Phoma stem canker is an internationally important disease of oilseed rape (Brassica napus, canola, rapeseed), causing serious losses in Europe, Australia and North America. UK losses of euros 56M per ...season are estimated using national disease survey data and a yield loss formula. Phoma stem canker pathogen populations comprise two main species, Leptosphaeria maculans, associated with damaging stem base cankers, and Leptosphaeria biglobosa, often associated with less damaging upper stem lesions. Both major gene and quantitative trait loci mediated resistance to L. maculans have been identified in B. napus, but little is known about resistance to L. biglobosa. Leptosphaeria maculans, which has spread into areas in North America and eastern Europe where only L. biglobosa was previously identified, now poses a threat to large areas of oilseed rape production in Asia. Epidemics are initiated by air-borne ascospores; major gene resistance to initial infection by L. maculans operates in the leaf lamina of B. napus. It is not clear whether the quantitative trait loci involved in the resistance to the pathogen that can be assessed only at the end of the season operate in the leaf petioles or stems. In countries where serious phoma stem canker epidemics occur, a minimum standard for resistance to L. maculans is included in national systems for registration of cultivars. This review provides a background to a series of papers on improving strategies for managing B. napus resistance to L. maculans, which is a model system for studying genetic interactions between hemi-biotrophic pathogens and their hosts.
Studies were undertaken to determine Alternaria spp. associated with leaf spot symptoms on canola (Brassica napus) in two cropping seasons (2015, 2016) across southern Australia. Major allergen Alt ...a1 and plasma membrane ATPase genes were used to identify Alternaria spp. In 2015, 112 isolates of seven Alternaria spp. were obtained, with A. metachromatica predominating. In 2016, 251 isolates of 12 Alternaria spp. were obtained, with A. infectoria predominating. Alternaria spp. isolates were morphologically and phylogenetically identified and studies to determine their pathogenicity on both B. napus (cv. Thunder TT) and B. juncea (cv. Dune) confirmed 10 species (A. alternata, A. arborescens, A. brassicae, A. ethzedia, A. hordeicola, A. infectoria, A. japonica, A. malvae, A. metachromatica and A. tenuissima) as pathogenic on both Brassica species. Alternaria ethzedia, A. hordeicola and A. malvae were recorded for the first time in Australia on any host and the record of A. arborescens was the first for New South Wales (NSW) and South Australia (SA). Other first records included A. infectoria on B. napus in NSW; A. japonica on B. napus in NSW and Western Australia (WA); A. metachromatica on any host in NSW, Victoria (VIC), WA and SA; and A. tenuissima on B. napus in NSW, SA and WA. It is evident that alternaria leaf spot on canola across southern Australia is not solely caused by A. brassicae, but that a range of other Alternaria spp. are also involved to varying degrees, depending upon the year and the geographic locality.
White leaf spot (Neopseudocercosporella capsellae) can be severe and problematic worldwide across both horticultural and oilseed Brassicaceae, including susceptible rapeseed. In this study, 82 ...isolates from 2015 and 106 isolates from across Australia in 2016 were first assessed for their virulence against three different rapeseed (Brassica napus) cultivars. For both years there were significant (P < 0.001) differences. Also, there were significant (all P < 0.001) differences between isolates in each year, and between cultivars. For 2016 isolates, there were also significant differences (P < 0.001) between isolates across three different Australian states, and a significant interaction (P < 0.001) between isolates with cultivars. Of the three Australian states, isolates from Victoria were most virulent. Among tested cultivars, cv. Scoop was most susceptible. Subsequently, phylogenetic analysis of 114 of these same 2015 and 2016 isolates showed current isolates clustered separately from the majority of 2005 N. capsellae isolates collected from Western Australia a decade earlier, confirming significant genetic change within N. capsellae populations over the past decade. However, isolate clusters showed no association with geographical location. The results suggest that phylogenetic association among 2005 and 2015–2016 N. capsellae isolates is complementary with pathogenicity variations explained by geographically different N. capsellae pathogen populations. Neopseudocercosporella capsellae populations are evolving rapidly, challenging management through host resistance at a time of increasing incidence and severity of white leaf spot disease over the past decade. The outcome is well illustrated by cv. Scoop, previously resistant to 2005 isolates but moderately susceptible to 2015 and highly susceptible to 2016 isolates.
Pseudocercosporella capsellae (white leaf spot disease) is an important disease on crucifers. Fifty‐four single‐conidial isolates collected from Brassica juncea (Indian mustard), B. napus (oilseed ...rape), B. rapa (turnip), and Raphanus raphanistrum (wild radish) across Western Australia were investigated for differences in pathogenicity and virulence using cotyledon screening tests, genetic differences using internal transcribed spacer (ITS) sequencing and phylogenetic analysis, and growth rates on potato dextrose, V8 juice and malt extract agars. All isolates from the four crucifer hosts were pathogenic on the three test species: B. juncea, B. napus and R. raphanistrum, but showed differences in levels of virulence. Overall, isolates from B. juncea, B. napus and B. rapa showed greatest virulence on B. juncea, least on R. raphanistrum and intermediate virulence on B. napus. Isolates from R. raphanistrum showed greatest virulence on B. juncea, least on B. napus and intermediate virulence on R. raphanistrum. Growth and production of a purple‐pink pigment indicative of cercosporin was greatest on malt extract agar and cercosporin production on V8 juice agar was positively correlated with virulence of isolates on B. juncea and B. napus. ITS sequencing and phylogenetic analysis showed that isolates collected from B. napus, B. juncea and B. rapa, in general and with few exceptions, had a high degree of genetic similarity. In contrast, isolates from R. raphanistrum were clearly differentiated from isolate groups collected from Brassica hosts. Pseudocercosporella capsellae reference isolates from other countries generally grouped into a single separate cluster, highlighting the genetic distinctiveness of Western Australian isolates.
Leptosphaeria maculans, the causal agent of stem canker of oilseed rape, develops gene-for-gene interactions with its hosts. To date, eight L. maculans avirulence (Avr) genes, AvrLm1 to AvrLm8, have ...been genetically characterized. An additional Avr gene, AvrLm9, that interacts with the resistance gene Rlm9, was genetically characterized here following in vitro crosses of the pathogen. A worldwide collection of 63 isolates, including the International Blackleg of Crucifers Network collection, was genotyped at these nine Avr loci. In a first step, isolates were classified into pathogenicity groups (PGs) using two published differential sets. This analysis revealed geographical disparities as regards the proportion of each PG. Genotyping of isolates at all Avr loci confirmed the disparities between continents, in terms of Avr allele frequencies, particularly for AvrLm2, AvrLm3, AvrLm7, AvrLm8, and AvrLm9, or in terms of race structure, diversity, and complexity. Twenty-six distinct races were identified in the collection. A larger number of races (n = 18) was found in Australia than in Europe (n = 8). Mean number of virulence alleles per isolate was also higher in Australia (5.11 virulence alleles) than in Europe (4.33) and Canada (3.46). Due to the diversity of populations of L. maculans evidenced here at the race level, a new, open terminology is proposed for L. maculans race designation, indicating all Avr loci for which the isolate is avirulent.
Powdery mildew (Erysiphe cruciferarum) is an important disease in oilseed rape crops worldwide, but of sporadic importance in most southern Australian crops. Six Brassica napus cultivars were exposed ...to E. cruciferarum simultaneously in four plant age cohorts. First symptoms of powdery mildew appeared 9 days after inoculation (dai) on the oldest plants 42 days after seeding (das), but 44 dai in the youngest plants that were exposed to inoculum from sowing, although final disease severity did not differ with the plant age at exposure. The maximum level of pod peduncle infestation was unaffected by plant age (P = 0.37) or cultivar (P = 0.28). The effect of temperature was also investigated. The development of disease on plants was slower and final severity reduced at a day/night temperature 14/10 °C compared with 22/17 °C. In vitro, maximum growth of germ tubes from conidia of E. cruciferarum was at 15–20 °C and survival of conidia reduced by temperatures >30 °C. The results explain the sporadic nature of powdery mildew outbreaks in winter‐grown oilseed rape in Australia, where slow rates of infection occur when seasonal colder prevailing winter conditions coincide with the presence of younger plants, together curtailing rapid disease development until temperatures increase in late winter/early spring. These results explain why epidemics are most severe in the two warmer cropping regions, viz. the northern agricultural region of Western Australia and New South Wales. This study suggests that with increases in winter temperatures under future climate scenarios, earlier and more severe powdery mildew outbreaks in Australia will be favoured.
Sclerotinia stem rot (Sclerotinia sclerotiorum) is a serious disease in oilseed Brassica crops worldwide. In this study, temperature adaptation in isolates of S. sclerotiorum collected from differing ...climatic zones is reported for the first time on any crop. Sclerotinia sclerotiorum isolates from oilseed rape (Brassica napus) crops in warmer northern agricultural regions of Western Australia (WW3, UWA 7S3) differed in their reaction to temperature from those from cooler southern regions (MBRS‐1, UWA 10S2) in virulence on Brassica carinata, growth on agar, and oxalic acid production. Increasing temperature from 22/18°C (day/night) to 28/24°C increased lesion diameter on cotyledons of B. carinataBC054113 more than tenfold for warmer region isolates, but did not affect lesion size for cooler region isolates. Mean lesion length averaged across two B. carinata genotypes (resistant and susceptible) fell from 4·6 to 2·4 mm for MBRS‐1 when temperature increased from 25/21°C to 28/24°C but rose for WW3 (2·35 and 3·21 mm, respectively). WW3, usually designated as low in virulence, caused as much disease on stems at 28/24°C as MBRS‐1, historically designated as highly virulent. Isolates collected from cooler areas grew better at low temperatures on agar. While all grew on potato dextrose agar between 5 and 30°C, with maximum growth at 20–25°C, growth was severely restricted above 32°C, and only UWA 7S3 grew at 35°C. Oxalate production increased as temperature increased from 10 to 25°C for isolates MBRS‐1, WW3 and UWA 7S3, but declined from a maximum level of 101 mg g⁻¹ mycelium at 20°C to 24 mg g⁻¹ mycelium at 25°C for UWA 10S2.
Studies were undertaken to examine the potential for manipulating the ecosystem by altering forage species composition, intensity of grazing or by adding Rhizobium, to enhance productivity of ...subterranean clover (Trifolium subterraneum) forages affected by the soilborne pathogens Pythium irregulare and Rhizoctonia solani. Levels of tap and lateral root disease on clover and its productivity were differentially and significantly affected by the relative proportions of clover to annual ryegrass (Lolium rigidum). In the presence of P. irregulare, both tap and lateral root disease decreased as percentage clover composition increased (R2 = 0.58, 0.59, respectively); there was no such significant effect in the presence of R. solani (R2 = 0.08, 0.18, respectively). Increasing and maintaining high clover content in forage offers a means to both reduce root disease and increase productivity and forage legume stand persistence. With simulated grazing studies, continuous (i.e. intensive) grazing in the presence of P. irregulare resulted in the most severe tap and lateral root disease, poorest nodulation and smallest roots and shoots compared with intermittent grazing. Hence, reducing grazing intensity also offers potential for significantly increasing productivity of root‐rot‐affected clover forage. For Rhizobium studies, nodulation was reduced in the presence of P. irregulare or R. solani; the extent of this was dependent upon which pathogen and the clover variety. Overall, these different studies highlight significant potential for manipulating the ecosystem to better manage soilborne pathogen complexes and improve productivity and persistence in annual legume forage systems adversely affected by soilborne oomycete and fungal pathogens.
Twenty Brassica breeding populations derived from mass selection or inter-specific hybridization were field screened for resistance to three separate isolates of Sclerotinia sclerotiorum, the cause ...of Sclerotinia stem rot (SSR). Variation due to S. sclerotiorum isolates (P ≤ 0.001) and host populations (P ≤ 0.001) were highly significant. Populations × isolate interactions were also significant. S. sclerotiorum isolates, MBRS1 and MBRS5 were the most pathogenic and almost similar in terms of population reactions, with WW3 clearly being distinct and having a much smaller range in lesion length across the populations. There were wide ranging and variable responses in terms of resistance against S. sclerotiorum in Brassica napus and B. juncea, with or without B. carinata introgression, among these breeding populations. In B napus, ZY006 (resistant check) and Line6 (HZAU) were the most resistant, closely followed by Line1 (HZAU), OCRI-3 and Line5 (HZAU). Line6 (HZAU) showed excellent resistance against the highly virulent isolates MBRS1 and MBRS5; while OCRI-1 appeared most resistant against isolate WW3. The B. juncea × B. carinata hybrid JC134 (PAU) was the most resistant against isolate MBRS5 and B. juncea RH9902 × JN026 the most resistant against isolate MBRS1. B. napus lines Line2 (HZAU), Line4 (HZAU), OCRI-3; and OCRI-4, and the B. napus × B. carinata hybrid Surpass4000 NCB4 (PAU), showed a significant degree of isolate-dependency in their reactions. In contrast, some other genotypes such as B. napus lines Line1 (HZAU), OCRI-5; Ding 110× Oscar and, particularly, Line5 (HZAU), were largely isolate-independent, making them ideal sources of resistance to target and exploit in developing new commercial cultivars with more effective resistance to SSR across multiple pathotypes of this pathogen. Cluster analysis allowed categorization of the test populations into five groups, based on their resistant responses. B. napus ZY006 was the sole genotype in the most resistant group. B. napus lines Line6 (HZAU), Ding 110 × Oscar (HAU) and Line4 (HZAU) clustered in another genetically distinct resistant group. That lines could be grouped into those with similar responses across the three different isolates of S. sclerotiorum will save breeders much time and expense by eliminating duplication of breeding efforts that occurs from using genotypes that are essentially similar in terms of host resistance against this serious pathogen. Further, that populations of similar levels of resistance but narrow variation in the resistance range could be identified is significant, as these are most likely to reliably provide breeders with advanced populations that not only consistently display the level of resistance expected but also reflect genetic diversity of resistance sources needed to successfully develop new more-resistant commercial varieties.
Abstract
The increasing luminosities of future data taking at Large Hadron Collider and next generation collider experiments require an unprecedented amount of simulated events to be produced. Such ...large scale productions demand a significant amount of valuable computing resources. This brings a demand to use new approaches to event generation and simulation of detector responses. In this paper, we discuss the application of generative adversarial networks (GANs) to the simulation of the LHCb experiment events. We emphasize main pitfalls in the application of GANs and study the systematic effects in detail. The presented results are based on the Geant4 simulation of the LHCb Cherenkov detector.
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