Pathotypes and phylogenetic variation determine downy mildew epidemics in Brassica spp. in Australia

Isolates of Hyaloperonospora brassicae inoculated onto cotyledons of 28 diverse Brassicaceae genotypes, 13 from Brassica napus, two from B. juncea, five from B. oleracea, two from Eruca vesicaria, and one each from B. nigra, B. carinata, B. rapa, Crambe abyssinica, Raphanus sativus and R. raphanistrum, showed significant effects (P ≤ 0.001) of isolate, host and their interaction. Host responses ranged from no visible symptom or a hypersensitive response, to systemic spread and abundant pathogen sporulation. Isolates were generally most virulent on their host of origin. Using an octal classification, six host genotypes were identified as suitable host differentials to characterize pathotypes of H. brassicae and distinguished eight distinct pathotypes. There were fewer, but more virulent, pathotypes in 2015–2016 isolates than 2006–2008 pathogen populations, probably explaining the increase in severity of canola downy mildew over the past decade. Phylogenetic relationships determined across 20 H. brassicae isolates collected in 2006–2008 and 88 isolates collected in 2015–2016 showed seven distinct clades, with 70% of 2006–2008 isolates distributed within clade I (bootstrap value (BVs) of 100%) and the remaining 30% in clade V (BVs 83.3%). This is the first study to define phylogenetic relationships of H. brassicae isolates in Australia, setting a benchmark for understanding current and future genetic shifts within pathogen populations; it is also the first to use octal classification to characterize pathotypes of H. brassicae, providing a novel basis for standardizing phenotypic characterization and monitoring of pathotypes on B. napus and some crucifer species in Australia.     

Effects of quebracho tannin extract and activated charcoal on nutrient digestibility,digesta passage and faeces composition in goats

Irrigation agriculture of hot climates suffers from rapid soil organic carbon (C) turnover, high nitrogen (N) leaching and gaseous losses. In this context, we explored the possibility of supplementing ruminants with activated charcoal (AC) and condensed tannins (CT) to increase faecal concentration of long‐lived C and slowly decomposable N. For this purpose, we fed AC and quebracho tannin extract (QTE, source of CT) to goats and determined nutrient digestibility, digesta passage and composition of faeces. The feeding trial comprised three periods, with 24 male goats assigned to five treatments and a control. On dry matter (DM) basis, the basal diet (control) consisted of 50% hay, 46.5% crushed maize and 3.5% soya bean meal. Treatment diets contained (on DM basis) 2% and 4% QTE (QTE2, QTE4), 1.5% and 3.0% AC (AC1.5, AC3.0) and a mixture of 2% QTE plus 1.5% AC (QTEAC). Samples of feed, refusals and faeces were analysed for chemical constituents; digesta passage was computed with a one‐compartment Gamma‐2 model from pulse‐dose application of ytterbium‐mordanted fibre and quantitative collection of faeces during 7 days. Compared to the control, organic matter and N digestibility were reduced with QTE2 and QTE4 (p ≤ 0.001), that of neutral and acid detergent fibre (NDFom, ADFom) decreased with QTE4, QTEAC and both AC treatments (p ≤ 0.001). Ruminal particle passage ranged from 0.051 h^?1 (QTEAC) to 0.056 h^?1 (control; p > 0.05). Apart from the correlation between total tract mean retention time and faecal C/N ratio (r = ?0.35), passage parameters did not affect faeces quality. While faecal N concentration was not altered by both additives, AC enhanced faecal NDFom, ADFom and C concentrations (p ≤ 0.001). Whereas feeding up to 3% AC might slow down the decomposition of manure in the field without negatively affecting the digestive physiology of goats, including QTE seems not advantageous from a physiological and nutrient recycling perspective.     

Impact of primary infection site of <Emphasis Type="Italic">Fusarium</Emphasis> species on head blight development in wheat ears evaluated by IR-thermography

The effect of the primary infection site by Fusarium graminearum and F. culmorum within wheat ears on Fusarium head blight (FHB) was investigated under controlled conditions. FHB development was assessed visually and thermographically following inoculation by: (i) spraying ears, or injecting inoculum into spikelets on (ii) tip, (iii) centre and (iv) base of the ears, separately. Fusarium infection significantly increased the temperature span within ears 6 days post inoculation (dpi), especially infections starting at the ear tip. The temperature difference between air and ear was negatively correlated to FHB severity and enabled disease detection even 29 dpi. F. culmorum caused significant higher disease severity neither reflected in the frequency of infected kernels nor in thousand kernel weight (TKW). Spray inoculations had the strongest effect on TKW, whereas tip inoculations had no effect. Centre and base inoculations had intermediate effects on TKW, although FHB levels did not differ with the same trend among inoculation scenarios. The overall low correlations among FHB severity, infected kernels and TKW are explained by the pathogen spread within ears – downwards more than upwards – and the effect on yield formation which is lower for infections of the upper parts of ears. An exponential model showed high goodness of fit for gradients of infected kernels within ears (R ²  ≥ 70) except tip infection with F. culmorum. This study confirmed that FHB is a function of the primary infection site within ears. Thermography was useful to differentiate among infection scenarios and may be applied in breeding for FHB resistance.     

Identifying obstacles and ranking common biological control research priorities for Europe to manage most economically important pests in arable,vegetable and perennial crops

EU agriculture is currently in transition from conventional crop protection to integrated pest management (IPM). Because biocontrol is a key component of IPM, many European countries recently have intensified their national efforts on biocontrol research and innovation (R&I), although such initiatives are often fragmented. The operational outputs of national efforts would benefit from closer collaboration among stakeholders via transnationally coordinated approaches, as most economically important pests are similar across Europe. This paper proposes a common European framework on biocontrol R&I. It identifies generic R&I bottlenecks and needs as well as priorities for three crop types (arable, vegetable and perennial crops). The existing gap between the market offers of biocontrol solutions and the demand of growers, the lengthy and expensive registration process for biocontrol solutions and their varying effectiveness due to variable climatic conditions and site‐specific factors across Europe are key obstacles hindering the development and adoption of biocontrol solutions in Europe. Considering arable, vegetable and perennial crops, a dozen common target pests are identified for each type of crop and ranked by order of importance at European level. Such a ranked list indicates numerous topics on which future joint transnational efforts would be justified. © 2016 Society of Chemical Industry     

First detection of Neoscytalidium dimidiatum associated with canker disease in Egyptian Ficus trees

In September 2013, a canker disease of Ficus nitida and F. benjamina was reported for the first time in Assiut governorate, Egypt. Infected samples were collected from various locations. Pure cultures of a fungus were isolated on potato dextrose agar at 25°C from diseased plants. Morphological investigation and DNA sequencing showed that the causal agent was Neoscytalidium dimidiatum. A pathogenicity test conducted using 2‐year‐old plants of each host gave 70%–80% infection, and the pathogen was reisolated from the inoculated plants. A pure culture of N. dimidiatum was deposited in the culture collection of the Assiut University Mycological Centre (AUMC) under the code AUMC 9293 and the ITS sequence was placed in NCBI under accession number KX985929 .     

Biodegradation Mechanism of Phenanthrene by Halophilic <Emphasis Type="Italic">Hortaea</Emphasis> sp. B15

This aim of the study is to investigate a halophilic bacterium Hortaea sp. B15, isolated from petroleum-contaminated soil for biodegradation of phenanthrene. Hortaea sp. B15 has the ability to completely degrade phenanthrene (100 mg/L) under salinity 10% within 1-week incubation. The metabolitic product of phenanthrene was identified and assayed by using ultraviolet-visible spectrophotometer and mass spectral analysis. Result revealed that Hortaea sp. B15 metabolized phenanthrene to form 9,10-phenanthrene quinone, salicylic acid, and gentisic acid. Hortaea sp. B15 has an efficient utilization of phenanthrene in high-saline liquid medium. All the results indicated that the fungus has a promising application for the study of high-molecular-weight PAH biodegradation and contaminated saline-alkali soil bioremediation.     

改进Faster R-CNN的田间苦瓜叶部病害检测

为实现在自然环境条件下对苦瓜叶部病害的目标检测,该研究提出了一种基于改进的更快速区域卷积神经网络（Faster Region with Convolutional Neural Network Features,Faster R-CNN）的苦瓜叶部病害目标检测方法。Faster R-CNN以残差结构卷积神经网络ResNet-50作为该次试验的特征提取网络,将其所得特征图输入到区域建议网络提取区域建议框,并且结合苦瓜叶部病害尺寸小的特点,对原始的Faster R-CNN进行修改,增加区域建议框的尺寸个数,并在ResNet-50的基础下融入了特征金字塔网络（Feature Pyramid Networks,FPN）。结果表明,该方法训练所得的深度学习网络模型具有良好的鲁棒性,平均精度均值（Mean Average Precision,MAP）值为78.85%;融入特征金字塔网络后,所得模型的平均精度均值为86.39%,提高了7.54%,苦瓜健康叶片、白粉病、灰斑病、蔓枯病、斑点病的平均精确率（Average Precision,AP）分别为89.24%、81.48%、83.31%、88.62%和89.28%,在灰斑病检测精度上比之前可提高了16.56%,每幅图像的检测时间达0.322 s,保证检测的实时性。该方法对复杂的自然环境下的苦瓜叶部病害检测具有较好的鲁棒性和较高的精度,对瓜果类疾病预防有重要的研究意义。