CRISPR/Cas9-Targeted Knockout of Rice Susceptibility Genes OsDjA2 and OsERF104 Reveals Alternative Sources of Resistance to Pyricularia oryzae

Rice genes OsDjA2 and OsERF104, encoding a chaperone protein and an APETELA2/ ethylene-responsive factor, respectively, are strongly induced in a compatible interaction with blast fungus, and also have function in plant susceptibility validated through gene silencing. Here, we reported the CRISPR/Cas9 knockout of OsDjA2 and OsERF104 genes resulting in considerable improvement of blast resistance. A total of 15 OsDjA2 (62.5%) and 17 OsERF104 (70.8%) T₀ transformed lines were identified from 24 regenerated plants for each target and used in downstream experiments. Phenotyping of homozygous T₁ mutant lines revealed not only a significant decrease in the number of blast lesions but also a reduction in the percentage of diseased leaf area, compared with the infected control plants. Our results supported CRISPR/Cas9-mediated target mutation in rice susceptibility genes as a potential and alternative breeding strategy for building resistance to blast disease.     

稻瘟病菌株CH63和TH16杂交组合的遗传图谱构建及无毒基因定位

 测定了CH63和TH16杂交后代（F1代子囊孢子群体）在36个水稻品种上的致病性，依据F1代子囊孢子群体在不同品种上的无毒性/毒性表型和SSR、SCAR和RAPD等分子标记的多态性位点共分离构建了稻瘟病菌的遗传图谱。图谱共有151个标记位点，7个连锁群，全长1038.4 cM。由杂交后代在不同品种上的无毒性/毒性分离鉴定出CH63菌株持有多个无毒基因，在该遗传图谱中初步定位了Avr2 K59、Avr C105TTP1、Avr Zh156、Avr Xuan1641、Avr Xuan6392和Avr C103TTP 6个无毒基因，分别定位在第1、第4和第7染色体上。     

FTIR spectroscopy and multivariate analysis can distinguish the geographic origin of extra virgin olive oils

This work investigates whether Fourier transform infrared spectroscopy (FTIR), in combination with multivariate analysis, can distinguish extra virgin olive oils from different producing countries. Duplicate spectra were collected from 60 oils from four European countries. Two approaches to data analysis were used as follows: first, the "whole spectrum" method of partial least squares (PLS) followed by distance-based linear discriminant analysis (LDA) applied to the PLS scores, and second, a genetic algorithm (GA) for variate selection from the raw data, followed by LDA applied to the selected subset. The PLS-LDA approach produced a cross-validation success rate of 96%, whereas the GA-LDA approach achieved a 100% cross-validation success rate, from subsets comprising only eight variates. Neither the selected variate nor the whole spectrum approach was able to offer insight into the origin of the discrimination in biochemical terms. However, FTIR analysis is rapid, and this work shows that it has the required discriminatory power to potentially offer a "black box" method of screening oils to verify their country of origin.     

Screening for new sources of resistance to Clavibacter michiganensis subsp. michiganensis (Cmm) in tomato

Bacterial canker of tomato, caused by Clavibacter michiganensis subsp. michiganensis (Cmm), is considered the most serious bacterial threat, resulting in high damages in production areas. Worldwide, Cmm is subjected to quarantine regulations.There is no cultivar in market containing Cmm resistance genes. This project aimed to screen tomatoes or wild relatives of tomato for resistance to Cmm, to be used for starting breeding programs. We have screened 24 different wild accessions of tomato and found several new tolerant sources: Solanum pimpinellifolium GI.1554, S. parviflorum LA735 and S. parviflorum LA2072. We also confirmed the tolerance which was reported previously in S. peruvianum LA2157, S. peruvianum PI127829, S. peruvianum LA385, S. habrochaites LA407 and S. lycopersicum cv. IRAT L3. No immunity was found. Also accessions showing a low disease score still contained high titers of bacteria as determined by a dilution plating method, using tow selective media. These results were confirmed with a TaqMan real time PCR assay, which was developed to determine and quantify Cmm in planta.     

Pleiotropic effects of herbicide‐resistance genes on crop yield: a review

The rapid adoption of genetically engineered herbicide‐resistant crop varieties (HRCVs)—encompassing 83% of all GM crops and nearly 8% of the worldwide arable area—is due to technical efficiency and higher returns. Other herbicide‐resistant varieties obtained from genetic resources and mutagenesis have also been successfully released. Although the benefit for weed control is the main criteria for choosing HRCVs, the pleiotropic costs of genes endowing resistance have rarely been investigated in crops. Here the available data of comparisons between isogenic resistant and susceptible varieties are reviewed. Pleiotropic harmful effects on yield are reported in half of the cases, mostly with resistance mechanisms that originate from genetic resources and mutagenesis (atrazine in oilseed rape and millet, trifluralin in millet, imazamox in cotton) rather than genetic engineering (chlorsulfuron and glufosinate in some oilseed rape varieties, glyphosate in soybean). No effect was found for sethoxydim and bromoxynil resistance. Variable minor effects were found for imazamox, chlorsulfuron, glufosinate and glyphosate resistance. The importance of the breeding plan and the genetic background on the emergence of these effects is pointed out. Breeders' efforts to produce better varieties could compensate for the yield loss, which eliminates any possibility of formulating generic conclusions on pleiotropic effects that can be applied to all resistant crops. © 2013 Society of Chemical Industry     

Effect of management on reproductive performances of the Achai cattle in the Hindu Kush (Northern Pakistan)

This study evaluates the effect of management on the undocumented Achai cattle reproductive performance in transhumant farming systems (TFS) and in sedentary farming systems (SFS) in northwestern Pakistan. Data were collected from 172 households in TFS and 270 households in SFS to analyze the effect of farming systems, parity, and calving season on key reproductive traits. The results show that farming systems significantly affect pubertal age, while parity has no significant effect on any of the key traits. The calving season significantly affects the postpartum anoestrus interval in TFS only. More than 50% of the cows in both systems have postpartum anoestrus intervals and calving intervals within the recommended values for cows in tropical countries. Achai cows have high first-service conception rates (70% and 71% for TFS and SFS, respectively) and require a relatively small number of services per conception (1.53 ± 0.06 and 1.48 ± 0.05 SE for TFS and SFS, respectively). This local breed thus warrants conservation under both farming systems.     

A physiologically based pharmacokinetic model for chickens exposed to feed supplemented with monensin during their lifetime

We developed a flow‐limited physiologically based pharmacokinetic model for residues of monensin in chickens and evaluated its predictive ability by comparing it with an external data set describing concentration decays after the end of treatment. One advantage of this model is that the values for most parameters (34 of 38) were taken directly from the literature or from field data (for growth and feed intake). Our model included growth (changes in body weight) to describe exposure throughout the life of the chicken. We carried out a local sensitivity analysis to evaluate the relative importance of model parameters on model outputs and revealed the predominant influence of 19 parameters (including three estimated ones): seven pharmacokinetic parameters, five physiological parameters and seven animal performance parameters. Our model estimated the relative bioavailability of monensin as feed additive at 3.9%, which is even lower than the absolute bioavailability in solution (29.91%). Our model can be used for extrapolations of farming conditions, such as monensin supplementation or building lighting programme (which may have a significant impact for short half‐life molecules such as monensin). This validated PBPK model may also be useful for interspecies extrapolations or withdrawal period calculations for modified dosage regimens.     

Pathogenicity and aggressiveness in populations of <Emphasis Type="Italic">Pseudomonas syringae</Emphasis> from Belgian fruit orchards

The pathogenicity of 99 Belgian Pseudomonas syringae strains representative of the genetic diversity encountered in Belgian fruit orchards was evaluated by using 17 pathogenicity tests conducted on pear, cherry, plum, lilac, sugar beet and wheat. The P. syringae pv. morsprunorum strains were pathogenic to stone fruit species but the race 1 strains possessing the cfl gene involved in coronatine production were pathogenic in more tests than those lacking the gene. Also, sweet cherry twigs were a better material to detect pathogenic strains of race 1 and sour cherry twigs of race 2, which accorded with race 2 presence in sour cherry orchards in Belgium. Three groups were defined in the pv. syringae based on pathogenicity. One group pathogenic in 71.1% of the tests and to lilac included toxic lipodesipeptide-producing (TLP+) strains. The second group pathogenic in 26.8% of the tests and non-pathogenic to lilac included TLP+ strains. The thirth group pathogenic in 9.1% of the tests and almost specifically pathogenic to pear included TLP− strains. The three groups were genetically heterogeneous. Although strain-host relationships were noted within the pv. syringae, aptata and atrofaciens when considering the strain origins, such relationships were not found in the pathogenicity tests, suggesting that pathogenicity tests could probably not reproduce all the aspects of the host-pathogen interactions. None of the pathogenicity tests was able to provide all the information provided by the complete study. A test on pear buds indicated that strains different from the pv. syringae were pathogenic to pear.     

Contamination of Urban Soils in an Area of Northern France Polluted by Dust Emissions of Two Smelters

The contamination of 27 urban topsoils has been assessed around two lead and zinc smelters (Metaleurop Nord and Umicore) in the North of France. Eighteen trace elements have been analysed (Ag, As, Bi, Cd, Co, Cr, Cu, Hg, In, Ni, Pb, Sb, Se, Sn, Tl, Th, U and Zn). The investigation included the study of the vertical distribution of Cd, Pb and Zn as indicators of pollution. It was shown that Cd, In, Pb, Sb and Zn were major pollutants followed in lesser quantities by Ag, Bi, Cu and Hg. In addition, As, Ni, Se, Sn and Tl were present at levels slightly higher than regional agricultural values. The other elements (Co, Cr, Th and U) were at endogenous levels. The observations have highlighted the strong heterogeneity of the physico-chemical parameters of urban soils and the existence of heavy contamination of the under layers by Cd, Pb and Zn. A potential transfer of metals from the topsoil to the deeper layers and especially Cd and Zn, is not excluded. Indeed the soil rework is not the only factor explaining contamination level of the deeper layers of the studied soils. The comparison of the studied element concentrations in urban soils with nearby local agricultural values shows that the dust emission originating from the Metaleurop and Umicore smelters were not the only source of contamination. Thus a large contamination of the studied urban soils by Sb and In could be explained by domestic combustion of coal for heating.