Comparative genomics of Brassicaceae crops

The family Brassicaceae is one of the major groups of the plant kingdom and comprises diverse species of great economic, agronomic and scientific importance, including the model plant Arabidopsis. The sequencing of the Arabidopsis genome has revolutionized our knowledge in the field of plant biology and provides a foundation in genomics and comparative biology. Genomic resources have been utilized in Brassica for diversity analyses, construction of genetic maps and identification of agronomic traits. In Brassicaceae, comparative sequence analysis across the species has been utilized to understand genome structure, evolution and the detection of conserved genomic segments. In this review, we focus on the progress made in genetic resource development, genome sequencing and comparative mapping in Brassica and related species. The utilization of genomic resources and next-generation sequencing approaches in improvement of Brassica crops is also discussed.     

Leaf chlorophyll fluorescence discriminates herbicide resistance in Echinochloa species

Timely detection of herbicide resistance at an early stage of crop cultivation is essential to help farmers find alternative solutions to manage herbicide resistance in their fields. In this study, maximum quantum yield of PS II [F_v/F_m = (F_m – F_o)/F_m] was measured at the 4–5 leaf stage to discriminate between herbicide‐resistant and susceptible biotypes of Echinochloa species. The differences in F_v/F_m between herbicide‐resistant and susceptible Echinochloa spp. were consistent with the whole‐plant assay based on I₅₀ (herbicide doses causing a 50% inhibition of F_v/F_m) and GR₅₀ (herbicide doses causing a 50% reduction in plant fresh weight) values and R/S ratios (herbicide resistance index), regardless of the mode of action of the tested herbicides. A PS II inhibitor caused the fastest inhibition of F_v/F_m, compared with ACCase and ALS inhibitors, after herbicide treatment. The required time for discrimination between herbicide‐resistant and susceptible Echinochloa spp. was 64 h after PS II inhibitor treatment, much shorter than those of ACCase and ALS inhibitor‐treated plants, which required 168 and 192 h respectively. The leaf chlorophyll fluorescence assay provided reliable diagnostics of herbicide resistance in Echinochloa spp. with significant time savings and convenient measurement in field conditions compared with the conventional whole‐plant assay.     

Cytogenetic analysis of hybrids and hybrid triploids between the river puffer,Takifugu obscurus,and the tiger puffer,Takifugu rubripes

Cytogenetic analyses of the river puffer, Takifugu obscurus, the tiger puffer, Takifugu rubripes and hybrids produced between female T. obscurus and male T. rubripes and their hybrid triploids (produced by cold shock treatment at 4°C) were performed. T. obscurus had 2n = 44 chromosomes and 1.84 ± 0.019 pg DNA/cell, T. rubripes had 2n = 44 and 2.64 ± 0.015, the hybrids had 2n = 44 and 2.15 ± 0.010 and the hybrid triploids had 3n = 66 and 3.22 ± 0.010. The erythrocyte values of the hybrids were more similar to those for T. obscurus, whereas the hepatocyte, midgut and proximal tubule kidney cell values of the hybrids fell down between those for the parental species (p < .05). The erythrocyte, proximal tubule, hepatocyte and midgut epithelial cell sizes for the hybrid triploids were 1.5‐fold larger than those for the hybrids (p < .05). The thickness of retina and each layer in the hybrid triploids were 1.1‐fold larger than those of the hybrids (p < .05) and did not differ significantly among T. obscurus, T. rubripes and the hybrids (p > .05); however, the hybrid triploids had fewer cell nucleus outer layers than the hybrids (p < .05). Gonad development in the hybrids and hybrid triploids was less matured than in T. obscurus and T. rubripes. The metaphase nucleolus organizer regions (NORs) and the gill cells of T. obscurus, T. rubripes and the hybrids contained two satellite telocentrics, whereas the hybrid triploids contained three satellite telocentrics.     

Remarkably high ingestion ratio of acidic food in juvenile marble goby,Oxyeleotris marmorata

International Aquatic Research - Behavioral test was conducted to determine the level of food pH which was preferable by the juvenile marble goby, Oxyeleotris marmorata (50 individuals or...     

Effects of dietary inclusion of various concentrations of Scutellaria baicalensis Georgi extract on growth,body composition,serum chemistry and challenge test of far eastern catfish (Silurus asotus)

Effects of various concentrations of Scutellaria baicalensis (SB) extract in diets on growth, body composition, serum chemistry and disease challenge test of far eastern catfish (Silurus asotus) were determined and compared with a commercially available immune enhancer. Eight experimental diets were prepared in triplicate: control (Con) diet without supplementation of SB and SB‐0.25, SB‐0.5, SB‐1, SB‐2, SB‐3 and SB‐5 diets containing SB at concentrations of 0.25, 0.5, 1, 2, 3 and 5%, respectively. In addition, 0.1% of a commercial immune enhancer product (CP) was also tested. No significant difference in weight gain of fish was found. Feed consumption, feed efficiency ratio and protein retention of fish were not affected by the experimental diets. At the end of the 8‐week feeding trial, 10 externally normal fish from each tank were infected by Vibrio anguillarum or Strepotococcus iniae. Cumulative mortality of fish fed the Con diet was higher than that of fish fed the all other diets in 10 and 25 days after V. anguillarum or S. iniae infection. Results of this study indicated that dietary inclusion of SB extract was effective in improving survival of eastern catfish after V. anguillarum and S. iniae infection, but the various concentrations of SB did not affect fish performance.     

Basic reproduction number of African swine fever in wild boars (Sus scrofa) and its spatiotemporal heterogeneity in South Korea

BackgroundAfrican swine fever (ASF) is a hemorrhagic fever occurring in wild boars (Sus scrofa) and domestic pigs. The epidemic situation of ASF in South Korean wild boars has increased the risk of ASF in domestic pig farms. Although basic reproduction number (R₀) can be applied for control policies, it is challenging to estimate the R₀ for ASF in wild boars due to surveillance bias, lack of wild boar population data, and the effect of ASF-positive wild boar carcass on disease dynamics.ObjectivesThis study was undertaken to estimate the R₀ of ASF in wild boars in South Korea, and subsequently analyze the spatiotemporal heterogeneity.MethodsWe detected the local transmission clusters using the spatiotemporal clustering algorithm, which was modified to incorporate the effect of ASF-positive wild boar carcass. With the assumption of exponential growth, R₀ was estimated for each cluster. The temporal change of the estimates and its association with the habitat suitability of wild boar were analyzed.ResultsTotally, 22 local transmission clusters were detected, showing seasonal patterns occurring in winter and spring. Mean value of R₀ of each cluster was 1.54. The estimates showed a temporal increasing trend and positive association with habitat suitability of wild boar.ConclusionsThe disease dynamics among wild boars seems to have worsened over time. Thus, in areas with a high elevation and suitable for wild boars, practical methods need to be contrived to ratify the control policies for wild boars.     

Utilization of waste paper for an environmentally friendly slow-release fertilizer

To help address the physical, chemical, and biological degradation of agricultural soils resulting from indiscriminate use of chemical fertilizers, we developed a slow-release fertilizer from waste paper and urea. This approach has the advantage of a slow-release fertilizer in that it avoids surface runoff or leaching of nutrients, while providing an excellent medium for the recycling of waste paper. The successful impregnation of urea into waste paper was confirmed by scanning electron microscopy. This study also evaluated the release patterns of N from impregnated waste paper using a simulated soil solution and distilled water as leaching solutions. The release patterns of N were examined in both static and continuous-flow conditions for 720 h. Release of N from impregnated waste paper was found to be slow and steady, although the release rate of N was lower in distilled water than soil solution under both conditions. Part of this report was pesented at the Korean Society of Wood Science and Technology in Korea, April 2007, and the 3rd International Conference on Environmental Science and Technology in Houston, USA, August 2007     

Characteristics of ammonia and carbon dioxide releases from layer hen manure

1.?Ammonia (NH₃) is an important gaseous pollutant generated from manure in commercial poultry farms and has been an environmental, ecological, and health concern. Poultry manure also releases carbon dioxide (CO₂), which is a greenhouse gas and is often used as a tracer gas to calculate building ventilation.

2.?A 38-d laboratory study was conducted to evaluate the characteristics of NH₃ and CO₂ releases from layer hen manure using 4 manure reactors (122 cm tall, 38 cm internal diameter), which were initially filled with 66 cm deep manure followed by weekly additions of 5 cm to simulate manure accumulation in commercial layer houses.

3.?The average daily mean (ADM) NH₃ and CO₂ release fluxes for the 4 reactors during the entire study were 161?5 ± 21?1 µg/s.m² (ADM ± 95% confidence interval) and 10?0 ± 0?3 mg/s.m², respectively. The daily mean NH₃ and CO₂ releases in individual reactors varied from 35?2 to 679?1 µg/s.m² and from 6?6 to 20?5 mg/s.m², respectively.

4.?The ADM NH₃ release flux was within the range of those obtained in 4 high-rise layer houses by Liang et al. (2005 Liang, Y, Xin, H, Wheeler, EF, Gates, RS, Li, H, Zajaczkowski, JS, Topper, PA, Casey, KD, Behrends, BR, Burnham, DJ and Zajaczkowski, FJ. 2005. Ammonia emissions from US laying hen houses in Iowa and Pennsylvania. Transactions of the ASAE, 48: 1927–1941. [Crossref] [Google Scholar], Transactions of the ASAE, 48). However, the CO₂ release flux in this study was about 10 to 13 times as high as the data reported by Liang et al. (2005 Liang, Y, Xin, H, Wheeler, EF, Gates, RS, Li, H, Zajaczkowski, JS, Topper, PA, Casey, KD, Behrends, BR, Burnham, DJ and Zajaczkowski, FJ. 2005. Ammonia emissions from US laying hen houses in Iowa and Pennsylvania. Transactions of the ASAE, 48: 1927–1941. [Crossref] [Google Scholar]). Fresh manure had greater NH₃ release potential than the manure in the reactors under continuous ventilation. Manure with higher contents of moisture, total nitrogen, and ammonium in the 4th weekly addition induced 11 times higher NH₃ and 75% higher CO₂ releases immediately after manure addition compared with pre-addition releases.     

Insecticidal activities of crude extracts and phospholipids from Chenopodium ficifolium against melon and cotton aphid, Aphis gossypii

Several organic solvent extracts of Chenopodium ficifolium were tested for their insecticidal activity against melon and cotton aphid, Aphis gossypii, on cucumber plants. Both methanol and ethanol extracts, at 5000 μg ml⁻¹, were highly active giving over 80% control. The other crude extracts displayed moderate or weak insecticidal activity giving control in the range of 16–69%. Two phospholipids were isolated as insecticidal active substances from C. ficifolium. Their chemical structures were identified as 1-palmitoyl-2-(3-trans)-hexadecenoyl-sn-glycero-3-phosphoglycerol and 1-palmitoyl-2-linoleoyl-3-glycerophosphocholine by GC–MS, EDS, mass and NMR spectral analyses. Both compounds displayed a dose-dependent mortality of A. gossypii. Furthermore, the liquid formulation that was obtained by partitioning with n-hexane from the methanol extract of C. ficifolium controlled melon and cotton aphid on cucumber plants effectively. These results indicate that extracts of C. ficifolium have potential for development as botanical insecticides for controlling A. gossypii infesting cucumber plants.