao Liu
- Nanjing Institute of Environmental Sciences, Ministry of Ecology and Environment of China, Nanjing 210042, China.
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Hale B, Ratnayake S, Flory A, Wijeratne R, Schmidt C, Robertson AE, Wijeratne AJ. Gene regulatory network inference in soybean upon infection by Phytophthora sojae. PLoS One 2023; 18:e0287590. [PMID: 37418376 PMCID: PMC10328377 DOI: 10.1371/journal.pone.0287590] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Accepted: 06/07/2023] [Indexed: 07/09/2023] Open
Abstract
Phytophthora sojae is a soil-borne oomycete and the causal agent of Phytophthora root and stem rot (PRR) in soybean (Glycine max [L.] Merrill). Yield losses attributed to P. sojae are devastating in disease-conducive environments, with global estimates surpassing 1.1 million tonnes annually. Historically, management of PRR has entailed host genetic resistance (both vertical and horizontal) complemented by disease-suppressive cultural practices (e.g., oomicide application). However, the vast expansion of complex and/or diverse P. sojae pathotypes necessitates developing novel technologies to attenuate PRR in field environments. Therefore, the objective of the present study was to couple high-throughput sequencing data and deep learning to elucidate molecular features in soybean following infection by P. sojae. In doing so, we generated transcriptomes to identify differentially expressed genes (DEGs) during compatible and incompatible interactions with P. sojae and a mock inoculation. The expression data were then used to select two defense-related transcription factors (TFs) belonging to WRKY and RAV families. DNA Affinity Purification and sequencing (DAP-seq) data were obtained for each TF, providing putative DNA binding sites in the soybean genome. These bound sites were used to train Deep Neural Networks with convolutional and recurrent layers to predict new target sites of WRKY and RAV family members in the DEG set. Moreover, we leveraged publicly available Arabidopsis (Arabidopsis thaliana) DAP-seq data for five TF families enriched in our transcriptome analysis to train similar models. These Arabidopsis data-based models were used for cross-species TF binding site prediction on soybean. Finally, we created a gene regulatory network depicting TF-target gene interactions that orchestrate an immune response against P. sojae. Information herein provides novel insight into molecular plant-pathogen interaction and may prove useful in developing soybean cultivars with more durable resistance to P. sojae.
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Affiliation(s)
- Brett Hale
- Molecular Biosciences Graduate Program, Arkansas State University, State University, AR, United States of America
- Arkansas Biosciences Institute, Arkansas State University, State University, AR, United States of America
- College of Science and Mathematics, Arkansas State University, State University, AR, United States of America
| | - Sandaruwan Ratnayake
- Arkansas Biosciences Institute, Arkansas State University, State University, AR, United States of America
- College of Science and Mathematics, Arkansas State University, State University, AR, United States of America
| | - Ashley Flory
- Arkansas Biosciences Institute, Arkansas State University, State University, AR, United States of America
| | | | - Clarice Schmidt
- Department of Plant Pathology and Microbiology, Iowa State University, Ames, IA, United States of America
| | - Alison E. Robertson
- Department of Plant Pathology and Microbiology, Iowa State University, Ames, IA, United States of America
| | - Asela J. Wijeratne
- Arkansas Biosciences Institute, Arkansas State University, State University, AR, United States of America
- College of Science and Mathematics, Arkansas State University, State University, AR, United States of America
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Miao W, Yang Y, Wu M, Huang G, Ge L, Liu Y, Guan Z, Chen S, Fang W, Chen F, Zhao S. Potential pathways and genes expressed in Chrysanthemum in response to early fusarium oxysporum infection. BMC PLANT BIOLOGY 2023; 23:312. [PMID: 37308810 DOI: 10.1186/s12870-023-04331-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Received: 02/12/2023] [Accepted: 06/05/2023] [Indexed: 06/14/2023]
Abstract
BACKGROUND Chrysanthemum Fusarium wilt is a common fungal disease caused by Fusarium oxysporum, which causes continuous cropping obstacles and huge losses to the chrysanthemum industry. The defense mechanism of chrysanthemum against F. oxysporum remains unclear, especially during the early stages of the disease. Therefore, in the present study, we analyzed chrysanthemum 'Jinba' samples inoculated with F. oxysporum at 0, 3, and 72 h using RNA-seq. RESULTS The results revealed that 7985 differentially expressed genes (DEGs) were co-expressed at 3 and 72 h after F. oxysporum infection. We analyzed the identified DEGs using Kyoto Encyclopedia of Genes and Genomes and Gene Ontology. The DEGs were primarily enriched in "Plant pathogen interaction", "MAPK signaling pathway", "Starch and sucrose metabolism", and "Biosynthesis of secondary metabolites". Genes related to the synthesis of secondary metabolites were upregulated in chrysanthemum early during the inoculation period. Furthermore, peroxidase, polyphenol oxidase, and phenylalanine ammonia-lyase enzymes were consistently produced to accumulate large amounts of phenolic compounds to resist F. oxysporum infection. Additionally, genes related to the proline metabolic pathway were upregulated, and proline levels accumulated within 72 h, regulating osmotic balance in chrysanthemum. Notably, the soluble sugar content in chrysanthemum decreased early during the inoculation period; we speculate that this is a self-protective mechanism of chrysanthemums for inhibiting fungal reproduction by reducing the sugar content in vivo. In the meantime, we screened for transcription factors that respond to F. oxysporum at an early stage and analyzed the relationship between WRKY and DEGs in the "Plant-pathogen interaction" pathway. We screened a key WRKY as a research target for subsequent experiments. CONCLUSION This study revealed the relevant physiological responses and gene expression changes in chrysanthemum in response to F. oxysporum infection, and provided a relevant candidate gene pool for subsequent studies on chrysanthemum Fusarium wilt.
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Affiliation(s)
- Weihao Miao
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Yanrong Yang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Mengtong Wu
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Gan Huang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Lijiao Ge
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Ye Liu
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Zhiyong Guan
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Sumei Chen
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Weimin Fang
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Fadi Chen
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China
| | - Shuang Zhao
- College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China.
- Key laboratory of landscaping, Ministry of Agriculture and Rural Affairs, Nanjing, 210095, China.
- Zhongshan Biological Breeding Laboratory, No.50 Zhongling Street, Nanjing, 210014, Jiangsu, PR China.
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Sampaio AM, Alves ML, Pereira P, Valiollahi E, Santos C, Šatović Z, Rubiales D, Araújo SDS, van Eeuwijk F, Vaz Patto MC. Grass pea natural variation reveals oligogenic resistance to Fusarium oxysporum f. sp. pisi. THE PLANT GENOME 2021; 14:e20154. [PMID: 34617677 DOI: 10.1002/tpg2.20154] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Accepted: 08/03/2021] [Indexed: 05/28/2023]
Abstract
Grass pea (Lathyrus sativus L.) is an annual legume species, phylogenetically close to pea (Pisum sativum L.), that may be infected by Fusarium oxysporum f. sp. pisi (Fop), the causal agent of fusarium wilt in peas with vast worldwide yield losses. A range of responses varying from high resistance to susceptibility to this pathogen has been reported in grass pea germplasm. Nevertheless, the genetic basis of that diversity of responses is still unknown, hampering its breeding exploitation. To identify genomic regions controlling grass pea resistance to fusarium wilt, a genome-wide association study approach was applied on a grass pea worldwide collection of accessions inoculated with Fop race 2. Disease responses were scored in this collection that was also subjected to high-throughput based single nucleotide polymorphisms (SNP) screening through genotyping-by-sequencing. A total of 5,651 high-quality SNPs were considered for association mapping analysis, performed using mixed linear models accounting for population structure. Because of the absence of a fully assembled grass pea reference genome, SNP markers' genomic positions were retrieved from the pea's reference genome v1a. In total, 17 genomic regions were associated with three fusarium wilt response traits in grass pea, anticipating an oligogenic control. Seven of these regions were located on pea chromosomes 1, 6, and 7. The candidate genes underlying these regions were putatively involved in secondary and amino acid metabolism, RNA (regulation of transcription), transport, and development. This study revealed important fusarium wilt resistance favorable grass pea SNP alleles, allowing the development of molecular tools for precision disease resistance breeding.
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Affiliation(s)
- Ana Margarida Sampaio
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
| | - Mara Lisa Alves
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
| | - Priscila Pereira
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
| | - Ehsan Valiollahi
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
- Current address: Biotechnology Research Center, Pharmaceutical Technology Institute, Mashhad Univ. of Medical Sciences, Mashhad, Iran
| | - Carmen Santos
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
| | - Zlatko Šatović
- Faculty of Agriculture, Univ. of Zagreb, Svetošimunska 25, 10000, Zagreb, Croatia
- Center of Excellence for Biodiversity and Molecular Plant Breeding, Svetošimunska 25, 10000, Zagreb, Croatia
| | - Diego Rubiales
- Institute for Sustainable Agriculture, CSIC, Avda. Menéndez Pidal s/n, 14004, Córdoba, Spain
| | - Susana de Sousa Araújo
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
- Association BLC3, Technology and Innovation Campus, Centre Bio R&D Unit, Rua Comendador Emílio Augusto Pires, 14, Edifício SIDE UP, 5340-257, Macedo de Cavaleiros, Portugal
| | - Fred van Eeuwijk
- Wageningen Univ. & Research, Biometrics, Applied Statistics, Droevendaalsesteeg 1 6708PB, Wageningen, The Netherlands
| | - Maria Carlota Vaz Patto
- Instituto de Tecnologia Química e Biológica António Xavier, Univ. Nova de Lisboa, Avenida da República, Estação Agronómica Nacional, 2780-157, Oeiras, Portugal
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Ku YS, Cheng SS, Gerhardt A, Cheung MY, Contador CA, Poon LYW, Lam HM. Secretory Peptides as Bullets: Effector Peptides from Pathogens against Antimicrobial Peptides from Soybean. Int J Mol Sci 2020; 21:E9294. [PMID: 33291499 PMCID: PMC7730307 DOI: 10.3390/ijms21239294] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Revised: 11/24/2020] [Accepted: 12/03/2020] [Indexed: 12/24/2022] Open
Abstract
Soybean is an important crop as both human food and animal feed. However, the yield of soybean is heavily impacted by biotic stresses including insect attack and pathogen infection. Insect bites usually make the plants vulnerable to pathogen infection, which causes diseases. Fungi, oomycetes, bacteria, viruses, and nematodes are major soybean pathogens. The infection by pathogens and the defenses mounted by soybean are an interactive and dynamic process. Using fungi, oomycetes, and bacteria as examples, we will discuss the recognition of pathogens by soybean at the molecular level. In this review, we will discuss both the secretory peptides for soybean plant infection and those for pathogen inhibition. Pathogenic secretory peptides and peptides secreted by soybean and its associated microbes will be included. We will also explore the possible use of externally applied antimicrobial peptides identical to those secreted by soybean and its associated microbes as biopesticides.
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Affiliation(s)
- Yee-Shan Ku
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
| | - Sau-Shan Cheng
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
| | - Aisha Gerhardt
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
- Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany
| | - Ming-Yan Cheung
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
| | - Carolina A. Contador
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
| | - Lok-Yiu Winnie Poon
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
| | - Hon-Ming Lam
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Hong Kong; (Y.-S.K.); (S.-S.C.); (A.G.); (M.-Y.C.); (C.A.C.); (L.-Y.W.P.)
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Chang C, Xu S, Tian L, Shi S, Nasir F, Chen D, Li X, Tian C. Connection the Rhizomicrobiome and Plant MAPK Gene Expression Response to Pathogenic Fusarium oxysporum in Wild and Cultivated Soybean. THE PLANT PATHOLOGY JOURNAL 2019; 35:623-634. [PMID: 31832042 PMCID: PMC6901252 DOI: 10.5423/ppj.oa.04.2019.0111] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/21/2019] [Revised: 10/29/2019] [Accepted: 11/04/2019] [Indexed: 06/10/2023]
Abstract
Little known the connections between soybeans mitogen-activated protein kinase (MAPK) gene expression and the rhizomicrobiome upon invasion of the root pathogen Fusarium oxysporum. To address this lack of knowledge, we assessed the rhizomicrobiome and root transcriptome sequencing of wild and cultivated soybean during the invasion of F. oxysporum. Results indicated F. oxysporum infection enriched Bradyrhizobium spp. and Glomus spp. and induced the expression of more MAPKs in the wild soybean than cultivated soybean. MAPK gene expression was positively correlated with Pseudomonadaceae but negatively correlated with Sphingomonadaceae and Glomeraceae in both cultivated and wild soybean. Specifically, correlation profiles revealed that Pseudomonadaceae was especially correlated with the induced expression of GmMAKKK13-2 (Glyma.14G195300) and GmMAPK3-2 (Glyma.12G073000) in wild and cultivated soybean during F. oxysporum invasion. Main fungal group Glomeraceae was positively correlated with GmMAPKKK14-1 (Glyma.18G060900) and negatively correlated with GmRaf6-4 (Glyma.02G215300) in the wild soybean response to pathogen infection; while there were positive correlations between Hypocreaceae and GmMAPK3-2 (Glyma.12G073000) and between Glomeraceae and GmRaf49-3 (Glyma.06G055300) in the wild soybean response, these correlations were strongly negative in the response of cultivated soybean to F. oxysporum. Taken together, MAPKs correlated with different rhizomicrobiomes indicating the host plant modulated by the host self-immune systems in response to F. oxysporum.
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Affiliation(s)
- Chunling Chang
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
- University of Chinese Academy of Sciences, Beijing 100049,
China
| | - Shangqi Xu
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
| | - Lei Tian
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
| | - Shaohua Shi
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
| | - Fahad Nasir
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
- Key Laboratory of Vegetation Ecology, Ministry of Education, Institute of Grassland Science, Northeast Normal University, Changchun 130024,
China
| | - Deguo Chen
- College of Life Science, Jilin Agricultural University, Changchun 130118,
China
| | - Xiujun Li
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
| | - Chunjie Tian
- Key Laboratory of Mollisols Agroecology, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102,
China
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Zhang L, Huang W, Peng D, Liu S. Comparative genomic analyses of two segregating mutants reveal seven genes likely involved in resistance to Fusarium equiseti in soybean via whole genome re-sequencing. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2019; 132:2997-3008. [PMID: 31338526 DOI: 10.1007/s00122-019-03401-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 07/11/2019] [Indexed: 06/10/2023]
Abstract
KEY MESSAGE The candidate genes involved in resistance to Fusarium equiseti in soybean PI 437654 were identified through comparative genomic analyses of mutants via whole genome re-sequencing. The fungus Fusarium infects each stage of the growth and development of soybean and causes soybean (Glycine max (L.)) seed and root rot and seedling damping-off and wilt with a large quantity of annual yield loss worldwide. It is very important to identify the resistant genes in soybean to prevent and control this pathogen. One Fusarium equiseti isolate was previously identified to be incompatible with 'PI 437654' but compatible with a Chinese soybean cultivar 'Zhonghuang 13'. In this study, with the infection of this isolate on the seedling roots of developed PI 437654 mutants, 6 mutants were identified from 500 mutants to significantly alter their phenotypes to F. equiseti compared to wild-type PI 437654. Then, two identified segregating mutants were selected to directly perform whole genome re-sequencing. Finally, through comparative genomic analyses 7 genes including one cluster of 4 nucleotide binding site-leucine-rich repeat genes on one genomic region of chromosome 7, a 60S ribosomal protein L12 gene and 2 uncharacterized genes were identified to be likely involved in the resistance to F. equiseti. These genes will facilitate the breeding of resistant germplasm resources and the identification of resistance of soybean to Fusarium spp.
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Affiliation(s)
- Liuping Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China
| | - Wenkun Huang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China
| | - Deliang Peng
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China
| | - Shiming Liu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, People's Republic of China.
- College of Plant Protection, Hunan Agricultural University, Changsha, 410128, People's Republic of China.
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Kankanala P, Nandety RS, Mysore KS. Genomics of Plant Disease Resistance in Legumes. FRONTIERS IN PLANT SCIENCE 2019; 10:1345. [PMID: 31749817 PMCID: PMC6842968 DOI: 10.3389/fpls.2019.01345] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Accepted: 09/27/2019] [Indexed: 05/15/2023]
Abstract
The constant interactions between plants and pathogens in the environment and the resulting outcomes are of significant importance for agriculture and agricultural scientists. Disease resistance genes in plant cultivars can break down in the field due to the evolution of pathogens under high selection pressure. Thus, the protection of crop plants against pathogens is a continuous arms race. Like any other type of crop plant, legumes are susceptible to many pathogens. The dawn of the genomic era, in which high-throughput and cost-effective genomic tools have become available, has revolutionized our understanding of the complex interactions between legumes and pathogens. Genomic tools have enabled a global view of transcriptome changes during these interactions, from which several key players in both the resistant and susceptible interactions have been identified. This review summarizes some of the large-scale genomic studies that have clarified the host transcriptional changes during interactions between legumes and their plant pathogens while highlighting some of the molecular breeding tools that are available to introgress the traits into breeding programs. These studies provide valuable insights into the molecular basis of different levels of host defenses in resistant and susceptible interactions.
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