Showing papers by "Amit Singh published in 2007"

Mycobacterium tuberculosis WhiB3 responds to O2 and nitric oxide via its [4Fe-4S] cluster and is essential for nutrient starvation survival

Abstract: A fundamental challenge in the redox biology of Mycobacterium tuberculosis (Mtb) is to understand the mechanisms involved in sensing redox signals such as oxygen (O2), nitric oxide (NO), and nutrient depletion, which are thought to play a crucial role in persistence. Here we show that Mtb WhiB3 responds to the dormancy signals NO and O2 through its iron-sulfur (Fe-S) cluster. To functionally assemble the WhiB3 Fe-S cluster, we identified and characterized the Mtb cysteine desulfurase (IscS; Rv3025c) and developed a native enzymatic reconstitution system for assembling Fe-S clusters in Mtb. EPR and UV-visible spectroscopy analysis of reduced WhiB3 is consistent with a one-electron reduction of EPR silent [4Fe-4S]2+ to EPR visible [4Fe-4S]+. Atmospheric O2 gradually degrades the WhiB3 [4Fe-4S]2+ cluster to generate a [3Fe-4S]+ intermediate. Furthermore, EPR analysis demonstrates that NO forms a protein-bound dinitrosyl–iron–dithiol complex with the Fe-S cluster, indicating that NO specifically targets the WhiB3 Fe-S cluster. Our data suggest that the mechanism of WhiB3 4Fe-4S cluster degradation is similar to that of fumarate nitrate regulator. Importantly, Mtb ΔwhiB3 shows enhanced growth on acetate medium, but a growth defect on media containing glucose, pyruvate, succinate, or fumarate as the sole carbon source. Our results implicate WhiB3 in metabolic switching and in sensing the physiologically relevant host signaling molecules NO and O2 through its [4Fe-4S] cluster. Taken together, our results suggest that WhiB3 is an intracellular redox sensor that integrates environmental redox signals with core intermediary metabolism.

Polyphasic approach of bacterial classification — An overview of recent advances

Abstract: Classification of microorganisms on the basis of traditional microbiological methods (morphological, physiological and biochemical) creates a blurred image about their taxonomic status and thus needs further clarification. It should be based on a more pragmatic approach of deploying a number of methods for the complete characterization of microbes. Hence, the methods now employed for bacterial systematics include, the complete 16S rRNA gene sequencing and its comparative analysis by phylogenetic trees, DNA-DNA hybridization studies with related organisms, analyses of molecular markers and signature pattern(s), biochemical assays, physiological and morphological tests. Collectively these genotypic, chemotaxonomic and phenotypic methods for determining taxonomic position of microbes constitute what is known as the ‘polyphasic approach’ for bacterial systematics. This approach is currently the most popular choice for classifying bacteria and several microbes, which were previously placed under invalid taxa have now been resolved into new genera and species. This has been possible owing to rapid development in molecular biological techniques, automation of DNA sequencing coupled with advances in bioinformatic tools and access to sequence databases. Several DNA-based typing methods are known; these provide information for delineating bacteria into different genera and species and have the potential to resolve differences among the strains of a species. Therefore, newly isolated strains must be classified on the basis of the polyphasic approach. Also previously classified organisms, as and when required, can be reclassified on this ground in order to obtain information about their accurate position in the microbial world. Thus, current techniques enable microbiologists to decipher the natural phylogenetic relationships between microbes.

Spider silk as an active scaffold in the assembly of gold nanoparticles and application of the gold-silk bioconjugate in vapor sensing.

Abstract: Spider silk is being viewed with interest by materials scientists due to its excellent resilience and mechanical properties. In this paper we show that spider silk is an excellent scaffold for the one-step synthesis and assembly of gold nanoparticles. Formation of a gold nanoparticle–spider-silk bioconjugate material is accomplished by simple reaction of the fibers with aqueous chloroauric acid. The gold nanoparticles thus formed are strongly bound to the spider-silk fiber surface enabling study of the electrical properties of the nanobioconjugate. Using the well-known contraction/expansion behavior of the fibers in solvents of varying polarity, we show that exposure of the gold nanoparticle–spider silk bioconjugate to vapors of methanol and chloroform leads to changes in electrical transport through the nanoparticles and thus, the possibility of developing a vapor sensor. The bioconjugate shows excellent response time and cycling efficiency to methanol vapors. The activation energy of electron transport from one gold nanoparticle to another in the nanobiocojugate was determined from temperature-dependent electron-transport measurements to be approximately 1.7 eV.

Antifungal Activity of an Alkaloid Allosecurinine against Some Fungi.

Abstract: An allosecurinine alkaloid was assayed against spore germination of some saprophytic and pathogenic fungi e.g., Alternaria alternata, A. solani, A. brassicicola, A. brassicae, Curvularia lunata, C. pallescens, C. maculans, Curvularia species, Colletotrichum species, C. musae, C. gloeosporioides, Erysiphe pisi, Fusarium udum, Helminthosporium echinoclova, H. pennisetti, H. spiciferum, and Heterosporium sp. It inhibited mild spore germination of all the fungi tested. Curvularia lunata, Curvularia sp., Collectotrichum sp., C. musae and Heterosporium sp. were most sensitive as complete inhibition of spore germination was observed at very low concentrations.