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Barragan AC, Latorre SM, Malmgren A, Harant A, Win J, Sugihara Y, Burbano HA, Kamoun S, Langner T. Multiple Horizontal Mini-chromosome Transfers Drive Genome Evolution of Clonal Blast Fungus Lineages. Mol Biol Evol 2024; 41:msae164. [PMID: 39107250 PMCID: PMC11346369 DOI: 10.1093/molbev/msae164] [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: 02/13/2024] [Revised: 07/02/2024] [Accepted: 07/31/2024] [Indexed: 08/09/2024] Open
Abstract
Crop disease pandemics are often driven by asexually reproducing clonal lineages of plant pathogens that reproduce asexually. How these clonal pathogens continuously adapt to their hosts despite harboring limited genetic variation, and in absence of sexual recombination remains elusive. Here, we reveal multiple instances of horizontal chromosome transfer within pandemic clonal lineages of the blast fungus Magnaporthe (Syn. Pyricularia) oryzae. We identified a horizontally transferred 1.2Mb accessory mini-chromosome which is remarkably conserved between M. oryzae isolates from both the rice blast fungus lineage and the lineage infecting Indian goosegrass (Eleusine indica), a wild grass that often grows in the proximity of cultivated cereal crops. Furthermore, we show that this mini-chromosome was horizontally acquired by clonal rice blast isolates through at least nine distinct transfer events over the past three centuries. These findings establish horizontal mini-chromosome transfer as a mechanism facilitating genetic exchange among different host-associated blast fungus lineages. We propose that blast fungus populations infecting wild grasses act as genetic reservoirs that drive genome evolution of pandemic clonal lineages that afflict cereal crops.
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Affiliation(s)
- Ana Cristina Barragan
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Sergio M Latorre
- Department of Genetics, Evolution and Environment, Centre for Life's Origins and Evolution, University College London, London, UK
| | - Angus Malmgren
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Adeline Harant
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Joe Win
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Yu Sugihara
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Hernán A Burbano
- Department of Genetics, Evolution and Environment, Centre for Life's Origins and Evolution, University College London, London, UK
| | - Sophien Kamoun
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
| | - Thorsten Langner
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, UK
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2
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Chrisantus KM, Sarah C, Dorcas L, Ramkat RC, Oduori COA, Pili NN. Characterization of finger millet extracts and evaluation of their nematicidal efficacy and plant growth promotion potential. PLANT-ENVIRONMENT INTERACTIONS (HOBOKEN, N.J.) 2024; 5:e70006. [PMID: 39165797 PMCID: PMC11334166 DOI: 10.1002/pei3.70006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Figures] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Revised: 06/09/2024] [Accepted: 08/02/2024] [Indexed: 08/22/2024]
Abstract
Plant-parasitic nematodes pose a significant threat to finger millet crops, potentially causing yield reduction of up to 70%. Extracts derived from finger millet varieties contain potent bioactive compounds that can mitigate nematode damage and promote plant growth. This study aimed at isolating and characterizing bioactive compounds from the finger millet varieties Ikhulule, Okhale-1, and U-15; evaluating the impact of Ikhulule and U-15 extracts on the mortality of the root lesion nematode Pratylenchus vandenbergae; assessing the growth promotion effects of Ikhulule and U-15 extracts on the finger millet variety Okhale-1; and determining the efficacy of these extracts in managing plant-parasitic nematodes under greenhouse conditions. Extracts were obtained from both leaves and roots and tested in vitro for nematode mortality and in vivo for growth promotion and nematode control. The results showed that finger millet extracts exhibited strong nematicidal properties in vitro, achieving a mortality rate of up to 98% against P. vandenbergae nematodes. Applying these extracts to finger millet shoots significantly reduced nematode populations in both soil and roots and decreased the reproductive factor to below one (1), indicating an effective nematode control. The study attributes the enhanced nematicidal effects of finger millet extracts to their bioactive compounds, particularly dodecanoic acid, phytol, 1,1,4a-trimethyl-6-decahydro naphthalene, 2,3-dihydro-benzofuran, 2-methoxy-4-vinylphenol and ethyl ester, and hexadecanoic acid. These findings suggest that finger millet-derived extracts offer a natural solution for nematode management and broader agronomic benefits, ultimately contributing to overall plant health and productivity.
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Affiliation(s)
| | - Chepkwony Sarah
- Department of Chemistry and BiochemistryMoi UniversityEldoretKenya
| | - Lusweti Dorcas
- Department of Biological SciencesMoi UniversityEldoretKenya
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3
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Ascari JP, Cazón LI, Rahnama M, Lamour K, Fernandes JMC, Farman ML, Ponte EMD. Pyricularia Are Mostly Host-Specialized with Limited Reciprocal Cross-Infection Between Wheat and Endemic Grasses in Minas Gerais, Brazil. PHYTOPATHOLOGY 2024; 114:226-240. [PMID: 37399001 DOI: 10.1094/phyto-01-23-0024-r] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/04/2023]
Abstract
Wheat blast, caused by Pyricularia oryzae Triticum (PoT), is an emerging threat to global wheat production. The current understanding of the population biology of the pathogen and epidemiology of the disease has been based on phylogenomic studies that compared the wheat blast pathogen with isolates collected from grasses that were invasive to Brazilian wheat fields. In this study, we performed a comprehensive sampling of blast lesions in wheat crops and endemic grasses found in and away from wheat fields in Minas Gerais. A total of 1,368 diseased samples were collected (976 leaves of wheat and grasses and 392 wheat heads), which yielded a working collection of 564 Pyricularia isolates. We show that, contrary to earlier implications, PoT was rarely found on endemic grasses, and, conversely, members of grass-adapted lineages were rarely found on wheat. Instead, most lineages were host-specialized, with constituent isolates usually grouping according to their host of origin. With regard to the dominant role proposed for signalgrass in wheat blast epidemiology, we found only one PoT member in 67 isolates collected from signalgrass grown away from wheat fields and only three members of Urochloa-adapted lineages among hundreds of isolates from wheat. Cross-inoculation assays on wheat and a signalgrass used in pastures (U. brizantha) suggested that the limited cross-infection observed in the field may be due to innate compatibility differences. Whether or not the observed level of cross-infection would be sufficient to provide an inoculum reservoir, or serve as a bridge between wheat growing regions, is questionable and, therefore, deserves further investigation.
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Affiliation(s)
- João P Ascari
- Departamento de Fitopatologia, Universidade Federal de Viçosa, Viçosa, MG 36570-900, Brazil
| | - Luis I Cazón
- Departamento de Fitopatologia, Universidade Federal de Viçosa, Viçosa, MG 36570-900, Brazil
| | - Mostafa Rahnama
- Department of Plant Pathology, University of Kentucky, Lexington, KY 40546, U.S.A
- Department of Biology, Tennessee Tech University, Cookeville, TN 38501, U.S.A
| | - Kurt Lamour
- Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN 37996, U.S.A
| | | | - Mark L Farman
- Department of Plant Pathology, University of Kentucky, Lexington, KY 40546, U.S.A
| | - Emerson M Del Ponte
- Departamento de Fitopatologia, Universidade Federal de Viçosa, Viçosa, MG 36570-900, Brazil
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Sequera-Grappin I, Ventura-Zapata E, De la Cruz-Arguijo EA, Larralde-Corona CP, Narváez-Zapata JA. Pyricularia's Capability of Infecting Different Grasses in Two Regions of Mexico. J Fungi (Basel) 2023; 9:1055. [PMID: 37998861 PMCID: PMC10672002 DOI: 10.3390/jof9111055] [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: 08/31/2023] [Revised: 10/14/2023] [Accepted: 10/18/2023] [Indexed: 11/25/2023] Open
Abstract
The genus Pyricularia includes species that are phytopathogenic fungi, which infect different species of Poaceae, such as rice and sorghum. However, few isolates have been genetically characterized in North America. The current study addresses this lack of information by characterizing an additional 57 strains of three grasses (Stenotaphrum secundatum, Cenchrus ciliaris and Digitaria ciliaris) from two distant regions of Mexico. A Pyricularia dataset with ITS sequences retrieved from GenBank and the studied sequences were used to build a haplotype network that allowed us to identify a few redundant haplotypes highly related to P. oryzae species. An analysis considering only the Mexican sequences allowed us to identify non-redundant haplotypes in the isolates of C. ciliaris and D. ciliaris, with a high identity with P. pennisetigena. The Pot2-TIR genomic fingerprinting technique resulted in high variability and allowed for the isolates to be grouped according to their host grass, whilst the ERIC-PCR technique was able to separate the isolates according to their host grass and their region of collection. Representative isolates from different host grasses were chosen to explore the pathogenic potential of these isolates. The selected isolates showed a differential pathogenic profile. Cross-infection with representative isolates from S. secundatum and C. ciliaris showed that these were unable to infect D. ciliaris grass and that the DY1 isolate from D. ciliaris was only able to infect its host grass. The results support the identification of pathogenic strains of Pyricularia isolates and their cross-infection potential in different grasses surrounding important crops in Mexico.
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Affiliation(s)
- Ivan Sequera-Grappin
- Instituto Politécnico Nacional, Centro de Biotecnología Genómica, Blvd. del Maestro S/N Esq. Elías Piña. Col. Narciso Mendoza, Reynosa C.P. 88700, Tamaulipas, Mexico; (I.S.-G.); (E.A.D.l.C.-A.); (C.P.L.-C.)
| | - Elsa Ventura-Zapata
- Instituto Politécnico Nacional, Centro de Desarrollo de Productos Bióticos, Ctra. Yautepec-Jojutla, Km.6, calle CEPROBI No. 8, Col. San Isidro, Yautepec C.P. 62731, Morelos, Mexico;
| | - Erika Alicia De la Cruz-Arguijo
- Instituto Politécnico Nacional, Centro de Biotecnología Genómica, Blvd. del Maestro S/N Esq. Elías Piña. Col. Narciso Mendoza, Reynosa C.P. 88700, Tamaulipas, Mexico; (I.S.-G.); (E.A.D.l.C.-A.); (C.P.L.-C.)
| | - Claudia Patricia Larralde-Corona
- Instituto Politécnico Nacional, Centro de Biotecnología Genómica, Blvd. del Maestro S/N Esq. Elías Piña. Col. Narciso Mendoza, Reynosa C.P. 88700, Tamaulipas, Mexico; (I.S.-G.); (E.A.D.l.C.-A.); (C.P.L.-C.)
| | - Jose Alberto Narváez-Zapata
- Instituto Politécnico Nacional, Centro de Biotecnología Genómica, Blvd. del Maestro S/N Esq. Elías Piña. Col. Narciso Mendoza, Reynosa C.P. 88700, Tamaulipas, Mexico; (I.S.-G.); (E.A.D.l.C.-A.); (C.P.L.-C.)
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Xue L, Yang C, Jihong W, Lin L, Yuqiang Z, Zhitong J, Yanxin W, Zhoukun L, Lei F, Cui Z. Biocontrol potential of
Burkholderia
sp.
BV6
against the rice blast fungus
Magnaporthe oryzae. J Appl Microbiol 2022; 133:883-897. [DOI: 10.1111/jam.15605] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2022] [Accepted: 04/28/2022] [Indexed: 11/30/2022]
Affiliation(s)
- Luo Xue
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Chen Yang
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Wang Jihong
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Liu Lin
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Zhao Yuqiang
- Institute of Botany Jiangsu Province and Chinese Academy of Sciences China
| | - Jiang Zhitong
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Wang Yanxin
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Li Zhoukun
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
| | - Fu Lei
- Nanjing Institute for Comprehensive Utilization of Wild Plants Nanjing China
| | - Zhongli Cui
- Key Laboratory of Agricultural Environmental Microbiology of Ministry of Agriculture and Rural Affairs, College of Life Sciences Nanjing Agricultural University Nanjing China
- Key Laboratory of Biological Interactions and Crop Health Nanjing Agricultural University Nanjing China
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Bentham AR, Petit-Houdenot Y, Win J, Chuma I, Terauchi R, Banfield MJ, Kamoun S, Langner T. A single amino acid polymorphism in a conserved effector of the multihost blast fungus pathogen expands host-target binding spectrum. PLoS Pathog 2021; 17:e1009957. [PMID: 34758051 PMCID: PMC8608293 DOI: 10.1371/journal.ppat.1009957] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Revised: 11/22/2021] [Accepted: 09/14/2021] [Indexed: 12/14/2022] Open
Abstract
Accelerated gene evolution is a hallmark of pathogen adaptation and specialization following host-jumps. However, the molecular processes associated with adaptive evolution between host-specific lineages of a multihost plant pathogen remain poorly understood. In the blast fungus Magnaporthe oryzae (Syn. Pyricularia oryzae), host specialization on different grass hosts is generally associated with dynamic patterns of gain and loss of virulence effector genes that tend to define the distinct genetic lineages of this pathogen. Here, we unravelled the biochemical and structural basis of adaptive evolution of APikL2, an exceptionally conserved paralog of the well-studied rice-lineage specific effector AVR-Pik. Whereas AVR-Pik and other members of the six-gene AVR-Pik family show specific patterns of presence/absence polymorphisms between grass-specific lineages of M. oryzae, APikL2 stands out by being ubiquitously present in all blast fungus lineages from 13 different host species. Using biochemical, biophysical and structural biology methods, we show that a single aspartate to asparagine polymorphism expands the binding spectrum of APikL2 to host proteins of the heavy-metal associated (HMA) domain family. This mutation maps to one of the APikL2-HMA binding interfaces and contributes to an altered hydrogen-bonding network. By combining phylogenetic ancestral reconstruction with an analysis of the structural consequences of allelic diversification, we revealed a common mechanism of effector specialization in the AVR-Pik/APikL2 family that involves two major HMA-binding interfaces. Together, our findings provide a detailed molecular evolution and structural biology framework for diversification and adaptation of a fungal pathogen effector family following host-jumps.
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Affiliation(s)
- Adam R. Bentham
- Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich, United Kingdom
| | - Yohann Petit-Houdenot
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
- Université Paris-Saclay, INRAE, AgroParisTech, UMR BIOGER, Thiverval-Grignon, France
| | - Joe Win
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Izumi Chuma
- Obihiro University of Agriculture and Veterinary Medicine, Obihiro, Japan
| | - Ryohei Terauchi
- Kyoto University, Kyoto, Japan
- Iwate Biotechnology Research Center, Kitakami, Japan
| | - Mark J. Banfield
- Department of Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich, United Kingdom
| | - Sophien Kamoun
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Thorsten Langner
- The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
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7
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Spratling WT, Sapkota S, Vermeer BC, Mallard J, Ali E, Martinez-Espinoza A, Bahri BA. First Report of Gray Leaf Spot Caused by Pyricularia oryzae (synonym: Magnaporthe oryzae) in Oat (Avena sativa) in Georgia, USA. PLANT DISEASE 2021; 106:763. [PMID: 34455806 DOI: 10.1094/pdis-06-21-1182-pdn] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
In southeastern U.S., oat (Avena sativa L.) is predominantly grown as a grain or forage crop due to its exceptional palatability (Buntin et al. 2009). In November 2020, leaf spot symptoms were observed in an oat field (cv. Horizon 720) in Screven County, Georgia (GPS: 32°38'57.6"N 81°31'32.178"W). Lesions were oblong, whitish to gray in color, and surrounded by dark brown borders. Symptomatic oat leaves were sampled from the field and cut into 1 cm2 sections that were surface sterilized, plated onto Potato Dextrose Agar (PDA) media and incubated in the dark at 23°C. To obtain pure cultures, fungal hyphal tips were transferred onto fresh PDA plates 3 times. The pathogen was identified as Pyricularia (Magnaporthe) based on typical conidial morphology (Ellis 1971). Conidia were hyaline, pyriform, 2-septate, and displayed a basal hilum. Conidia measured 5.32 to 10.64 μm (average 8.24 μm) wide by 15.96 to 29.26 μm (average 25.40 μm) long. The identification of Pyricularia was further confirmed genetically via PCR amplification followed by sequencing. Genomic DNA was extracted from a 14-day old pure culture using a CTAB method (Doyle and Doyle 1987). The internal transcribed spacer (ITS) region of ribosomal DNA, calmodulin (CaM) gene, and -tubulin (TUB) gene were amplified using ITS5-ITS4 (White et al. 1990), CMD5-CMD6 (Hong et al. 2005), and Bt2a- Bt2b (Glass and Donaldson 1995) primer sets, respectively. Amplicons were Sanger sequenced and blasted against the NCBI database. Results exhibited 100% (ITS), 100% (CaM), and 99.61% (TUB) homology with Pyricularia oryzae Cavara (GenBank accession no. LC554423.1, CP050920.1, and CP050924.1, respectively). The ITS, CaM, and TUB sequences of the isolate were deposited in GenBank as MZ295207, MZ342893, and MZ342894, respectively. In a greenhouse (23°C, 80% RH), Koch's postulates were carried out by using oat seedlings cv. Horizon 270 grown in Kord sheet pots filled with Sun Gro professional growing mix, and a P. oryzae spore suspension containing 104 conidia ml-1. The spore suspension (10 ml) was sprayed with an air sprayer onto 7 pots of oat seedlings at the two-leaf stage. Seven supplementary pots of oat seedlings of the same cultivar were sprayed with sterile water to act as controls. After inoculation, plants were covered with black plastic bags that had been sprayed with sterile water to maintain high humidity and incubated overnight in the greenhouse. The bags were removed the next day, and plants were evaluated for symptoms in the following days. Seven days after inoculation, plants displayed symptoms similar to those found in the original field sample. Control plants showed no symptoms. Pyricularia oryzae was consistently re-isolated from inoculated symptomatic oat tissues. To our knowledge, this is the first report of gray leaf spot caused by P. oryzae on oat in the state of Georgia and in the continental United States. Pyricularia oryzae can infect several graminaceous plants, including agronomically important crops such as rice (Oryza sativa) and wheat (Triticum spp.) (Chung et al. 2020). Phylogenetic analysis on the ITS region using 6 different host lineages was performed and revealed that this oat isolate was most closely related to the Lolium lineage. This outbreak could have economic implications in oat production.
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Affiliation(s)
- Willis Turner Spratling
- University of Georgia, 1355, Plant Pathology, 1109 Experiment Street, Griffin, Griffin, Georgia, United States, 30223
- United States;
| | - Suraj Sapkota
- University of Georgia, 1355, Institute of Plant Breeding, Genetics, and Genomics and Dept. of Plant Pathology, , Athens, Georgia, United States, 30602-0002;
| | | | - Jason Mallard
- University of Georgia, 1355, Cooperative Extension, Sylvania, Georgia, United States;
| | - Emran Ali
- University of Georgia, 1355, 2360 Rainwater Rd, Tifton, Georgia, United States, 31793-5766;
| | - Alfredo Martinez-Espinoza
- University of Georgia, Plant Pathology, 1109 Experiment Street, Griffin, Georgia, United States, 30223;
| | - Bochra Amina Bahri
- University of Georgia, 1355, 1109 Experiment Street, Griffin, Griffin, Georgia, United States, 30223
- university of georgia UGA, 1109 Experiment Street, Georgia;
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