title: Toxin-antitoxin systems of mycobacterium smegmatis are essential for cell survival

authors: Frampton, Rebekah A.

subjects: Bacterial Metabolism

abstract: The role of chromosomal toxin-antitoxin (TA) modules in bacterial physiology remains enigmatic despite their abundance in the genomes of many bacteria. Mycobacterium smegmatis contains three putative TA systems, VapBC, MazEF, and Phd/Doc, and previous work from our group has shown VapBC to be a bona fide TA system. In this study, we show that MazEF and Phd/Doc are also TA systems that are constitutively expressed, transcribed as leaderless transcripts, and subject to autoregulation, and expression of the toxin component leads to growth inhibition that can be rescued by the cognate antitoxin. No phenotype was identified for deletions of the individual TA systems, but a triple deletion strain (ΔvapBC, mazEF, phd/doc), designated ΔTAtriple, exhibited a survival defect in complex growth medium demonstrating an essential role for these TA modules in mycobacterial survival. Transcriptomic analysis revealed no significant differences in gene expression between wild type and the ΔTAtriple mutant under these conditions suggesting that the growth defect was not at a transcriptional level. Metabolomic analysis demonstrated that in response to starvation in complex medium, both the wild type and ΔTAtriple mutant consumed a wide range of amino acids from the external milieu. Analysis of intracellular metabolites revealed a significant difference in the levels of branched-chain amino acids between the wild type and ΔTAtriple mutant, which are proposed to play essential roles in monitoring the nutritional supply and physiological state of the cell and linking catabolic with anabolic reactions. Disruption of this balance in the ΔTAtriple mutant may explain the survival defect in complex growth medium.

text: Toxin-antitoxin systems of mycobacterium smegmatis are essential for cell survival The role of chromosomal toxin-antitoxin (TA) modules in bacterial physiology remains enigmatic despite their abundance in the genomes of many bacteria. Mycobacterium smegmatis contains three putative TA systems, VapBC, MazEF, and Phd/Doc, and previous work from our group has shown VapBC to be a bona fide TA system. In this study, we show that MazEF and Phd/Doc are also TA systems that are constitutively expressed, transcribed as leaderless transcripts, and subject to autoregulation, and expression of the toxin component leads to growth inhibition that can be rescued by the cognate antitoxin. No phenotype was identified for deletions of the individual TA systems, but a triple deletion strain (ΔvapBC, mazEF, phd/doc), designated ΔTAtriple, exhibited a survival defect in complex growth medium demonstrating an essential role for these TA modules in mycobacterial survival. Transcriptomic analysis revealed no significant differences in gene expression between wild type and the ΔTAtriple mutant under these conditions suggesting that the growth defect was not at a transcriptional level. Metabolomic analysis demonstrated that in response to starvation in complex medium, both the wild type and ΔTAtriple mutant consumed a wide range of amino acids from the external milieu. Analysis of intracellular metabolites revealed a significant difference in the levels of branched-chain amino acids between the wild type and ΔTAtriple mutant, which are proposed to play essential roles in monitoring the nutritional supply and physiological state of the cell and linking catabolic with anabolic reactions. Disruption of this balance in the ΔTAtriple mutant may explain the survival defect in complex growth medium.

year: 2011

title: Generation of X-points and secondary islands in 2D magnetohydrodynamic turbulence

authors: Wan, Minping

abstract: We study the time development of the population of X-type critical points in a two-dimensional magnetohydrodynamic model during the early stages of freely decaying turbulence. At sufficiently high magnetic Reynolds number Rem, we find that the number of neutral points increases as Rem3/2, while the rates of reconnection at the most active sites decrease. The distribution of rates remains approximately exponential. We focus in particular on delicate issues of accuracy, which arise in these numerical experiments, in that the proliferation of X-points is also a feature of under-resolved simulations. The “splitting” of neutral points at high Reynolds number appears to be a fundamental feature of the cascade that has important implications for understanding the relationship between reconnection and turbulence, an issue of considerable importance for the Magnetospheric Multiscale and Solar Probe missions as well as observation of reconnection in the solar wind.

text: Generation of X-points and secondary islands in 2D magnetohydrodynamic turbulence We study the time development of the population of X-type critical points in a two-dimensional magnetohydrodynamic model during the early stages of freely decaying turbulence. At sufficiently high magnetic Reynolds number Rem, we find that the number of neutral points increases as Rem3/2, while the rates of reconnection at the most active sites decrease. The distribution of rates remains approximately exponential. We focus in particular on delicate issues of accuracy, which arise in these numerical experiments, in that the proliferation of X-points is also a feature of under-resolved simulations. The “splitting” of neutral points at high Reynolds number appears to be a fundamental feature of the cascade that has important implications for understanding the relationship between reconnection and turbulence, an issue of considerable importance for the Magnetospheric Multiscale and Solar Probe missions as well as observation of reconnection in the solar wind.

year: 2013

title: Book review:  Ikawai: freshwater fishes in Māori culture and economy

authors: Hicks, Brendan J.

abstract: This article reviews the book : “Ikawai: freshwater fishes in Māori culture and economy”, by RM McDowall.

text: Book review:  Ikawai: freshwater fishes in Māori culture and economy This article reviews the book : “Ikawai: freshwater fishes in Māori culture and economy”, by RM McDowall.

year: 2012