Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure
Phytophthora palmivora is the causal agent of cocoa black pod disease, one of the primary diseases of cocoa in Indonesia. A better understanding of P. palmivora population genetics is needed to aid the development of relevant disease management strategies. This study is the first population genetic...
| Main Authors: | , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier B.V.
2022
|
| Subjects: | |
| Online Access: | https://repository.ugm.ac.id/283385/1/1-s2.0-S1878614622000216-main.pdf |
| _version_ | 1826050637004013568 |
|---|---|
| author | Brugman, Eirene Wibowo, Arif Widiastuti, Ani |
| author_facet | Brugman, Eirene Wibowo, Arif Widiastuti, Ani |
| author_sort | Brugman, Eirene |
| collection | UGM |
| description | Phytophthora palmivora is the causal agent of cocoa black pod disease, one of the primary diseases of cocoa in Indonesia. A better understanding of P. palmivora population genetics is needed to aid the development of relevant disease management strategies. This study is the first population genetic study of P. palmivora in Indonesia using microsatellite markers based on the alleles genotyping method. The microsatellite markers were used to determine the genotype of 44 P. palmivora isolates from Sulawesi (24) and Java (20) islands. The total number of observed multilocus genotypes (MLG) from both populations was 34. The genotypic diversity of P. palmivora from Sulawesi (2.90; 16.0; 0.938) and Java (2.76; 14.3; 0.930) islands was high as seen from Shannon's diversity index (H), Stoddart and Taylor's Index (G), and Simpson's Index (λ) respectively. Evenness and Nei's unbiased gene diversity exhibited similarly high levels from both populations. The linkage disequilibrium test indicated that sexual recombination occurred in the Java population (P = 0.312). Analysis of molecular variance (AMOVA) and Bayesian clustering revealed five genetic clusters, and isolates from both islands were evenly distributed across the five gene clusters. All genetic diversity was from within individuals. P. palmivora from Sulawesi and Java showed a high genotypic diversity but a lack of genetic differentiation among populations (Fst = 0.006). Both populations formed one highly diverse group. Minimum spanning network analysis showed no particular grouping of MLGs, and shared MLGs from both populations indicated long-distance migration of P. palmivora facilitated by human activities. © 2022 British Mycological Society |
| first_indexed | 2024-03-14T00:07:43Z |
| format | Article |
| id | oai:generic.eprints.org:283385 |
| institution | Universiti Gadjah Mada |
| language | English |
| last_indexed | 2024-03-14T00:07:43Z |
| publishDate | 2022 |
| publisher | Elsevier B.V. |
| record_format | dspace |
| spelling | oai:generic.eprints.org:2833852023-11-20T08:15:31Z https://repository.ugm.ac.id/283385/ Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure Brugman, Eirene Wibowo, Arif Widiastuti, Ani Genetics Phytophthora palmivora is the causal agent of cocoa black pod disease, one of the primary diseases of cocoa in Indonesia. A better understanding of P. palmivora population genetics is needed to aid the development of relevant disease management strategies. This study is the first population genetic study of P. palmivora in Indonesia using microsatellite markers based on the alleles genotyping method. The microsatellite markers were used to determine the genotype of 44 P. palmivora isolates from Sulawesi (24) and Java (20) islands. The total number of observed multilocus genotypes (MLG) from both populations was 34. The genotypic diversity of P. palmivora from Sulawesi (2.90; 16.0; 0.938) and Java (2.76; 14.3; 0.930) islands was high as seen from Shannon's diversity index (H), Stoddart and Taylor's Index (G), and Simpson's Index (λ) respectively. Evenness and Nei's unbiased gene diversity exhibited similarly high levels from both populations. The linkage disequilibrium test indicated that sexual recombination occurred in the Java population (P = 0.312). Analysis of molecular variance (AMOVA) and Bayesian clustering revealed five genetic clusters, and isolates from both islands were evenly distributed across the five gene clusters. All genetic diversity was from within individuals. P. palmivora from Sulawesi and Java showed a high genotypic diversity but a lack of genetic differentiation among populations (Fst = 0.006). Both populations formed one highly diverse group. Minimum spanning network analysis showed no particular grouping of MLGs, and shared MLGs from both populations indicated long-distance migration of P. palmivora facilitated by human activities. © 2022 British Mycological Society Elsevier B.V. 2022 Article PeerReviewed application/pdf en https://repository.ugm.ac.id/283385/1/1-s2.0-S1878614622000216-main.pdf Brugman, Eirene and Wibowo, Arif and Widiastuti, Ani (2022) Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure. Fungal Biology, 126 (4). 267 – 276. https://www.scopus.com/inward/record.uri?eid=2-s2.0-85125632698&doi=10.1016%2fj.funbio.2022.02.004&partnerID=40&md5=d346ba611d67c0367fe1a02acaa37a3c |
| spellingShingle | Genetics Brugman, Eirene Wibowo, Arif Widiastuti, Ani Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title | Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title_full | Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title_fullStr | Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title_full_unstemmed | Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title_short | Phytophthora palmivora from Sulawesi and Java Islands, Indonesia, reveals high genotypic diversity and lack of population structure |
| title_sort | phytophthora palmivora from sulawesi and java islands indonesia reveals high genotypic diversity and lack of population structure |
| topic | Genetics |
| url | https://repository.ugm.ac.id/283385/1/1-s2.0-S1878614622000216-main.pdf |
| work_keys_str_mv | AT brugmaneirene phytophthorapalmivorafromsulawesiandjavaislandsindonesiarevealshighgenotypicdiversityandlackofpopulationstructure AT wibowoarif phytophthorapalmivorafromsulawesiandjavaislandsindonesiarevealshighgenotypicdiversityandlackofpopulationstructure AT widiastutiani phytophthorapalmivorafromsulawesiandjavaislandsindonesiarevealshighgenotypicdiversityandlackofpopulationstructure |