An alternative menaquinone biosynthetic pathway operating in microorganisms

In microorganisms, menaquinone is an obligatory component of the electron-transfer pathway. It is derived from chorismate by seven enzymes in Escherichia coli. However, a bioinformatic analysis of whole genome sequences has suggested that some microorganisms, including pathogenic species such as Helicobacter pylori and Campylobacter jejuni, do not have orthologs of the men genes, even though they synthesize menaquinone. We deduced the outline of this alternative pathway in a nonpathogenic strain of Streptomyces by bioinformatic screening, gene knockouts, shotgun cloning with isolated mutants, and in vitro studies with recombinant enzymes. As humans and commensal intestinal bacteria, including lactobacilli, lack this pathway, it represents an attractive target for the development of chemotherapeutics.     

High-resolution linkage mapping of the rat hooded locus

To identify a gene responsible for the hooded phenotype in the rat, high-resolution linkage mapping for the hooded locus was performed using IS (non-hooded) and LEA (hooded) rats. The map revealed that only Kit gene existed in the critical region, suggesting that the Kit is a strong candidate gene. However, mutation was not found in the coding region of the LEA rat Kit gene. Further, the expressions of Kit mRNA were not different in fetal neural tubes and both neonatal and adult skins between IS and LEA rats. Furthermore, Kit-positive cells, possibly melanocytes, were found in the non-pigmented hair follicles of hooded phenotype rats. Several hypotheses are conceivable to account for mechanisms in the appearance of hooded phenotype.     

Influence of using texture information in remote sensed data on the accuracy of forest type classification at different levels of spatial resolution

We evaluated the influence of texture information from remote sensed data on the accuracy of forest type classification at different spatial resolutions. We used 4-m spatial resolution imagery to create five different sets of imagery with lower spatial resolutions down to 30 m. We classified forest type using spectral information alone, texture information alone, and spectral and texture information combined at each spatial resolution, and compared the classification accuracy at each resolution. The classification and regression tree method was used for classification. The accuracy of all three tests decreased slightly with lower spatial resolution. The accuracy with the combined data was generally higher than with either the spectral or texture information alone. At most resolutions, the lowest accuracy was with texture information alone. However, there was no clear difference in accuracy between the combined data and spectral data alone at 25- and 30-m spatial resolution. These results indicate that adding texture information to spatial information improves the accuracy of forest type classification from very high resolution (4-m spatial resolution) to medium resolution imagery (20-m spatial resolution), but this accuracy improvement does not appear to hold for relatively coarse resolution imagery (25- to 30-m spatial resolution).     

Root response to aerobic conditions in rice,estimated by Comair root length scanner and scanner-based image analysis

Precise evaluation of root system architecture is important for understanding how rice plants are adapted to non-puddled and non-flooded conditions in aerobic culture. The objective of this study was to compare estimates of root length by the Comair root length scanner and a flat bed scanner and image analysis software in rice grown in aerobic, near-saturated and flooded fields. Fine roots (diameter < 0.2 mm) accounted for >80% of root length in all hydrological conditions. The Comair root length scanner detected fewer fine roots than the software; root length estimated by the Comair scanner was between that of roots wider than 0.1 mm and roots wider than 0.2 mm estimated by image analysis software. Importantly, total root length under aerobic and near-saturated conditions was 10–30% of that under flooding by image analysis software, but not by the Comair scanner. Digital image analysis detected genotypic differences in fine root development in the subsurface layer in aerobic culture that the Comair root length scanner would have missed. Although root length measurement by image analysis software is still under development, this new tool will facilitate the phenotyping of root system architecture and shed light on the roles of fine roots in water-saving rice cultivation.     

Effect of settings of digital fisheye photography to estimate relative illuminance within forest under low light conditions

In order to evaluate the effects of settings of digital fisheye photography on estimates of relative illuminance (RI) within a forest under low light conditions, we assessed the effectiveness of some estimators, i.e., canopy openness (CO), sky factor (SF), and diffuse transmittance (DIF). The estimates were calculated from digital hemispherical photographs taken with two different exposure settings, i.e., the reference exposure setting and the auto-exposure setting. We also presented a new estimator (%Exposure), which does not require image analysis, and compared it with other estimators calculated from a digital hemispherical photograph using image analysis. The CO, SF, and DIF calculated from digital hemispherical photographs taken with auto-exposure setting were not significantly correlated with RI. However, those calculated from digital hemispherical photographs taken with reference exposure settings were significantly correlated with RI. On the other hand, %Exposure showed a slightly higher correlation with RI compared with the other estimators.     

Postharvest anthracnose on Satsuma mandarin orange caused by <Emphasis Type="Italic">Colletotrichum fioriniae</Emphasis>

In early January 2015–2017, anthracnose was detected on Satsuma mandarin orange (SMO) (Citrus unshiu) fruits kept in farmers’ storage rooms in Saga Prefecture, Japan. Three single-spore isolates from rotten fruits reproduced the postharvest anthracnose symptoms in wound-inoculated SMO fruits and were re-isolated from lesions. The isolates were identified as Colletotrichum fioriniae based on conidial morphology, culture characteristics, rDNA-ITS, and beta-tubulin-2 gene sequences. This is the first report of postharvest anthracnose on SMO caused by C. fioriniae.     

Successful production of blastocysts following ultrarapid vitrification with step-wise equilibriation of germinal vesicle-stage mouse oocytes

The purpose of this study was to evaluate the viability and subsequent developmental ability of murine germinal vesicle (GV) oocytes ultrarapidly vitrified after step-wise exposure to cryoprotectants (CPAs). Oocytes were transferred to a vitrification solution composed of 15% ethylene glycol, 15% dimethyl sulfoxide and 0.5 M sucrose in a direct manner (non-preequilibrium) or in a step-wise manner (single-, two-, or ten-step preequilibrium). After ultrarapid vitrification and storage in liquid nitrogen, the oocytes were thawed, washed by diluting the CPAs in five steps, and then subjected to in vitro maturation, fertilization and culture. In the non-preequilibrium group, the rates of post-thawed oocytes surviving, maturing to metaphase-II, developing to blastocysts and to hatching/hatched blastocysts were 91.8, 87.1, 15.9 and 2.3%, respectively. In the single- and two-step groups, the corresponding rates were 97.0-98.2%, 92.2-95.0%, 22.0-29.4% and 8.8-15.6%, whereas in the ten-step group they were 98.2, 91.8, 38.6 and 22.8%, respectively. In the non-vitrified control group, the rates of oocytes maturing to metaphase-II, developing to blastocysts and to hatching/hatched blastocysts were 90.2, 75.2 and 51.5%, respectively. The present study shows that the ultrarapid vitrification of murine GV oocytes by a step-wise manner involving 10 steps preequilibrium may have an advantage in maintaining the viability and subsequent production of blastocysts.     

Ecological characterization of three different phylogenetic groups belonging to the cellulolytic bacterial species Fibrobacter succinogenes in the rumen

To study the group‐dependent ecology of Fibrobacter succinogenes in the rumen, real‐time polymerase chain reaction assays for two phylogenetic groups (groups 2 and 3) of F. succinogenes were newly established and applied to rumen samples. Both the assays targeting the bacterial 16S rDNA were sensitive and accurate, showing wide quantifiable ranges (10⁴?10⁹ and 10²?10⁹ copies of 16S rDNA) and high recoveries of known amounts of added DNA (96.9 and 98.0%). The quantity of group 1 was confirmed to be numerable by subtracting assay values of groups 2 and 3 from that of F. succinogenes species (groups 1–3). By using the developed assays and the above subtractive calculation, the quantities of all three groups were evaluated in solid and liquid fractions of the rumen content and also on hay stems. In the solid fraction, groups 1 and 2 were abundantly present, compared with group 3 (P < 0.05). On untreated hay stems, group 1 was dominant throughout 48 h. In addition, group 1 showed growth even on the cellulase‐treated hay stems, unlike the other two groups. These results suggest that F. succinogenes group 1 greatly contributes to rumen fiber digestion, even for less degradable materials.     

Comparative observations of the growth changes of the histochemical properties and collagen architecture of the iliotibialis lateralis muscle from Silky, layer and meat type cockerels

Growth‐related changes in the histochemical property and collagen architecture of the iliotibialis lateralis muscle were compared among Silky, layer and meat cockerels. Histochemical and immunohistochemical methods were employed to observe the collagen architecture. The total intramuscular collagen was also determined. The muscle consisted of type IIA, IIB and IIC myofibers, of which type IIB occurred at the highest frequency. The diameter of type IIB myofibers in each week was largest in the layer, followed by the meat, and was smallest in the Silky. The total amount of collagen reached 3.38 mg/g in the meat bird, 3.03 mg/g in the layer and 2.71 mg/g in the Silky by 30 weeks of age, respectively. In the perimysium, the collagen bundles increased in size and density of fibrils with growth. At 30 weeks of age the layer had compact collagen platelets while the Silky had loose collagen bundles. In the meat bird, the collagen bundles were moderately compact. The endomysial collagen network had a large mesh size at 1 week and thereafter accumulated many collagen fibrils to form a felt‐like fabric of fibrils at 30 weeks of age. From these results it appears that growth‐related changes in the iliotibialis lateralis muscle are not necessarily causally affected by the different growth rates of chicken breeds.     

Calibrating view angle and lens distortion of the Nikon fish-eye converter FC-E8

Recently, an inexpensive digital camera that can equip with a fish-eye converter lens, FC-E8, has been available from Nikon. The converter has more than 180° view angle and lens distortion. The objectives of the present study were to develop a procedure for calibrating the view angle and lens distortion of the fish-eye converter, and to examine the effect of the calibration on light environment estimates. Based on unpublished data provided by the Electric Image Technical Center of Nikon, a 12-order poly-nomial expression for the calibration was derived. The expression enabled us to calibrate the view angle and lens distortion for all selectable resolution digital images. Using a Nikon Coolpix 990 digital camera with the fish-eye converter, 105 hemispherical photographs were taken in 15 stands, and then the canopy cover and weighted openness were measured as the light environment estimates. The calibrated estimates were significantly higher than uncalibrated ones, but the differences were comparatively small, with the average differences being 0.658% for canopy cover and 0.344% for weighted openness. A strongly positive correlation between calibrated and uncalibrated estimates was observed. Both slope and intercept of the regression lines of the calibrated estimate against the uncalibrated one were significantly different between canopy cover and weighted openness, suggesting that the calibration effect would be different among light environment estimates. In conclusion, we should pay attention to the view angle and lens distortion of the fish-eye converter in estimating light environments using the Coolpix digital camera.