New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study
Seventy-eight tomato and pepper plants showing symptoms were tested for tomato spotted wilt orthotospovirus (TSWV) using specific primers targeting the full coat protein gene (CP) through RT-PCR. Plant samples were collected in Denizli region, Türkiye during September 2021. The PCR screening result...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
AcademicPres
2023-09-01
|
| Series: | Notulae Botanicae Horti Agrobotanici Cluj-Napoca |
| Subjects: | |
| Online Access: | https://www.notulaebotanicae.ro/index.php/nbha/article/view/13245 |
| _version_ | 1797670720350715904 |
|---|---|
| author | Mustafa USTA Abdullah GÜLLER Serap DEMİREL Gülüstan KORKMAZ Zeynelabidin KURT |
| author_facet | Mustafa USTA Abdullah GÜLLER Serap DEMİREL Gülüstan KORKMAZ Zeynelabidin KURT |
| author_sort | Mustafa USTA |
| collection | DOAJ |
| description |
Seventy-eight tomato and pepper plants showing symptoms were tested for tomato spotted wilt orthotospovirus (TSWV) using specific primers targeting the full coat protein gene (CP) through RT-PCR. Plant samples were collected in Denizli region, Türkiye during September 2021. The PCR screening results revealed that 23 samples were infected with TSWV, indicating an infection rate of 29.48%. PCR products were subsequently sequenced bidirectionally, and the obtained sequences were deposited in GenBank under the accession numbers ON323583-84 for pepper, and OQ597214 for tomato. Phylogenetic analysis demonstrated a close relationship between the Turkish-Denizli TSWV isolates and previously reported isolates from tomato and pepper plants in Türkiye (KM407603), Hungary (KJ649612), and Serbia (GU369723). Moreover, in this study, three commercial chemicals and five selected phytochemicals were docked against the TSWV CP to assess their binding energies. The docking results indicate that the tested phytochemicals exhibit promising performance compared to other commercial chemicals. This study represents the first molecular and phylogenetic report on TSWV isolates in pepper and tomato plants in Denizli province, Türkiye. Furthermore, the interaction between TSWV and the selected compounds through in silico docking has been reported for the first time.
|
| first_indexed | 2024-03-11T21:04:38Z |
| format | Article |
| id | doaj.art-6f9f6370877240dca081e035763b655e |
| institution | Directory Open Access Journal |
| issn | 0255-965X 1842-4309 |
| language | English |
| last_indexed | 2024-03-11T21:04:38Z |
| publishDate | 2023-09-01 |
| publisher | AcademicPres |
| record_format | Article |
| series | Notulae Botanicae Horti Agrobotanici Cluj-Napoca |
| spelling | doaj.art-6f9f6370877240dca081e035763b655e2023-09-29T14:37:51ZengAcademicPresNotulae Botanicae Horti Agrobotanici Cluj-Napoca0255-965X1842-43092023-09-0151310.15835/nbha51313245New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking studyMustafa USTA0Abdullah GÜLLER1Serap DEMİREL2Gülüstan KORKMAZ3Zeynelabidin KURT4University of Van Yuzuncu Yil, Faculty of Agriculture, Plant Protection Department, Bardakçı, Yüzüncü Yıl Üniversitesi Kampüsü, Tuşba/Van, PK: 65090, VanUniversity of Bingöl, Faculty of Agriculture, Plant Protection Department, Selahaddin-i Eyyubi Mah. Üniversite Cad. No:1, PK: 12000, BingölUniversity of Van Yuzuncu Yil, Faculty of Science, Molecular Biology and Genetic Department, Bardakçı, Yüzüncü Yıl Üniversitesi Kampüsü, Tuşba/Van, PK: 65090, VanVan Agricultural Resarch Institute, Abdurrahman Gazi Mah. İskele Cad. Çalı Durağı Tuşba/VANUniversity of Van Yuzuncu Yil, Faculty of Agriculture, Plant Protection Department, Bardakçı, Yüzüncü Yıl Üniversitesi Kampüsü, Tuşba/Van, PK: 65090, Van Seventy-eight tomato and pepper plants showing symptoms were tested for tomato spotted wilt orthotospovirus (TSWV) using specific primers targeting the full coat protein gene (CP) through RT-PCR. Plant samples were collected in Denizli region, Türkiye during September 2021. The PCR screening results revealed that 23 samples were infected with TSWV, indicating an infection rate of 29.48%. PCR products were subsequently sequenced bidirectionally, and the obtained sequences were deposited in GenBank under the accession numbers ON323583-84 for pepper, and OQ597214 for tomato. Phylogenetic analysis demonstrated a close relationship between the Turkish-Denizli TSWV isolates and previously reported isolates from tomato and pepper plants in Türkiye (KM407603), Hungary (KJ649612), and Serbia (GU369723). Moreover, in this study, three commercial chemicals and five selected phytochemicals were docked against the TSWV CP to assess their binding energies. The docking results indicate that the tested phytochemicals exhibit promising performance compared to other commercial chemicals. This study represents the first molecular and phylogenetic report on TSWV isolates in pepper and tomato plants in Denizli province, Türkiye. Furthermore, the interaction between TSWV and the selected compounds through in silico docking has been reported for the first time. https://www.notulaebotanicae.ro/index.php/nbha/article/view/13245in silico modellingmolecular dockingphylogenyRT-PCRTSWV |
| spellingShingle | Mustafa USTA Abdullah GÜLLER Serap DEMİREL Gülüstan KORKMAZ Zeynelabidin KURT New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study Notulae Botanicae Horti Agrobotanici Cluj-Napoca in silico modelling molecular docking phylogeny RT-PCR TSWV |
| title | New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study |
| title_full | New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study |
| title_fullStr | New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study |
| title_full_unstemmed | New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study |
| title_short | New insights into tomato spotted wilt orthotospovirus (TSWV) infections in Türkiye: Molecular detection, phylogenetic analysis, and in silico docking study |
| title_sort | new insights into tomato spotted wilt orthotospovirus tswv infections in turkiye molecular detection phylogenetic analysis and in silico docking study |
| topic | in silico modelling molecular docking phylogeny RT-PCR TSWV |
| url | https://www.notulaebotanicae.ro/index.php/nbha/article/view/13245 |
| work_keys_str_mv | AT mustafausta newinsightsintotomatospottedwiltorthotospovirustswvinfectionsinturkiyemoleculardetectionphylogeneticanalysisandinsilicodockingstudy AT abdullahguller newinsightsintotomatospottedwiltorthotospovirustswvinfectionsinturkiyemoleculardetectionphylogeneticanalysisandinsilicodockingstudy AT serapdemirel newinsightsintotomatospottedwiltorthotospovirustswvinfectionsinturkiyemoleculardetectionphylogeneticanalysisandinsilicodockingstudy AT gulustankorkmaz newinsightsintotomatospottedwiltorthotospovirustswvinfectionsinturkiyemoleculardetectionphylogeneticanalysisandinsilicodockingstudy AT zeynelabidinkurt newinsightsintotomatospottedwiltorthotospovirustswvinfectionsinturkiyemoleculardetectionphylogeneticanalysisandinsilicodockingstudy |