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1

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The Evolution of the Differentiation-Specific Histone H1 Gene Basal Promoter (1997)

Peretti, Marie ; Khochbin, Saadi

Springer

Journal of molecular evolution 44 (1997), S. 128 -134

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ISSN: 1432-1432

Keywords: Key words: Chromatin — Histone H10— Histone H5 — Transcription — Transfection — Sea urchin

Source: Springer Online Journal Archives 1860-2000

Topics: Biology

Notes: Abstract. The comparison of the rat H10 gene promoter sequence with that of known H10 genes showed a high evolutionary conservation of regulatory elements involved in the control of the basal transcription of the gene. This finding suggests that the regulation of H10 gene expression is also controlled by a very conserved mechanism within vertebrates. In order to confirm this hypothesis, we destroyed three major cis-acting elements in the H10 gene promoter by site-directed mutagenesis and showed that these mutations affect significantly the activity of this promoter in cell lines representative of different vertebrate classes (fishes, amphibians, reptiles, birds, and mammals). We concluded that H10 gene activity, which is a developmentally regulated process, has been under a great selective pressure during evolution to ensure the expression of the protein at crucial periods of vertebrate development. One of these elements, the H4 box, helps to define within vertebrate H1 genes those encoding differentiation-specific subtypes. Indeed, it is only present in the proximal promoter region of H10 and H5 encoding genes. Regarding this feature of the vertebrate differentiation-specific H1 genes, they appear closer to the invertebrate (sea urchin) H1 genes than to those encoding vertebrate replication-dependent (RD) H1. This observation suggests that histone H10 and H5 are members that diverged from the main group of histone H1 before the vertebrate histone H1 and that the regulation of vertebrate RD H1 genes has probably evolved toward a coordinate regulation with that of core histone genes.

Type of Medium: Electronic Resource

URL: http://dx.doi.org/10.1007/PL00006129

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2

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Remanent photoinduced birefringence in thin photochromic sol–gel films (1999)

Peretti, J. ; Biteau, J. ; Boilot, J.-P. ; [et al.]

Woodbury, NY : American Institute of Physics (AIP)

Applied Physics Letters 74 (1999), S. 1657-1659

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ISSN: 1077-3118

Source: AIP Digital Archive

Topics: Physics

Notes: High remanent optical anisotropy in photochromic sol–gel films is shown to be photoinduced by discoloration with linearly polarized visible light. This anisotropy results in a linear dichroism in the visible absorption band and in an important birefringence in the near-infrared transparency region. The kinetics of the whole process are quantitatively well described by a simple analytical model. Intrinsic characteristics of the individual molecule, such as the photochemical quantum yield and the anisotropy of their optical properties, are determined. The potential application of this effect to optical data storage is discussed. © 1999 American Institute of Physics.

Type of Medium: Electronic Resource

URL: http://dx.doi.org/10.1063/1.123645

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3

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Imaging of magnetic domains with scanning tunneling optical microscopy : The 7th joint MMM-intermag conference on magnetism and magnetic materials (1998)

Bertrand, P. ; Conin, L. ; Hermann, C. ; [et al.]

[S.l.] : American Institute of Physics (AIP)

Journal of Applied Physics 83 (1998), S. 6834-6836

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ISSN: 1089-7550

Source: AIP Digital Archive

Topics: Physics

Notes: Near field magneto-optical images of magnetic domains in ferromagnetic soft garnet films have been obtained with a scanning tunneling optical microscope working in total reflection geometry with shear-force control of the tip-to-sample distance. In this geometry a magneto-optical contrast is observed for the first time between domains of opposite magnetization without using modulation techniques. When applying a static or alternating external magnetic field, the magneto-optical images provide the location of domain wall pinning points. © 1998 American Institute of Physics.

Type of Medium: Electronic Resource

URL: http://dx.doi.org/10.1063/1.367646

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4

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Mobilization of broad host range plasmid from Pseudomonas putida to established biofilm of Bacillus azotoformans. II. Modeling (1998)

Beaudoin, D. L. ; Bryers, J. D. ; Cunningham, A. B. ; [et al.]

New York, NY [u.a.] : Wiley-Blackwell

Biotechnology and Bioengineering 57 (1998), S. 280-286

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ISSN: 0006-3592

Keywords: biofilm ; plasmid transfer ; conjugation ; mathematical models ; Chemistry ; Biochemistry and Biotechnology

Source: Wiley InterScience Backfile Collection 1832-2000

Topics: Biology , Process Engineering, Biotechnology, Nutrition Technology

Notes: A strain of Pseudomonas putida that harbors plasmids RK2 and pDLB101 was exposed to a pure culture biofilm of Bacillus azotoformans grown in a rotating annular reactor. Transfer of the RK2 mobilizable pDLB101 plasmid to B. azotoformans was monitored over a 4-day period. Experimental results demonstrated that the broad host range, RSF1010 derivative pDLB101 was transferred to and expressed by B. azotoformans. In the companion article to this work, the rate of plasmid transfer was quantified as a function of the limiting nutrient, succinate, and as a function of the mechanism of transfer. A biofilm process simulation program (AQUASIM) was modified to analyze resultant experimental data. Although the AQUASIM package was not designed to simulate or predict genetic events in biofilms, modification of the rate process dynamics allowed successful modeling of plasmid transfer. For the narrow range of substrate concentrations used in these experiments, nutrient level had only a slight effect on the rate and extent of plasmid transfer in biofilms. However, further simulations using AQUASIM revealed that under nutrient poor conditions, the number of transconjugants appearing in the biofilm was limited. © 1998 John Wiley & Sons, Inc. Biotechnol Bioeng 57: 280-286, 1998.

Additional Material: 9 Ill.

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5

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Mobilization of broad host range plasmid from Pseudomonas putida to established biofilm of Bacillus azotoformans. I. Experiments (1998)

Beaudoin, D. L. ; Bryers, J. D. ; Cunningham, A. B. ; [et al.]

New York, NY [u.a.] : Wiley-Blackwell

Biotechnology and Bioengineering 57 (1998), S. 272-279

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ISSN: 0006-3592

Keywords: biofilm ; plasmid transfer ; conjugation ; retrotransfer ; Chemistry ; Biochemistry and Biotechnology

Source: Wiley InterScience Backfile Collection 1832-2000

Topics: Biology , Process Engineering, Biotechnology, Nutrition Technology

Notes: A strain of Pseudomonas putida harboring plasmids RK2 and pDLB101 was exposed to a pure culture biofilm of Bacillus azotoformans grown in a rotating annular reactor under three different concentrations of the limiting nutrient, succinate. Experimental results demonstrated that the broad host range RSF1010 derivative pDLB101 was transferred to and expressed by B. azotoformans. At the lower concentrations, donor mediated plasmid transfer increased with increasing nutrient levels, but the highest nutrient concentration yielded the lowest rate of donor to recipient plasmid transfer. For transconjugant initiated transfer, the rate of transfer increased with increasing nutrient concentrations for all cases. At the lower nutrient concentrations, the frequency of plasmid transfer was higher between donors and recipients than between transconjugants and recipients. The reverse was true at the highest succinate concentration. The rates and frequencies of plasmid transfer by mobilization were compared to gene exchange by retrotransfer. The initial rate of retrotransfer was slower than mobilization, but then increased dramatically. Retrotransfer produced a plasmid transfer frequency more than an order of magnitude higher than simple mobilization. © 1998 John Wiley & Sons, Inc. Biotechnol Bioeng 57: 272-279, 1998.

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Type of Medium: Electronic Resource

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6

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Dynamic modeling of meta- and para-nitrobenzoate metabolism by a mixed co-immobilized culture of Comamonas spp. JS46 and JS47 (1998)

Goodall, Jennifer L. ; Peretti, Steven W.

New York, NY [u.a.] : Wiley-Blackwell

Biotechnology and Bioengineering 59 (1998), S. 507-516

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ISSN: 0006-3592

Keywords: bioremediation ; Comamonas ; nitrobenzoates ; reactor modeling ; mixed culture ; Chemistry ; Biochemistry and Biotechnology

Source: Wiley InterScience Backfile Collection 1832-2000

Topics: Biology , Process Engineering, Biotechnology, Nutrition Technology

Notes: A model describing the transient activity of a mixed immobilized culture of Comamonas spp. JS46 and JS47 growing on mixed substrates is presented. The transient periods considered are those following changes in the feed carbon source, which alternated between meta- and para-nitrobenzoate. The feed profile alternately starved one of the species in the mixed culture. The response of the system, as quantified by the reactor effluent substrate concentrations, is dictated by the activity of the biomass and the appropriate biochemical pathway. As detailed mechanistic pathway information is not available, respirometry has been used to characterize both facets of activity. Two parameters were introduced: Ψ representing pathway activity and Γ representing biomass activity; a detailed description of the analysis is included. The model is compared to experimental investigation of the system and describes the reactor response well. The agreement between model and experiment suggests the usefulness of oxygen kinetics as global measurements to describe complex systems when mechanistic detail is not available. © 1998 John Wiley & Sons, Inc. Biotechnol Bioeng 59: 507-516, 1998.

Additional Material: 6 Ill.

Type of Medium: Electronic Resource

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7

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Operation of mixed-culture immobilized cell reactors for the metabolism of meta- and para-nitrobenzoate by Comamonas Sp. JS46 and Comamonas Sp. JS47 (1998)

Goodall, Jennifer L. ; Thomas, Stuart M. ; Spain, Jim C. ; [et al.]

New York, NY [u.a.] : Wiley-Blackwell

Biotechnology and Bioengineering 59 (1998), S. 21-27

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ISSN: 0006-3592

Keywords: Comamonas ; nitrobenzoates ; bioremediation ; immobilized mixed culture ; Chemistry ; Biochemistry and Biotechnology

Source: Wiley InterScience Backfile Collection 1832-2000

Topics: Biology , Process Engineering, Biotechnology, Nutrition Technology

Notes: The treatment of meta- and para-nitrobenzoic acid in an industrial wastestream by Comamonas sp. JS46 and Comamonas sp. JS47 is investigated. The most important feature of the wastestream is the constantly changing concentration ratio of the two isomers. The most extreme occurrence is considered here: the complete change in feed carbon source from one isomer to the other. A series of immobilized cell airlift reactor experiments are described to examine the operation and response of the system to these changes in the feed carbon source. Separate reactors containing each species immobilized are compared with a reactor containing both species immobilized within the same bead, and to a reactor containing both species with each species confined to separate beads. On the basis of response time necessary to recover the appropriate activity, the reactor containing both species immobilized within the same bead offers the most effective arrangement. Interactions occurring between the two organisms in the coimmobilized system, mediated by the nitrobenzoate metabolites, are discussed relative to the improved response of this arrangement. © 1998 John Wiley & Sons, Inc. Biotechnol Bioeng 59:21-27, 1998.

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Type of Medium: Electronic Resource

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8

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Continuous culture dynamics for aniline metabolism by Pseudomonas sp. CIT1 (1998)

Thomas, S. M. ; Peretti, S. W.

New York, NY [u.a.] : Wiley-Blackwell

Biotechnology and Bioengineering 58 (1998), S. 1-12

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ISSN: 0006-3592

Keywords: Pseudomonas ; substrate inhibition ; metabolic flux ; pathways analysis ; Chemistry ; Biochemistry and Biotechnology

Source: Wiley InterScience Backfile Collection 1832-2000

Topics: Biology , Process Engineering, Biotechnology, Nutrition Technology

Notes: Inhibition by toxic substrates enables multiple steady states to arise in biodegradation systems. This phenomenon was investigated for the continuous metabolism of aniline by Pseudomonas sp. CIT1. Differences of various metabolic parameters between the two growth regimes (uninhibited and inhibited) and the transient response to a step-up in dilution rate were determined. Regulatory mechanisms consistent with the experimental evidence are proposed.Aniline is the transcriptional inducer of a metabolic pathway that converts aniline to TCA cycle intermediates. The suite of enzymes is coordinately expressed from a single promoter. We followed the level of the pathway mRNA using a fragment containing the catechol 2,3 dioxygenase gene (andioxB) and monitored the pathway enzyme activity using catechol 2,3 dioxygenase (C23D). The inhibited regime resulted in a 60% lower growth yield, near constant levels of C23D monomer, but a 50% reduction in the specific activity of C23D, increased RNA synthesis rates (total and aniline pathway mRNA), and elevated RNA decay rates.Elucidation of regulatory mechanisms indicates that C23D is noncompetitively inhibited by aniline and subject to feedback inhibition by 2-hydroxymuconic semialdehyde (HMS). During uninhibited growth regime operation, metabolism of HMS is the rate-limiting step; in contrast, conversion of aniline to catechol limits growth in the inhibited regime. © 1998 John Wiley & Sons, Inc. Biotechnol Bioeng 58:1-12, 1998.

Additional Material: 15 Ill.

Type of Medium: Electronic Resource

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