Genome-wide expression analysis of Saccharomyces pastorianus orthologous genes using oligonucleotide microarrays

The lager brewing yeast, Saccharomyces pastorianus, an allopolyploid species hybrid, contains 2 diverged sub-genomes; one derived from Saccharomyces cerevisiae (Sc-type) and the other from Saccharomyces bayanus (Sb-type). We analyzed the functional roles of these orthologous genes in determining the phenotypic features of S. pastorianus. We used a custom-made oligonucleotide microarray containing probes designed for both Sc-type and Sb-type ORFs for a comprehensive expression analysis of S. pastorianus in a pilot-scale fermentation. We showed a high degree of correlation between the expression levels and the expression changes for a majority of orthologous gene sets during the fermentation process. We screened the functional categories and metabolic pathways where Sc- or Sb-type genes have higher expression levels than the corresponding orthologous genes. Our data showed that, for example, pathways for sulfur metabolism, cellular import, and production of branched amino acids are dominated by Sb-type genes. This comprehensive expression analysis of orthologous genes can provide valuable insights on understanding the phenotype of S. pastorianus.     

Tracking and readout characteristics of a minute aperture mounted optical head slider flying above a chromium patterned medium

Recent rapid progress in a digital network society necessitates storage devices with higher-density and faster transfer rates. In optical storage, a novel recording principle is eagerly awaited that will drastically improve recording density without being restricted by a wavelength shortening limit or a numerical aperture (NA) limit of the optics utilized. Storage based on the “near-field” principle is thought to be one of the most promising breakthroughs for overcoming various limitations governing traditional optical recording. We have already proposed an integrated optical head slider assembly that relies on the novel near-field principle for its operation; it is mounted on a minute tapered aperture and has a planar focusing lens and a micro silicon mirror. Readout signals corresponding to a 200-nm-long bit have demonstrated a frequency band up to approximately 10 MHz, using a chromium patterned medium. In this study, we have investigated the accuracy of the tracking characteristics of an aperture-mounted head slider by using linearly arranged 1-mm-long line-and-space patterns. Based on the step or inverse step responses that occur when an aperture flies obliquely across the linearly arranged pattern region boundary, we present a simple method of predicting accurate tracking characteristics in detail, and also by using a 350-nm line-and-space pattern signal, we were able to predict both tracking characteristics and tracking sensitivities of arbitrary wide tracks to a track width of 100 nm.     

耐热/耐磨烧结合金发展趋势

粉末冶金的一个特殊优势是合金设计自由度高,因此,烧结合金广泛用于耐热与耐磨零件.主要产品对象是气门导管、阀座圈(VSI)及发动机排气系统的零件.近年来,为回应环境问题,发动机的使用性能在不断提高,这些零件的使用环境随之越益严苛,因此,就日益要求改进材料的耐磨性与其它性能.论述了近年来耐热／耐磨烧结材料的技术发展趋势,特...     

Comparative Genomic Analyses of the Genus Photobacterium Illuminate Biosynthetic Gene Clusters Associated with Antagonism

The genus Photobacterium is known for its ecophysiological versatility encompassing free-living, symbiotic, and pathogenic lifestyles. Photobacterium sp. CCB-ST2H9 was isolated from estuarine sediment collected at Matang Mangrove, Malaysia. In this study, the genome of CCB-ST2H9 was sequenced, and the pan-genome of 37 Photobacterium strains was analysed. Phylogeny based on core genes showed that CCB-ST2H9 clustered with P. galatheae, forming a distinct clade with P. halotolerans, P. salinisoli, and P. arenosum. The core genome of Photobacterium was conserved in housekeeping functions, while the flexible genome was well represented by environmental genes related to energy production and carbohydrate metabolism. Genomic metrics including 16S rRNA sequence similarity, average nucleotide identity, and digital DNA–DNA hybridization values were below the cut-off for species delineation, implying that CCB-ST2H9 potentially represents a new species. Genome mining revealed that biosynthetic gene clusters (BGCs) involved in producing antimicrobial compounds such as holomycin in CCB-ST2H9 could contribute to the antagonistic potential. Furthermore, the EtOAc extract from the culture broth of CCB-ST2H9 exhibited antagonistic activity against Vibrio spp. Intriguingly, clustering based on BGCs profiles grouped P. galatheae, P. halotolerans, P. salinisoli, P. arenosum, and CCB-ST2H9 together in the heatmap by the presence of a large number of BGCs. These BGCs-rich Photobacterium strains represent great potential for bioactive secondary metabolites production and sources for novel compounds.     

Roles of Macrophages in Advanced Liver Fibrosis,Identified Using a Newly Established Mouse Model of Diet-Induced Non-Alcoholic Steatohepatitis

Macrophages play critical roles in the pathogenesis of non-alcoholic steatohepatitis (NASH). However, it is unclear which macrophage subsets are critically involved in the development of inflammation and fibrosis in NASH. In TSNO mice fed a high-fat/cholesterol/cholate-based diet, which exhibit advanced liver fibrosis that mimics human NASH, we found that Kupffer cells (KCs) were less abundant and recruited macrophages were more abundant, forming hepatic crown-like structures (hCLS) in the liver. The recruited macrophages comprised two subsets: CD11c⁺/Ly6C⁻ and CD11c⁻/Ly6C⁺ cells. CD11c⁺ cells were present in a mesh-like pattern around the lipid droplets, constituting the hCLS. In addition, CD11c⁺ cells colocalized with collagen fibers, suggesting that this subset of recruited macrophages might promote advanced liver fibrosis. In contrast, Ly6C⁺ cells were present in doughnut-like inflammatory lesions, with a lipid droplet in the center. Finally, RNA sequence analysis indicates that CD11c⁺/Ly6C⁻ cells promote liver fibrosis and hepatic stellate cell (HSC) activation, whereas CD11c⁻/Ly6C⁺ cells are a macrophage subset that play an anti-inflammatory role and promote tissue repair in NASH. Taken together, our data revealed changes in liver macrophage subsets during the development of NASH and shed light on the roles of the recruited macrophages in the pathogenesis of advanced fibrosis in NASH.