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Weng L, Tang Z, Sardar MF, Yu Y, Ai K, Liang S, Alkahtani J, Lyv D. Unveiling the frontiers of potato disease research through bibliometric analysis. Front Microbiol 2024; 15:1430066. [PMID: 39027102 PMCID: PMC11257026 DOI: 10.3389/fmicb.2024.1430066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2024] [Accepted: 06/06/2024] [Indexed: 07/20/2024] Open
Abstract
Research on potato diseases had been widely reported, but a systematic review of potato diseases was lacking. Here, bibliometrics was used to systematically analyze the progress of potato disease. The publications related to "potato" and "disease" were searched in the Web of Science (WOS) from 2014 to 2023. The results showed that a total of 2095 publications on potato diseases were retrieved, with the annual publication output increasing year by year at a growth rate of 8.52%. The main countries where publications were issued were the United States, China, and India. There was relatively close cooperation observed between China, the United States, and the United Kingdom in terms of international collaboration, while international cooperation by India was less extensive. Based on citation analysis and trending topics, potential future research directions include nanoparticles, which provides highly effective carriers for biologically active substances due to their small dimensions, extensive surface area, and numerous binding sites; machine learning, which facilitates rapid identification of relevant targets in extensive datasets, thereby accelerating the process of disease diagnosis and fungicide innovation; and synthetic communities composed of various functional microorganisms, which demonstrate more stable effects in disease prevention and control.
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Affiliation(s)
- Ling Weng
- College of Agronomy and Biotechnology, Southwest University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
- Key Laboratory of Germplasm Innovation of Upper Yangtze River, Ministry of Agriculture and Rural Affairs, Chongqing, China
- Engineering Research Center of South Upland Agriculture, Ministry of Education, Chongqing, China
| | - Zhurui Tang
- College of Agronomy and Biotechnology, Southwest University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
- Key Laboratory of Germplasm Innovation of Upper Yangtze River, Ministry of Agriculture and Rural Affairs, Chongqing, China
- Engineering Research Center of South Upland Agriculture, Ministry of Education, Chongqing, China
| | - Muhammad Fahad Sardar
- Key Laboratory of Ecological Prewarning, Protection and Restoration of Bohai Sea, Ministry of Natural Resources, School of Life Sciences, Shandong University, Qingdao, China
| | - Ying Yu
- Soil and Fertilizer Institute, Anhui Academy of Agricultural Sciences (National Agricultural Experimental Station for Soil Quality, Taihe)/Key Laboratory of Nutrient Cycling and Arable Land Conservation of Anhui Province, Hefei, China
| | - Keyu Ai
- College of Agronomy and Biotechnology, Southwest University, Chongqing, China
| | - Shurui Liang
- College of Agronomy and Biotechnology, Southwest University, Chongqing, China
| | - Jawaher Alkahtani
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, Saudi Arabia
| | - Dianqiu Lyv
- College of Agronomy and Biotechnology, Southwest University, Chongqing, China
- Chongqing Key Laboratory of Biology and Genetic Breeding for Tuber and Root Crops, Chongqing, China
- Key Laboratory of Germplasm Innovation of Upper Yangtze River, Ministry of Agriculture and Rural Affairs, Chongqing, China
- Engineering Research Center of South Upland Agriculture, Ministry of Education, Chongqing, China
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de Azevedo MIG, Souza PFN, Monteiro Júnior JE, Grangeiro TB. Chitosan and Chitooligosaccharides: Antifungal Potential and Structural Insights. Chem Biodivers 2024; 21:e202400044. [PMID: 38591818 DOI: 10.1002/cbdv.202400044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2024] [Revised: 04/08/2024] [Accepted: 04/09/2024] [Indexed: 04/10/2024]
Abstract
Chitosan is a cationic polysaccharide derived from chitin deacetylation. This polysaccharide and its oligosaccharides have many biological activities and can be used in several fields due to their favorable characteristics, such as biodegradability, biocompatibility, and nontoxicity. This review aims to explore the antifungal potential of chitosan and chitooligosaccharides along with the conditions used for the activity and mechanisms of action they use to kill fungal cells. The sources, chemical properties, and applications of chitosan and chitooligosaccharides are discussed in this review. It also addresses the threat fungi pose to human health and crop production and how these saccharides have proven to be effective against these microorganisms. The cellular processes triggered by chitosan and chitooligosaccharides in fungal cells, and prospects for their use as potential antifungal agents are also examined.
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Affiliation(s)
| | - Pedro Filho Noronha Souza
- Department of Biochemistry and Molecular Biology, Federal University of Ceará, Fortaleza, Ceará, Brazil
- Pharmacogenetics Laboratory, Drug Research and Development Center (NPDM), Federal University of Ceará, Fortaleza, CE, 60430-275, Brazil
- National Institute of Science and Technology in Human Pathogenic Fungi, São Paulo, Brazil
- Visiting Researcher at the Cearense Foundation to Support Scientific and Technological Development, Foratelza, Ceará, Brazil
| | - José Edvar Monteiro Júnior
- Laboratory of Molecular Genetics, Department of Biology, Science Center, Federal University of Ceará, Fortaleza, Ceará, Brazil
| | - Thalles Barbosa Grangeiro
- Laboratory of Molecular Genetics, Department of Biology, Science Center, Federal University of Ceará, Fortaleza, Ceará, Brazil
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Nguyen HDT, Ponomareva E, Dadej K, Smith D, Antoun M, van der Lee TAJ, van de Vossenberg BTLH. A target enrichment approach for enhanced recovery of Synchytrium endobioticum nuclear genome sequences. PLoS One 2024; 19:e0296842. [PMID: 38346034 PMCID: PMC10861067 DOI: 10.1371/journal.pone.0296842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Accepted: 12/19/2023] [Indexed: 02/15/2024] Open
Abstract
Potato wart disease is caused by the obligate fungal pathogen Synchytrium endobioticum. DNA extraction from compost, purified spores and crude wart tissue derived from tuber galls of infected potatoes often results in low S. endobioticum DNA concentration or highly contaminated with DNA coming from other microorganisms and the potato host. Therefore, Illumina sequencing of these samples generally results in suboptimal recovery of the nuclear genome sequences of S. endobioticum. A hybridization-based target enrichment protocol was developed to strongly enhance the recovery of S. endobioticum DNA while off-target organisms DNA remains uncaptured. The design strategy involved creating a set of 180,000 molecular baits targeting both gene and non-gene regions of S. endobioticum. The baits were applied to whole genome amplified DNA samples of various S. endobioticum pathotypes (races) in compost, from purified spores and crude wart tissue samples. This was followed by Illumina sequencing and bioinformatic analyses. Compared to non-enriched samples, target enriched samples: 1) showed a significant increase in the proportion of sequenced bases mapped to the S. endobioticum nuclear genome, especially for crude wart tissue samples; 2) yielded sequencing data with higher and better nuclear genome coverage; 3) biased genome assembly towards S. endobioticum sequences, yielding smaller assembly sizes but higher representation of putative S. endobioticum contigs; 4) showed an increase in the number of S. endobioticum genes detected in the genome assemblies. Our hybridization-based target enrichment protocol offers a valuable tool for enhancing genome sequencing and NGS-based molecular detection of S. endobioticum, especially in difficult samples.
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Affiliation(s)
- Hai D. T. Nguyen
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario, Canada
| | - Ekaterina Ponomareva
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario, Canada
| | - Kasia Dadej
- Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, Ontario, Canada
| | - Donna Smith
- Charlottetown Laboratory, Canadian Food Inspection Agency, Charlottetown, Prince Edward Island, Canada
| | - Melissa Antoun
- Charlottetown Laboratory, Canadian Food Inspection Agency, Charlottetown, Prince Edward Island, Canada
| | - Theo A. J. van der Lee
- Biointeractions and Plant Health, Wageningen University and Research, Wageningen, The Netherlands
| | - Bart T. L. H. van de Vossenberg
- Netherlands Institute for Vectors, Invasive Plants and Plant Health, Dutch National Plant Protection Organization, Wageningen, the Netherlands
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Röhrs I, Linde M, Przetakiewicz J, Zelya A, Zelya G, Pucher A, Tlapák H, Debener T. Potato Wart Isolates from Europe and North America Form Distinct Clusters of Genetic Variation. Life (Basel) 2023; 13:1883. [PMID: 37763287 PMCID: PMC10532758 DOI: 10.3390/life13091883] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Revised: 08/31/2023] [Accepted: 09/05/2023] [Indexed: 09/29/2023] Open
Abstract
We have extended previously published sets of simple sequence repeat markers for Synchytrium endobioticum, selected to be polymorphic for the German-standard isolates of pathotypes P1, P2, P6, P8, and P18. These markers also complement the extensive published information on DNA polymorphisms for the mitogenomes of Synchytrium endobioticum. This extended set of 35 markers representing 73 alleles differentiated 51 isolates from Europe and North America into three large, well-separated clusters and subclusters using dendrogram analysis, principal coordinates analysis (PCoA), and population substructure analysis using STRUCTURE 2.3.4 software. This suggests a limited number of introgressions of the wart disease pathogen into current potato growing areas, followed by recombination and admixture of populations through human activities. The new markers extend the published marker sets and are useful tools for future analyses of population structure and dynamics in Synchytrium endobioticum, which are necessary to understand the biology of the interaction between the pathogen and its potato host and to develop future control strategies.
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Affiliation(s)
- Ina Röhrs
- Institute for Plant Genetics, Leibniz University Hannover, 30419 Hanover, Germany; (I.R.); (M.L.)
| | - Marcus Linde
- Institute for Plant Genetics, Leibniz University Hannover, 30419 Hanover, Germany; (I.R.); (M.L.)
| | - Jaroslaw Przetakiewicz
- Plant Breeding and Acclimatization Institute—National Research Institute, Radzikow, 05-870 Blonie, Poland;
| | - Avrelia Zelya
- National Academy of Agrarian Sciences, Institute of Plant Protection, Ukrainian Scientific-Research Plant Quarantine Station, 60321 Boyany, Chernivtskiy Region, Ukraine
| | - George Zelya
- National Academy of Agrarian Sciences, Institute of Plant Protection, Ukrainian Scientific-Research Plant Quarantine Station, 60321 Boyany, Chernivtskiy Region, Ukraine
| | - Anna Pucher
- Institute for Plant Protection in Crops and Grassland, Julius Kühn-Institute, 14532 Kleinmachnow, Germany;
| | - Hana Tlapák
- Robert Koch-Institute, 13353 Berlin, Germany;
| | - Thomas Debener
- Institute for Plant Genetics, Leibniz University Hannover, 30419 Hanover, Germany; (I.R.); (M.L.)
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Kushalappa AC, Hegde NG, Gunnaiah R, Sathe A, Yogendra KN, Ajjamada L. Apoptotic-like PCD inducing HRC gene when silenced enhances multiple disease resistance in plants. Sci Rep 2022; 12:20402. [PMID: 36437285 PMCID: PMC9701806 DOI: 10.1038/s41598-022-24831-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Accepted: 11/21/2022] [Indexed: 11/29/2022] Open
Abstract
Programmed cell death (PCD) plays an important role in plant environmental stress and has the potential to be manipulated to enhance disease resistance. Plants have innate immunity and, following pathogen perception, the host induces a Hypersensitive Response PCD (HR-PCD), leading to pattern (PTI) or effector triggered immunity (ETI). Here we report a non-HR type or Apoptotic-Like PCD (AL-PCD) in pathogen infected wheat and potato based on apoptotic-like DNA fragmentation. A deletion mutation in the gene encoding histidine rich calcium binding protein (TaHRC) in FHB-resistant wheat (R-NIL) failed to induce AL-PCD. Similarly, the CRISPR-Cas9 based silencing of StHRC gene in Russet Burbank potato failed to induce apoptotic-like DNA fragmentation, proved based on DNA laddering and TUNEL assays. The absence of AL-PCD in wheat R-NIL reduced pathogen biomass and mycotoxins, increasing the accumulation of resistance metabolites and FHB-resistance, and in potato it enhanced resistance to multiple pathogens. In addition, the reduced expressions of metacaspase (StMC7) and Ca2+ dependent endonuclease 2 (StCaN2) genes in potato with Sthrc indicated an involvement of a hierarchy of genes in the induction of AL-PCD. The HRC in commercial varieties of different crops, if functional, can be silenced by genome editing possibly to enhance resistance to multiple pathogens.
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Affiliation(s)
- A. C. Kushalappa
- grid.14709.3b0000 0004 1936 8649Plant Science Department, McGill University, Ste. Anne de Bellevue, Quebec, H9X3V9 Canada
| | - N. G. Hegde
- grid.14709.3b0000 0004 1936 8649Plant Science Department, McGill University, Ste. Anne de Bellevue, Quebec, H9X3V9 Canada
| | - R. Gunnaiah
- grid.14709.3b0000 0004 1936 8649Plant Science Department, McGill University, Ste. Anne de Bellevue, Quebec, H9X3V9 Canada ,grid.449749.30000 0004 1772 7097Present Address: University of Horticultural Sciences, Bagalkot, Karnataka India
| | - A. Sathe
- grid.14709.3b0000 0004 1936 8649Plant Science Department, McGill University, Ste. Anne de Bellevue, Quebec, H9X3V9 Canada
| | - K. N. Yogendra
- grid.419337.b0000 0000 9323 1772International Crops Research Institute for the Semi-Arid Tropics, Hyderabad, Telangana India
| | - L. Ajjamada
- grid.14709.3b0000 0004 1936 8649Division of Hematology-OncologyJewish General Hospital, McGill University, Montreal, QC Canada
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