Initiation of bacterial spore germination

To investigate the problem of initiation in bacterial spore germination, we isolated, from extracts of dormant spores of Bacillus cereus strain T and B. licheniformis, a protein that initiated spore germination when added to a suspension of heat-activated spores. The optimal conditions for initiatory activity of this protein (the initiator) were 30 C in 0.01 to 0.04 m NaCl and 0.01 m tris(hydroxymethyl)aminomethane (pH 8.5). The initiator was inhibited by phosphate but required two co-factors, l-alanine (1/7 of K(m) for l-alanine-inhibited germination) and nicotinamide adenine dinucleotide (1.25 x 10(-4)m). In the crude extract, the initiator activity was increased 3.5-fold by heating the extract at 65 C for 10 min, but the partially purified initiator preparation was completely heat-sensitive (65 C for 5 min). Heat stability could be conferred on the purified initiator by adding 10(-3)m dipicolinic acid. A fractionation of this protein that excluded l-alanine dehydrogenase and adenosine deaminase from the initiator activity was developed. The molecular weight of the initiator was estimated as 7 x 10(4). The kinetics of germination in the presence of initiator were examined at various concentrations of l-alanine and nicotinamide adenine dinucleotide.     

Cell Cycle Dependency of Sporulation in Saccharomyces cerevisiae

The study of sporulation in Saccharomyces cerevisiae is complicated by the fact that not all cells in the population complete sporulation and that the kinetics of development of those which do are not synchronous. By separating vegetative cells by zonal rotor centrifugation into fractions of increasing cell volume and hence progressive stages of the vegetative cell cycle, it was possible to observe sporulation of more homogeneous, synchronous populations. The capacity of S. cerevisiae to complete sporulation is low for small single cells at the beginning of the cell cycle and is greatest for large budded cells about to divide. The capacity of a cell to complete sporulation thus appears to be directly related to the stage in the vegetative cell cycle from which it was taken. The use of synchronously sporulating cultures made it possible to examine very early decision events leading to the commitment of a cell to sporulation. In addition, differences in the capacity of a mother and daughter cell produced by cell scission were examined.     

Vertical Distribution of Corn Stover Dry Mass Grown at Several US Locations

Corn (Zea mays L.) stover was identified as a renewable non-food agricultural feedstock for production of liquid fuels, biopower, and other bioproducts, but it is also needed for erosion control, carbon sequestration, and nutrient cycling. To help balance these multiple demands, our objectives were to (1) determine height distribution of corn stover biomass, (2) quantify the percentage of stover that is corn cob, and (3) develop a general relationship between plant harvest height and stover remaining in the field for a broad range of growing conditions, soil types, and hybrids in different regions. Plant height, dry grain, stover, and cob yield data were collected at eight US locations. Overall, stover yield increased about 0.85 Mg ha^-1 and cob yield increased about 0.10 Mg ha^-1 for each 1.0 Mg ha^-1 increase in dry grain yield. At grain harvest, the stover-to-grain ratio ranged from 0.64 to 0.96 and cob-to-grain ratio ranged from 0.11 to 0.19. A strong nearly 1:1 linear (r ²?=?0.93) relationship between the relative cutting height and relative biomass remaining in the field was observed across all sites. These data were requested by the US Department of Agriculture-Natural Resource Conservation Service to help improve version 2 of the Revised Universal Soil Loss Equation (RUSLE2) and Wind Erosion Prediction System and better estimate corn stover harvest rates based on cutting height or selective organ harvest (e.g., grain and cob only). This information will improve the capacity of RUSLE2 and similar models to predict the erosion risk associated with harvesting corn residues.     

Pathogenic Role of SEF14, SEF17, and SEF21 Fimbriae in Salmonella enterica Serovar Enteritidis Infection of Chickens

Very little is known about the contribution of surface appendages of Salmonella enterica serovar Enteritidis to pathogenesis in chickens. This study was designed to clarify the role of SEF14, SEF17, and SEF21 fimbriae in serovar Enteritidis pathogenesis. Stable, single, defined sefA (SEF14), agfA (SEF17), and fimA (SEF21) insertionally inactivated fimbrial gene mutants of serovar Enteritidis were constructed. All mutant strains invaded Caco-2 and HT-29 enterocytes at levels similar to that of the wild type. Both mutant and wild-type strains were ingested equally well by chicken macrophage cell lines HD11 and MQ-NCSU. There were no significant differences in the abilities of these strains to colonize chicken ceca. The SEF14⁻ strain was isolated in lower numbers from the livers of infected chickens and was cleared from the spleens faster than other strains. No significant differences in fecal shedding of these strains were observed.     

Accuracy of genomic predictions in Bos indicus (Nellore) cattle

Background

Nellore cattle play an important role in beef production in tropical systems and there is great interest in determining if genomic selection can contribute to accelerate genetic improvement of production and fertility in this breed. We present the first results of the implementation of genomic prediction in a Bos indicus (Nellore) population.

Methods

Influential bulls were genotyped with the Illumina Bovine HD chip in order to assess genomic predictive ability for weight and carcass traits, gestation length, scrotal circumference and two selection indices. 685 samples and 320 238 single nucleotide polymorphisms (SNPs) were used in the analyses. A forward-prediction scheme was adopted to predict the genomic breeding values (DGV). In the training step, the estimated breeding values (EBV) of bulls were deregressed (dEBV) and used as pseudo-phenotypes to estimate marker effects using four methods: genomic BLUP with or without a residual polygenic effect (GBLUP20 and GBLUP0, respectively), a mixture model (Bayes C) and Bayesian LASSO (BLASSO). Empirical accuracies of the resulting genomic predictions were assessed based on the correlation between DGV and dEBV for the testing group.

Results

Accuracies of genomic predictions ranged from 0.17 (navel at weaning) to 0.74 (finishing precocity). Across traits, Bayesian regression models (Bayes C and BLASSO) were more accurate than GBLUP. The average empirical accuracies were 0.39 (GBLUP0), 0.40 (GBLUP20) and 0.44 (Bayes C and BLASSO). Bayes C and BLASSO tended to produce deflated predictions (i.e. slope of the regression of dEBV on DGV greater than 1). Further analyses suggested that higher-than-expected accuracies were observed for traits for which EBV means differed significantly between two breeding subgroups that were identified in a principal component analysis based on genomic relationships.

Conclusions

Bayesian regression models are of interest for future applications of genomic selection in this population, but further improvements are needed to reduce deflation of their predictions. Recurrent updates of the training population would be required to enable accurate prediction of the genetic merit of young animals. The technical feasibility of applying genomic prediction in a Bos indicus (Nellore) population was demonstrated. Further research is needed to permit cost-effective selection decisions using genomic information.     

Anion effects on the liver alcohol dehydrogenase reaction

The effects of various anions on the rate constant for dissociation of NADH from a binary complex with horse liver alcohol dehydrogenase were evaluated. Phosphate, sulfate, and fluoride had no effect, while nitrate and the other halide ions caused a three- to fourfold increase in the rate constant for NADH dissociation. These results indicate that a ternary enzyme-NADH-anion complex is formed, and from the anion concentration dependence the relative affinities are iodide greater than nitrate and bromide greater than chloride. At high salt concentrations, above 0.2 M, the rate constants for NADH dissociation decreased, which was attributed to a decrease in the activity coefficient of the reactants or "salting in." The rate constant for NADH dissociation from ternary complex with imidazole, which crystallizes in an orthorhombic form rather than triclinic, was also substantially enhanced by anions. This provides an indication that the enhancement is independent of the conformational state of the enzyme complex. Thus, the most likely explanation for the observed enhancement of NADH dissociation is anion interference with binding of the coenzyme pyrophosphate group, which does not occur with larger anions such as phosphate or sulfate. Since NADH dissociation partially limits the turnover of the enzyme, the effect of nitrate on steady-state turnover was determined. A twofold increase was observed at optimal levels of nitrate, at both substrate inhibitory and noninhibitory concentrations of ethanol.     

Genetic and physical analysis of the ilvBC-leu region in Bacillus subtilis

We describe the cloning of a 6.0-kb PstI fragment of the Bacillus subtilis genome which contains much of the ilvBC-leu gene cluster. This plasmid clone and two others that had been previously isolated were characterized physically and genetically to permit the construction of a physical map of this region that is correlated to the genetic map.     

Developmentally regulated expression of the beta 4 integrin on immature mouse thymocytes.

Integrins are a superfamily of alpha beta heterodimers, most of which serve as cell surface receptors for extracellular matrix proteins. In this report, we demonstrate that the recently described alpha 6 beta 4 integrin, previously thought to be limited to epithelial cells and Schwann cells, is expressed on immature mouse thymocytes. The presence of alpha 6 beta 4 is controlled by regulation of beta 4 expression, because alpha 6 was expressed by virtually all cells examined, paired with the beta 1 integrin chain to form VLA-6. During fetal ontogeny, beta 4 was highly expressed by 35% of day-13 thymocytes, 75% of day-14 to -15 thymocytes, then rapidly declined to low levels by birth. In neonates and adults, beta 4 expression was highest on CD4- CD8- CD3- and TCR(+)-gamma delta subsets. Correlation of IL-2R, CD44 and beta 4 on CD4- CD8- thymocytes revealed maximal levels on the intermediate CD44- IL-2R+ subset. Most CD4- CD8+ TCR- thymocytes and a significant fraction of CD4+ CD8+ thymocytes were beta 4lo, whereas the most mature J11d- single positive thymocytes were beta-4. Overall, down-regulation of beta 4 was associated with up-regulation of CD4, CD8, and CD3 in the thymus. alpha 6 beta 4 was undetectable on fetal liver or bone marrow cells, lymphocytes from lymph node, spleen, or blood, and mitogen-activated splenic T cells cultured up to 10 wk with IL-2. The data suggest that alpha 6 beta 4 is up-regulated after pro-T cells enter the thymus and may have a thymus-specific function for T cells. The developmentally regulated pattern of expression and the prominence of alpha 6 beta 4 on day-13 to -16 fetal and adult CD4- CD8- CD3- thymocytes further suggest this unusual integrin may play a role in early T cell development, including stages before acquisition of the TCR.