Genotypic and phenotypic characterization of Phytophthora infestans populations on Java,Indonesia

Phytophthora infestans is endemic to Indonesia and can infect potato crops at any stage in the growing season. Little is known about P. infestans populations in Indonesia. The objectives of this study were first to identify the genotypes causing late blight in the main potato-growing regions on Java in Indonesia, and secondly to examine genotypic diversity in the P. infestans populations in those regions. Samples were collected on FTA cards (n = 140) or in tubers (n = 6) from 15 locations in nine regencies over four years (2016–2019). Microsatellite analysis revealed that late blight outbreaks in these regencies were caused by EU_2_A1 and other genotypes that are unique to Indonesia. Eighty percent of the samples that amplified with CAPS markers were the A1 mating type. Cultures of six isolates were determined to be the A1 mating type based on the pairing test, and of these, two isolates were intermediate and four were sensitive to metalaxyl-M (mefenoxam). The mode of reproduction of the P. infestans population on Java, Indonesia, was found to be clonal. However, as the sample size in this study was small, more isolates need to be tested to confirm this. Microsatellite analysis revealed that 90% of Indonesian samples had trisomic loci. A high number of multilocus genotypes (MLGs) were found in all nine regencies (131 MLGs out of 146 samples). Results indicate that there is ongoing polyploidization in these populations due to a high mutation rate and no selection pressure from the susceptible potato hosts that are being grown in Indonesia.     

Distribution of major clonal lineages EU_13_A2, EU_2_A1, and EU_23_A1 of Phytophthora infestans associated with potato late blight across crop seasons and regions in Algeria

Potato is one of the most important agricultural crops in Algeria and worldwide. Each year, potato late blight, caused by Phytophthora infestans, is responsible for significant damage that leads to large production losses, and is thus a direct threat to food security in Algeria. In this study, 131 isolates of P. infestans and 92 DNA fingerprints captured on FTA cards were sampled from commercial and seed production fields in three major potato production regions (western, eastern, and central) during the main-season and late-season in Algeria over six cropping seasons (2010–2016). Genotypes of P. infestans and population genetic diversity were analysed using a 17-plex simple-sequence repeat (SSR) marker assay, and the mating type of all isolates was characterized. Both mating types (A1 and A2) were found, and often occurred in the same field. Differences in mating type proportion were observed between regions and between sampling periods. Analysis with SSR markers showed the prevalence of the EU_13_A2 lineage (70%) over EU_2_A1 (16%), EU_23_A1 (10%), and 4% of unknown multilocus lineage (MLL). The EU_13_A2 showed differentiation within the group. EU_23_A1 was found mainly in late-season crops. However, the cropping region did not influence the distribution of lineages due to the dispersal of the pathogen in Algeria by seeds. Genetic structure did not reveal a clear variation in distribution of the three lineages throughout the sampling regions. These data provide important new information on the composition and change over time of P. infestans populations in Algeria and open the way for a better understanding of the local epidemiology of this important pathogen.     

The role of aggressiveness and competition in the selection of Phytophthora infestans populations

Selection within populations of Phytophthora infestans was investigated by comparing the aggressiveness of single‐lesion isolates on detached leaflets of four potato cultivars with differing levels of race‐nonspecific resistance to P. infestans. The isolates included 23 representative of Northern Ireland genotypes from the early 2000s, used to inoculate previously reported field trials on competitive selection (2003–2005), plus 12 isolates recovered from the 2003 trial. The cultivars were those planted in the previous trials: Atlantic (blight‐susceptible) and Santé, Milagro and Stirling (partially resistant). Very highly significant variation for latent period, infection frequency and lesion area was found between genotypes and cultivars; differences between genotypes were more marked on the more resistant cultivars, but no one genotype was the most aggressive across all. Detached leaflets were also inoculated with mixtures of isolates from each genotype group at three sporangial concentrations: differences in aggressiveness between genotypes were more apparent at lower concentrations and on the more resistant cultivars. Genotype groups that were the most aggressive on the more resistant cultivars tended to be those selected by the same cultivars in the field. A mixture of all isolates of all genotypes was used to inoculate detached leaflets of the same cultivars. With one exception, single spore isolates recovered from any one leaflet belonged to a single genotype, but different genotypes were recovered from different cultivars. Phytophthora infestans isolates from Northern Ireland showed significant variation for foliar aggressiveness, and pathogen genotypes exhibited differential aggressiveness to partially resistant cultivars and interacted competitively in genotype selection.     

The effect of the presence of R-genes for resistance to late blight (Phytophthora infestans) of potato (Solanum tuberosum) on the underlying level of field resistance

The differential genotypes R₁, R₁₀ and R₁₁, as originally defined by Black, were crossed with R-gene-free cultivars and the progenies divided into two subpopulations comprising those which had inherited the R-gene and those which had not. The underlying level of field resistance of the two groups was compared in a field trial in which they were inoculated with an isolate that could overcome the relevant R-genes. The R-gene-bearing group was significantly ( P  < 0·001) more resistant than the R-gene-free group, with mean scores over four dates in 2000 of 4·86 and 4·09, respectively, on a 1–9 scale of increasing resistance, and of 4·10 and 2·35 on one date in 2001. However, the magnitude of the effect depended on the R-gene and the year of the trial. Data from a progeny of cv. Stirling (with an R-gene and a high level of field resistance) were examined and the same effect of an R-gene found. Fewer of the R-gene-bearing group of clones were highly susceptible, and more were resistant. The most resistant clones always bore the R-gene. It is concluded that increased resistance is conferred by the defeated R-gene or linked genes for field resistance.     

Genetic diversity and host differentiation among isolates of Phytophthora infestans from cultivated potato and wild solanaceous hosts in Peru

To test the hypothesis that isolates of Phytophthora infestans attacking wild Solanaceae exhibit specialization for particular host species, 115 isolates of P. infestans were collected from cultivated potatoes, nontuber-bearing Solanum spp. of the Basarthrum section and wild tomatoes from five departments in the northern and central highlands of Peru, and characterized using several neutral markers. All isolates belonged to one of four clonal lineages described previously in Peru: EC-1, US-1, PE-3 and PE-7. There was a strong association of three lineages with host species: PE-3 was only isolated from cultivated potato, while PE-7 and US-1 were only isolated from nontuber-bearing Solanum spp. ( Basarthrum section and wild tomatoes). EC-1 was isolated from all host groups sampled. A subset ( n  = 74) of the isolates was evaluated for metalaxyl resistance. High levels of resistance were found almost exclusively in EC-1 and PE-3, while US-1 and PE-7 isolates were generally sensitive. In a detached-leaf assay for lesion diameter using five EC-1 isolates from S. caripense and seven EC-1 isolates from cultivated potato, there was a significant interaction between isolate origin and inoculated host, caused by higher aggressiveness of EC-1 from cultivated potato on its host of origin. In a comparison of EC-1 (seven isolates from cultivated potato) and US-1 (three isolates from S. caripense ), each pathogen lineage was more aggressive on its original host species, causing a highly significant interaction between isolate origin and inoculated host. Wild tomatoes and nontuber-bearing Solanum spp. harbour several pathogen lineages in Peru and could serve as reservoirs of inoculum that might contribute to epidemics on potato or tomato. Potential risks associated with the use of wild Solanum hosts as sources of resistance to P. infestans are discussed .     

Genetic structure and pathogenicity of populations of Phytophthora infestans from organic potato crops in France, Norway, Switzerland and the United Kingdom

Genetic variation and pathogenicity of Phytophthora infestans isolates collected from organic potato crops of the susceptible cv. Bintje and the moderately resistant cv. Santé were assessed in France, Norway, and the United Kingdom in 2001 and in Switzerland in 2001 and 2002. Population structures differed considerably between the four P. infestans populations. Those from France, Switzerland and the UK were mainly clonal populations showing restricted levels of genetic diversity, whilst those from Norway were mixed A1 and A2 mating type populations with high levels of genetic diversity, suggesting periodical sexual reproduction. Isolates collected from cv. Bintje were on average more aggressive than or comparable to isolates from cv. Santé. Race complexity varied considerably between the regional P. infestans populations, with isolates from France and Switzerland showing the highest number of virulence factors. In all pathogen samples but the French, isolates collected from cv. Santé were more complex than isolates collected from cv. Bintje. No directional selection towards increased aggressiveness towards the more resistant cultivar Santé was observed. This suggests that there is no shift towards increased levels of pathogenicity in P. infestans populations following the large-scale introduction of more resistant potato varieties in organic production systems in Europe.     

马铃薯晚疫病菌分子遗传及与寄主互作研究

近年来马铃薯晚疫病的重新暴发再次引起世界各国极大关注,特别对马铃薯晚疫病菌的分子遗传学的研究,包括病菌基因组遗传、转录和物理图谱的构建,病菌致病的分子机制以及马铃薯-马铃薯晚疫病菌互作分子机制等。本文就近几十年来对马铃薯晚疫病菌在生物学和病理学,分子遗传学等研究方面作简要综述,并对其研究趋势进行了展望。     

Effects of host and pathogen genotypes on inducibility of resistance in tomato (Solanum lycopersicum) to Phytophthora infestans

Thirteen tomato (Solanum lycopersicum) accessions were tested for inducibility of resistance against two isolates of Phytophthora infestans using BABA (dl ‐3‐amino butyric acid) as the inducing agent. In a more detailed trial, six of the accessions were assessed for inducibility of resistance to six P. infestans isolates on three leaves of different age per plant. Plants were inoculated 1 week after treatment with BABA. Area under the disease progress curve (AUDPC), sporulation capacity (SC) and infection efficiency (IE) were all affected by treatment with BABA. On leaves of all ages AUDPC was most affected by induction (43–100% reduction on the youngest leaves) followed by SC (14–100%) and IE (0–100% reduction). Tomato genotypes varied significantly in inducibility of resistance against P. infestans and the degree of induction generally decreased with increasing leaf age, whilst the absolute susceptibility with respect to AUDPC and SC rarely changed. The level of induction was not always related to the resistance level of the tomato accession and it was significantly influenced by the pathogen isolate used for challenge inoculation. The results show that inducibility of resistance is a selectable trait that is, however, isolate‐specific.     

Aggressiveness and host specificity of Brazilian isolates of Phytophthora infestans

The population of Phytophthora infestans in Brazil consists of two clonal lineages, US-1 associated with tomatoes and BR-1 associated with potatoes. To assess whether host specificity in these lineages resulted from differences in aggressiveness to potato and tomato, six aggressiveness-related epidemiological components – infection frequency (IF), incubation period (IP), latent period (LP), lesion area (LA), lesion expansion rate (LER) and sporulation at several lesion ages (SSLA) – were measured on detached leaflets of late blight-susceptible potato and tomato plants. Infection frequency of US-1 was similar on potato and tomato leaflets, but IF of BR-1 was somewhat reduced on tomato. Incubation period was longer on both hosts with US-1, although this apparent lineage affect was not significant. Overall there was no host effect on IP. On potato, BR-1 had a shorter LP (110·3 h) and a larger LA (6·5 cm²) than US-1 (LP = 162·0 h; LA = 2·8 cm²). The highest LER resulted when isolates of BR-1 (0·121 cm² h⁻¹) and US-1 (0·053 cm² h⁻¹) were inoculated on potato and tomato leaflets, respectively. The highest values of the area under the sporulation capacity curve (AUSC) were obtained for isolates of US-1 inoculated on tomato leaflets (6146) and for isolates of BR-1 on potato leaflets (3775). In general, higher values of LA, LER, SSLA and AUSC, and shorter values of LP were measured when isolates of a clonal lineage were inoculated on their original host than with the opposite combinations. There is evidence that there are quantitative differences in aggressiveness components between isolates of US-1 and BR-1 clonal lineages that probably contribute to host specificity of P. infestans populations in Brazil.     

Displacement of US‐1 clonal lineage by a new lineage of Phytophthora infestans on potato in Kenya and Uganda

Phytophthora infestans, the pathogen responsible for causing late blight in potato and tomato, is a rapidly evolving and highly adaptable pathogen. Following the appearance of a new clonal genotype in Kenya (KE‐1 lineage) in 2007, there was a need to document possible displacement of the US‐1 genotype by the newer lineage. Samples from Kenya (260) collected on potato and from Uganda collected on potato (134) and tomato (32) were genotyped with simple sequence repeat (SSR) and mitochondrial DNA haplotype (mtDNA) markers. Results show that, four years after its discovery, the KE‐1 lineage has completely displaced the US‐1 lineage on potato in Kenya. The KE‐1 lineage has also migrated into Uganda through the eastern part of the country that borders western Kenya. All potato samples from eastern Uganda were of the KE‐1 lineage. Moreover, samples from eight fields in western Uganda were also of the KE‐1 lineage, which is in agreement with an ongoing westward displacement. However, the new lineage has not displaced the old lineage on tomato, as all samples from tomato were US‐1. Principal coordinate analysis (PCA) scatter plots revealed clustering that indicated separation between the lineages and also between the subpopulations of the US‐1 lineage on potato and tomato.     

近几年我国马铃薯晚疫病流行特点分析与监测建议

马铃薯晚疫病是马铃薯上的重要病害,是影响马铃薯产业发展的主要制约因素。本文系统总结了2008-2014年我国马铃薯晚疫病的发生概况及特点,分析了其影响因素。该病害年度间、地区间、品种间发生不平衡,北方产区受气候因素影响大,西南及中原产区常年偏重发生。2012年、2013年马铃薯晚疫病在全国范围内偏重发生,局部大发生,发生范围广、流行扩展速度快、危害重。在气候、菌源量、品种抗性及防治因素中,气候是影响马铃薯晚疫病发生流行的最重要因素。     

Aggressiveness of Phytophthora infestans on detached potato leaflets in four Nordic countries

Potato fields in Denmark, Finland, Norway and Sweden were sampled for single-lesion isolates of Phytophthora infestans . The aggressiveness of the isolates was determined on detached leaflets of potato cvs Bintje (susceptible) and Matilda (moderately resistant). The aggressiveness tests were carried out in the respective home countries of the isolates, with the exception of the Danish isolates. Fifteen Danish isolates were studied in each of the other three countries, including five isolates tested in all three laboratories. Results obtained from the Danish isolates revealed substantial differences between the test laboratories for infection efficiency, lesion growth rate and sporulation capacity on detached leaflets. When the laboratory effect was taken into account, the differences in aggressiveness between the countries were generally small or inconsistent between the test cultivars and epidemiologically insignificant. By contrast, variation among isolates within countries was substantial. The magnitude of the variation depended on country and cultivar. Maximal variation for the means of the isolates was between 89 and 185 h for latent period, between 100 and 1297 sporangia mm⁻² for sporulation capacity and between nearly zero and 6 mm day⁻¹ for lesion growth rate. Typically less than 1% of sporangia were able to cause infections, except in Norway. These extraordinarily low values may be an artefact of the testing method. High variation in results between the test laboratories emphasizes the need for caution when comparing results obtained by different research groups.     

Severe outbreaks of late blight on potato and tomato in South India caused by recent changes in the Phytophthora infestans population

Late blight, caused by Phytophthora infestans, has emerged as the most destructive disease of potato and tomato in South India since 2008. One hundred and fifty‐seven isolates of Phytophthora infestans, 63 from potato and 94 from tomato, were collected from major potato and tomato production areas of South India between 2010 and 2012. Their phenotypic and genotypic characteristics were determined and compared with reference isolates. Isolates were characterized based on mating type, in vitro metalaxyl sensitivity, mitochondrial DNA haplotype, RG57 DNA fingerprinting patterns, SSR markers and aggressiveness on potato and tomato, in order to monitor population changes in P. infestans. All isolates were A2 mating type, metalaxyl resistant, mtDNA haplotype Ia and had RG57 and SSR fingerprints almost identical to the 13_A2 clonal lineage reported in Europe. Variation at the D13 and SSR4 loci allowed discrimination of minor variants, designated as 13_A2_3, 13_A2_3b, 13_A2_3c and 13_A2_1. A comparison of the lesion diameters caused by 157 isolates on detached leaflets of three potato and tomato cultivars showed all isolates to be equally aggressive, confirming that the same clonal population is infecting both hosts. This study demonstrates that the 13_A2 lineage was responsible for severe late blight outbreaks on potato and tomato in South India and has replaced the prior population represented by the US‐1 and other genotypes. Revised management strategies will be required to combat this destructive 13_A2 clonal lineage and monitoring of the population across other potato‐ and tomato‐growing regions of India is warranted.     

近年来中国马铃薯晚疫病的时空演变特征及防控情况分析

为系统全面地了解马铃薯晚疫病在我国的发生演变特征及防控情况,基于2008—2017年国家统计局官方数据、《中国农业统计资料》《全国植保专业统计资料》及全国马铃薯品种分布等数据,对全国及各马铃薯产区晚疫病的发生及防治情况进行综合量化分析。结果表明:马铃薯晚疫病在我国连年发生,年平均发生面积约197.47万hm²,占马铃薯总种植面积的40.66%;晚疫病造成马铃薯年平均产量损失占所有病害所致产量损失的63.54%,远高于其他病害,损失巨大;在我国马铃薯4大产区中,马铃薯晚疫病在北方一作区的年平均发生面积最大,约73.44万hm²,而在西南混作区造成的年平均产量损失最高,约14.29万t;晚疫病发生与马铃薯种植区域的重心在空间上呈现相似的迁移趋势;以费乌瑞它为代表的高感晚疫病品种在全国大面积种植,但近年来部分抗病品种的种植面积正在逐年增加;近年来我国对马铃薯晚疫病的防治面积大幅度提升,但仍太过依赖化学防治,应加大绿色防控技术的推广和应用力度。     

Influence of competition and host plant resistance on selection in Phytophthora infestans populations in Michigan, USA and in Northern Ireland

Competition between genotypes of Phytophthora infestans was studied by inoculating potato cultivars with differing susceptibility to late blight in field experiments over three years in Northern Ireland, UK, and Michigan, USA. Multiple isolates of six genotype groups of P. infestans were chosen from the local populations in both N. Ireland and Michigan for inoculation of separate field trials planted in 2003, 2004 and 2005. Four cultivars were used in each trial; two (susceptible cv. Atlantic and the partially resistant cv. Stirling) were common to both locations, whereas the two additional cultivars (with partial resistance to late blight) were cvs Santé and Milagro in N. Ireland and cvs Pike and Jacqueline Lee in Michigan. Single-lesion isolates of P. infestans were obtained from leaves at 1% level of infection, characterized using pre-assigned markers and re-assigned to their respective genotype groups. Extreme selection occurred within the population of genotypes of P. infestans in N. Ireland in each year, with different genotype groups dominating the infection of different cultivars. Selection was observed on all cultivars tested, but was greatest on the more resistant cultivars. Over the 3 years, all of the 114 isolates obtained from cv. Milagro belonged to a single group, whereas among the 118 isolates from cv. Atlantic all six groups were represented. By contrast, in Michigan, the US-8 genotype dominated infection in all cultivars in each year; only 12 of 374 isolates characterized belonged to other genotypes (11 US-14 and a single US-10 isolate).     

马铃薯与致病疫霉互作研究进展与展望

马铃薯是重要的粮食作物, 由致病疫霉侵染引发的晚疫病长期严重制约马铃薯产业的健康发展, 因此, 国内外均将马铃薯晚疫病列为重大病害。目前, 抗病品种选育栽培、晚疫病预测预报和化学防治等相结合的晚疫病综合防治手段已得到普遍推广, 但晚疫病局部大流行在全世界范围内仍时有发生, 给粮食安全和生态安全带来巨大挑战。本文回顾了我国晚疫病的部分研究历史, 集中关注致病疫霉与寄主的互作机制领域, 梳理了近年来关于致病疫霉侵入机理、效应蛋白毒力功能、病原菌变异规律、马铃薯抗病机理等方面的重要研究结果并展望未来主要的研究方向, 以期为晚疫病基础研究和防治技术革新提供参考。     

马铃薯晚疫病预测模型与预警技术研究进展

介绍了马铃薯晚疫病11个预测模型和6个电脑化模型;描述了模型预测的判断标准和预警指标,并作了评价提出存在问题;讨论了建立网络化病害预测模型和实现自动预警配套技术;报道了2003年直接应用于田间马铃薯晚疫病监测技术。     

29个马铃薯品种(品系)抗晚疫病基因组成与抗病相关性分析

由致病疫霉引起的马铃薯晚疫病是马铃薯生产中最具危害性的病害,明确现有马铃薯品种(品系)中抗病基因组成情况对于指导抗病品种合理布局及抗病育种具有重要意义。本研究利用农杆菌介导的无毒基因瞬时表达技术分析了致病疫霉8个无毒基因在29个马铃薯品种(品系)中的分布情况。结果表明,品种间抗病基因组成各异,平均每个品种含有4个抗病基因。同时,不同抗病基因在品种中的分布频率也不同,抗病基因R1(76%)、Rpi-blb1(66%)和Rpi-blb2(66%)在品种中分布较普遍;而含抗病基因R3b(45%)、R4(38%)和Rpi-vnt1(34%)的品种较少。此外,品种中所含抗性基因的数量和品种室内抗性程度呈显著正相关(r=0.915 6,P=0.029 1)。