Steffen Hennig

Mutations in DNAH5 cause primary ciliary dyskinesia and randomization of left–right asymmetry

Primary ciliary dyskinesia (PCD, MIM 242650) is characterized by recurrent infections of the respiratory tract due to reduced mucociliary clearance and by sperm immobility. Half of the affected offspring have situs inversus (reversed organs), which results from randomization of left-right (LR) asymmetry. We previously localized to chromosome 5p a PCD locus containing DNAH5, which encodes a protein highly similar to the Chlamydomonas γ-dynein heavy chain. Here we characterize the full-length 14-kb transcript of DNAH5. Sequence analysis in individuals with PCD with randomization of LR asymmetry identified mutations resulting in non-functional DNAH5 proteins.

Genome-Wide Array Analysis of Normal and Malformed Human Hearts

Background—We present the first genome-wide cDNA array analysis of human congenitally malformed hearts and attempted to partially elucidate these complex phenotypes. Most congential heart defects, which account for the largest number of birth defects in humans, represent complex genetic disorders. As a consequence of the malformation, abnormal hemodynamic features occur and cause an adaptation process of the heart. Methods and Results—The statistical analysis of our data suggests distinct gene expression profiles associated with tetralogy of Fallot, ventricular septal defect, and right ventricular hypertrophy. Applying correspondence analysis, we could associate specific gene functions to specific phenotypes. Furthermore, our study design allows the suggestion that alterations associated with primary genetic abnormalities can be distinguished from those associated with the adaptive response of the heart to the malformation (right ventricular pressure overload hypertrophy). We provide evidence for the molecular transition of the hypertrophic right ventricle to normal left ventricular characteristics. Furthermore, we present data on chamber-specific gene expression. Conclusions—Our findings propose that array analysis of malformed human hearts opens a new window to understand the complex genetic network of cardiac development and adaptation. For detailed access, see the online-only Data Supplement.

Automated Gene Ontology annotation for anonymous sequence data

Gene Ontology (GO) is the most widely accepted attempt to construct a unified and structured vocabulary for the description of genes and their products in any organism. Annotation by GO terms is performed in most of the current genome projects, which besides generality has the advantage of being very convenient for computer based classification methods. However, direct use of GO in small sequencing projects is not easy, especially for species not commonly represented in public databases. We present a software package (GOblet), which performs annotation based on GO terms for anonymous cDNA or protein sequences. It uses the species independent GO structure and vocabulary together with a series of protein databases collected from various sites, to perform a detailed GO annotation by sequence similarity searches. The sensitivity and the reference protein sets can be selected by the user. GOblet runs automatically and is available as a public service on our web server. The paper also addresses the reliability of automated GO annotations by using a reference set of more than 6000 human proteins. The GOblet server is accessible at http://goblet.molgen.mpg.de.

GOblet: a platform for Gene Ontology annotation of anonymous sequence data

GOblet is a comprehensive web server application providing the annotation of anonymous sequence data with Gene Ontology (GO) terms. It uses a variety of different protein databases (human, murines, invertebrates, plants, sp-trembl) and their respective GO mappings. The user selects the appropriate database and alignment threshold and thereafter submits single or multiple nucleotide or protein sequences. Results are shown in different ways, e.g. as survey statistics for the main GO categories for all sequences or as detailed results for each single sequence that has been submitted. In its newest version, GOblet allows the batch submission of sequences and provides an improved display of results with the aid of Java applets. All output data, together with the Java applet, are packed to a downloadable archive for local installation and analysis. GOblet can be accessed freely at http://goblet.molgen.mpg.de.

Expression profiling of human idiopathic dilated cardiomyopathy

OBJECTIVE To investigate the global changes accompanying human dilated cardiomyopathy (DCM) we performed a large-scale expression screen using myocardial biopsies from a group of DCM patients with moderate heart failure. By hierarchical clustering and functional annotation of the deregulated genes we examined extensive changes in the cellular and molecular processes associated to DCM. METHODS The expression profiles were obtained using a whole genome covering library (UniGene RZPD1) comprising 30336 cDNA clones and amplified RNA from myocardiac biopsies from 10 DCM patients in comparison to tissue samples from four non-failing, healthy donors. RESULTS By setting stringent selection criteria 364 differentially expressed, sequence-verified non-redundant transcripts were identified with a false discovery rate of <0.001. Numerous genes and ESTs were identified representing previously recognised, as well as novel DCM-associated transcripts. Many of them were found to be upregulated and involved in cardiomyocyte energetics, muscle contraction or signalling. Two hundred and twenty-two deregulated transcripts were functionally annotated and hierarchically clustered providing an insight into the pathophysiology of DCM. Data was validated using the MLP-deficient mouse, in which several differentially expressed transcripts identified in the human DCM biopsies could be confirmed. CONCLUSIONS We report the first genome-wide expression profile analysis using cardiac biopsies from DCM patients at various stages of the disease. Although there is a diversity of links between the cytoskeleton and the initiation of DCM, we speculate that genes implicated in intracellular signalling and in muscle contraction are associated with early stages of the disease. Altogether this study represents the most comprehensive and inclusive molecular portrait of human cardiomyopathy to date.

Photodissociation dynamics of methylnitrite (CH3O–NO) in the 300–400 nm range: An abinitio quantum mechanical study

We report the results of a two‐dimensional, quantal study of the photodissociation of CH3O–NO within the first continuum (S0→S1, 300–400 nm) taking into account only the O–N and the N=O separations. The S1 potential energy surface is taken from recent ab initio calculations. The calculated absorption spectrum consists of two band progressions of narrow resonance lines with widths of ∼0.3 and ∼5 meV, respectively. These resonances can be associated with excitation of the O–N bond (m=0,1) and excitation of the N=O chromophore (n*=0,1,2,...). The intensities of the m=1 band are negligibly small compared to those of the m=0 band. The decay mechanism in the two cases is different: The m=0 resonances decay primarily via vibrational predissociation, i.e., a nonadiabatic transition from n* to n*−1, and yield NO products with a preferential population of the (n*−1) level. The m=1 resonances decay mainly via tunneling through a potential barrier yielding preferentially NO products in state n*. Several of the theore...

Vibrational state distributions following the photodissociation of (collinear) triatomic molecules: The vibrational reflection principle in model calculations for CF3I

Vibrational state distributions following the direct photodissociation of a collinear, triatomic molecule is investigated with particular emphasis on the so‐called final state interaction, i.e., the translational–vibrational coupling due to the excited state interaction potential. In order to separate the various effects which determine the state distribution we performed calculations on three levels of accuracy: The energy sudden (ES) approximation, the modified sudden (MS) approximation, and the exact close‐coupling (CC) formulation. The pure ES distributions peak at high states and are very broad. They are explained within the semiclassical limit as a mapping of an amplitude onto the quantum number axis. We call this effect vibrational reflection principle in analogy to the equivalent effect in rotational excitation processes. It is a direct and sensitive probe of the parameters of the system, most importantly the potential energy surface. Energy conservation strongly modifies the ES distributions. The...

Diffuse vibrational structures in photoabsorption spectra: A comparison of CH3ONO and CH3SNO using two‐dimensional ab initio potential energy surfaces

We investigated the photodissociation of methyl nitrite (CH3 ONO) and methyl thionitrite (CH3 SNO) within the first absorption band (S1 ←S0 ). The calculations were based on a two‐dimensional model including the O–NO/S–NO and N=O bond distances as active coordinates. The S1 ‐potential energy surfaces were calculated with quantum chemical methods and the dynamical calculations were performed exactly within the time‐independent approach. The main emphasis is on the origin of diffuse vibrational structure in the photoabsorption spectrum of both molecules. A low potential barrier of 0.086 eV along the O–NO dissociation coordinate in CH3 ONO prevents immediate dissociation and leads to an initial state dependent lifetime for the excited complex of 100–250 fs corresponding to 3–8 NO vibrational periods. CH3 ONO decays nonadiabatically via vibrational predissociation. The absorption spectrum of CH3 ONO is dominated by narrow Feshbach‐like scattering resonances which can be characterized by two quantum numbers, m...

Photodissociation of vibrationally excited water in the first absorption band

We investigate the photodissociation of highly excited vibrational states of water in the first absorption band. The calculation includes an ab initio potential energy surface for the A‐state and an ab initio X→A transition dipole function. The bending angle is fixed at the equilibrium value within the ground electronic state. Most interesting is the high sensitivity of the final vibrational distribution of OH on the initially prepared vibrational state of H2 O. At wavelengths near the onset of the absorption spectrum the vibrational state distribution can be qualitatively understood as a Franck–Condon mapping of the initial H2 O wave function. At smaller wavelengths final state interaction in the excited state becomes stronger and the distributions become successively broader. Our calculations are in satisfactory accord with recent measurements of Vander Wal and Crim.

RAI1 is a novel polyglutamine encoding gene that is deleted in Smith–Magenis syndrome patients

The human chromosomal band 17p11.2 is a genetically unstable interval. It has been shown to be deleted in patients suffering from Smith-Magenis syndrome. Previous efforts of physical and transcriptional mapping in 17p11.2 and subsequent genomic sequencing of the candidate interval allowed the identification of new genes that might be responsible for the Smith-Magenis syndrome. In this report, one of these genes named RAI1, the human homologue of the mouse Rai1 gene, has been investigated for its contribution to the syndrome. Expression analysis on different human adult and fetal tissues has shown the existence of at least three splice variants. Moreover, the most interesting feature of the gene is the presence of a polymorphic CAG repeat coding for a polyglutamine stretch in the amino terminal domain of the protein.