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Shang K, Wang R, Cao W, Wang X, Wang Y, Shi Z, Liu H, Zhou S, Zhu X, Zhu C. Abscisic-acid-responsive StlncRNA13558 induces StPRL expression to increase potato resistance to Phytophthora infestans infection. Front Plant Sci 2024; 15:1338062. [PMID: 38504894 PMCID: PMC10948444 DOI: 10.3389/fpls.2024.1338062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Accepted: 02/21/2024] [Indexed: 03/21/2024]
Abstract
Late blight, caused by Phytophthora infestans, is one of the most serious diseases affecting potatoes (Solanum tuberosum L.). Long non-coding RNAs (lncRNAs) are transcripts with a length of more than 200 nucleotides that have no protein-coding potential. Few studies have been conducted on lncRNAs related to plant immune regulation in plants, and the molecular mechanisms involved in this regulation require further investigation. We identified and screened an lncRNA that specifically responds to P. infestans infection, namely, StlncRNA13558. P. infestans infection activates the abscisic acid (ABA) pathway, and ABA induces StlncRNA13558 to enhance potato resistance to P. infestans. StlncRNA13558 positively regulates the expression of its co-expressed PR-related gene StPRL. StPRL promotes the accumulation of reactive oxygen species and transmits a resistance response by affecting the salicylic acid hormone pathway, thereby enhancing potato resistance to P. infestans. In summary, we identified the potato late blight resistance lncRNA StlncRNA13558 and revealed its upstream and downstream regulatory relationship of StlncRNA13558. These results improve our understanding of plant-pathogen interactions' immune mechanism and elucidate the response mechanism of lncRNA-target genes regulating potato resistance to P. infestans infection.
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Affiliation(s)
- Kaijie Shang
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
- College of Plant Protection, Shandong Agricultural University, Tai’an, Shandong, China
| | - Ruolin Wang
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Weilin Cao
- The Engineering Research Institute of Agriculture and Forestry, Ludong University, Yantai, Shandong, China
| | - Xipan Wang
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Yubo Wang
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Zhenting Shi
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Hongmei Liu
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Shumei Zhou
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
| | - Xiaoping Zhu
- College of Plant Protection, Shandong Agricultural University, Tai’an, Shandong, China
| | - Changxiang Zhu
- College of Life Sciences, Shandong Agricultural University, Tai’an, Shandong, China
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2
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Bentham AR, Wang W, Trusch F, Varden FA, Birch PRJ, Banfield MJ. The WY Domain of an RxLr Effector Drives Interactions with a Host Target Phosphatase to Mimic Host Regulatory Proteins and Promote Phytophthora infestans Infection. Mol Plant Microbe Interact 2024; 37:239-249. [PMID: 37921637 DOI: 10.1094/mpmi-08-23-0118-fi] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/04/2023]
Abstract
Plant pathogens manipulate the cellular environment of the host to facilitate infection and colonization that often lead to plant diseases. To accomplish this, many specialized pathogens secrete virulence proteins called effectors into the host cell, which subvert processes such as immune signaling, gene transcription, and host metabolism. Phytophthora infestans, the causative agent of potato late blight, employs an expanded repertoire of RxLR effectors with WY domains to manipulate the host through direct interaction with protein targets. However, our understanding of the molecular mechanisms underlying the interactions between WY effectors and their host targets remains limited. In this study, we performed a structural and biophysical characterization of the P. infestans WY effector Pi04314 in complex with the potato Protein Phosphatase 1-c (PP1c). We elucidate how Pi04314 uses a WY domain and a specialized C-terminal loop carrying a KVxF motif that interact with conserved surfaces on PP1c, known to be used by host regulatory proteins for guiding function. Through biophysical and in planta analyses, we demonstrate that Pi04314 WY or KVxF mutants lose their ability to bind PP1c. The loss of PP1c binding correlates with changes in PP1c nucleolar localization and a decrease in lesion size in plant infection assays. This study provides insights into the manipulation of plant hosts by pathogens, revealing how effectors exploit key regulatory interfaces in host proteins to modify their function and facilitate disease. [Formula: see text] Copyright © 2024 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
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Affiliation(s)
- Adam R Bentham
- Department of Biochemistry and Metabolism, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, U.K
| | - Wei Wang
- Department of Cell and Molecular Sciences, James Hutton Institute, Invergowrie DD2 5DA, Dundee, U.K
- Division of Plant Sciences, College of Life Science, University of Dundee (at JHI), Invergowrie DD2 5DA, Dundee, U.K
| | - Franziska Trusch
- Department of Cell and Molecular Sciences, James Hutton Institute, Invergowrie DD2 5DA, Dundee, U.K
- Division of Plant Sciences, College of Life Science, University of Dundee (at JHI), Invergowrie DD2 5DA, Dundee, U.K
| | - Freya A Varden
- Department of Biochemistry and Metabolism, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, U.K
| | - Paul R J Birch
- Department of Cell and Molecular Sciences, James Hutton Institute, Invergowrie DD2 5DA, Dundee, U.K
- Division of Plant Sciences, College of Life Science, University of Dundee (at JHI), Invergowrie DD2 5DA, Dundee, U.K
| | - Mark J Banfield
- Department of Biochemistry and Metabolism, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, U.K
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Babarinde S, Burlakoti RR, Peters RD, Al-Mughrabi K, Novinscak A, Sapkota S, Prithiviraj B. Genetic structure and population diversity of Phytophthora infestans strains in Pacific western Canada. Appl Microbiol Biotechnol 2024; 108:237. [PMID: 38407622 PMCID: PMC10896882 DOI: 10.1007/s00253-024-13040-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2023] [Revised: 01/07/2024] [Accepted: 01/28/2024] [Indexed: 02/27/2024]
Abstract
Late blight caused by Phytophthora infestans is an economically important disease of potato and tomato worldwide. In Canada, an increase in late blight incidence and severity coincided with changes in genetic composition of P. infestans. We monitored late blight incidence on tomato and potato in Pacific western and eastern Canada between 2019 and 2022, identified genotypes of P. infestans, and examined their population genetic diversity. We identified four major existing genotypes US11, US17, US8, and US23 as well as 25 new genotypes. The US11 genotype was dominant in Pacific western Canada, accounting for 59% of the total population. We discovered the US17 genotype for the first time in Canada. We revealed a higher incidence of late blight and quite diverse genotypes of P. infestans in Pacific western Canada than in eastern Canada. We found high genetic diversity of P. infestans population from Pacific western Canada, as evidenced by the high number of multilocus genotypes, high values of genetic diversity indices, and emergence of 25 new genotypes. Considering the number of disease incidence, the detection of diverse known genotypes, the emergence of novel genotypes, and the high number of isolates resistant to metalaxyl-m (95%) from Pacific western Canada, the region could play a role in establishing sexual recombination and diverse populations, which could ultimately pose challenges for late blight management. Therefore, continuous monitoring of P. infestans populations in Pacific western region and across Canada is warranted. KEY POINTS: • Genotypes of P. infestans in Pacific western were quite diverse than in eastern Canada. • We discovered US17 genotype for the first time in Canada and identified 26 novel genotypes. • Approximately 95% of P. infestans isolates were resistant to metalaxyl-m.
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Affiliation(s)
- Segun Babarinde
- Agassiz Research and Development Centre, Agriculture and Agri-Food Canada, 6947 Hwy 7, Agassiz, BC, V0M 1A0, Canada
- Department of Plant, Food and Environmental Sciences, Faculty of Agriculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
| | - Rishi R Burlakoti
- Agassiz Research and Development Centre, Agriculture and Agri-Food Canada, 6947 Hwy 7, Agassiz, BC, V0M 1A0, Canada.
| | - Rick D Peters
- Agriculture and Agri-Food Canada, 440 University Avenue, Charlottetown, PE, C1A 4N6, Canada
| | - Khalil Al-Mughrabi
- New Brunswick Department of Agriculture, Aquaculture and Fisheries, 39 Barker Lane, Wicklow, NB, E7L 3S4, Canada
| | - Amy Novinscak
- Agassiz Research and Development Centre, Agriculture and Agri-Food Canada, 6947 Hwy 7, Agassiz, BC, V0M 1A0, Canada
| | - Sanjib Sapkota
- Agassiz Research and Development Centre, Agriculture and Agri-Food Canada, 6947 Hwy 7, Agassiz, BC, V0M 1A0, Canada
| | - Balakrishnan Prithiviraj
- Department of Plant, Food and Environmental Sciences, Faculty of Agriculture, Dalhousie University, Truro, NS, B2N 5E3, Canada
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Chen X, Feng J, Li Z, Feng H, Song C, Cai L, Joosten MHAJ, Du Y. Lipid transfer protein StLTPa enhances potato disease resistance against different pathogens by binding and disturbing the integrity of pathogens plasma membrane. Plant Biotechnol J 2024. [PMID: 38366362 DOI: 10.1111/pbi.14310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 01/20/2024] [Accepted: 02/02/2024] [Indexed: 02/18/2024]
Abstract
Potato is the third most important food crop worldwide. Potato production suffers from severe diseases caused by multiple detrimental plant pathogens, and broad-spectrum disease resistance genes are rarely identified in potato. Here we identified the potato non-specific lipid transfer protein StLTPa, which enhances species none-specific disease resistance against various pathogens, such as the oomycete pathogen Phytophthora infestans, the fungal pathogens Botrytis cinerea and Verticillium dahliae, and the bacterial pathogens Pectobacterium carotovorum and Ralstonia solanacearum. The StLTPa overexpression potato lines do not show growth penalty. Furthermore, we provide evidence that StLTPa binds to lipids present in the plasma membrane (PM) of the hyphal cells of P. infestans, leading to an increased permeability of the PM. Adding of PI(3,5)P2 and PI(3)P could compete the binding of StLTPa to pathogen PM and reduce the inhibition effect of StLTPa. The lipid-binding activity of StLTPa is essential for its role in pathogen inhibition and promotion of potato disease resistance. We propose that StLTPa enhances potato broad-spectrum disease resistance by binding to, and thereby promoting the permeability of the PM of the cells of various pathogens. Overall, our discovery illustrates that increasing the expression of a single gene in potato enhances potato disease resistance against different pathogens without growth penalty.
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Affiliation(s)
- Xiaokang Chen
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production and College of Horticulture, Northwest A&F University, Yangling, China
| | - Jiashu Feng
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production and College of Horticulture, Northwest A&F University, Yangling, China
| | - Zhenzhen Li
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production and College of Horticulture, Northwest A&F University, Yangling, China
| | - Hui Feng
- College of Tobacco Science of Guizhou University/Key laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education)/Guizhou Key Lab of Agro-Bioengineering, Guiyang, China
| | - Chunxu Song
- State Key Laboratory of Nutrient Use and Management, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
- National Academy of Agriculture Green Development, China Agricultural University, Beijing, China
| | - Lin Cai
- College of Tobacco Science of Guizhou University/Key laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education)/Guizhou Key Lab of Agro-Bioengineering, Guiyang, China
| | | | - Yu Du
- State Key Laboratory for Crop Stress Resistance and High-Efficiency Production and College of Horticulture, Northwest A&F University, Yangling, China
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5
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Zarka KA, Jagd LM, Douches DS. T-DNA characterization of genetically modified 3-R-gene late blight-resistant potato events with a novel procedure utilizing the Samplix Xdrop ® enrichment technology. Front Plant Sci 2024; 15:1330429. [PMID: 38419775 PMCID: PMC10900525 DOI: 10.3389/fpls.2024.1330429] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/30/2023] [Accepted: 01/22/2024] [Indexed: 03/02/2024]
Abstract
Before the commercialization of genetically modified crops, the events carrying the novel DNA must be thoroughly evaluated for agronomic, nutritional, and molecular characteristics. Over the years, polymerase chain reaction-based methods, Southern blot, and short-read sequencing techniques have been utilized for collecting molecular characterization data. Multiple genomic applications are necessary to determine the insert location, flanking sequence analysis, characterization of the inserted DNA, and determination of any interruption of native genes. These techniques are time-consuming and labor-intensive, making it difficult to characterize multiple events. Current advances in sequencing technologies are enabling whole-genomic sequencing of modified crops to obtain full molecular characterization. However, in polyploids, such as the tetraploid potato, it is a challenge to obtain whole-genomic sequencing coverage that meets the regulatory approval of the genetic modification. Here we describe an alternative to labor-intensive applications with a novel procedure using Samplix Xdrop® enrichment technology and next-generation Nanopore sequencing technology to more efficiently characterize the T-DNA insertions of four genetically modified potato events developed by the Feed the Future Global Biotech Potato Partnership: DIA_MSU_UB015, DIA_MSU_UB255, GRA_MSU_UG234, and GRA_MSU_UG265 (derived from regionally important varieties Diamant and Granola). Using the Xdrop® /Nanopore technique, we obtained a very high sequence read coverage within the T-DNA and junction regions. In three of the four events, we were able to use the data to confirm single T-DNA insertions, identify insert locations, identify flanking sequences, and characterize the inserted T-DNA. We further used the characterization data to identify native gene interruption and confirm the stability of the T-DNA across clonal cycles. These results demonstrate the functionality of using the Xdrop® /Nanopore technique for T-DNA characterization. This research will contribute to meeting regulatory safety and regulatory approval requirements for commercialization with small shareholder farmers in target countries within our partnership.
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Affiliation(s)
- Kelly A. Zarka
- Department of Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI, United States
| | | | - David S. Douches
- Department of Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI, United States
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6
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Zhang JH, Wei HB, Hong YH, Yang RR, Meng J, Luan YS. The lncRNA20718-miR6022-RLPs module regulates tomato resistance to Phytophthora infestans. Plant Cell Rep 2024; 43:57. [PMID: 38319523 DOI: 10.1007/s00299-024-03161-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2023] [Accepted: 01/16/2024] [Indexed: 02/07/2024]
Abstract
KEY MESSAGE Sl-lncRNA20718 acts as an eTM of Sl-miR6022 regulating its expression thereby affecting SlRLP6/10 expression. SlRLP6/10 regulate PRs expression, ROS accumulation, and JA/ET content thereby affecting tomato resistance to P. infestans. Tomato (Solanum lycopersicum) is an important horticultural and cash crop whose yield and quality can be severely affected by Phytophthora infestans (P. infestans). Long non-coding RNAs (lncRNAs) and microRNAs (miRNAs) are widely involved in plant defense responses against pathogens. The involvement of Sl-lncRNA20718 and Sl-miR6022 in tomato resistance to P. infestans as well as the targeting of Sl-miR6022 to receptor-like protein genes (RLPs) were predicted in our previous study. However, uncertainty exists regarding their potential interaction as well as the molecular processes regulating tomato resistance. Here, we found that Sl-lncRNA20718 and Sl-miR6022 are positive and negative regulators of tomato resistance to P. infestans by gain- and loss-of-function experiments, respectively. Overexpression of Sl-lncRNA20718 decreased the expression of Sl-miR6022, induced the expression of PRs, reduced the diameter of lesions (DOLs), thereby enhanced disease resistance. A six-point mutation in the binding region of Sl-lncRNA20718 to Sl-miR6022 disabled the interaction, indicating that Sl-lncRNA20718 acts as an endogenous target mimic (eTM) of Sl-miR6022. We demonstrated that Sl-miR6022 cleaves SlRLP6/10. Overexpression of Sl-miR6022 decreases the expression levels of SlRLP6/10, induces the accumulation of reactive oxygen species (ROS) and reduces the content of JA and ET, thus inhibiting tomato resistance to P. infestans. In conclusion, our study provides detailed information on the lncRNA20718-miR6022-RLPs module regulating tomato resistance to P. infestans by affecting the expression of disease resistance-related genes, the accumulation of ROS and the phytohormone levels, providing a new reference for tomato disease resistance breeding.
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Affiliation(s)
- Jia-Hui Zhang
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Hong-Bo Wei
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Yu-Hui Hong
- Key Laboratory of Biotechnology and Bioresources Utilization-Ministry of Education, Institute of Plant Resources, Dalian Minzu University, Dalian, 116600, China
| | - Rui-Rui Yang
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Jun Meng
- School of Computer Science and Technology, Dalian University of Technology, Dalian, 116024, China
| | - Yu-Shi Luan
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China.
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7
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Nourozi M, Nazarain-Firouzabadi F, Ismaili A, Ahmadvand R, Poormazaheri H. CRISPR/Cas StNRL1 gene knockout increases resistance to late blight and susceptibility to early blight in potato. Front Plant Sci 2024; 14:1278127. [PMID: 38304452 PMCID: PMC10830690 DOI: 10.3389/fpls.2023.1278127] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Accepted: 12/28/2023] [Indexed: 02/03/2024]
Abstract
With the development of genome editing technologies, editing susceptible genes is a promising method to modify plants for resistance to stress. NPH3/RPT2-LIKE1 protein (NRL1) interacts with effector Pi02860 of Phytophthora infestans and creates a protein complex, promoting the proteasome-mediated degradation of the guanine nucleotide exchange factor SWAP70. SWAP70, as a positive regulator, enhances cell death triggered by the perception of the P. infestans pathogen-associated molecular pattern (PAMP) INF1. Using a clustered regularly interspaced short palindrome repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) system, a construct was made to introduce four guide RNAs into the potato cultivar Agria. A total of 60 putative transgenic lines were regenerated, in which 10 transgenic lines with deletions were selected and analyzed. A mutant line with a four-allelic knockdown of StNRL1 gene was obtained, showing an ~90% reduction in StNRL1 expression level, resulting in enhanced resistance to P. infestans. Surprisingly, mutant lines were susceptible to Alternaria alternata, suggesting that StNRL1 may play a role as a resistance gene; hence, silencing StNRL1 enhances resistance to P. infestans.
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Affiliation(s)
- Mohsen Nourozi
- Production Engineering and Plant Genetics Department, Faculty of Agriculture, Lorestan University, Khorramabad, Iran
| | - Farhad Nazarain-Firouzabadi
- Production Engineering and Plant Genetics Department, Faculty of Agriculture, Lorestan University, Khorramabad, Iran
| | - Ahmad Ismaili
- Production Engineering and Plant Genetics Department, Faculty of Agriculture, Lorestan University, Khorramabad, Iran
| | - Rahim Ahmadvand
- Associate Professor, Seed and Plant Improvement Institute, Agricultural Research, Education and Extension Organization, Karaj, Iran
| | - Helen Poormazaheri
- Department of Biology, Shahr-e-Qods Branch, Islamic Azad University, Tehran, Iran
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Zhang J, Huang X, Yang S, Huang A, Ren J, Luo X, Feng S, Li P, Li Z, Dong P. Endophytic Bacillus subtilis H17-16 effectively inhibits Phytophthora infestans, the pathogen of potato late blight, and its potential application. Pest Manag Sci 2023; 79:5073-5086. [PMID: 37572366 DOI: 10.1002/ps.7717] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Revised: 08/03/2023] [Accepted: 08/13/2023] [Indexed: 08/14/2023]
Abstract
BACKGROUND As a highly prevalent epidemic disease of potato, late blight caused by Phytophthora infestans poses a serious threat to potato yield and quality. At present, chemical fungicides are mainly used to control potato late blight, but long-term overuse of chemical fungicides may lead to environmental pollution and human health threats. Endophytes, natural resources for plant diseases control, can promote plant growth, enhance plant resistance, and secrete antifungal substances. Therefore, there is an urgent need to find some beneficial endophytes to control potato late blight. RESULTS We isolated a strain of Bacillus subtilis H17-16 from potato healthy roots. It can significantly inhibit mycelial growth, sporangia germination and the pathogenicity of Phytophthora infestans, induce the resistance of potato to late blight, and promote potato growth. In addition, H17-16 has the ability to produce protease, volatile compounds (VOCs) and form biofilms. After H17-16 treatment, most of the genes involved in metabolism, virulence and drug resistance of Phytophthora infestans were down-regulated significantly, and the genes related to ribosome biogenesis were mainly up-regulated. Moreover, field and postharvest application of H17-16 can effectively reduce the occurrence of potato late blight, and the combination of H17-16 with chitosan or chemical fungicides had a better effect than single H17-16. CONCLUSION Our results reveal that Bacillus subtilis H17-16 has great potential as a natural fungicide for controlling potato late blight, laying a theoretical basis for its development as a biological control agent. © 2023 Society of Chemical Industry.
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Affiliation(s)
- Jiaomei Zhang
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Xiaoqing Huang
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Shidong Yang
- Shandong Nongdeli Biotechnology Co., Ltd, Jinan, China
| | - Airong Huang
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Jie Ren
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Xunguang Luo
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Shun Feng
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
| | - Peihua Li
- College of Agronomy, Xichang University, Xichang, China
| | - Zhengguo Li
- School of Life Sciences, Chongqing University, Chongqing, China
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, Chongqing, China
| | - Pan Dong
- School of Life Sciences, Chongqing University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
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9
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Gillon A, Abdelrahman O, Abou‐Mansour E, L'Haridon F, Falquet L, Allard P, Weisskopf L. Comparative genomic and metabolomic study of three Streptomyces sp. differing in biological activity. Microbiologyopen 2023; 12:e1389. [PMID: 38129981 PMCID: PMC10616362 DOI: 10.1002/mbo3.1389] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2023] [Revised: 09/13/2023] [Accepted: 10/18/2023] [Indexed: 12/23/2023] Open
Abstract
The Streptomyces genus is known to produce many specialized metabolites of value for medicine, but the potential of these metabolites in agronomy remains largely unexplored. In this study, we investigated three phylogenetically closely related Streptomyces strains (B5, B91, and B135) isolated from three distinct soil samples in Sudan. Despite belonging to the same species, these strains exhibited different ranges of Phytophthora infestans inhibition. The objective of this work was to identify the active compound(s) responsible for the inhibition of P. infestans and of other plant pathogens by comparing the genomes and metabolomes of the three strains which showed distinct activity patterns: B5 was the strongest inhibitor of oomycetes, B5 and B91 both inhibited most fungi and B135 was the only strain showing antibacterial activity. Our comparative genomic and metabolomic analysis identified borrelidin as the bioactive compound underlying B5's strong anti-oomycete activity and highlighted a few other metabolites as putative candidates underlying the strains' antifungal and antibacterial activities. This study illustrates the power of comparative genomics and metabolomics on phylogenetically closely related strains of differing activities to highlight bioactive compounds that could contribute to new sustainable crop protection strategies.
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Affiliation(s)
- Alisson Gillon
- Department of BiologyUniversity of FribourgFribourgSwitzerland
| | - Ola Abdelrahman
- Department of BiologyUniversity of FribourgFribourgSwitzerland
- Department of BotanyUniversity of KhartoumKhartoumSudan
| | | | | | - Laurent Falquet
- Department of BiologyUniversity of FribourgFribourgSwitzerland
- Genes and genomesSwiss Institute of BioinformaticsLausanneSwitzerland
| | | | - Laure Weisskopf
- Department of BiologyUniversity of FribourgFribourgSwitzerland
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10
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Wang W, Long Y. A review of biocontrol agents in controlling late blight of potatoes and tomatoes caused by Phytophthora infestans and the underlying mechanisms. Pest Manag Sci 2023; 79:4715-4725. [PMID: 37555293 DOI: 10.1002/ps.7706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 07/25/2023] [Accepted: 08/09/2023] [Indexed: 08/10/2023]
Abstract
Phytophthora infestans causes late blight on potatoes and tomatoes, which has a significant economic impact on agriculture. The management of late blight has been largely dependent on the application of synthetic fungicides, which is not an ultimate solution for sustainable agriculture and environmental safety. Biocontrol strategies are expected to be alternative methods to the conventional chemicals in controlling plant diseases in the integrated pest management (IPM) programs. Well-studied biocontrol agents against Phytophthora infestans include fungi, oomycetes, bacteria, and compounds produced by these antagonists, in addition to certain bioactive metabolites produced by plants. Laboratory and glasshouse experiments suggest a potential for using biocontrol in practical late blight disease management. However, the transition of biocontrol to field applications is problematic for the moment, due to low and variable efficacies. In this review, we provide a comprehensive summary on these biocontrol strategies and the underlying corresponding mechanisms. To give a more intuitive understanding of the promising biocontrol agents against Phytophthora infestans in agricultural systems, we discuss the utilizations, modes of action and future potentials of these antagonists based on their taxonomic classifications. To achieve a goal of best possible results produced by biocontrol agents, it is suggested to work on field trials, strain modifications, formulations, regulations, and optimizations of application. Combined biocontrol agents having different modes of action or biological adaptation traits may be used to strengthen the biocontrol efficacy. More importantly, biological control agents should be applied in the coordination of other existing and forthcoming methods in the IPM programs. © 2023 Society of Chemical Industry.
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Affiliation(s)
- Weizhen Wang
- Institute of Crop Protection, College of Agriculture, Guizhou University, Guiyang, China
| | - Youhua Long
- Institute of Crop Protection, College of Agriculture, Guizhou University, Guiyang, China
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11
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Ivanov AA, Golubeva TS. Exogenous dsRNA-Induced Silencing of the Phytophthora infestans Elicitin Genes inf1 and inf4 Suppresses Its Pathogenicity on Potato Plants. J Fungi (Basel) 2023; 9:1100. [PMID: 37998904 PMCID: PMC10672027 DOI: 10.3390/jof9111100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2023] [Revised: 10/25/2023] [Accepted: 11/08/2023] [Indexed: 11/25/2023] Open
Abstract
Phytophthora infestans, an Oomycete pathogen, has a devastating impact on potato agriculture, leading to the extensive use of chemical fungicides to prevent its outbreaks. Spraying double-stranded RNAs to suppress specific genes of the pathogen via the RNA interference (RNAi) pathway may provide an environmentally friendly alternative to chemicals. However, this novel approach will require various target genes and application strategies to be tested. Using the L4440 backbone, we have designed two plasmids to express dsRNA targeting inf1 and inf4 genes of P. infestans that are known to contribute to the disease development at different stages. The dsRNA produced by the bacteria was tested on potato explants and demonstrated a statistically significant reduction in lesions five days after inoculation compared to water treatment. The study results allow us to consider our approach to be promising for potato late blight control.
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Affiliation(s)
- Artemii A. Ivanov
- Institute of Cytology and Genetics SB RAS, 630090 Novosibirsk, Russia;
- Department of Natural Science, Novosibirsk State University, 630090 Novosibirsk, Russia
| | - Tatiana S. Golubeva
- Institute of Cytology and Genetics SB RAS, 630090 Novosibirsk, Russia;
- Department of Natural Science, Novosibirsk State University, 630090 Novosibirsk, Russia
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12
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Yang W, Liu C, Fu Q, Jia X, Deng L, Feng C, Wang Y, Yang Z, Yang H, Xu X. Knockout of SlbZIP68 reduces late blight resistance in tomato. Plant Sci 2023; 336:111861. [PMID: 37689280 DOI: 10.1016/j.plantsci.2023.111861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2023] [Revised: 08/30/2023] [Accepted: 09/03/2023] [Indexed: 09/11/2023]
Abstract
Tomato (Solanum lycopersicum) is one of the most widely cultivated vegetable crop species in the world. Tomato late blight caused by Phytophthora infestans is a severe disease, which can cause serious losses in tomato production. In this study, tomato SlbZIP68 was identified as a transcription factor that can be induced by P. infestans, salicylic acid (SA) and jasmonic acid (JA). Knockout of SlbZIP68 via clustered, regularly interspaced, short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9) technology revealed a significant decrease in tomato resistance to P. infestans. Furthermore, knockout of SlbZIP68 reduced the activity of defense enzymes and increased the accumulation of reactive oxygen species (ROS). Our findings also indicated that SlbZIP68 can activate the expression of the PR genes and enhance resistance to P. infestans. In addition, SlbZIP68 can bind to the PR3 and PR5 promoters and induce gene expression, as revealed by yeast one-hybrid (Y1H) and dual-luciferase (LUC) assays. These findings not only elucidate the mechanisms of response to P. infestans but also enable targeted breeding strategies for tomato resistance to P. infestans.
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Affiliation(s)
- Wenhui Yang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Chunxin Liu
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Qingjun Fu
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Xinyi Jia
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Liping Deng
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Chunying Feng
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Yuhan Wang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Zhenru Yang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China
| | - Huanhuan Yang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China.
| | - Xiangyang Xu
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China.
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13
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Deweer C, Sahmer K, Muchembled J. Anti-oomycete activities from essential oils and their major compounds on Phytophthora infestans. Environ Sci Pollut Res Int 2023; 30:110240-110250. [PMID: 37779122 PMCID: PMC10625517 DOI: 10.1007/s11356-023-29270-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 08/07/2023] [Indexed: 10/03/2023]
Abstract
Botanicals are various plant-based products like plant extracts or essential oils. Anti-fungal activities of selected essential oils were tested on the pathogen causing potato and tomato late blight (Phytophthora infestans). Tests to evaluate anti-oomycete activities of commercial essential oils and their major compounds were carried out in vitro in microplate in liquid media. Anti-oomycete activities on Phytophthora infestans strain were obtained from essential oils/major compounds: Eucalyptus citriodora/citronellal; Syzygium aromaticum (clove)/eugenol; Mentha spicata/D-Carvone, L-Carvone; Origanum compactum/carvacrol; Satureja montana (savory)/carvacrol; Melaleuca alternifolia (tea tree)/terpinen-4-ol, and Thymus vulgaris/thymol. As an active substance of mineral origin, copper sulfate was chosen as a control. All selected essential oils showed an anti-oomycete activity calculated with IC50 indicator. The essential oils of clove, savory, and thyme showed the best anti-oomycete activities similar to copper sulfate, while oregano, eucalyptus, mint, and tea tree essential oils exhibited significantly weaker activities than copper sulfate. Clove essential oil showed the best activity (IC50 = 28 mg/L), while tea tree essential oil showed the worst activity (IC50 = 476 mg/L). For major compounds, three results were obtained: they were statistically more active than their essential oils (carvacrol for oregano, D- and L-Carvone for mint) or as active as their essential oils sources (thymol for thyme, carvacrol for savory, terpinen-4-ol for tea tree) or less active than their original essential oils (eugenol for clove, citronellal for eucalyptus). Microscopical observations carried out with the seven essential oils showed that they were all responsible for a modification of the morphology of the mycelium. The results demonstrated that various essential oils show different anti-oomycete activities, sometimes related to a major compound and sometimes unrelated, indicating that other compounds must play a role in total anti-oomycete activity.
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Affiliation(s)
- Caroline Deweer
- Joint Research Unit 1158 BioEcoAgro, INRAE, JUNIA, University of Lille, University of Liège, UPJV, University of Artois, ULCO, F-59000, Lille, France
| | - Karin Sahmer
- Univ. Lille, IMT Lille Douai, Univ. Artois, JUNIA, ULR 4515 - LGCgE, Laboratoire de Génie Civil et géo-Environnement, F-59000, Lille, France
| | - Jérôme Muchembled
- Joint Research Unit 1158 BioEcoAgro, INRAE, JUNIA, University of Lille, University of Liège, UPJV, University of Artois, ULCO, F-59000, Lille, France.
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Mendoza CS, Findlay A, Judelson HS. A Variant of LbCas12a and Elevated Incubation Temperatures Enhance the Rate of Gene Editing in the Oomycete Phytophthora infestans. Mol Plant Microbe Interact 2023; 36:677-681. [PMID: 37470431 DOI: 10.1094/mpmi-05-23-0072-sc] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/21/2023]
Abstract
CRISPR-Cas editing systems have proved to be powerful tools for functional genomics research, but their effectiveness in many non-model species remains limited. In the potato and tomato pathogen Phytophthora infestans, an editing system was previously developed that expresses the Lachnospiracae bacterium Cas12a endonuclease (LbCas12a) and guide RNA from a DNA vector. However, the method works at low efficiency. Based on a hypothesis that editing is constrained by a mismatch between the optimal temperatures for P. infestans growth and endonuclease catalysis, we tested two strategies that increased the frequency of editing of two target genes by about 10-fold. First, we found that editing was boosted by a mutation in LbCas12a (D156R) that had been reported to expand its catalytic activity over a broader temperature range. Second, we observed that editing was enhanced by transiently incubating transformed tissue at a higher temperature. These modifications should make CRISPR-Cas12a more useful for interrogating gene and protein function in P. infestans and its relatives, especially species that grow optimally at lower temperatures. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
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Affiliation(s)
- Carl S Mendoza
- Department of Microbiology and Plant Pathology, University of California, Riverside, CA 92521, U.S.A
| | - Annika Findlay
- Department of Microbiology and Plant Pathology, University of California, Riverside, CA 92521, U.S.A
| | - Howard S Judelson
- Department of Microbiology and Plant Pathology, University of California, Riverside, CA 92521, U.S.A
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Martini F, Jijakli MH, Gontier E, Muchembled J, Fauconnier ML. Harnessing Plant's Arsenal: Essential Oils as Promising Tools for Sustainable Management of Potato Late Blight Disease Caused by Phytophthora infestans-A Comprehensive Review. Molecules 2023; 28:7302. [PMID: 37959721 PMCID: PMC10650712 DOI: 10.3390/molecules28217302] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 10/23/2023] [Accepted: 10/24/2023] [Indexed: 11/15/2023] Open
Abstract
Potato late blight disease is caused by the oomycete Phytophthora infestans and is listed as one of the most severe phytopathologies on Earth. The current environmental issues require new methods of pest management. For that reason, plant secondary metabolites and, in particular, essential oils (EOs) have demonstrated promising potential as pesticide alternatives. This review presents the up-to-date work accomplished using EOs against P. infestans at various experimental scales, from in vitro to in vivo. Additionally, some cellular mechanisms of action on Phytophthora spp., especially towards cell membranes, are also presented for a better understanding of anti-oomycete activities. Finally, some challenges and constraints encountered for the development of EOs-based biopesticides are highlighted.
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Affiliation(s)
- Florian Martini
- Joint and Research Unit, 1158 BioEcoAgro Junia, 59000 Lille, France;
- Laboratory of Chemistry of Natural Molecules, Gembloux Agro-Bio Tech, Liege University, Passage des Déportés 2, 5030 Gembloux, Belgium;
- Laboratory of Plant Biology and Innovation, BIOPI-UPJV, UMRT BioEcoAgro INRAE1158, UFR Sciences of University of Picardie Jules Verne, 33 rue Saint Leu, 80000 Amiens, France;
| | - M. Haïssam Jijakli
- Integrated and Urban Plant Pathology Laboratory, Gembloux Agro-Bio Tech, Liege University, Passage des Déportés 2, 5030 Gembloux, Belgium;
| | - Eric Gontier
- Laboratory of Plant Biology and Innovation, BIOPI-UPJV, UMRT BioEcoAgro INRAE1158, UFR Sciences of University of Picardie Jules Verne, 33 rue Saint Leu, 80000 Amiens, France;
| | - Jérôme Muchembled
- Joint and Research Unit, 1158 BioEcoAgro Junia, 59000 Lille, France;
| | - Marie-Laure Fauconnier
- Laboratory of Chemistry of Natural Molecules, Gembloux Agro-Bio Tech, Liege University, Passage des Déportés 2, 5030 Gembloux, Belgium;
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Xiong Y, Zhao D, Chen S, Yuan L, Zhang D, Wang H. Deciphering the underlying immune network of the potato defense response inhibition by Phytophthora infestans nuclear effector Pi07586 through transcriptome analysis. Front Plant Sci 2023; 14:1269959. [PMID: 37810389 PMCID: PMC10556245 DOI: 10.3389/fpls.2023.1269959] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 09/07/2023] [Indexed: 10/10/2023]
Abstract
Phytophthora infestans, a highly destructive plant oomycete pathogen, is responsible for causing late blight in potatoes worldwide. To successfully infect host cells and evade immunity, P. infestans secretes various effectors into host cells and exclusively targets the host nucleus. However, the precise mechanisms by which these effectors manipulate host gene expression and reprogram defenses remain poorly understood. In this study, we focused on a nuclear-targeted effector, Pi07586, which has been implicated in immune suppression. Quantitative real-time PCR (qRT-PCR) analysis showed Pi07586 was significant up-regulation during the early stages of infection. Agrobacterium-induced transient expression revealed that Pi07586 localized in the nucleus of leaf cells. Overexpression of Pi07586 resulted in increased leaf colonization by P. infestans. RNA-seq analysis revealed that Pi07586 effectively suppressed the expression of PR-1C-like and photosynthetic antenna protein genes. Furthermore, high-performance liquid chromatography-tandem mass spectrometry (HPLC-MS) analysis indicated that Pi07586 overexpression led to a substantial decrease in abscisic acid (ABA), jasmonic acid (JA), and jasmonoyl-isoleucine (JA-Ile) levels, while not affecting salicylic acid (SA) and indole-3-acetic acid (IAA) production. These findings shed new light on the modulation of plant immunity by Pi07586 and enhance our understanding of the intricate relationship between P. infestans and host plants.
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Affiliation(s)
- Yumeng Xiong
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
- School of Life Science, Yunnan Normal University, Kunming, China
| | - Di Zhao
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
| | - Shengnan Chen
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
| | - Lan Yuan
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
| | - Die Zhang
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
| | - Hongyang Wang
- Yunnan Key Laboratory of Potato Biology, Yunnan Normal University, Kunming, China
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De la Cruz G, Blas R, Pérez W, Neyra E, Ortiz R. Foliar transcriptomes reveal candidate genes for late blight resistance in cultivars of diploid potato Solanum tuberosum L. Andigenum Group. Front Plant Sci 2023; 14:1210046. [PMID: 37780511 PMCID: PMC10535101 DOI: 10.3389/fpls.2023.1210046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Accepted: 08/10/2023] [Indexed: 10/03/2023]
Abstract
Characterization of major resistance (R) genes to late blight (LB) -caused by the oomycete Phytophthora infestans- is very important for potato breeding. The objective of this study was to identify novel genes for resistance to LB from diploid Solanum tuberosum L. Andigenum Group (StAG) cultivar accessions. Using comparative analysis with a edgeR bioconductor package for differential expression analysis of transcriptomes, two of these accessions with contrasting levels of resistance to LB were analyzed using digital gene expression data. As a result, various differentially expressed genes (P ≤ 0.0001, Log2FC ≥ 2, FDR < 0.001) were noted. The combination of transcriptomic analysis provided 303 candidate genes that are overexpressed and underexpressed, thereby giving high resistance to LB. The functional analysis showed differential expression of R genes and their corresponding proteins related to disease resistance, NBS-LRR domain proteins, and specific disease resistance proteins. Comparative analysis of specific tissue transcriptomes in resistant and susceptible genotypes can be used for rapidly identifying candidate R genes, thus adding novel genes from diploid StAG cultivar accessions for host plant resistance to P. infestans in potato.
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Affiliation(s)
- Germán De la Cruz
- Laboratorio de Genética y Biotecnología Vegetal, Facultad de Ciencias Agrarias, Universidad Nacional de San Cristóbal de Huamanga (UNSCH), Ayacucho, Peru
| | - Raúl Blas
- Instituto de Biotecnologia (IBT), Facultad de Agronomia, Universidad Nacional Agraria La Molina (UNALM), Lima, Peru
| | - Willmer Pérez
- Plant Pathology Laboratory, Crop and Systems Sciences Division, International Potato Center, Lima, Peru
| | - Edgar Neyra
- Unidad de Genómica, Laboratorios de Investigación y Desarrollo, Facultad de Ciencias e Ingeniería, Universidad Peruana Cayetano Heredia, Lima, Peru
- Departamento Académico de Tecnología Médica, Facultad de Medicina, Universidad Peruana Cayetano Heredia, Lima, Peru
| | - Rodomiro Ortiz
- Department of Plant Breeding, Swedish University of Agricultural Sciences, Lomma, Sweden
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Lee S, Kim J, Kim MS, Min CW, Kim ST, Choi SB, Lee JH, Choi D. The Phytophthora nucleolar effector Pi23226 targets host ribosome biogenesis to induce necrotrophic cell death. Plant Commun 2023; 4:100606. [PMID: 37087572 PMCID: PMC10504586 DOI: 10.1016/j.xplc.2023.100606] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Revised: 03/15/2023] [Accepted: 04/19/2023] [Indexed: 05/03/2023]
Abstract
Pathogen effectors target diverse subcellular organelles to manipulate the plant immune system. Although the nucleolus has emerged as a stress marker and several effectors are localized in the nucleolus, the roles of nucleolar-targeted effectors remain elusive. In this study, we showed that Phytophthora infestans infection of Nicotiana benthamiana results in nucleolar inflation during the transition from the biotrophic to the necrotrophic phase. Multiple P. infestans effectors were localized in the nucleolus: Pi23226 induced cell death in N. benthamiana and nucleolar inflation similar to that observed in the necrotrophic stage of infection, whereas its homolog Pi23015 and a deletion mutant (Pi23226ΔC) did not induce cell death or affect nucleolar size. RNA immunoprecipitation and individual-nucleotide-resolution UV crosslinking and immunoprecipitation sequencing analysis indicated that Pi23226 bound to the 3' end of 25S rRNA precursors, resulting in accumulation of unprocessed 27S pre-rRNAs. The nucleolar stress marker NAC082 was strongly upregulated under Pi23226-expressing conditions. Pi23226 subsequently inhibited global protein translation in host cells by interacting with ribosomes. Pi23226 enhanced P. infestans pathogenicity, indicating that Pi23226-induced ribosome malfunction and cell death were beneficial for pathogenesis in the host. Our results provide evidence for the molecular mechanism underlying RNA-binding effector activity in host ribosome biogenesis and lead to new insights into the nucleolar action of effectors in pathogenesis.
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Affiliation(s)
- Soeui Lee
- Plant Immunity Research Center, Seoul National University, Seoul 08826, Republic of Korea; Plant Genomics and Breeding Institute, Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Science, Seoul National University, Seoul 08826, Republic of Korea
| | - Jaehwan Kim
- Plant Immunity Research Center, Seoul National University, Seoul 08826, Republic of Korea; Plant Genomics and Breeding Institute, Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Science, Seoul National University, Seoul 08826, Republic of Korea
| | - Myung-Shin Kim
- Plant Immunity Research Center, Seoul National University, Seoul 08826, Republic of Korea; Interdisciplinary Programs in Agricultural Genomics, College of Agriculture and Life Science, Seoul National University, Seoul 08826, Republic of Korea; Division of Bioscience and Bioinformatics, Myongji University, Yongin 449-728, Republic of Korea
| | - Cheol Woo Min
- Department of Plant Bioscience, Life and Industry Convergence Research Institute, Pusan National University, Miryang 50463, Republic of Korea
| | - Sun Tae Kim
- Department of Plant Bioscience, Life and Industry Convergence Research Institute, Pusan National University, Miryang 50463, Republic of Korea
| | - Sang-Bong Choi
- Division of Bioscience and Bioinformatics, Myongji University, Yongin 449-728, Republic of Korea
| | - Joo Hyun Lee
- Plant Immunity Research Center, Seoul National University, Seoul 08826, Republic of Korea.
| | - Doil Choi
- Plant Immunity Research Center, Seoul National University, Seoul 08826, Republic of Korea; Plant Genomics and Breeding Institute, Department of Agriculture, Forestry and Bioresources, College of Agriculture and Life Science, Seoul National University, Seoul 08826, Republic of Korea.
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Su C, Wang Z, Cui J, Wang Z, Wang R, Meng J, Luan Y. Sl-lncRNA47980, a positive regulator affects tomato resistance to Phytophthora infestans. Int J Biol Macromol 2023; 248:125824. [PMID: 37453642 DOI: 10.1016/j.ijbiomac.2023.125824] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Revised: 07/09/2023] [Accepted: 07/12/2023] [Indexed: 07/18/2023]
Abstract
Emerging evidence suggests that long non-coding RNAs (lncRNAs) involve in defense respond against pathogen attack and show great potentials to improve plant resistance. Tomato late blight, a destructive plant disease, is caused by the oomycete pathogen Phytophthora infestans, which seriously affects the yield and quality of tomato. Our previous research has shown that Sl-lncRNA47980 is involved in response to P. infestans infection, but its molecular mechanism is unknown. Gain- and loss-of-function experiments revealed that Sl-lncRNA47980 as a positive regulator, played a crucial role in enhancing tomato resistance to P. infestans. The Sl-lncRNA47980-overexpressing transgenic plants exhibited an improved ability to scavenge reactive oxygen species (ROS), decreased contents of endogenous gibberellin (GA) and salicylic acid (SA), and increased contents of jasmonic acid (JA), while silencing of Sl-lncRNA47980 showed an opposite trend in the levels of these hormones. Furthermore, it was found that Sl-lncRNA47980 could upregulate the expression of SlGA2ox4 gene through activation of the promoter of SlGA2ox4 to affect GA content. The increased expression of the tomato GA signaling repressor SlDELLA could activate JA-related genes and inhibit SA-related genes to varying degrees respectively. In addition, exogenous application of GA3 and GA synthesis inhibitor uniconazole could increase disease susceptibility of Sl-lncRNA47980-overexpressing plants and the resistance of Sl-lncRNA47980-silenced plants, respectively, to P. infestans. From thus, it was speculated that Sl-lncRNA47980 conferred tomato resistance to P. infestans, which was related to the decrease in endogenous GA content. Our study provided information to link Sl-lncRNA47980 with changes in ROS accumulation and phytohormone levels in plant immunity, thus providing a new candidate gene for tomato breeding.
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Affiliation(s)
- Chenglin Su
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China
| | - Zhengjie Wang
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China
| | - Jun Cui
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China; College of Life Science, Hunan Normal University, Changsha 410081, China
| | - Zhicheng Wang
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China
| | - Ruiming Wang
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China
| | - Jun Meng
- School of Computer Science and Technology, Dalian University of Technology, Dalian 116024, China
| | - Yushi Luan
- School of Bioengineering, Dalian University of Technology, Dalian 116024, China.
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Angmo D, Sharma SP, Kalia A. Breeding strategies for late blight resistance in potato crop: recent developments. Mol Biol Rep 2023; 50:7879-7891. [PMID: 37526862 DOI: 10.1007/s11033-023-08577-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2023] [Accepted: 06/01/2023] [Indexed: 08/02/2023]
Abstract
Late blight (LB) is a serious disease that affects potato crop and is caused by Phytophthora infestans. Fungicides are commonly used to manage this disease, but this practice has led to the development of resistant strains and it also poses serious environmental and health risks. Therefore, breeding for resistance development can be the most effective strategies to control late blight. Various Solanum species have been utilized as a source of resistance genes to combat late blight disease. Several potential resistance genes and quantitative resistance loci (QRLs) have been identified and mapped through the application of molecular techniques. Furthermore, molecular markers closely linked to resistance genes or QRLs have been utilized to hasten the breeding process. However, the use of single-gene resistance can lead to the breakdown of resistance within a short period. To address this, breeding programs are now being focused on development of durable and broad-spectrum resistant cultivars by combining multiple resistant genes and QRLs using advanced molecular breeding tools such as marker-assisted selection (MAS) and cis-genic approaches. In addition to the strategies mentioned earlier, somatic hybridization has been utilized for the development and characterization of interspecific somatic hybrids. To further broaden the scope of late blight resistance breeding, approaches such as genomic selection, RNAi silencing, and various genome editing techniques can be employed. This study provides an overview of recent advances in various breeding strategies and their applications in improving the late blight resistance breeding program.
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Affiliation(s)
- Dechen Angmo
- Department of Vegetable Science, Punjab Agricultural University, Ludhiana, 141004, Punjab, India.
| | - Sat Pal Sharma
- Department of Vegetable Science, Punjab Agricultural University, Ludhiana, 141004, Punjab, India
| | - Anu Kalia
- Electron Microscopy and Nanoscience Laboratory, Department of Soil Science, Punjab Agricultural University, Ludhiana, 141004, Punjab, India
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21
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Yarullina L, Cherepanova EA, Burkhanova GF, Sorokan AV, Zaikina EA, Tsvetkov VO, Mardanshin IS, Fatkullin IY, Kalatskaja JN, Yalouskaya NA, Nikalaichuk VV. Stimulation of the Defense Mechanisms of Potatoes to a Late Blight Causative Agent When Treated with Bacillus subtilis Bacteria and Chitosan Composites with Hydroxycinnamic Acids. Microorganisms 2023; 11:1993. [PMID: 37630553 PMCID: PMC10458051 DOI: 10.3390/microorganisms11081993] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 07/18/2023] [Accepted: 07/28/2023] [Indexed: 08/27/2023] Open
Abstract
Phytophthora infestans is, worldwide, one of the main causal agents of epiphytotics in potato plantings. Prevention strategies demand integrated pest management, including modeling of beneficial microbiomes of agroecosystems combining microorganisms and natural products. Chitooligosaccharides and their derivatives have great potential to be used by agrotechnology due to their ability to elicit plant immune reactions. The effect of combining Bacillus subtilis 26D and 11VM and conjugates of chitin with hydroxycinnamates on late blight pathogenesis was evaluated. Mechanisms for increasing the resistance of potato plants to Phytophthora infestans were associated with the activation of the antioxidant system of plants and an increase in the level of gene transcripts that encode PR proteins: basic protective protein (PR-1), thaumatin-like protein (PR-5), protease inhibitor (PR-6), and peroxidase (PR-9). The revealed activation of the expression of marker genes of systemic acquired resistance and induced systemic resistance under the influence of the combined treatment of plants with B. subtilis and conjugates of chitin with hydroxycinnamates indicates that, in this case, the development of protective reactions in potato plants to late blight proceeds synergistically, where B. subtilis primes protective genes, and chitosan composites act as a trigger for their expression.
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Affiliation(s)
- Liubov Yarullina
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
- Department of Biology, Ufa University of Science and Technology, 450076 Ufa, Russia;
| | - Ekaterina A. Cherepanova
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
| | - Guzel F. Burkhanova
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
| | - Antonina V. Sorokan
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
| | - Evgenia A. Zaikina
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
| | | | - Ildar S. Mardanshin
- Bashkir Research Institute of Agriculture, Ufa Federal Research Center, Russian Academy of Sciences, 450054 Ufa, Russia;
| | - Ildus Y. Fatkullin
- Institute of Biochemistry and Genetics, Ufa Federal Research Centre, Russian Academy of Sciences, 450054 Ufa, Russia; (E.A.C.); (G.F.B.); (A.V.S.); (E.A.Z.); (I.Y.F.)
| | - Joanna N. Kalatskaja
- Institute of Experimental Botany Named after V. F. Kuprevich of the National Academy of Sciences of Belarus, 220072 Minsk, Belarus; (J.N.K.); (N.A.Y.)
| | - Ninel A. Yalouskaya
- Institute of Experimental Botany Named after V. F. Kuprevich of the National Academy of Sciences of Belarus, 220072 Minsk, Belarus; (J.N.K.); (N.A.Y.)
| | - Victoria V. Nikalaichuk
- Institute of New Materials Chemistry, National Academy of Sciences of Belarus, 220141 Minsk, Belarus;
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22
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Wang Z, Su C, Hu W, Su Q, Luan Y. The effectors of Phytophthora infestans impact host immunity upon regulation of antagonistic hormonal activities. Planta 2023; 258:59. [PMID: 37530861 DOI: 10.1007/s00425-023-04215-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2023] [Accepted: 07/20/2023] [Indexed: 08/03/2023]
Abstract
MAIN CONCLUSION Phytophthora infestans effectors manipulate the antagonism of host hormones to interfere with the immune response of plants at different infection stages. Phytophthora infestans (P. infestans) poses a serious threat to global crop production, and its effectors play an indispensable role in its pathogenicity. However, the function of these effectors during the switch from biotrophy to necrotrophy of P. infestans remains unclear. Further research on the effectors that manipulate the antagonistic response of host hormones is also lacking. In this study, a coexpression analysis and infection assays were performed to identify distinct gene expression changes in both P. infestans and tomato. During the switch from biotrophy to necrotrophy, P. infestans secretes three types of effectors to interfere with host salicylic acid (SA), jasmonic acid (JA), ethylene (ET), and abscisic acid (ABA) levels. The three aforementioned effectors also regulate the host gene expression including NPR1, TGA2.1, PDF1.2, NDR1, ERF3, NCED6, GAI4, which are involved in hormone crosstalk. The changes in plant hormones are mediated by the three types of effectors, which may accelerate infection and drive completion of the P. infestans lifecycle. Our findings provide new insight into plant‒pathogen interactions that may contribute to the prevention growth of hemibiotrophic pathogens.
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Affiliation(s)
- Zhicheng Wang
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Chenglin Su
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Wenyun Hu
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China
| | - Qiao Su
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China.
| | - Yushi Luan
- School of Bioengineering, Dalian University of Technology, Dalian, 116024, China.
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23
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Quiroga G, Aguiño-Domínguez N, Piperakis N, Martín-Cacheda L, Abdala-Roberts L, Moreira X. Variation in the Outcome of Plant-Mediated Pathogen Interactions in Potato: Effects of Initial Infections on Conspecific vs. Heterospecific Subsequent Infections. J Chem Ecol 2023; 49:465-473. [PMID: 37204553 PMCID: PMC10611867 DOI: 10.1007/s10886-023-01434-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Revised: 05/08/2023] [Accepted: 05/09/2023] [Indexed: 05/20/2023]
Abstract
Plants are often attacked sequentially by multiple enemies. Pathogen sequential co-infections can lead to indirect interactions mediated by plant induced responses whose outcome is contingent on differences in the magnitude and type of plant induced defences elicited by different species or guilds. To date, however, most studies have tested unidirectional effects of one pathogen on another, not discerning between conspecific vs. heterospecific infections, and often not measuring plant induced responses underlying such outcomes. To address this, we conducted a greenhouse experiment testing for the impact of initial infection by two leaf pathogens (Alternaria solani and Phytophthora infestans) on subsequent infection by each of these pathogens on potato (Solanum tuberosum) plants, and also measured induced plant defences (phenolic compounds) to inform on interaction outcomes. We found contrasting results depending on the identity of the initially infecting pathogen. Specifically, initial infection by A. solani drove induced resistance (lower necrosis) by subsequently infecting A. solani (conspecific induced resistance) but had no effect on subsequent infection by P. infestans. In contrast, initial infection by P. infestans drove induced resistance to subsequent infection by both conspecifics and A. solani. Patterns of plant induced defences correlated with (and potentially explained) induced resistance to conspecific but not heterospecific (e.g., in the case of P. infestans) subsequent infection. Overall, these results further our understanding of plant-mediated pathogen interactions by showing that plant-mediated interactions between pathogen species can be asymmetrical and in some cases not reciprocal, that pathogen species can vary in the importance of conspecific vs. heterospecific effects, and shed mechanistic insight into the role of plant induced responses driving such interactions.
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Affiliation(s)
- Gabriela Quiroga
- Misión Biológica de Galicia (MBG-CSIC), Apartado de correos 28, Pontevedra, Galicia, 36080, Spain.
- Centro de Investigaciones Agrarias de Mabegondo (CIAM), Apartado de correos 10, Coruña, 15080 A, Spain.
| | - Naila Aguiño-Domínguez
- Misión Biológica de Galicia (MBG-CSIC), Apartado de correos 28, Pontevedra, Galicia, 36080, Spain
| | - Nikos Piperakis
- Faculty of Agriculture, Aristotle University of Thessaloniki, University Campus, Thessaloniki, 54124, Greece
| | - Lucía Martín-Cacheda
- Misión Biológica de Galicia (MBG-CSIC), Apartado de correos 28, Pontevedra, Galicia, 36080, Spain
| | - Luis Abdala-Roberts
- Departamento de Ecología Tropical, Campus de Ciencias Biológicas y Agropecuarias, Universidad Autónoma de Yucatán, Merida, Apartado Postal 4-116, Itzimná. 97000. Mérida, Yucatán, México
| | - Xoaquín Moreira
- Misión Biológica de Galicia (MBG-CSIC), Apartado de correos 28, Pontevedra, Galicia, 36080, Spain.
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24
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Schneider K, Barreiro-Hurle J, Vossen J, Schouten HJ, Kessel G, Andreasson E, Kieu NP, Strassemeyer J, Hristov J, Rodriguez-Cerezo E. Insights on cisgenic plants with durable disease resistance under the European Green Deal. Trends Biotechnol 2023; 41:1027-1040. [PMID: 37419837 DOI: 10.1016/j.tibtech.2023.02.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 01/26/2023] [Accepted: 02/17/2023] [Indexed: 07/09/2023]
Abstract
Significant shares of harvests are lost to pests and diseases, therefore, minimizing these losses could solve part of the supply constraints to feed the world. Cisgenesis is defined as the insertion of genetic material into a recipient organism from a donor that is sexually compatible. Here, we review (i) conventional plant breeding, (ii) cisgenesis, (iii) current pesticide-based disease management, (iv) potential economic implications of cultivating cisgenic crops with durable disease resistances, and (v) potential environmental implications of cultivating such crops; focusing mostly on potatoes, but also apples, with resistances to Phytophthora infestans and Venturia inaequalis, respectively. Adopting cisgenic varieties could provide benefits to farmers and to the environment through lower pesticide use, thus contributing to the European Green Deal target.
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Affiliation(s)
- Kevin Schneider
- Joint Research Centre, European Commission, Calle Inca Garcilaso 3, 41092, Sevilla, Spain.
| | - Jesus Barreiro-Hurle
- Joint Research Centre, European Commission, Calle Inca Garcilaso 3, 41092, Sevilla, Spain
| | - Jack Vossen
- Plant Breeding, Wageningen University & Research, Droevendaalsesteeg 1, 6700, AJ, Wageningen, The Netherlands
| | - Henk J Schouten
- Plant Breeding, Wageningen University & Research, Droevendaalsesteeg 1, 6700, AJ, Wageningen, The Netherlands
| | - Geert Kessel
- Field Crops, Wageningen University & Research, Edelhertweg 1, 8219, PH, Lelystad, The Netherlands
| | - Erik Andreasson
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp Campus, Sweden
| | - Nam Phuong Kieu
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp Campus, Sweden
| | - Jörn Strassemeyer
- Julius Kühn-Institut, Federal Research Centre for Cultivated Plants, Institute for Strategies and Technology Assessment, 14532, Kleinmachnow, Germany
| | - Jordan Hristov
- Joint Research Centre, European Commission, Calle Inca Garcilaso 3, 41092, Sevilla, Spain
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25
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Gajewska J, Floryszak-Wieczorek J, Kosmala A, Perlikowski D, Żywicki M, Sobieszczuk-Nowicka E, Judelson HS, Arasimowicz-Jelonek M. Insight into metabolic sensors of nitrosative stress protection in Phytophthora infestans. Front Plant Sci 2023; 14:1148222. [PMID: 37546259 PMCID: PMC10399455 DOI: 10.3389/fpls.2023.1148222] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Accepted: 07/04/2023] [Indexed: 08/08/2023]
Abstract
Phytophthora infestans, a representative of phytopathogenic oomycetes, have been proven to cope with redundant sources of internal and host-derived reactive nitrogen species (RNS). To gain insight into its nitrosative stress resistance mechanisms, metabolic sensors activated in response to nitrosative challenge during both in vitro growth and colonization of the host plant were investigated. The conducted analyses of gene expression, protein accumulation, and enzyme activity reveal for the first time that P. infestans (avirulent MP946 and virulent MP977 toward potato cv. Sarpo Mira) withstands nitrosative challenge and has an efficient system of RNS elimination. The obtained data indicate that the system protecting P. infestans against nitric oxide (NO) involved the expression of the nitric oxide dioxygenase (Pi-NOD1) gene belonging to the globin family. The maintenance of RNS homeostasis was also supported by an elevated S-nitrosoglutathione reductase activity and upregulation of peroxiredoxin 2 at the transcript and protein levels; however, the virulence pattern determined the expression abundance. Based on the experiments, it can be concluded that P. infestans possesses a multifarious system of metabolic sensors controlling RNS balance via detoxification, allowing the oomycete to exist in different micro-environments flexibly.
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Affiliation(s)
- Joanna Gajewska
- Department of Plant Ecophysiology, Institute of Experimental Biology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | | | - Arkadiusz Kosmala
- Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland
| | - Dawid Perlikowski
- Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland
| | - Marek Żywicki
- Department of Computational Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | - Ewa Sobieszczuk-Nowicka
- Department of Plant Physiology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | - Howard S. Judelson
- Department of Microbiology and Plant Pathology, University of California, Riverside, Riverside, CA, United States
| | - Magdalena Arasimowicz-Jelonek
- Department of Plant Ecophysiology, Institute of Experimental Biology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
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26
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Nur M, Wood K, Michelmore R. EffectorO: Motif-Independent Prediction of Effectors in Oomycete Genomes Using Machine Learning and Lineage Specificity. Mol Plant Microbe Interact 2023; 36:397-410. [PMID: 36853198 DOI: 10.1094/mpmi-11-22-0236-ta] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Oomycete plant pathogens cause a wide variety of diseases, including late blight of potato, sudden oak death, and downy mildews of plants. These pathogens are major contributors to loss in numerous food crops. Oomycetes secrete effector proteins to manipulate their hosts to the advantage of the pathogen. Plants have evolved to recognize effectors, resulting in an evolutionary cycle of defense and counter-defense in plant-microbe interactions. This selective pressure results in highly diverse effector sequences that can be difficult to computationally identify using only sequence similarity. We developed a novel effector prediction tool, EffectorO, that uses two complementary approaches to predict effectors in oomycete pathogen genomes: i) a machine learning-based pipeline that predicts effector probability based on the biochemical properties of the N-terminal amino-acid sequence of a protein and ii) a pipeline based on lineage specificity to find proteins that are unique to one species or genus, a sign of evolutionary divergence due to adaptation to the host. We tested EffectorO on Bremia lactucae, which causes lettuce downy mildew, and Phytophthora infestans, which causes late blight of potato and tomato, and predicted many novel effector candidates while recovering the majority of known effector candidates. EffectorO will be useful for discovering novel families of oomycete effectors without relying on sequence similarity to known effectors. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
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Affiliation(s)
- Munir Nur
- The Genome Center, University of California, Davis, CA, U.S.A
| | - Kelsey Wood
- The Genome Center, University of California, Davis, CA, U.S.A
- Integrative Genetics & Genomics Graduate Group, University of California, Davis, CA, U.S.A
| | - Richard Michelmore
- The Genome Center, University of California, Davis, CA, U.S.A
- Departments of Plant Sciences, Molecular & Cellular Biology, Medical Microbiology & Immunology, University of California, Davis, CA, U.S.A
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27
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Mao S, Zhao J, Ding X, Vuong VA, Song J, Que L. Integrated Sensing Chip for Ultrasensitive Label-Free Detection of the Products of Loop-Mediated Isothermal Amplification. ACS Sens 2023; 8:2255-2262. [PMID: 37276452 DOI: 10.1021/acssensors.3c00227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Loop-mediated isothermal amplification (LAMP) is a nucleic acid amplification technique that has been widely used for the detection of pathogens in many organisms. Current LAMP-based sensors usually require the LAMP products to be labeled in order for them to be detected. Here, we present a novel label-free LAMP chip, which consists of a nanopore thin-film sensor embedded inside a LAMP reaction chamber. A fraction of LAMP primers is immobilized on the sensor surface, allowing the LAMP products to be synthesized and bound to the sensor surface via immobilized primers. After the LAMP reaction components are removed from the reaction chamber, the amplified LAMP products bound to the sensor surface give rise to significantly increased transducing signals, which can be measured by a portable optical spectrometer through an optical fiber probe. As a demonstration, we used the LAMP chip to detect the causal agent of late blight, Phytophthora infestans, which is one of the most devastating plant pathogens and poses a major threat to sustainable crop production worldwide. We show that this chip can detect as low as 1 fg/μL of P. infestans DNA in 30 min, which corresponds to an attomolar level of 1.6 × 10-6 attomole/μL and is at least 10 times more sensitive than the currently available methods. This label-free sensing technology holds great promise to open up a new avenue for ultrasensitive, highly specific, rapid, and cost-effective point-of-care diagnostics of plant, animal, human, and foodborne pathogens.
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Affiliation(s)
- Subin Mao
- Electrical and Computer Engineering Department, Iowa State University, Ames, Iowa 50011, United States
| | - Jinping Zhao
- Texas A&M AgriLife Research Center at Dallas, Texas A&M University System, Dallas, Texas 75252, United States
| | - Xiaoke Ding
- Electrical and Computer Engineering Department, Iowa State University, Ames, Iowa 50011, United States
| | - Van Anh Vuong
- Texas A&M AgriLife Research Center at Dallas, Texas A&M University System, Dallas, Texas 75252, United States
| | - Junqi Song
- Texas A&M AgriLife Research Center at Dallas, Texas A&M University System, Dallas, Texas 75252, United States
- Department of Plant Pathology & Microbiology, Texas A&M University, College Station, Texas 77843, United States
| | - Long Que
- Electrical and Computer Engineering Department, Iowa State University, Ames, Iowa 50011, United States
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28
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Zhao B, Yu H, Liu D, Wang J, Feng X, He F, Qi T, Du C, Wang L, Wang H, Li F. Combined Transcriptome and Metabolome Analysis Reveals Adaptive Defense Responses to DON Induction in Potato. Int J Mol Sci 2023; 24:ijms24098054. [PMID: 37175760 PMCID: PMC10179060 DOI: 10.3390/ijms24098054] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Revised: 04/24/2023] [Accepted: 04/25/2023] [Indexed: 05/15/2023] Open
Abstract
Phytophthora infestans poses a serious threat to potato production, storage, and processing. Understanding plant immunity triggered by fungal elicitors is important for the effective control of plant diseases. However, the role of the potato stress response to Fusarium toxin deoxynivalenol (DON)-induced stress is still not fully understood. In this study, the metabolites of DON-treated potato tubers were studied for four time intervals using UPLC-MS/MS. We identified 676 metabolites, and differential accumulation metabolite analysis showed that alkaloids, phenolic acids, and flavonoids were the major differential metabolites that directly determined defense response. Transcriptome data showed that differentially expressed genes (DEGs) were significantly enriched in phenylpropane and flavonoid metabolic pathways. Weighted gene co-expression network analysis (WGCNA) identified many hub genes, some of which modulate plant immune responses. This study is important for understanding the metabolic changes, transcriptional regulation, and physiological responses of active and signaling substances during DON induction, and it will help to design defense strategies against Phytophthora infestans in potato.
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Affiliation(s)
- Biao Zhao
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Hang Yu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning 530005, China
| | - Dan Liu
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Jiaqi Wang
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Xu Feng
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Fumeng He
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Tianshuai Qi
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Chong Du
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Linlin Wang
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
| | - Haifeng Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning 530005, China
| | - Fenglan Li
- College of Life Sciences, Northeast Agricultural University, Harbin 150030, China
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29
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Ivanov AA, Tyapkin AV, Golubeva TS. How Does the Sample Preparation of Phytophthora infestans Mycelium Affect the Quality of Isolated RNA? Curr Issues Mol Biol 2023; 45:3517-3524. [PMID: 37185754 PMCID: PMC10136579 DOI: 10.3390/cimb45040230] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 04/09/2023] [Accepted: 04/13/2023] [Indexed: 05/17/2023] Open
Abstract
RNA isolation from fungi and fungus-like organisms is not an easy task. Active endogenous RNases quickly hydrolyze RNA after the sample collection, and the thick cell wall prevents inhibitors from penetrating the cells. Therefore, the initial collection and grinding steps may be crucial for the total RNA isolation from the mycelium. When isolating RNA from Phytophthora infestans, we varied the grinding time of the Tissue Lyser and used TRIzol and beta-mercaptoethanol to inhibit the RNase. In addition, we tested the mortar and pestle grinding of mycelium in liquid nitrogen, with this method showing the most consistent results. During the sample grinding with the Tissue Lyser device, adding an RNase inhibitor proved to be a prerequisite, and the best results were achieved using TRIzol. We considered ten different combinations of grinding conditions and isolation methods. The classical combination of a mortar and pestle, followed by TRIzol, has proved to be the most efficient.
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Affiliation(s)
- Artemii A Ivanov
- Institute of Cytology and Genetics, Novosibirsk 630090, Russia
- Department of Natural Science, Novosibirsk State University, Novosibirsk 630090, Russia
| | - Alexandr V Tyapkin
- Institute of Cytology and Genetics, Novosibirsk 630090, Russia
- Department of Natural Science, Novosibirsk State University, Novosibirsk 630090, Russia
| | - Tatiana S Golubeva
- Institute of Cytology and Genetics, Novosibirsk 630090, Russia
- Department of Natural Science, Novosibirsk State University, Novosibirsk 630090, Russia
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Meno L, Escuredo O, Abuley IK, Seijo MC. Predicting Daily Aerobiological Risk Level of Potato Late Blight Using C5.0 and Random Forest Algorithms under Field Conditions. Sensors (Basel) 2023; 23:3818. [PMID: 37112159 PMCID: PMC10146589 DOI: 10.3390/s23083818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/25/2023] [Revised: 04/03/2023] [Accepted: 04/06/2023] [Indexed: 06/19/2023]
Abstract
Late blight, caused by Phytophthora infestans, is a major disease of the potato crop with a strong negative impact on tuber yield and tuber quality. The control of late blight in conventional potato production systems is often through weekly application of prophylactic fungicides, moving away from a sustainable production system. In support of integrated pest management practices, machine learning algorithms were proposed as tools to forecast aerobiological risk level (ARL) of Phytophthora infestans (>10 sporangia/m3) as inoculum to new infections. For this, meteorological and aerobiological data were monitored during five potato crop seasons in Galicia (northwest Spain). Mild temperatures (T) and high relative humidity (RH) were predominant during the foliar development (FD), coinciding with higher presence of sporangia in this phenological stage. The infection pressure (IP), wind, escape or leaf wetness (LW) of the same day also were significantly correlated with sporangia according to Spearman's correlation test. ML algorithms such as random forest (RF) and C5.0 decision tree (C5.0) were successfully used to predict daily sporangia levels, with an accuracy of the models of 87% and 85%, respectively. Currently, existing late blight forecasting systems assume a constant presence of critical inoculum. Therefore, ML algorithms offer the possibility of predicting critical levels of Phytophthora infestans concentration. The inclusion of this type of information in forecasting systems would increase the exactitude in the estimation of the sporangia of this potato pathogen.
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Affiliation(s)
- Laura Meno
- Department of Vegetal Biology and Soil Sciences, Faculty of Sciences, University of Vigo, 32004 Ourense, Spain
| | - Olga Escuredo
- Department of Vegetal Biology and Soil Sciences, Faculty of Sciences, University of Vigo, 32004 Ourense, Spain
| | - Isaac K. Abuley
- Department of Agroecology, Flakkebjerg Research Center, Aarhus University, Forsøgsvej 1, 4200 Aarhus, Denmark
| | - M. Carmen Seijo
- Department of Vegetal Biology and Soil Sciences, Faculty of Sciences, University of Vigo, 32004 Ourense, Spain
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Jiang R, He Q, Song J, Liu Z, Yu J, Hu K, Liu H, Mu Y, Wu J, Tian Z, Song B, Vleeshouwers VGAA, Xie C, Du J. A Phytophthora infestans RXLR effector AVR8 suppresses plant immunity by targeting a desumoylating isopeptidase DeSI2. Plant J 2023. [PMID: 37021636 DOI: 10.1111/tpj.16232] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 02/27/2023] [Accepted: 03/28/2023] [Indexed: 05/11/2023]
Abstract
The potato's most devastating disease is late blight, which is caused by Phytophthora infestans. Whereas various resistance (R) genes are known, most are typically defeated by this fast-evolving oomycete pathogen. However, the broad-spectrum and durable R8 is a vital gene resource for potato resistance breeding. To support an educated deployment of R8, we embarked on a study on the corresponding avirulence gene Avr8. We overexpressed Avr8 by transient and stable transformation, and found that Avr8 promotes colonization of P. infestans in Nicotiana benthamiana and potato, respectively. A yeast-two-hybrid (Y2H) screen showed that AVR8 interacts with a desumoylating isopeptidase (StDeSI2) of potato. We overexpressed DeSI2 and found that DeSI2 positively regulates resistance to P. infestans, while silencing StDeSI2 downregulated the expression of a set of defense-related genes. By using a specific proteasome inhibitor, we found that AVR8 destabilized StDeSI2 through the 26S proteasome and attenuated early PTI responses. Altogether, these results indicate that AVR8 manipulates desumoylation, which is a new strategy that adds to the plethora of mechanisms that Phytophthora exploits to modulate host immunity, and StDeSI2 provides a new target for durable resistance breeding against P. infestans in potato.
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Affiliation(s)
- Rui Jiang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Engineering Research Center of South Upland Agriculture, Ministry of Education, Southwest University, Chongqing, 400715, China
| | - Qin He
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jingyi Song
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Zeng Liu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jian Yu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Kefan Hu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
- Department of Biology, Hong Kong Baptist University, Hong Kong, Hong Kong Special Administrative Region (HKSAR), China
| | - Huiming Liu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Yang Mu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Jiahui Wu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Zhendong Tian
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Botao Song
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Vivianne G A A Vleeshouwers
- Plant Breeding, Wageningen University and Research, Droevendaalsesteeg 1, Wageningen, 6708 PB, The Netherlands
| | - Conghua Xie
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Juan Du
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
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Deb S, Della Lucia MC, Ravi S, Bertoldo G, Stevanato P. Transcriptome-Assisted SNP Marker Discovery for Phytophthora infestans Resistance in Solanum lycopersicum L. Int J Mol Sci 2023; 24:ijms24076798. [PMID: 37047771 PMCID: PMC10095378 DOI: 10.3390/ijms24076798] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Revised: 03/30/2023] [Accepted: 04/01/2023] [Indexed: 04/14/2023] Open
Abstract
Late blight, caused by oomycetes Phytophthora infestans is one of the most challenging fungal diseases to manage in tomato plants (Solanum lycopersicum L.). Toward managing the disease, conventional breeding has successfully introgressed genetic loci conferring disease resistance from various wild relatives of tomato into commercial varieties. The cataloging of disease-associated SNP markers and a deeper understanding of disease-resistance mechanisms are needed to keep up with the demand for commercial varieties resistant against emerging pathogen strains. To this end, we performed transcriptome sequencing to evaluate the gene expression dynamics of tomato varieties, resistant and susceptible to Phytophthora infection. Further integrating the transcriptome dataset with large-scale public genomic data of varieties with known disease phenotypes, a panel of single nucleotide polymorphism (SNP) markers correlated with disease resistance was identified. These SNPs were then validated on 31 lines with contrasting phenotypes for late blight. The identified SNPs are located on genes coding for a putative cysteine-rich transmembrane module (CYSTM), Solyc09g098310, and a nucleotide-binding site-leucine-rich repeat protein, Solyc09g098100, close to the well-studied Ph-3 resistance locus known to have a role in plant immunity against fungal infections. The panel of SNPs generated by this study using transcriptome sequencing showing correlation with disease resistance across a broad set of plant material can be used as markers for molecular screening in tomato breeding.
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Affiliation(s)
- Saptarathi Deb
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35020 Legnaro, PD, Italy
| | - Maria Cristina Della Lucia
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35020 Legnaro, PD, Italy
| | - Samathmika Ravi
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35020 Legnaro, PD, Italy
| | - Giovanni Bertoldo
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35020 Legnaro, PD, Italy
| | - Piergiorgio Stevanato
- Department of Agronomy, Food, Natural Resources, Animals and Environment (DAFNAE), University of Padova, 35020 Legnaro, PD, Italy
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Chen S, Guo X, Zhang B, Nie D, Rao W, Zhang D, Lü J, Guan X, Chen Z, Pan X. Mesoporous Silica Nanoparticles Induce Intracellular Peroxidation Damage of Phytophthora infestans: A New Type of Green Fungicide for Late Blight Control. Environ Sci Technol 2023; 57:3980-3989. [PMID: 36808949 DOI: 10.1021/acs.est.2c07182] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Nanopesticides are considered to be a promising alternative strategy for enhancing bioactivity and delaying the development of pathogen resistance to pesticides. Here, a new type of nanosilica fungicide was proposed and demonstrated to control late blight by inducing intracellular peroxidation damage to Phytophthora infestans, the pathogen associated with potato late blight. Results indicated that the structural features of different silica nanoparticles were largely responsible for their antimicrobial activities. Mesoporous silica nanoparticles (MSNs) exhibited the highest antimicrobial activity with a 98.02% inhibition rate of P. infestans, causing oxidative stress responses and cell structure damage in P. infestans. For the first time, MSNs were found to selectively induce spontaneous excess production of intracellular reactive oxygen species in pathogenic cells, including hydroxyl radicals (•OH), superoxide radicals (•O2-), and singlet oxygen (1O2), leading to peroxidation damage in P. infestans. The effectiveness of MSNs was further tested in the pot experiments as well as leaf and tuber infection, and successful control of potato late blight was achieved with high plant compatibility and safety. This work provides new insights into the antimicrobial mechanism of nanosilica and highlights the use of nanoparticles for controlling late blight with green and highly efficient nanofungicides.
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Affiliation(s)
- Saili Chen
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
- College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Xueping Guo
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Bintian Zhang
- Southern University of Science and Technology, Shenzhen, Guangdong 518055, P.R. China
| | - Danyue Nie
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Wenhua Rao
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Dingyang Zhang
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Jian Lü
- College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Xiong Guan
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Zhi Chen
- College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
| | - Xiaohong Pan
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops & Key Lab of Biopesticide and Chemical Biology, Ministry of Education & Ministerial and Provincial Joint Innovation Centre for Safety Production of Cross-Strait Crops, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, P. R. China
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Guan Y, Wei Z, Song P, Zhou L, Hu H, Hu P, Li C. MicroRNA Expression Profiles in Response to Phytophthora infestans and Oidium neolycopersici and Functional Identification of sly-miR397 in Tomato. Phytopathology 2023; 113:497-507. [PMID: 36346372 DOI: 10.1094/phyto-04-22-0117-r] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Late blight and powdery mildew are two widespread tomato diseases caused by Phytophthora infestans and Oidium neolycopersici, respectively, which reduce the quantity and quality of tomato. MicroRNAs (miRNAs) play critical roles in tomato resistance to various pathogens. Investigating the function of miRNAs is of great significance in controlling tomato diseases. To identify potential miRNAs involved in the interaction of tomato with P. infestans or O. neolycopersici, we analyzed the expression profiles of small RNAs in tomato leaves infected with these two pathogens using RNA-seq technology. A total of 330 and 288 miRNAs exhibited differences in expression levels after exposure to P. infestans and O. neolycopersici, respectively. One hundred and forty-six commonly differentially expressed (DE) miRNAs responsive to P. infestans and O. neolycopersici infestation were detected, including 10 commonly known conserved DE miRNAs and 136 novel miRNAs. Among these known DE miRNAs, sly-miR397 was strongly downregulated in response to P. infestans or O. neolycopersici infection. Silencing of sly-miR397 resulted in enhanced tolerance to the pathogens, whereas overexpression of sly-miR397 showed increased susceptibility. Furthermore, changes in sly-miR397 expression could also affect expression levels of pathogenesis-related genes and reactive oxygen species-scavenging genes, leading to altered necrotic cells and H2O2 levels. In addition, the number of lateral branches significantly changed in transgenic plants. Taken together, our results provide potential miRNA resources for further research of miRNA-disease associations and indicates that sly-miR397 acts as a negative regulator of disease resistance and influences lateral branch development in tomato.
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Affiliation(s)
- Yuanyuan Guan
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Zhiyuan Wei
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Puwen Song
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Luyi Zhou
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Haiyan Hu
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Ping Hu
- College of Life Science and Technology, Henan Engineering Research Center of Crop Genome Editing, Henan Institute of Science and Technology, Xinxiang 453000, China
| | - Chengwei Li
- College of Biological Engineering, Henan University of Technology, Zhengzhou 450001, China
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Seo YE, Yan X, Choi D, Mang H. Phytophthora infestans RxLR Effector PITG06478 Hijacks 14-3-3 to Suppress PMA Activity Leading to Necrotrophic Cell Death. Mol Plant Microbe Interact 2023; 36:150-158. [PMID: 36413345 DOI: 10.1094/mpmi-06-22-0135-r] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Pathogens often induce cell death for their successful proliferation in the host plant. Plasma membrane H+-ATPases (PMAs) are targeted by either pathogens or plant immune receptors in immune response regulation. Although PMAs play pivotal roles in host cell death, the molecular mechanism of effector-mediated regulation of PMA activity has not been described. Here, we report that the Phytophthora infestans RxLR effector PITG06478 can induce cell death in Nicotiana benthamiana but the induced cell death is inhibited by fusicoccin (FC), an irreversible PMA activator. PITG06478, which is localized at the plasma membrane, is not directly associated with the PMA but is associated with Nb14-3-3s, a PMA activator. Immunoblot analyses revealed that the interaction between PITG06478 and Nb14-3-3s was disrupted by FC. PMA activity in PITG06478-expressing plants was eventually inhibited, and cell death likely occurred because the 14-3-3 protein was hijacked. Our results further confirm the significance of PMA activity in host cell death and provide new insight into how pathogens utilize essential host components to sustain their life cycle. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
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Affiliation(s)
- Ye-Eun Seo
- Plant Immunity Research Center, Seoul National University, Seoul, 08826, Republic of Korea
- Department of Agriculture, Forestry and Bioresources, Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Republic of Korea
| | - Xin Yan
- Plant Immunity Research Center, Seoul National University, Seoul, 08826, Republic of Korea
- Department of Agriculture, Forestry and Bioresources, Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Republic of Korea
| | - Doil Choi
- Plant Immunity Research Center, Seoul National University, Seoul, 08826, Republic of Korea
- Department of Agriculture, Forestry and Bioresources, Plant Genomics and Breeding Institute, Seoul National University, Seoul, 08826, Republic of Korea
| | - Hyunggon Mang
- Plant Immunity Research Center, Seoul National University, Seoul, 08826, Republic of Korea
- Department of Southern Area Crop Science, National Institute of Crop Science (NICS), RDA, Miryang, Republic of Korea
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Zhang J, Huang X, Hou Y, Xia X, Zhu Z, Huang A, Feng S, Li P, Shi L, Dong P. Isolation and Screening of Antagonistic Endophytes against Phytophthora infestans and Preliminary Exploration on Anti-oomycete Mechanism of Bacillus velezensis 6-5. Plants (Basel) 2023; 12:909. [PMID: 36840257 PMCID: PMC9962363 DOI: 10.3390/plants12040909] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 02/13/2023] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
Phytophthora infestans, the notorious pathogen of potato late blight, leads to a severe decline in potato yields and even harvest failure. We isolated 201 endophytic isolates from healthy root tissues of potatoes, among which 41 showed strong antagonistic activity against P. infestans. Further, the tolerance to stress and the potential application against potato late blight of these antagonistic isolates were tested. Most of them were extremely tolerant to stresses such as acid-alkali, temperature, UV, salt, and heavy metal stress. However, some antagonistic isolates with excellent stress tolerance might be pathogenic to potatoes. Combining the screening results, a total of 14 endophytes had excellent comprehensive performance in all the tests. In this paper, the endophyte 6-5 was selected among them for the preliminary exploration of the anti-oomycete mechanism. Analysis of the 16S rDNA sequence revealed that 6-5 had a high homology to the corresponding sequence of Bacillus velezensis (99.72%) from the NCBI database. Endophyte 6-5 significantly inhibited the mycelial growth of P. infestans, with an inhibition rate of over 90% in vitro assays, and deformed the hyphal phenotype of P. infestans. In addition, endophyte 6-5 could secrete protease and cellulase, and produce antagonistic substances with high thermal stability, which might be helpful to its antagonistic activity against P. infestans. Furthermore, it was demonstrated that 6-5 had the ability to improve the resistance of potato tubers to late blight. In short, our study described the process of isolating and screening endophytes with antagonistic activity against P. infestans from potato roots, and further explored the potential of biocontrol candidate strain 6-5 in potato late blight control.
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Affiliation(s)
- Jiaomei Zhang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Xiaoqing Huang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Yuqin Hou
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Xiangning Xia
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Zhiming Zhu
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Airong Huang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Shun Feng
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Peihua Li
- College of Agronomy, Xichang University, Xichang 615013, China
| | - Lei Shi
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Pan Dong
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
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Jian Y, Feng S, Huang A, Zhu Z, Zhang J, Tang S, Jin L, Ren M, Dong P. Integrative mRNA and microRNA Analysis Exploring the Inducing Effect and Mechanism of Diallyl Trisulfide (DATS) on Potato against Late Blight. Int J Mol Sci 2023; 24:ijms24043474. [PMID: 36834885 PMCID: PMC9962630 DOI: 10.3390/ijms24043474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2022] [Revised: 01/30/2023] [Accepted: 02/02/2023] [Indexed: 02/12/2023] Open
Abstract
Potato late blight, caused by Phytophthora infestans, leads to a significant reduction in the yield and value of potato. Biocontrol displays great potential in the suppression of plant diseases. Diallyl trisulfide (DATS) is a well-known natural compound for biocontrol, although there is little information about it against potato late blight. In this study, DATS was found to be able to inhibit the hyphae growth of P. infestans, reduce its pathogenicity on detached potato leaves and tubers, and induce the overall resistance of potato tubers. DATS significantly increases catalase (CAT) activity of potato tubers, and it does not affect the levels of peroxidase (POD), superoxide dismutase (SOD), and malondialdehyde (MDA). The transcriptome datasets show that totals of 607 and 60 significantly differentially expressed genes (DEGs) and miRNAs (DEMs) are detected. Twenty-one negatively regulated miRNA-mRNA interaction pairs are observed in the co-expression regulatory network, which are mainly enriched in metabolic pathways, biosynthesis of secondary metabolites, and starch and sucrose metabolism based on the KEGG pathway. Our observations provide new insight into the role of DATS in biocontrol of potato late blight.
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Affiliation(s)
- Yongfei Jian
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Shun Feng
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
- Sanya Nanfan Research Institute, School of Horticulture, Hainan University, Haikou 570228, China
| | - Airong Huang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Zhiming Zhu
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
- Hongshen Honors School, Chongqing University, Chongqing 401331, China
| | - Jiaomei Zhang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Shicai Tang
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
| | - Liang Jin
- School of Life Sciences, Chongqing University, Chongqing 401331, China
| | - Maozhi Ren
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China
- Correspondence: (M.R.); (P.D.)
| | - Pan Dong
- School of Life Sciences, Chongqing University, Chongqing 401331, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing 400716, China
- Correspondence: (M.R.); (P.D.)
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Mironenko NV, Khyutti AV, Kyrova EI, Belov DA, Afanasenko OS. First Detection of Potato Spindle Tuber Viroid in Natural Isolates of Potato Blight Agent Phytophthora infestans. Dokl Biol Sci 2023; 508:55-62. [PMID: 37186047 DOI: 10.1134/s0012496622700119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2022] [Revised: 10/19/2022] [Accepted: 10/20/2022] [Indexed: 05/17/2023]
Abstract
Phytophthora infestans is the oomycete that causes potato blight, an important disease. The potato spindle tuber viroid (PSTVd) is a dangerous pathogen of many plants, including potato. We have previously shown that PSTVd can be transmitted from infected potato plants into the Ph. infestans mycelium, replicated within the mycelium, and then transmitted to other potato plants upon their infection with Ph. infestans in laboratory conditions. The objective of this work was to check the hypothesis that PSTVd transmission, preservation, and replication in Ph. infestans are possible to occur in natural conditions during long-term coevolution of the host and pathogen in the Solanum spp.-Ph. infestans system. A screening test for PSTVd was performed in 111 natural Ph. infestans isolates obtained from potato plants, which represented various cultivars, had signs of potato blight, and were collected from industrial potato fields of the Moscow, Vologda, and Bryansk regions and breeding and variety test plots of the St. Petersburg and Moscow regions in 2020 and 2022. Using RT-PCR with PSTVd-specific primers, 42 Ph. infestans isolates collected in 2020 were tested after five passages and 69 Ph. infestans isolates collected in 2022, after a single passage on rye agar. Diagnostic amplicons were detected in 8 and 50 isolates, respectively. Some of the amplicons were visually assessed as minor amplification products, apparently resulting from nonspecific priming on a host Ph. infestans gene, which codes for a hypothetical protein-coding mRNA in Ph. infestans and other oomycetes. Eight amplicons were sequenced to verify the PSTVd presence in Ph. infestans isolates. Three amplicons corresponded to the complete PSTVd genome and five, to its part (~260 bp). The nucleotide sequences of cloned amplification products were identified to species in the BLAST system and deposited in GenBank. The amplicons obtained with the PSTVd-specific primers were identified as PSTVd sequences in all Ph. infestans isolates examined. The majority of the nucleotide sequences were phylogenetically related to BLAST sequences of PSTVd strains originating from Russia; several strains showed similarity to strains from other countries (France, China, and West African countries). The results demonstrate that PSTVd was for the first time detected in natural (field) Ph. infestans isolates and offer new opportunities for studying the intricate multilevel host-parasite interactions.
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Affiliation(s)
- N V Mironenko
- All-Russia Institute of Plant Protection, St. Petersburg, Russia.
| | - A V Khyutti
- All-Russia Institute of Plant Protection, St. Petersburg, Russia
| | - E I Kyrova
- All-Russia Institute of Plant Protection, St. Petersburg, Russia
| | - D A Belov
- All-Russia Institute of Plant Protection, St. Petersburg, Russia
| | - O S Afanasenko
- All-Russia Institute of Plant Protection, St. Petersburg, Russia
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Luo M, Sun X, Xu M, Tian Z. Identification of miRNAs Involving Potato- Phytophthora infestans Interaction. Plants (Basel) 2023; 12:461. [PMID: 36771544 PMCID: PMC9921761 DOI: 10.3390/plants12030461] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/19/2022] [Revised: 01/03/2023] [Accepted: 01/17/2023] [Indexed: 06/18/2023]
Abstract
sRNAs (small RNAs) play an important role in regulation of plant immunity against a variety of pathogens. In this study, sRNA sequencing analysis was performed to identify miRNAs (microRNAs) during the interaction of potato and Phytophthora infestans. Totally, 171 potato miRNAs were identified, 43 of which were annotated in the miRNA database and 128 were assigned as novel miRNAs in this study. Those potato miRNAs may target 878 potato genes and half of them encode resistance proteins. Fifty-three potato miRNAs may target 194 P. infestans genes. Three potato miRNAs (novel 72, 133, and 140) were predicted to have targets only in the P. infestans genome. miRNAs transient expression and P. infestans inoculation assay showed that miR396, miR166, miR6149-5P, novel133, or novel140 promoted P. infestans colonization, while miR394 inhibited colonization on Nicotiana benthamiana leaves. An artificial miRNA target (amiRNA) degradation experiment demonstrated that miR394 could target both potato gene (PGSC0003DMG400034305) and P. infestans genes. miR396 targets the multicystatin gene (PGSC0003DMG400026899) and miR6149-5p could shear the galactose oxidase F-box protein gene CPR30 (PGSC0003DMG400021641). This study provides new information on the aspect of cross-kingdom immune regulation in potato-P. infestans interaction at the sRNAs regulation level.
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Affiliation(s)
- Ming Luo
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University (HZAU), Wuhan 430070, China
| | - Xinyuan Sun
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University (HZAU), Wuhan 430070, China
- Key Laboratory of Potato Biology and Biotechnology (HZAU), Ministry of Agriculture and Rural Affairs, Wuhan 430070, China
- Potato Engineering and Technology Research Center of Hubei Province (HZAU), Wuhan 430070, China
| | - Meng Xu
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University (HZAU), Wuhan 430070, China
- Key Laboratory of Potato Biology and Biotechnology (HZAU), Ministry of Agriculture and Rural Affairs, Wuhan 430070, China
- Potato Engineering and Technology Research Center of Hubei Province (HZAU), Wuhan 430070, China
| | - Zhendong Tian
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University (HZAU), Wuhan 430070, China
- Key Laboratory of Potato Biology and Biotechnology (HZAU), Ministry of Agriculture and Rural Affairs, Wuhan 430070, China
- Potato Engineering and Technology Research Center of Hubei Province (HZAU), Wuhan 430070, China
- Hubei Hongshan Laboratory (HZAU), Wuhan 430070, China
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Lin X, Torres Ascurra YC, Fillianti H, Dethier L, de Rond L, Domazakis E, Aguilera-Galvez C, Kiros AY, Jacobsen E, Visser RGF, Nürnberger T, Vleeshouwers VGAA. Recognition of Pep-13/25 MAMPs of Phytophthora localizes to an RLK locus in Solanum microdontum. Front Plant Sci 2023; 13:1037030. [PMID: 36714772 PMCID: PMC9879208 DOI: 10.3389/fpls.2022.1037030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 12/09/2022] [Indexed: 06/18/2023]
Abstract
Pattern-triggered immunity (PTI) in plants is mediated by cell surface-localized pattern recognition receptors (PRRs) upon perception of microbe-associated molecular pattern (MAMPs). MAMPs are conserved molecules across microbe species, or even kingdoms, and PRRs can confer broad-spectrum disease resistance. Pep-13/25 are well-characterized MAMPs in Phytophthora species, which are renowned devastating oomycete pathogens of potato and other plants, and for which genetic resistance is highly wanted. Pep-13/25 are derived from a 42 kDa transglutaminase GP42, but their cognate PRR has remained unknown. Here, we genetically mapped a novel surface immune receptor that recognizes Pep-25. By using effectoromics screening, we characterized the recognition spectrum of Pep-13/25 in diverse Solanaceae species. Response to Pep-13/25 was predominantly found in potato and related wild tuber-bearing Solanum species. Bulk-segregant RNA sequencing (BSR-Seq) and genetic mapping the response to Pep-25 led to a 0.081 cM region on the top of chromosome 3 in the wild potato species Solanum microdontum subsp. gigantophyllum. Some BAC clones in this region were isolated and sequenced, and we found the Pep-25 receptor locates in a complex receptor-like kinase (RLK) locus. This study is an important step toward the identification of the Pep-13/25 receptor, which can potentially lead to broad application in potato and various other hosts of Phytophthora species.
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Affiliation(s)
- Xiao Lin
- Plant Breeding, Wageningen University and Research, Wageningen, Netherlands
| | | | - Happyka Fillianti
- Plant Breeding, Wageningen University and Research, Wageningen, Netherlands
| | - Laura Dethier
- Plant Breeding, Wageningen University and Research, Wageningen, Netherlands
| | - Laura de Rond
- Plant Breeding, Wageningen University and Research, Wageningen, Netherlands
| | | | | | | | - Evert Jacobsen
- Plant Breeding, Wageningen University and Research, Wageningen, Netherlands
| | | | - Thorsten Nürnberger
- Department of Plant Biochemistry, Centre of Plant Molecular Biology (ZMBP), University of Tübingen, Tübingen, Germany
- Department of Biochemistry, University of Johannesburg, Johannesburg, South Africa
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Rogozina EV, Gurina AA, Chalaya NA, Zoteyeva NM, Kuznetsova MA, Beketova MP, Muratova OA, Sokolova EA, Drobyazina PE, Khavkin EE. Diversity of Late Blight Resistance Genes in the VIR Potato Collection. Plants (Basel) 2023; 12:273. [PMID: 36678985 PMCID: PMC9862067 DOI: 10.3390/plants12020273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 12/26/2022] [Accepted: 01/03/2023] [Indexed: 06/17/2023]
Abstract
Late blight (LB) caused by the oomycete Phytophthora infestans (Mont.) de Bary is the greatest threat to potato production worldwide. Current potato breeding for LB resistance heavily depends on the introduction of new genes for resistance to P. infestans (Rpi genes). Such genes have been discovered in highly diverse wild, primitive, and cultivated species of tuber-bearing potatoes (Solanum L. section Petota Dumort.) and introgressed into the elite potato cultivars by hybridization and transgenic complementation. Unfortunately, even the most resistant potato varieties have been overcome by LB due to the arrival of new pathogen strains and their rapid evolution. Therefore, novel sources for germplasm enhancement comprising the broad-spectrum Rpi genes are in high demand with breeders who aim to provide durable LB resistance. The Genbank of the N.I. Vavilov Institute of Plant Genetic Resources (VIR) in St. Petersburg harbors one of the world's largest collections of potato and potato relatives. In this study, LB resistance was evaluated in a core selection representing 20 species of seven Petota series according to the Hawkes (1990) classification: Bulbocastana (Rydb.) Hawkes, Demissa Buk., Longipedicellata Buk., Maglia Bitt., Pinnatisecta (Rydb.) Hawkes, Tuberosa (Rydb.) Hawkes (wild and cultivated species), and Yungasensa Corr. LB resistance was assessed in 96 accessions representing 18 species in the laboratory test with detached leaves using a highly virulent and aggressive isolate of P. infestans. The Petota species notably differed in their LB resistance: S. bulbocastanum Dun., S. demissum Lindl., S. cardiophyllum Lindl., and S. berthaultii Hawkes stood out at a high frequency of resistant accessions (7-9 points on a 9-point scale). Well-established specific SCAR markers of ten Rpi genes-Rpi-R1, Rpi-R2/Rpi-blb3, Rpi-R3a, Rpi-R3b, Rpi-R8, Rpi-blb1/Rpi-sto1, Rpi-blb2, and Rpi-vnt1-were used to mine 117 accessions representing 20 species from seven Petota series. In particular, our evidence confirmed the diverse Rpi gene location in two American continents. The structural homologs of the Rpi-R2, Rpi-R3a, Rpi-R3b, and Rpi-R8 genes were found in the North American species other than S. demissum, the species that was the original source of these genes for early potato breeding, and in some cases, in the South American Tuberosa species. The Rpi-blb1/Rpi-sto1 orthologs from S. bulbocastanum and S. stoloniferum Schlechtd et Bché were restricted to genome B in the Mesoamerican series Bulbocastana, Pinnatisecta, and Longipedicellata. The structural homologs of the Rpi-vnt1 gene that were initially identified in the South American species S. venturii Hawkes and Hjert. were reported, for the first time, in the North American series of Petota species.
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Affiliation(s)
- Elena V. Rogozina
- N.I. Vavilov Institute of Plant Genetic Resources (VIR), St. Petersburg 190000, Russia
| | - Alyona A. Gurina
- N.I. Vavilov Institute of Plant Genetic Resources (VIR), St. Petersburg 190000, Russia
| | - Nadezhda A. Chalaya
- N.I. Vavilov Institute of Plant Genetic Resources (VIR), St. Petersburg 190000, Russia
| | - Nadezhda M. Zoteyeva
- N.I. Vavilov Institute of Plant Genetic Resources (VIR), St. Petersburg 190000, Russia
| | | | | | | | | | | | - Emil E. Khavkin
- Institute of Agricultural Biotechnology, Moscow 127550, Russia
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Li F, Mei DH, Ren T, Song QY. Crude Extracts and Secondary Metabolites of Epichloë bromicola against Phytophthora infestans. Chem Biodivers 2023; 20:e202200841. [PMID: 36471540 DOI: 10.1002/cbdv.202200841] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Revised: 12/01/2022] [Accepted: 12/05/2022] [Indexed: 12/12/2022]
Abstract
Potato late blight caused by Phytophthora infestans is still one of the main factors limiting potato production. Epichloë spp. can provide host plants with various resistances, which makes them show great potential in the biological control of diseases. In this study, we explored the potential biological activity of crude extracts of 20 strains of Epichloë bromicola to control P. infestans. The crude extracts of strains 1 and 8 showed significant antifungal activity with an inhibition rate of 88 % and 81 %, respectively, and showed different effects on the mycelium morphology of P. infestans observed by scanning electron microscopy. Moreover, the two crude extracts demonstrated an interesting therapeutic and protective effect on potato late blight, and none of the extracts had an adverse effect against zebrafish embryos. A total of 13 metabolites were isolated from the crude extract of strain 8, and these tested compounds showed a weak antifungal effect and the inhibition rate was less than 80 %. These findings suggested that strains 1 and 8 have potential for biocontrol of late potato blight.
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Affiliation(s)
- Fan Li
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, China
| | - Da-Hai Mei
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, China
| | - Ting Ren
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, China
| | - Qiu-Yan Song
- State Key Laboratory of Grassland Agro-ecosystems, Key Laboratory of Grassland Livestock Industry Innovation, Ministry of Agriculture, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, 730020, China
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Bashir S, Rehman N, Fakhar Zaman F, Naeem MK, Jamal A, Tellier A, Ilyas M, Silva Arias GA, Khan MR. Genome-wide characterization of the NLR gene family in tomato ( Solanum lycopersicum) and their relatedness to disease resistance. Front Genet 2022; 13:931580. [PMID: 36544493 PMCID: PMC9760929 DOI: 10.3389/fgene.2022.931580] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Accepted: 11/08/2022] [Indexed: 12/12/2022] Open
Abstract
Nucleotide-binding leucine-rich-repeat receptors (NLR), the largest group of genes associated with plant disease resistance (R), have attracted attention due to their crucial role in protecting plants from pathogens. Genome-wide studies of NLRs have revealed conserved domains in the annotated tomato genome. The 321 NLR genes identified in the tomato genome have been randomly mapped to 12 chromosomes. Phylogenetic analysis and classification of NLRs have revealed that 211 genes share full-length domains categorized into three major clades (CNL, TNL, and RNL); the remaining 110 NLRs share partial domains and are classified in CN, TN, and N according to their motifs and gene structures. The cis-regulatory elements of NLRs exhibit the maximum number of these elements and are involved in response to biotic and abiotic stresses, pathogen recognition, and resistance. Analysis of the phylogenetic relationship between tomato NLRs and orthologs in other species has shown conservation among Solanaceae members and variation with A. thaliana. Synteny and Ka/Ks analyses of Solanum lycopersicum and Solanum tuberosum orthologs have underscored the importance of NLR conservation and diversification from ancestral species millions of years ago. RNA-seq data and qPCR analysis of early and late blight diseases in tomatoes revealed consistent NLR expression patterns, including upregulation in infected compared to control plants (with some exceptions), suggesting the role of NLRs as key regulators in early blight resistance. Moreover, the expression levels of NLRs associated with late blight resistance (Solyc04g007060 [NRC4] and Solyc10g008240 [RIB12]) suggested that they regulate S. lycopersicum resistance to P. infestans. These findings provide important fundamental knowledge for understanding NLR evolution and diversity and will empower the broader characterization of disease resistance genes for pyramiding through speed cloning to develop disease-tolerant varieties.
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Affiliation(s)
- Sehrish Bashir
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan,PARC Institute for Advanced Studies in Agriculture, NARC, Islamabad, Pakistan
| | - Nazia Rehman
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan,PARC Institute for Advanced Studies in Agriculture, NARC, Islamabad, Pakistan,*Correspondence: Nazia Rehman, ; Muhammad Ramzan Khan,
| | - Fabia Fakhar Zaman
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan,PARC Institute for Advanced Studies in Agriculture, NARC, Islamabad, Pakistan
| | - Muhammad Kashif Naeem
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan
| | - Atif Jamal
- Crop Disease Research Institute, National Agricultural Research Center, Islamabad, Pakistan
| | - Aurélien Tellier
- Population Genetics, Department of Life Science Systems, School of Life Sciences, Technical University of Munich, Freising, Germany
| | - Muhammad Ilyas
- Population Genetics, Department of Life Science Systems, School of Life Sciences, Technical University of Munich, Freising, Germany
| | - Gustavo Adolfo Silva Arias
- Population Genetics, Department of Life Science Systems, School of Life Sciences, Technical University of Munich, Freising, Germany
| | - Muhammad Ramzan Khan
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan,PARC Institute for Advanced Studies in Agriculture, NARC, Islamabad, Pakistan,*Correspondence: Nazia Rehman, ; Muhammad Ramzan Khan,
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Drozda A, Kurpisz B, Guan Y, Arasimowicz-Jelonek M, Plich J, Jagodzik P, Kuźnicki D, Floryszak-Wieczorek J. Insights into the expression of DNA (de)methylation genes responsive to nitric oxide signaling in potato resistance to late blight disease. Front Plant Sci 2022; 13:1033699. [PMID: 36618647 PMCID: PMC9815718 DOI: 10.3389/fpls.2022.1033699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Accepted: 11/08/2022] [Indexed: 06/17/2023]
Abstract
Our previous study concerning the pathogen-induced biphasic pattern of nitric oxide (NO) burst revealed that the decline phase and a low level of NO, due to S-nitrosoglutathione reductase (GSNOR) activity, might be decisive in the upregulation of stress-sensitive genes via histone H3/H4 methylation in potato leaves inoculated with avr P. infestans. The present study refers to the NO-related impact on genes regulating DNA (de)methylation, being in dialog with histone methylation. The excessive amounts of NO after the pathogen or GSNO treatment forced the transient upregulation of histone SUVH4 methylation and DNA hypermethylation. Then the diminished NO bioavailability reduced the SUVH4-mediated suppressive H3K9me2 mark on the R3a gene promoter and enhanced its transcription. However, we found that the R3a gene is likely to be controlled by the RdDM methylation pathway. The data revealed the time-dependent downregulation of the DCL3, AGO4, and miR482e genes, exerting upregulation of the targeted R3a gene correlated with ROS1 overexpression. Based on these results, we postulate that the biphasic waves of NO burst in response to the pathogen appear crucial in establishing potato resistance to late blight through the RdDM pathway controlling R gene expression.
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Affiliation(s)
- Andżelika Drozda
- Department of Plant Physiology, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, Poznań, Poland
| | - Barbara Kurpisz
- Department of Plant Physiology, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, Poznań, Poland
| | - Yufeng Guan
- Department of Plant Physiology, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, Poznań, Poland
- Department of Plant Ecophysiology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | | | - Jarosław Plich
- Plant Breeding and Acclimatization Institute - National Research Institute, Młochów, Poland
| | - Przemysław Jagodzik
- Department of Plant Ecophysiology, Faculty of Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | - Daniel Kuźnicki
- Department of Plant Physiology, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, Poznań, Poland
| | - Jolanta Floryszak-Wieczorek
- Department of Plant Physiology, Faculty of Agronomy, Horticulture and Bioengineering, Poznań University of Life Sciences, Poznań, Poland
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Ragunathan J, Appusami S, Kadiri M, Venkatesan R, Nallusamy S, Sevugapperumal N. Deciphering the Biomolecules from Bacillus atrophaeus NMB01 Untangles the Anti-Oomycetes Action of Trioxsalen and Corynan-17-ol, Against Phytophthora infestans Inciting Late Blight of Potato. Indian J Microbiol 2022; 62:641-650. [PMID: 36458213 PMCID: PMC9705679 DOI: 10.1007/s12088-022-01044-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Accepted: 10/13/2022] [Indexed: 11/07/2022] Open
Abstract
The antagonistic Bacillus spp. is known well for the production of versatile antimicrobial biomolecules with broad spectrum of action against different types of plant pathogens. Considering the significance of metabolically active biomolecules, attempts were made to decipher the anti-oomycete nature of biomolecules produced by Bacillus atrophaeus NMB01 during di-trophic interaction with Phytophthora infestans. Ten biomolecules produced by B. atrophaeus NMB01 during di-trophic interaction with P. infestans were docked against the twelve target proteins of P. infestans. Molecular docking of biomolecules reported trioxsalen and corynan-17-ol,18,19-didehydro-10-methoxy-acetate(ester) as best hits with highest binding energy in the range of - 7.5 to - 5 kcal/mol against target proteins of P. infestans. Comparatively less binding energy was observed for commercially available fungicides mandipropamid and metalaxyl on docking against the target proteins of P. infestans. We also confirmed the direct impact of trioxsalen andcorynan-17-ol, on P. infestans under in vitro with 66% and 50% inhibition of mycelial growth of P. infestans, respectively. This is the first study attempted to untangle the role of bioactive anti-oomycete compounds produced by B. atrophaeus strain NMB01 during di-trophic interaction with P. infestans against late blight pathogen P. infestans infecting potato. From the present study, we conclude that the biomolecules, trioxsalen and corynan-17-ol, can be explored for the management of P. infestans, the incitant of late blight of potato. Graphical Abstract Supplementary Information The online version contains supplementary material available at 10.1007/s12088-022-01044-7.
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Affiliation(s)
- Janani Ragunathan
- Department of Plant Pathology, Centre for Plant Protection Studies, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
| | - Sudha Appusami
- Department of Plant Pathology, Centre for Plant Protection Studies, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
| | - Mahendra Kadiri
- Department of Plant Pathology, Centre for Plant Protection Studies, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
| | - Ragapriya Venkatesan
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
| | - Saranya Nallusamy
- Department of Plant Molecular Biology and Bioinformatics, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
| | - Nakkeeran Sevugapperumal
- Department of Plant Biotechnology, Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore, Tamil Nadu 641 003 India
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Michels L, Bronkhorst J, Kasteel M, de Jong D, Albada B, Ketelaar T, Govers F, Sprakel J. Molecular sensors reveal the mechano-chemical response of Phytophthora infestans walls and membranes to mechanical and chemical stress. Cell Surf 2022; 8:100071. [PMID: 35059532 PMCID: PMC8760408 DOI: 10.1016/j.tcsw.2021.100071] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 12/09/2021] [Accepted: 12/29/2021] [Indexed: 11/15/2022] Open
Abstract
Phytophthora infestans, causal agent of late blight in potato and tomato, remains challenging to control. Unravelling its biomechanics of host invasion, and its response to mechanical and chemical stress, could provide new handles to combat this devastating pathogen. Here we introduce two fluorescent molecular sensors, CWP-BDP and NR12S, that reveal the micromechanical response of the cell wall-plasma membrane continuum in P. infestans during invasive growth and upon chemical treatment. When visualized by live-cell imaging, CWP-BDP reports changes in cell wall (CW) porosity while NR12S reports variations in chemical polarity and lipid order in the plasma membrane (PM). During invasive growth, mechanical interactions between the pathogen and a surface reveal clear and localized changes in the structure of the CW. Moreover, the molecular sensors can reveal the effect of chemical treatment to CW and/or PM, thereby revealing the site-of-action of crop protection agents. This mechano-chemical imaging strategy resolves, non-invasively and with high spatio-temporal resolution, how the CW-PM continuum adapts and responds to abiotic stress, and provides information on the dynamics and location of cellular stress responses for which, to date, no other methods are available.
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Affiliation(s)
- Lucile Michels
- Physical Chemistry and Soft Matter, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, the Netherlands
| | - Jochem Bronkhorst
- Physical Chemistry and Soft Matter, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, the Netherlands
| | - Michiel Kasteel
- Laboratory of Phytopathology, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
- Laboratory of Cell Biology, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Djanick de Jong
- Physical Chemistry and Soft Matter, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, the Netherlands
| | - Bauke Albada
- Laboratory of Organic Chemistry, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, the Netherlands
| | - Tijs Ketelaar
- Laboratory of Cell Biology, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Francine Govers
- Laboratory of Phytopathology, Wageningen University & Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Joris Sprakel
- Physical Chemistry and Soft Matter, Wageningen University & Research, Stippeneng 4, 6708 WE, Wageningen, the Netherlands
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Li R, Maioli A, Yan Z, Bai Y, Valentino D, Milani AM, Pompili V, Comino C, Lanteri S, Moglia A, Acquadro A. CRISPR/Cas9-Based Knock-Out of the PMR4 Gene Reduces Susceptibility to Late Blight in Two Tomato Cultivars. Int J Mol Sci 2022; 23:ijms232314542. [PMID: 36498869 PMCID: PMC9735651 DOI: 10.3390/ijms232314542] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 11/09/2022] [Accepted: 11/16/2022] [Indexed: 11/24/2022] Open
Abstract
Phytophthora infestans, the causal agent of late blight (LB) in tomato (Solanum lycopersicum L.), is a devastating disease and a serious concern for plant productivity. The presence of susceptibility (S) genes in plants facilitates pathogen proliferation; thus, disabling these genes may help provide a broad-spectrum and durable type of tolerance/resistance. Previous studies on Arabidopsis and tomato have highlighted that knock-out mutants of the PMR4 susceptibility gene are tolerant to powdery mildew. Moreover, PMR4 knock-down in potato has been shown to confer tolerance to LB. To verify the same effect in tomato in the present study, a CRISPR-Cas9 vector containing four single guide RNAs (sgRNAs: sgRNA1, sgRNA6, sgRNA7, and sgRNA8), targeting as many SlPMR4 regions, was introduced via Agrobacterium-tumefaciens-mediated transformation into two widely grown Italian tomato cultivars: 'San Marzano' (SM) and 'Oxheart' (OX). Thirty-five plants (twenty-six SM and nine OX) were selected and screened to identify the CRISPR/Cas9-induced mutations. The different sgRNAs caused mutation frequencies ranging from 22.1 to 100% and alternatively precise insertions (sgRNA6) or deletions (sgRNA7, sgRNA1, and sgRNA8). Notably, sgRNA7 induced in seven SM genotypes a -7 bp deletion in the homozygous status, whereas sgRNA8 led to the production of fifteen SM genotypes with a biallelic mutation (-7 bp and -2 bp). Selected edited lines were inoculated with P. infestans, and four of them, fully knocked out at the PMR4 locus, showed reduced disease symptoms (reduction in susceptibility from 55 to 80%) compared to control plants. The four SM lines were sequenced using Illumina whole-genome sequencing for deeper characterization without exhibiting any evidence of mutations in the candidate off-target regions. Our results showed, for the first time, a reduced susceptibility to Phytophtora infestans in pmr4 tomato mutants confirming the role of KO PMR4 in providing broad-spectrum protection against pathogens.
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Affiliation(s)
- Ruiling Li
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Alex Maioli
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Zhe Yan
- Plant Breeding, Wageningen University & Research, 6708 PB Wageningen, The Netherlands
| | - Yuling Bai
- Plant Breeding, Wageningen University & Research, 6708 PB Wageningen, The Netherlands
| | - Danila Valentino
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Anna Maria Milani
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Valerio Pompili
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Cinzia Comino
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Sergio Lanteri
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Andrea Moglia
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
| | - Alberto Acquadro
- Plant Genetics and Breeding, Department of Agricultural, Forest and Food Science (DISAFA), University of Torino, 10095 Grugliasco, Italy
- Correspondence:
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Mu Y, Guo X, Yu J, Wang R, Liu Z, Hu K, Song J, Chen L, Song B, Du J. SWATH-MS based quantitative proteomics analysis reveals novel proteins involved in PAMP triggered immunity against potato late blight pathogen Phytophthora infestans. Front Plant Sci 2022; 13:1036637. [PMID: 36466288 PMCID: PMC9715588 DOI: 10.3389/fpls.2022.1036637] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/04/2022] [Accepted: 10/31/2022] [Indexed: 06/17/2023]
Abstract
Potato is the most important non-grain food in the world, while late blight caused by Phytophthora infestans seriously threatens the production of potato. Since pathogen-associated molecular patterns (PAMPs) are relatively conserved, PAMP-triggered immunity (PTI) can provide durable resistance to late blight for potato. However, knowledge of the regulatory mechanisms of PTI against oomycete pathogens at protein levels remains limited due to the small number of identified proteins. In the present work, changes in the proteome profile of Nicotiana benthamiana leaves upon P. infestans PAMP induction were examined using the SWATH-MS (sequential windowed acquisition of all theoretical mass spectra) approach, which provides quantification of protein abundances and large-scale identification of PTI-related proteins. A total of 4401 proteins have been identified, of which 1429 proteins were differentially expressed at least at one time point of 8, 12, 24 and 48 h after PAMP induction, compared with the expression at 0 h when immediately after PAMP induction. They were further analyzed by expression clustering and gene ontology (GO) enrichment analysis. Through functional verification, six novel DEPs of 19 candidates were proved to be involved in PTI responses, including mitochondrial phosphate carrier protein (MPT) 3, vesicle-associated membrane protein (VAMP) 714, lysophospholipase (LysoPL) 2, ascorbate peroxidase (APX) 1, heat shock 70 kDa protein (HSP) 2 and peptidyl-prolyl cis-trans isomerase FKBP (FKBP) 15-1. Taken together, the time course approach and the resulting large-scale proteomic analyses have enlarged our understanding of PTI mechanisms and provided a valuable resource for the discovery of complex protein networks involved in the resistance response of potato to late blight.
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Affiliation(s)
- Yang Mu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Xiao Guo
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Jian Yu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Ruxun Wang
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Zeng Liu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Kefan Hu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Jingyi Song
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
| | - Lin Chen
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
| | - Botao Song
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
| | - Juan Du
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, China
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China
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Volynchikova E, Kim KD. Biological Control of Oomycete Soilborne Diseases Caused by Phytophthora capsici, Phytophthora infestans, and Phytophthora nicotianae in Solanaceous Crops. Mycobiology 2022; 50:269-293. [PMID: 36404903 PMCID: PMC9645277 DOI: 10.1080/12298093.2022.2136333] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 10/11/2022] [Accepted: 10/11/2022] [Indexed: 05/25/2023]
Abstract
Oomycete pathogens that belong to the genus Phytophthora cause devastating diseases in solanaceous crops such as pepper, potato, and tobacco, resulting in crop production losses worldwide. Although the application of fungicides efficiently controls these diseases, it has been shown to trigger negative side effects such as environmental pollution, phytotoxicity, and fungicide resistance in plant pathogens. Therefore, biological control of Phytophthora-induced diseases was proposed as an environmentally sound alternative to conventional chemical control. In this review, progress on biological control of the soilborne oomycete plant pathogens, Phytophthora capsici, Phytophthora infestans, and Phytophthora nicotianae, infecting pepper, potato, and tobacco is described. Bacterial (e.g., Acinetobacter, Bacillus, Chryseobacterium, Paenibacillus, Pseudomonas, and Streptomyces) and fungal (e.g., Trichoderma and arbuscular mycorrhizal fungi) agents, and yeasts (e.g., Aureobasidium, Curvibasidium, and Metschnikowia) have been reported as successful biocontrol agents of Phytophthora pathogens. These microorganisms antagonize Phytophthora spp. via antimicrobial compounds with inhibitory activities against mycelial growth, sporulation, and zoospore germination. They also trigger plant immunity-inducing systemic resistance via several pathways, resulting in enhanced defense responses in their hosts. Along with plant protection, some of the microorganisms promote plant growth, thereby enhancing their beneficial relations with host plants. Although the beneficial effects of the biocontrol microorganisms are acceptable, single applications of antagonistic microorganisms tend to lack consistent efficacy compared with chemical analogues. Therefore, strategies to improve the biocontrol performance of these prominent antagonists are also discussed in this review.
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Affiliation(s)
- Elena Volynchikova
- Laboratory of Plant Disease and Biocontrol, Department of Plant Biotechnology, Korea University, Seoul, Republic of Korea
| | - Ki Deok Kim
- Laboratory of Plant Disease and Biocontrol, Department of Plant Biotechnology, Korea University, Seoul, Republic of Korea
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50
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Chahed A, Nesler A, Esmaeel Q, Barka EA, Perazzolli M. The Amount of the Rare Sugar Tagatose on Tomato Leaves Decreases after Spray Application under Greenhouse Conditions. Plants (Basel) 2022; 11:2781. [PMID: 36297805 PMCID: PMC9607558 DOI: 10.3390/plants11202781] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Revised: 10/11/2022] [Accepted: 10/17/2022] [Indexed: 06/16/2023]
Abstract
Tagatose is a rare sugar that suppresses plant diseases, such as late blight of tomato, caused by Phytophthora infestans. Tagatose can be metabolized by some microorganisms and no information is available on its persistence on tomato leaves. The aim of this study was to assess the persistence of tagatose on tomato leaves under commercial greenhouse conditions. The amount of tagatose on tomato leaves and the inhibitory activity against P. infestans decreased seven days after spray application in the absence of rain wash-off. Potential tagatose-degrading bacteria were isolated from tomato leaves, and they belonged to Acinetobacter sp., Bacillus sp., Comamonas sp., Enterobacter sp., Methylobacterium sp., Microbacterium sp., Pantoea sp., Plantibacter sp., Pseudomonas sp., Ralstonia sp., Rhodococcus sp., Sphingobium sp., and Sphingomonas sp. Thus, indigenous phyllosphere microorganisms could partially metabolize tagatose laid on plant leaves after spray application, reducing the persistence of this fungal inhibitor on tomato leaves.
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Affiliation(s)
- Abdessalem Chahed
- Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38098 San Michele all’Adige, Italy
- Bi-PA nv, Technologielaan 7, 1840 Londerzeel, Belgium
- Induced Resistance and Plant Bioprotection, USC INRAE 1488, University of Reims, UFR Sciences, CEDEX 02, 51687 Reims, France
| | - Andrea Nesler
- Bi-PA nv, Technologielaan 7, 1840 Londerzeel, Belgium
| | - Qassim Esmaeel
- Induced Resistance and Plant Bioprotection, USC INRAE 1488, University of Reims, UFR Sciences, CEDEX 02, 51687 Reims, France
| | - Essaid Ait Barka
- Induced Resistance and Plant Bioprotection, USC INRAE 1488, University of Reims, UFR Sciences, CEDEX 02, 51687 Reims, France
| | - Michele Perazzolli
- Research and Innovation Centre, Fondazione Edmund Mach, Via E. Mach 1, 38098 San Michele all’Adige, Italy
- Center Agriculture Food Environment (C3A), University of Trento, Via E. Mach 1, 38098 San Michele all’Adige, Italy
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