Purine and pyrimidine bases as growth substances for lactic acid bacteria

In 1936 Richardson (1) showed that uracil was essential for the anaerobic growth of Staphylococcus aureus, but not for aerobic growth of the same organism. Of five strains tested three required uracil, while one required both guanine and uracil for growth. Thymine or cytosine did not replace uracil for this organism. These experiments suggested that hydrolytic products of nucleic acids might become factors limiting growth of various organisms under certain conditions. Bonner and Haagen-Smit (2) in 1939 showed that adenine greatly stimulated growth of leaves under defined conditions, while Möller (3) showed that adenine was required for growth of Streptobacterium plantarum. Pappenheimer and Hottle (4) recently showed that adenine was necessary for the growth of a strain of Group A hemolytic streptococci; it could be replaced by hypoxanthine, guanine, anthine, guanylic acid or adenylic acid. They made the very interesting observation that adenine was unnecessary for growth of this organism if the carbon dioxide tension was maintained at a sufficiently high level

Rotifers as experimental tools for investigating aging

© 2014 The Author(s). This is an Open Access article. The definitive version was published in Invertebrate Reproduction & Development 59, Supple. 1 (2015): 5-10, doi:10.1080/07924259.2014.925516.Comparative biogerontology has much to contribute to the study of aging. A broad range of aging rates have evolved to meet environmental challenges, and understanding these adaptations can produce valuable insights into aging. The supra Phylum Lophotrochozoa is particularly understudied and has several groups that have intriguing patterns of aging. Members of the Lophotrochozoan phylum Rotifera are particularly useful for aging studies because cohort life tables can be conducted with them easily, and biochemical and genomic tools are available for examining aging mechanisms. This paper reviews a variety of caloric restriction (CR) regimens, small molecule inhibitors, and dietary supplements that extend rotifer lifespan, as well as important interactions between CR and genotype, antioxidant supplements, and TOR and jun-N-terminal kinase (JNK) pathways, and the use of RNAi to identify key genes involved in modulating the aging response. Examples of how rapamycin and JNK inhibitor exposure keeps mortality rates low during the reproductive phase of the life cycle are presented, and the ease of conducting life table experiments to screen natural products from red algae for life extending effects is illustrated. Finally, experimental evolution to produce longer-lived rotifer individuals is demonstrated, and future directions to determine the genetic basis of aging are discussed.We are grateful for the support of the National Institute of Aging, [grant number R01 AG037960-02] for this work and for a Postdoctoral Fellowship from the Ellison Medical Foundation/ American Federation for Aging Research to K. Gribble

One-carbon metabolism in cancer

Cells require one-carbon units for nucleotide synthesis, methylation and reductive metabolism, and these pathways support the high proliferative rate of cancer cells. As such, anti-folates, drugs that target one-carbon metabolism, have long been used in the treatment of cancer. Amino acids, such as serine are a major one-carbon source, and cancer cells are particularly susceptible to deprivation of one-carbon units by serine restriction or inhibition of de novo serine synthesis. Recent work has also begun to decipher the specific pathways and sub-cellular compartments that are important for one-carbon metabolism in cancer cells. In this review we summarise the historical understanding of one-carbon metabolism in cancer, describe the recent findings regarding the generation and usage of one-carbon units and explore possible future therapeutics that could exploit the dependency of cancer cells on one-carbon metabolism

First Passage Properties of the Erdos-Renyi Random Graph

We study the mean time for a random walk to traverse between two arbitrary sites of the Erdos-Renyi random graph. We develop an effective medium approximation that predicts that the mean first-passage time between pairs of nodes, as well as all moments of this first-passage time, are insensitive to the fraction p of occupied links. This prediction qualitatively agrees with numerical simulations away from the percolation threshold. Near the percolation threshold, the statistically meaningful quantity is the mean transit rate, namely, the inverse of the first-passage time. This rate varies non-monotonically with p near the percolation transition. Much of this behavior can be understood by simple heuristic arguments.Comment: 10 pages, 9 figures, 2-column revtex4 forma

Human Resources and the Resource Based View of the Firm

The resource-based view (RBV) of the firm has influenced the field of strategic human resource management (SHRM) in a number of ways. This paper explores the impact of the RBV on the theoretical and empirical development of SHRM. It explores how the fields of strategy and SHRM are beginning to converge around a number of issues, and proposes a number of implications of this convergence

MICA: a multi-omics method to predict gene regulatory networks in early human embryos

Recent advances in single-cell omics have transformed characterisation of cell types in challenging-to-study biological contexts. In contexts with limited single-cell samples, such as the early human embryo inference of transcription factor-gene regulatory network (GRN) interactions is especially difficult. Here, we assessed application of different linear or non-linear GRN predictions to single-cell simulated and human embryo transcriptome datasets. We also compared how expression normalisation impacts on GRN predictions, finding that transcripts per million reads outperformed alternative methods. GRN inferences were more reproducible using a non-linear method based on mutual information (MI) applied to single-cell transcriptome datasets refined with chromatin accessibility (CA) (called MICA), compared with alternative network prediction methods tested. MICA captures complex non-monotonic dependencies and feedback loops. Using MICA, we generated the first GRN inferences in early human development. MICA predicted co-localisation of the AP-1 transcription factor subunit proto-oncogene JUND and the TFAP2C transcription factor AP-2γ in early human embryos. Overall, our comparative analysis of GRN prediction methods defines a pipeline that can be applied to single-cell multi-omics datasets in especially challenging contexts to infer interactions between transcription factor expression and target gene regulation

Submillimeter Emission from Water in the W3 Region

We have mapped the submillimeter emission from the 1(10)-1(01) transition of ortho-water in the W3 star-forming region. A 5'x5' map of the W3 IRS4 and W3 IRS5 region reveals strong water lines at half the positions in the map. The relative strength of the Odin lines compared to previous observations by SWAS suggests that we are seeing water emission from an extended region. Across much of the map the lines are double-peaked, with an absorption feature at -39 km/s; however, some positions in the map show a single strong line at -43 km/s. We interpret the double-peaked lines as arising from optically thick, self-absorbed water emission near the W3 IRS5, while the narrower blue-shifted lines originate in emission near W3 IRS4. In this model, the unusual appearance of the spectral lines across the map results from a coincidental agreement in velocity between the emission near W3 IRS4 and the blue peak of the more complex lines near W3 IRS5. The strength of the water lines near W3 IRS4 suggests we may be seeing water emission enhanced in a photon-dominated region.Comment: Accepted to A&A Letters as part of the special Odin issue; 4 page

Topological Orthoalgebras

We define topological orthoalgebras (TOAs) and study their properties. While every topological orthomodular lattice is a TOA, the lattice of projections of a Hilbert space is an example of a lattice-ordered TOA that is not a toplogical lattice. On the other hand, we show that every compact Boolean TOA is a topological Boolean algebra. We also show that a compact TOA in which 0 is an isolated point is atomic and of finite height. We identify and study a particularly tractable class of TOAs, which we call {\em stably ordered}: those in which the upper-set generated by an open set is open. This includes all topological OMLs, and also the projection lattices of Hilbert spaces. Finally, we obtain a topological version of the Foulis-Randall representation theory for stably ordered TOAsComment: 16 pp, LaTex. Minor changes and corrections in sections 1; more substantial corrections in section

Microstructure and kinematics of H2O masers in the massive star forming region IRAS 06061+2151

We have made multi-epoch VLBI observations of H2O maser emission in the massive star forming region IRAS 06061+2151 with the Japanese VLBI network (JVN) from 2005 May to 2007 October. The detected maser features are distributed within an 1\arcsec$\times$1\arcsec (2000 au$\times$2000 au at the source position) around the ultra-compact H {\small\bf II} region seen in radio continuum emission. Their bipolar morphology and expanding motion traced through their relative proper motions indicate that they are excited by an energetic bipolar outflow. Our three-dimensional model fitting has shown that the maser kinematical structure in IRAS 06061+2151 is able to be explained by a biconical outflow with a large opening angle ($>$ 50\degr). The position angle of the flow major axis coincides very well with that of the large scale jet seen in 2.1\:\mu\rmn{m} hydrogen emission. This maser geometry indicates the existence of dual structures composed of a collimated jet and a less collimated massive molecular flow. We have also detected a large velocity gradient in the southern maser group. This can be explained by a very small (on a scale of several tens of au) and clumpy (the density contrast by an order of magnitude or more) structure of the parental cloud. Such a structure may be formed by strong instability of shock front or splitting of high density core.Comment: 14 pages, 6 figures accepted for publication in MNRA

An Ultra-High-Resolution Survey of the Interstellar ^7Li-to-^6Li Isotope Ratio in the Solar Neighborhood

In an effort to probe the extent of variations in the interstellar ^7Li/^6Li ratio seen previously, ultra-high-resolution (R ~ 360,000), high signal-to-noise spectra of stars in the Perseus OB2 and Scorpius OB2 Associations were obtained. These measurements confirm our earlier findings of an interstellar ^7Li/^6Li ratio of about 2 toward o Per, the value predicted from models of Galactic cosmic ray spallation reactions. Observations of other nearby stars yield limits consistent with the isotopic ratio ~ 12 seen in carbonaceous chondrite meteorites. If this ratio originally represented the gas toward o Per, then to decrease the original isotope ratio to its current value an order of magnitude increase in the Li abundance is expected, but is not seen. The elemental K/Li ratio is not unusual, although Li and K are formed via different nucleosynthetic pathways. Several proposals to account for the low ^7Li/^6Li ratio were considered, but none seems satisfactory. Analysis of the Li and K abundances from our survey highlighted two sight lines where depletion effects are prevalent. There is evidence for enhanced depletion toward X Per, since both abundances are lower by a factor of 4 when compared to other sight lines. Moreover, a smaller Li/H abundance is observed toward 20 Aql, but the K/H abundance is normal, suggesting enhanced Li depletion (relative to K) in this direction. Our results suggest that the ^7Li/^6Li ratio has not changed significantly during the last 4.5 billion years and that a ratio ~ 12 represents most gas in the solar neighborhood. In addition, there appears to be a constant stellar contribution of ^7Li, indicating that one or two processes dominate its production in the Galaxy.Comment: 54 pages, accepted for publication in the Astrophysical Journa