|
1
|
Díaz D, Zamorano A, García H, Ramos C, Cui W, Carreras C, Beltrán MF, Sagredo B, Pinto M, Fiore N. Development of a Genome-Informed Protocol for Detection of Pseudomonas amygdali pv. morsprunorum Using LAMP and PCR. PLANTS (BASEL, SWITZERLAND) 2023; 12:4119. [PMID: 38140446 PMCID: PMC10747947 DOI: 10.3390/plants12244119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 10/24/2023] [Accepted: 10/27/2023] [Indexed: 12/24/2023]
Abstract
One of the causal agents of bacterial canker is Pseudomonas amygdali pv. morsprunorum-Pam (formerly Pseudomonas syringae pv. morsprunorum). Recently detected in Chile, Pam is known to cause lesions in the aerial parts of the plant, followed by more severe symptoms such as cankers and gummosis in the later stages of the disease. This study presents the design of PCR and LAMP detection methods for the specific and sensitive identification of Pseudomonas amygdali pv. morsprunorum (Pam) from cherry trees. Twelve Pseudomonas isolates were collected, sequenced, and later characterized by Multi-locus Sequence Analysis (MLSA) and Average Nucleotide Identity by blast (ANIb). Three of them (11116B2, S1 Pam, and S2 Pam) were identified as Pseudomonas amygdali pv. morsprunorum and were used to find specific genes through RAST server, by comparing their genome with that of other Pseudomonas, including isolates from other Pam strains. The effector gene HopAU1 was selected for the design of primers to be used for both techniques, evaluating sensitivity and specificity, and the ability to detect Pam directly from plant tissues. While the PCR detection limit was 100 pg of purified bacterial DNA per reaction, the LAMP assays were able to detect up to 1 fg of purified DNA per reaction. Similar results were observed using plant tissues, LAMP being more sensitive than PCR, including when using DNA extracted from infected plant tissues. Both detection methods were tested in the presence of 30 other bacterial genera, with LAMP being more sensitive than PCR.
Collapse
Affiliation(s)
- Daniela Díaz
- Laboratorio de Fitovirología, Departamento de Sanidad Vegetal, Facultad de Ciencias Agropecuarias, Universidad de Chile, Avenida Santa Rosa 11315, Santiago 8820808, Chile; (D.D.); (A.Z.); (W.C.); (C.C.)
| | - Alan Zamorano
- Laboratorio de Fitovirología, Departamento de Sanidad Vegetal, Facultad de Ciencias Agropecuarias, Universidad de Chile, Avenida Santa Rosa 11315, Santiago 8820808, Chile; (D.D.); (A.Z.); (W.C.); (C.C.)
| | - Héctor García
- Laboratorio Diagnofruit, Avenida Sucre 1521, Santiago 7770273, Chile; (H.G.); (C.R.)
| | - Cecilia Ramos
- Laboratorio Diagnofruit, Avenida Sucre 1521, Santiago 7770273, Chile; (H.G.); (C.R.)
- Núcleo de Investigaciones Aplicadas en Ciencias Veterinarias y Agronómicas, Facultad de Medicina Veterinaria y Agronomía, Universidad de las Américas, Campus Providencia, Manuel Montt 948, Santiago 7500975, Chile
| | - Weier Cui
- Laboratorio de Fitovirología, Departamento de Sanidad Vegetal, Facultad de Ciencias Agropecuarias, Universidad de Chile, Avenida Santa Rosa 11315, Santiago 8820808, Chile; (D.D.); (A.Z.); (W.C.); (C.C.)
| | - Claudia Carreras
- Laboratorio de Fitovirología, Departamento de Sanidad Vegetal, Facultad de Ciencias Agropecuarias, Universidad de Chile, Avenida Santa Rosa 11315, Santiago 8820808, Chile; (D.D.); (A.Z.); (W.C.); (C.C.)
| | - María Francisca Beltrán
- Instituto de Investigaciones Agropecuarias, INIA Rayentué, Avda. Salamanca s/n, Rengo 2940000, Chile; (M.F.B.); (B.S.)
| | - Boris Sagredo
- Instituto de Investigaciones Agropecuarias, INIA Rayentué, Avda. Salamanca s/n, Rengo 2940000, Chile; (M.F.B.); (B.S.)
| | - Manuel Pinto
- Instituto de Ciencias Agroalimentarias Animales y Ambientales (ICA3), Universidad de O’Higgins, Campus Colchagua, Ruta I-90 S/N, San Fernando 3072590, Chile;
| | - Nicola Fiore
- Laboratorio de Fitovirología, Departamento de Sanidad Vegetal, Facultad de Ciencias Agropecuarias, Universidad de Chile, Avenida Santa Rosa 11315, Santiago 8820808, Chile; (D.D.); (A.Z.); (W.C.); (C.C.)
| |
Collapse
|