Ç. Ulubaş-Serçe, S. Aydınlık, Z. N. Öztürk, S. Önder, O. Çiftçi, B. Altan
{"title":"土耳其葡萄园中葡萄罗丹花叶变色相关病毒的遗传多样性和种群结构","authors":"Ç. Ulubaş-Serçe, S. Aydınlık, Z. N. Öztürk, S. Önder, O. Çiftçi, B. Altan","doi":"10.1111/jph.13368","DOIUrl":null,"url":null,"abstract":"<p>Grapevine Roditis leaf discoloration-associated virus (GRLDaV) is a type of virus that infects grapevines. This research aimed to determine the prevalence of GRLDaV in Turkey vineyards and investigate the genetic diversity and population structure of the selected viral isolates from Turkey compared to isolates from other countries. In this study, 800 shoot samples from Turkey vineyards were collected in late spring and autumn from different regions. The samples were analysed by RT-PCR targeting the partial RNaseH-like gene region of the virus genome. The overall prevalence of GRLDaV was 8.1% among the samples. Phylogenetic analysis of the GRLDaV genome showed that the GRLDaV isolates were clustered into two major lineages. The nucleotide diversity (π) value of Group I, including only Mediterranean isolates, was lower than Group II, suggesting little variation among isolates. Even though π values were low among the geographical regions in Turkey, the region with the highest nucleotide diversity was the Aegean population, followed by the Eastern and Mediterranean populations. Comparison between nonsynonymous and synonymous substitutions showed that negative selection acts on synonymous amino acids. Along with neutrality tests and gene flow analyses, it was emphasized that genetic drift played an important role in shaping the GRLDaV populations. This study provides important information on the prevalence and genetic diversity of GRLDaV in Turkey vineyards. The findings will help to develop better strategies to manage and control this virus, which can cause significant economic losses in grape industries.</p>","PeriodicalId":16843,"journal":{"name":"Journal of Phytopathology","volume":"172 4","pages":""},"PeriodicalIF":1.1000,"publicationDate":"2024-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Genetic diversity and population structure of grapevine Roditis leaf discoloration-associated virus in Turkey vineyards\",\"authors\":\"Ç. Ulubaş-Serçe, S. Aydınlık, Z. N. Öztürk, S. Önder, O. Çiftçi, B. Altan\",\"doi\":\"10.1111/jph.13368\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>Grapevine Roditis leaf discoloration-associated virus (GRLDaV) is a type of virus that infects grapevines. This research aimed to determine the prevalence of GRLDaV in Turkey vineyards and investigate the genetic diversity and population structure of the selected viral isolates from Turkey compared to isolates from other countries. In this study, 800 shoot samples from Turkey vineyards were collected in late spring and autumn from different regions. The samples were analysed by RT-PCR targeting the partial RNaseH-like gene region of the virus genome. The overall prevalence of GRLDaV was 8.1% among the samples. Phylogenetic analysis of the GRLDaV genome showed that the GRLDaV isolates were clustered into two major lineages. The nucleotide diversity (π) value of Group I, including only Mediterranean isolates, was lower than Group II, suggesting little variation among isolates. Even though π values were low among the geographical regions in Turkey, the region with the highest nucleotide diversity was the Aegean population, followed by the Eastern and Mediterranean populations. Comparison between nonsynonymous and synonymous substitutions showed that negative selection acts on synonymous amino acids. Along with neutrality tests and gene flow analyses, it was emphasized that genetic drift played an important role in shaping the GRLDaV populations. This study provides important information on the prevalence and genetic diversity of GRLDaV in Turkey vineyards. The findings will help to develop better strategies to manage and control this virus, which can cause significant economic losses in grape industries.</p>\",\"PeriodicalId\":16843,\"journal\":{\"name\":\"Journal of Phytopathology\",\"volume\":\"172 4\",\"pages\":\"\"},\"PeriodicalIF\":1.1000,\"publicationDate\":\"2024-07-31\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Phytopathology\",\"FirstCategoryId\":\"97\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1111/jph.13368\",\"RegionNum\":4,\"RegionCategory\":\"农林科学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q3\",\"JCRName\":\"PLANT SCIENCES\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Phytopathology","FirstCategoryId":"97","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/jph.13368","RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
Genetic diversity and population structure of grapevine Roditis leaf discoloration-associated virus in Turkey vineyards
Grapevine Roditis leaf discoloration-associated virus (GRLDaV) is a type of virus that infects grapevines. This research aimed to determine the prevalence of GRLDaV in Turkey vineyards and investigate the genetic diversity and population structure of the selected viral isolates from Turkey compared to isolates from other countries. In this study, 800 shoot samples from Turkey vineyards were collected in late spring and autumn from different regions. The samples were analysed by RT-PCR targeting the partial RNaseH-like gene region of the virus genome. The overall prevalence of GRLDaV was 8.1% among the samples. Phylogenetic analysis of the GRLDaV genome showed that the GRLDaV isolates were clustered into two major lineages. The nucleotide diversity (π) value of Group I, including only Mediterranean isolates, was lower than Group II, suggesting little variation among isolates. Even though π values were low among the geographical regions in Turkey, the region with the highest nucleotide diversity was the Aegean population, followed by the Eastern and Mediterranean populations. Comparison between nonsynonymous and synonymous substitutions showed that negative selection acts on synonymous amino acids. Along with neutrality tests and gene flow analyses, it was emphasized that genetic drift played an important role in shaping the GRLDaV populations. This study provides important information on the prevalence and genetic diversity of GRLDaV in Turkey vineyards. The findings will help to develop better strategies to manage and control this virus, which can cause significant economic losses in grape industries.
期刊介绍:
Journal of Phytopathology publishes original and review articles on all scientific aspects of applied phytopathology in agricultural and horticultural crops. Preference is given to contributions improving our understanding of the biotic and abiotic determinants of plant diseases, including epidemics and damage potential, as a basis for innovative disease management, modelling and forecasting. This includes practical aspects and the development of methods for disease diagnosis as well as infection bioassays.
Studies at the population, organism, physiological, biochemical and molecular genetic level are welcome. The journal scope comprises the pathology and epidemiology of plant diseases caused by microbial pathogens, viruses and nematodes.
Accepted papers should advance our conceptual knowledge of plant diseases, rather than presenting descriptive or screening data unrelated to phytopathological mechanisms or functions. Results from unrepeated experimental conditions or data with no or inappropriate statistical processing will not be considered. Authors are encouraged to look at past issues to ensure adherence to the standards of the journal.