Aggressiveness of Phytophthora medicaginis on chickpea: Phenotyping method determines isolate ranking and host genotype-by-isolate interactions

Phytophthora medicaginis causing Phytophthora root rot of chickpea (Cicer arietinum) is an important disease, with genetic resistance using C. arietinum × Cicer echinospermum crosses as the main disease management strategy. We evaluated pathogenic variation in P. medicaginis populations with the aim of improving phenotyping methods for disease resistance. We addressed the question of individual isolate aggressiveness across four different seedling-based phenotyping methods conducted in glasshouses and one field-based phenotyping method. Our results revealed that a seedling media surface inoculation method used on a susceptible C. arietinum variety and a moderately resistant C. arietinum × C. echinospermum backcross detected the greatest variability in aggressiveness among 37 P. medicaginis isolates. Evaluations of different components of resistance, using our different phenotyping methods, revealed that differential pathogen–isolate reactions occur with some phenotyping methods. We found support for our hypotheses that the level of aggressiveness of P. medicaginis isolates depends on the phenotyping method, and that phenotyping methods interact with both isolate and host genotype reactions. Our cup-based root inoculation method showed promise as a non-field-based phenotyping method, as it provided significant correlations with genotype–isolate rankings in the field experiment for a number of disease parameters

PREDICTA®B update and new tests for 2018

- Soil-borne pathogens most likely to pose the greatest risk to cereal crops in the northern region during 2018 include crown rot, common root rot and root lesion nematodes. - PREDICTA®B has added new tests for ascochyta blight and phytophthora root rot of chickpeas, yellow leaf spot and white grain disorder of wheat, fusarium stalk rot of sorghum, charcoal rot of summer crops and arbuscular mycorrhizal fungi (AMF). - Follow sampling recommendations in the manual V10 (Broadacre Soilborne disease manual), including the additional of pieces of stubble to improve the detection of stubble-borne pathogens. - Frequently more than one soil-borne disease exists within a paddock with the interaction between pathogens (e.g. Pratylenchus thornei and crown rot) exacerbating losses. PREDICTA B is assisting pathologists to understand these interactions to advise growers on management options to limit the impact of these disease complexes

Accretion onto Seed Black Holes in the First Galaxies

The validity of the hypothesis that the massive black holes in high redshift quasars grew from stellar-sized "seeds" is contingent on a seed's ability to double its mass every few ten million years. This requires that the seed accrete at approximately the Eddington-limited rate. In the specific case of radiatively efficient quasiradial accretion in a metal-poor protogalactic medium, for which the Bondi accretion rate is often prescribed in cosmological simulations of massive black hole formation, we examine the effects of the radiation emitted near the black hole's event horizon on the structure of the surrounding gas flow. We find that the radiation pressure from photoionization significantly reduces the steady-state accretion rate and renders the quasiradial accretion flow unsteady and inefficient. The time-averaged accretion rates are a small fraction of the Eddington-limited accretion rate for Thomson scattering. The pressure of Ly-alpha photons trapped near the HII region surrounding the black hole may further attenuate the inflow. These results suggest that an alternative to quasiradial, radiatively efficient Bondi-like accretion should be sought to explain the rapid growth of quasar-progenitor seed black holes.Comment: replaced with significantly revised and expanded version; 14 pages, 2 figure

An evaluation of Solanum nigrum and S. physalifolium biology and management strategies to reduce nightshade fruit contamination of process pea crops

The contamination of process pea (Pisum sativum L.) crops by the immature fruit of black nightshade (Solanum nigrum L.) and hairy nightshade (S. physalifolium Rusby var. nitidibaccatum (Bitter.) Edmonds) causes income losses to pea farmers in Canterbury, New Zealand. This thesis investigates the questions of whether seed dormancy, germination requirements, plant growth, reproductive phenology, or fruit growth of either nightshade species reveal specific management practices that could reduce the contamination of process peas by the fruit of these two weeds. The seed dormancy status of these weeds indicated that both species are capable of germinating to high levels (> 90%) throughout the pea sowing season when tested at an optimum germination temperature of 20/30 °C (16/8 h). However, light was required at this temperature regime to obtain maximum germination of S. nigrum. The levels of germination in the dark at 20/30 °C and at 5/20 °C, and in light at 5/20 °C, and day to 50 % germination analyses indicated that this species cycled from nondormancy to conditional dormancy throughout the period of investigation (July to December 2002). For S. physalifolium, light was not a germination requirement, and dormancy inhibited germination at 5/20 °C early in the pea sowing season (July and August). However, by October, 100% of the population was non-dormant at this test temperature. Two field trials showed that dark cultivation did not reduce the germination of either species. Growth trials with S. nigrum and S. physalifolium indicated that S. physalifolium, in a non-competitive environment, accumulated dry matter at a faster rate than S. nigrum. However, when the two species were grown with peas there was no difference in dry matter accumulation. Investigation of the flowering phenology and fruit growth of both species showed that S. physalifolium flowered (509 °Cd, base temperature (Tb) 6 °C) approximately 120 °Cd prior to S. nigrum (633 °Cd). The fruit growth rate of S. nigrum (0.62 mm/d) was significantly faster than the growth rate of S. physalifolium (0.36 mm/d). Because of the earlier flowering of S. physalifolium it was estimated that for seedlings of both species emerging on the same date that S. physalifolium could produce a fruit with a maximum diameter of 3 mm ~ 60 °Cd before S. nigrum. Overlaps in flowering between peas and nightshade were examined in four pea cultivars, of varying time to maturity, sown on six dates. Solanum physalifolium had the potential to contaminate more pea crops than S. nigrum. In particular, late sown peas were more prone to nightshade contamination, especially late sowings using mid to long duration pea cultivars (777-839 °Cd, Tb 4.5 °C). This comparison was supported by factory data, which indicated that contamination of crops sown in October and November was more common than in crops sown in August and September. Also, cultivars sown in the later two months had an ~ 100 °Cd greater maturity value than cultivars sown in August and September. Nightshade flowering and pea maturity comparisons indicated that the use of the thermal time values for the flowering of S. nigrum and S. physalifolium can be used to calculate the necessary weed free period required from pea sowing in order to prevent the flowering of these species. The earlier flowering of S. physalifolium indicates that this species is more likely to contaminate pea crops than is S. nigrum. Therefore, extra attention may be required where this species is present in process pea crops. The prevention of the flowering of both species, by the maintenance of the appropriate weed free period following pea sowing or crop emergence, was identified as potentially, the most useful means of reducing nightshade contamination in peas

Chickpea shows genotype-specific nodulation responses across soil nitrogen environment and root disease resistance categories

Background: The ability of chickpea to obtain sufficient nitrogen via its symbiotic relationship with Mesorhizobium ciceri is of critical importance in supporting growth and grain production. A number of factors can affect this symbiotic relationship including abiotic conditions, plant genotype, and disruptions to host signalling/perception networks. In order to support improved nodule formation in chickpea, we investigated how plant genotype and soil nutrient availability affect chickpea nodule formation and nitrogen fixation. Further, using transcriptomic profiling, we sought to identify gene expression patterns that characterize highly nodulated genotypes. Results: A study involving six chickpea varieties demonstrated large genotype by soil nitrogen interaction effects on nodulation and further identified agronomic traits of genotypes (such as shoot weight) associated with high nodulation. We broadened our scope to consider 29 varieties and breeding lines to examine the relationship between soilborne disease resistance and the number of nodules developed and real-time nitrogen fixation. Results of this larger study supported the earlier genotype specific findings, however, disease resistance did not explain differences in nodulation across genotypes. Transcriptional profiling of six chickpea genotypes indicates that genes associated with signalling, N transport and cellular localization, as opposed to genes associated with the classical nodulation pathway, are more likely to predict whether a given genotype will exhibit high levels of nodule formation. Conclusions: This research identified a number of key abiotic and genetic factors affecting chickpea nodule development and nitrogen fixation. These findings indicate that an improved understanding of genotype-specific factors affecting chickpea nodule induction and function are key research areas necessary to improving the benefits of rhizobial symbiosis in chickpea

Phytophthora root rot of chickpea: inoculum, pathogenicity and resistance phenotyping

Phytophthora root rot (PRR) caused by Phytophthora medicaginis is the major root disease of chickpea (Cicer arietinum) in north-eastern Australia. Improving resistance to P. medicaginis has been a high priority for Australian chickpea breeding. Despite this high priority the understanding of P. medicaginis population dynamics and relationship to yield loss, variation in P. medicaginis isolate aggressiveness and the most effective partial resistance phenotyping methods remain significant knowledge gaps. My research focused on four main areas. First, a qPCR method was developed to quantify P. medicaginis DNA in soil samples. The efficacy of P. medicaginis DNA soil concentrations at planting to predict PRR levels and yield loss in chickpea across a range of disease conducive environmental conditions was evaluated. Phytophthora medicaginis DNA concentrations at seeding could only predict PRR disease risk accurately for low to moderate disease conducive environmental conditions. Second, the prevalence and inoculum dynamics of P. medicaginis in chickpea cropping systems was evaluated. Phytophthora medicaginis DNA was detected in soil in over 30% of chickpea fields in regions where PRR disease occurs. Inoculum concentration declines were demonstrated following in-crop epidemics for the PRR very susceptible var. Sonali, in naturally infested stored soil, and in the postharvest period of the field experiment. Third, I evaluated the variation in P. medicaginis aggressiveness and the effects of the phenotyping system used on host genotype-isolate rankings. Results demonstrated an aggressiveness continuum among P. medicaginis isolates. Comparison of multiple phenotyping systems showed the level of aggressiveness of P. medicaginis isolates was affected by the phenotyping method and that phenotyping methods interact with both isolate and host genotype reactions. Finally, in-field genotype dependant soil P. medicaginis inoculum concentrations were evaluated for the identification of genotypes with high levels of partial resistance. Recombinant inbred lines (RIL) with high levels of PRR foliage symptoms had higher inoculum concentrations than RIL with low levels of foliage symptoms. Superior RIL with consistently low levels of foliage symptoms provided in-crop P. medicaginis soil inoculum concentrations relative to normalised yield loss across a putative partial resistance-tolerance spectrum This research identified a number of aspects of P. medicaginis biology relevant to understanding inoculum dynamics, in-field PRR development, isolate aggressiveness and host resistance phenotyping. Using P. medicaginis inoculum concentration to determine PRR disease risk in chickpea only showed promise in low to moderate disease conducive seasons. Monitoring in-field P. medicaginis populations is challenging due to post-epidemic inoculum decline. This means that the most reliable time to detect P. medicaginis inoculum is during chickpea cropping rather than from non-host break crops. To improve P. medicaginis resistance breeding practices aggressive P. medicaginis isolates can be selected alongside root reaction focused phenotyping methods. Genotype dependant soil P. medicaginis inoculum concentrations relative to normalised yield loss provide a useful method of identifying genotypes with high levels of partial resistance. Overall this research has provided outputs that contribute to PRR management through pathogen detection, quantification and resistance breeding methods

Chickpea Roots Undergoing Colonisation by Phytophthora medicaginis Exhibit Opposing Jasmonic Acid and Salicylic Acid Accumulation and Signalling Profiles to Leaf Hemibiotrophic Models

Hemibiotrophic pathogens cause significant losses within agriculture, threatening the sustainability of food systems globally. These microbes colonise plant tissues in three phases: a biotrophic phase followed by a biotrophic-to-necrotrophic switch phase and ending with necrotrophy. Each of these phases is characterized by both common and discrete host transcriptional responses. Plant hormones play an important role in these phases, with foliar models showing that salicylic acid accumulates during the biotrophic phase and jasmonic acid/ethylene responses occur during the necrotrophic phase. The appropriateness of this model to plant roots has been challenged in recent years. The need to understand root responses to hemibiotrophic pathogens of agronomic importance necessitates further research. In this study, using the root hemibiotroph Phytophthora medicaginis, we define the duration of each phase of pathogenesis in Cicer arietinum (chickpea) roots. Using transcriptional profiling, we demonstrate that susceptible chickpea roots display some similarities in response to disease progression as previously documented in leaf plant–pathogen hemibiotrophic interactions. However, our transcriptomic results also show that chickpea roots do not conform to the phytohormone responses typically found in leaf colonisation by hemibiotrophs. We found that quantified levels of salicylic acid concentrations in root tissues decreased significantly during biotrophy while jasmonic acid concentrations were significantly induced. This study demonstrated that a wider spectrum of plant species should be investigated in the future to understand the physiological changes in plants during colonisation by soil-borne hemibiotrophic pathogens before we can better manage these economically important microbes

Productivity is negatively related to shoot growth across five mango cultivars in the seasonally wet-dry tropics of northern Australia

Introduction. Mango productivity is low in seasonally wet-dry tropical areas where breeding programs require information on factors affecting productivity of mango cultivars. Specifically, our study tested a novel hypothesis that, among Australian- and Florida-bred cultivars, the greater growth of vegetatively vigorous cultivars would contribute to lower levels of fruit production in comparison with less vegetatively vigorous cultivars, in a wet-dry tropical environment. Materials and methods. A field experiment was conducted on trees of the cultivars ‘Kensington Pride’ and ‘Strawberry’, both polyembryonic cultivars, and ‘Haden’, ‘Irwin’ and ‘Tommy Atkins’, all monoembryonic cultivars. Results. Shoot growth was recorded over two years; in both years the polyembryonic cultivars produced more new shoot length than the monoembryonic cultivars; ‘Irwin’ was the least vigorous cultivar in both years. Across cultivars, there was a negative relationship between normalised (by flowering intensity and canopy area) fruit number or yield and vegetative vigour as represented by new shoot length. Conclusion. The results supported the hypothesis that the greater shoot growth of vegetatively vigorous cultivars contributed to lower levels of fruit production in comparison with less vegetatively vigorous cultivars in a tropical environment. This is the first study which demonstrates that the extent of seasonal shoot growth had a fruit production cost for mango

Order of microbial succession affects rhizobia-mediated biocontrol efforts against Phytophthora root rot

The management of soilborne root diseases in pulse crops is challenged by a limited range of resistance sources and often a complete absence of in-crop management options. Therefore, alternative management strategies need to be developed. We evaluated disease limiting interactions between the rhizobia species Mesorhizobium ciceri, and the oomycete pathogen Phytophthora medicaginis, which causes Phytophthora root rot (PRR) of chickpea (Cicer arietinum). For the PRR susceptible var. Sonali plants, post-pathogen M. ciceri inoculation significantly improved probability of plant survival when compared to P. medicaginis infected plants only pre-inoculated with M. ciceri (75 % versus 35 %, respectively). Potential mechanisms for these effects were investigated: rhizobia inoculation benefits to plant nodulation were not demonstrated, but the highest nodule N-fixation activity of P. medicaginis inoculated plants occurred for the post-pathogen M. ciceri treatment; rhizobia inoculation treatment did not reduce lesion development but certain combinations of microbial inoculation led to significant reduction in root growth. Microcosm studies, however, showed that the presence of M. ciceri reduced growth of P. medicaginis isolates. Putative chickpea disease resistance gene expression was evaluated using qPCR in var. Sonali roots. When var. Sonali plants were treated with M. ciceri post-P. medicaginis inoculation, the gene regulation in the plant host became more similar to PRR moderately resistant var. PBA HatTrick. These results suggest that M. ciceri application post P. medicaginis inoculation may improve plant survival by inducing defense responses similar to a PRR moderately resistant chickpea variety. Altogether, these results indicate that order of microbial succession can significantly affect PRR plant survial in susceptible chickpea under controlled conditions and improved plant survival effects are due to a number of different mechanisms including improved host nutrition, through direct inhibiton of pathogen growth, as well as host defense priming