Search results for "sequences"
showing 10 items of 359 documents
Comparative sequence analysis of the Clostridium difficile toxins A and B.
1992
The six clones pTB112, pTB324, pTBs12, pCd122, pCd14 and pCd13 cover the tox locus of Clostridium difficile VPI 10463. This region of 19 kb of chromosomal DNA contains four open reading frames including the complete toxB and toxA genes. The two toxins show 63% amino acid (aa) homology, a relatedness that had been predicted by the cross-reactivity of some monoclonal antibodies (mAb) but that is in contrast to the toxin specificity of polyclonal antisera. A special feature of ToxA and ToxB is their repetitive C-termini. We define herein 19 individual CROPs (combined repetitive oligopeptides of 20-50 aa length) in the ToxB C-terminus, which are separable into five homologous groups. Comparison…
Clostridium difficile toxin A carries a C-terminal repetitive structure homologous to the carbohydrate binding region of streptococcal glycosyltransf…
1990
A detailed analysis of the 8130-bp open reading frame (ORF) of gene toxA and of an upstream ORF designated utxA, indicates the presence of a transcription terminator stem-loop for toxA, promoter sequences, and Shine-Dalgarno boxes for toxA and utxA. No transcription terminator between toxA and utxA is suggested by the sequence. ToxA contains two domains, one-third (C-terminal) with a repetitive structure and the residual two-thirds with no repetitions. The 2499-bp sequence encoding the repetitive structure is composed of nine groups of different short repetitive oligodeoxyribonucleotides (SRONs). A combination of these SRONs codes for five groups of combined repetitive oligopeptides (CROPs)…
Characterisation of a Cryptosporidium parvum-specific cDNA clone and detection of parasite DNA in mucosal scrapings of infected mice.
1998
A cDNA library was constructed using total RNA extracted from oocysts and sporozoites of the protozoan parasite Cryptosporidium parvum. The expression library was screened with an anti-C. parvum antiserum and a clone, Cp3.4, with a 2043 bp insert, was extracted. Southern blot analysis demonstrated a single copy gene that was located on a 1.6 Mb chromosome. The gene was found to be C. parvum specific as Cp3.4 did not cross-hybridise with chromosomal DNA from three other apicomplexan parasites. The cDNA encodes a polypeptide with a predicted membrane helix at its C-terminal end which is flanked by stretches of acidic amino acids. Overall, the polypeptide has a low isoelectric point (pI) of 3.…
A novel member of an ancient superfamily: sponge (Geodia cydonium, Porifera) putative protein that features scavenger receptor cysteine-rich repeats
1997
Proteins featuring scavenger receptor cysteine-rich (SRCR) domains are prominent receptors known from vertebrates and from one phylum of invertebrates, the echinoderms. In the present study we report the first putative SRCR protein from the marine sponge Geodia cydonium (Porifera), a member of the lowest phylum of contemporary Metazoans. Two forms of SRCR molecules were characterized, which apparently represent alternative splicing of the same transcript. The long putative SRCR protein, of 1536 aa, features twelve SRCR repeats, a C-terminal transmembrane domain and a cytoplasmic tail. The sequence of the short form is identical with the long form except that it lacks a coding region near th…
Effects of environment and genotype on dispersal differ across departure, transfer and settlement in a butterfly metapopulation
2022
Active dispersal is driven by extrinsic and intrinsic factors at the three stages of departure, transfer and settlement. Most empirical studies capture only one stage of this complex process, and knowledge of how much can be generalized from one stage to another remains unknown. Here we use genetic assignment tests to reconstruct dispersal across 5 years and 232 habitat patches of a Glanville fritillary butterfly ( Melitaea cinxia ) metapopulation. We link individual dispersal events to weather, landscape structure, size and quality of habitat patches, and individual genotype to identify the factors that influence the three stages of dispersal and post-settlement survival. We found that ne…
Connection between optimal control theory and adiabatic-passage techniques in quantum systems
2012
This work explores the relationship between optimal control theory and adiabatic passage techniques in quantum systems. The study is based on a geometric analysis of the Hamiltonian dynamics constructed from the Pontryagin Maximum Principle. In a three-level quantum system, we show that the Stimulated Raman Adiabatic Passage technique can be associated to a peculiar Hamiltonian singularity. One deduces that the adiabatic pulse is solution of the optimal control problem only for a specific cost functional. This analysis is extended to the case of a four-level quantum system.
A Unifying Framework for Perturbative Exponential Factorizations
2021
We propose a framework where Fer and Wilcox expansions for the solution of differential equations are derived from two particular choices for the initial transformation that seeds the product expansion. In this scheme, intermediate expansions can also be envisaged. Recurrence formulas are developed. A new lower bound for the convergence of theWilcox expansion is provided, as well as some applications of the results. In particular, two examples are worked out up to a high order of approximation to illustrate the behavior of the Wilcox expansion.
Restricted 123-avoiding Baxter permutations and the Padovan numbers
2007
AbstractBaxter studied a particular class of permutations by considering fixed points of the composite of commuting functions. This class is called Baxter permutations. In this paper we investigate the number of 123-avoiding Baxter permutations of length n that also avoid (or contain a prescribed number of occurrences of) another certain pattern of length k. In several interesting cases the generating function depends only on k and is expressed via the generating function for the Padovan numbers.
On the optimal approximation rate of certain stochastic integrals
2010
AbstractGiven an increasing function H:[0,1)→[0,∞) and An(H)≔infτ∈Tn(∑i=1n∫ti−1ti(ti−t)H(t)2dt)12, where Tn≔{τ=(ti)i=0n:0=t0<t1<⋯<tn=1}, we characterize the property An(H)≤cn, and give conditions for An(H)≤cnβ and An(H)≥1cnβ for β∈(0,1), both in terms of integrability properties of H. These results are applied to the approximation of stochastic integrals.
(p,q)-summing sequences
2002
Abstract A sequence (x j ) in a Banach space X is (p,q) -summing if for any weakly q -summable sequence (x j ∗ ) in the dual space we get a p -summable sequence of scalars (x j ∗ (x j )) . We consider the spaces formed by these sequences, relating them to the theory of (p,q) -summing operators. We give a characterization of the case p=1 in terms of integral operators, and show how these spaces are relevant for a general question on Banach spaces and their duals, in connection with Grothendieck theorem.