bluuebunny/crossref_metadata_2025_split huggingface dataset:
Nodal inclusion cysts of the parotid gland and parapharyngeal space: A discussion of lymphoepithelial, aids‐related parotid, and branchial cysts, cystic warthin's tumors, and cysts in sjogren's syndrome
Authors: Som Peter M. , Brandwein Margaret S. , Silvers Adam 
Published: October 2006

AbstractThe purpose of this report is to examine the computed tomography scans, magnetic resonance images, and pathologic findings in 44 patients, 42 of whom had inclusion‐type cysts of the parotid and parapharyngeal space of varying etiologies. Two additional cases of cystic changes in the benign lymphoepithelial lesion (BLEL) of Sjogren's syndrome are highlighted here, since they had unusually large cystic components mimicking acquired immunodeficiency syndrome‐related parotid cysts (ARPCs).A retrospective examination identified 18 ARPCs, 3 lymphoepithelial cysts (LECs), 13 cystic Warthin's tumors, 8 branchial cysts, and 2 cases of cysts in patients with Sjögren's syndrome (BLEL), all of whom had imaging studies and pathologic confirmation. There were 30 men and 14 women with an age range of 25 to 72 years (median, 46.82 years). Any similarities in the imaging appearances were noted, as were any differences in pathologic detail.On imaging, only the cystic Warthin's tumors had any focal wall nodularity; the other cysts had smooth walls. When multiple parotid cysts were present, the distinguishing feature between ARPCs and cysts in BLEL (and some cystic Warthin's tumors) was the presence of diffuse cervical adenopathy in patients with ARPCs. Imaging usually could not differentiate between a solitary parotid LEC, a branchial cyst, and some cystic Warthin's tumors. Extraparotid lesions were either branchial cysts or cystic Warthin's tumors.Physicians should be aware of the variety of different inclusion‐type cysts that may occur in the parotid gland and parapharyngeal space, all of which may have similar imaging appearances. Although imaging clearly identifies these cysts and may suggest a specific diagnosis, it must always be remembered that the precise diagnosis remains in the province of the pathologist.
Centromere-Proximal Crossovers Are Associated With Precocious Separation of Sister Chromatids During Meiosis inSaccharomyces cerevisiae
Authors: Rockmill Beth , Voelkel-Meiman Karen , Roeder G Shirleen 
Published: October 2006

AbstractIn most organisms, meiotic chromosome segregation is dependent on crossovers (COs), which enable pairs of homologous chromosomes to segregate to opposite poles at meiosis I. In mammals, the majority of meiotic chromosome segregation errors result from a lack of COs between homologs. Observations in Homo sapiens and Drosophila melanogaster have revealed a second class of exceptional events in which a CO occurred near the centromere of the missegregated chromosome. We show that in wild-type strains of Saccharomyces cerevisiae, most spore inviability is due to precocious separation of sister chromatids (PSSC) and that PSSC is often associated with centromere-proximal crossing over. COs, as opposed to nonreciprocal recombination events (NCOs), are preferentially associated with missegregation. Strains mutant for the RecQ homolog, SGS1, display reduced spore viability and increased crossing over. Much of the spore inviability in sgs1 results from PSSC, and these events are often associated with centromere-proximal COs, just as in wild type. When crossing over in sgs1 is reduced by the introduction of a nonnull allele of SPO11, spore viability is improved, suggesting that the increased PSSC is due to increased crossing over. We present a model for PSSC in which a centromere-proximal CO promotes local loss of sister-chromatid cohesion.
Substitution Mapping in Dahl Rats Identifies Two Distinct Blood Pressure Quantitative Trait Loci Within 1.12- and 1.25-Mb Intervals on Chromosome 3
Authors: Lee Soon Jin , Liu Jun , Westcott Allison M , Vieth Joshua A , DeRaedt Sarah J , Yang Siming , Joe Bina , Cicila George T 
Published: October 2006

Abstract
Substitution mapping was used to refine the localization of blood pressure (BP) quantitative trait loci (QTL) within the congenic region of S.R-Edn3 rats located at the q terminus of rat chromosome 3 (RNO3). An F2(S × S.R-Edn3) population (n = 173) was screened to identify rats having crossovers within the congenic region of RNO3 and six congenic substrains were developed that carry shorter segments of R-rat-derived RNO3. Five of the six congenic substrains had significantly lower BP compared to the parental S rat. The lack of BP lowering effect demonstrated by the S.R(ET3 × 5) substrain and the BP lowering effect retained by the S.R(ET3 × 2) substrain together define the RNO3 BP QTL-containing region as ∼4.64 Mb. Two nonoverlapping substrains, S.R(ET3 × 1) and S.R(ET3 × 6), had significantly lower BP compared to the S strain, indicating the presence of two distinct BP QTL in the RNO3 q terminus. The RNO3 q terminus was fine mapped with newly developed polymorphic markers to characterize the extent of the congenic regions. The two RNO3 BP QTL regions were thus defined as within intervals of 0.05–1.12 and 0.72–1.25 Mb, respectively. Also important was our difficulty in fine mapping and marker placement in this portion of the rat genome (and thus candidate gene identification) using the available genomic data, including the rat genome sequence.
Testing Chromosomal Phylogenies and Inversion Breakpoint Reuse in Drosophila
Authors: González Josefa , Casals Ferran , Ruiz Alfredo 
Published: October 2006

Abstract
A combination of cytogenetic and bioinformatic procedures was used to test the chromosomal phylogeny relating Drosophila buzzatii with D. repleta. Chromosomes X and 2, harboring most of the inversions fixed between these two species, were analyzed. First, chromosomal segments conserved during the divergence of the two species were identified by comparative in situ hybridization to the D. repleta chromosomes of 180 BAC clones from a BAC-based physical map of the D. buzzatii genome. These conserved segments were precisely delimited with the aid of clones containing inversion breakpoints. Then GRIMM software was used to estimate the minimum number of rearrangements necessary to transform one genome into the other and identify all possible rearrangement scenarios. Finally, the most plausible inversion trajectory was tested by hybridizing 12 breakpoint-bearing BAC clones to the chromosomes of seven other species in the repleta group. The results show that chromosomes X and 2 of D. buzzatii and D. repleta differ by 12 paracentric inversions. Nine of them are fixed in chromosome 2 and entail two breakpoint reuses. Our results also show that the cytological relationship between D. repleta and D. mercatorum is closer than that between D. repleta and D. peninsularis, and we propose that the phylogenetic relationships in this lineage of the repleta group be reconsidered. We also estimated the rate of rearrangement between D. repleta and D. buzzatii and conclude that rates within the genus Drosophila vary substantially between lineages, even within a single species group.
The Transposable Element Landscape of the Model LegumeLotus japonicus
Authors: Holligan Dawn , Zhang Xiaoyu , Jiang Ning , Pritham Ellen J , Wessler Susan R 
Published: October 2006

AbstractThe largest component of plant and animal genomes characterized to date is transposable elements (TEs). The availability of a significant amount of Lotus japonicus genome sequence has permitted for the first time a comprehensive study of the TE landscape in a legume species. Here we report the results of a combined computer-assisted and experimental analysis of the TEs in the 32.4 Mb of finished TAC clones. While computer-assisted analysis facilitated a determination of TE abundance and diversity, the availability of complete TAC sequences permitted identification of full-length TEs, which facilitated the design of tools for genomewide experimental analysis. In addition to containing all TE types found in previously characterized plant genomes, the TE component of L. japonicus contained several surprises. First, it is the second species (after Oryza sativa) found to be rich in Pack-MULEs, with &gt;1000 elements that have captured and amplified gene fragments. In addition, we have identified what appears to be a legume-specific MULE family that was previously identified only in fungal species. Finally, the L. japonicus genome contains many hundreds, perhaps thousands of Sireviruses: Ty1/copia-like elements with an extra ORF. Significantly, several of the L. japonicus Sireviruses have recently amplified and may still be actively transposing.
Phylogenetic Analysis of Fungal Centromere H3 Proteins
Authors: Baker Richard E , Rogers Kelly 
Published: October 2006

Abstract
Centromere H3 proteins (CenH3's) are variants of histone H3 specialized for packaging centromere DNA. Unlike canonical H3, which is among the most conserved of eukaryotic proteins, CenH3's are rapidly evolving, raising questions about orthology and conservation of function across species. To gain insight on CenH3 evolution and function, a phylogenetic analysis was undertaken on CenH3 proteins drawn from a single, ancient lineage, the Fungi. Using maximum-likelihood methods, a credible phylogeny was derived for the conserved histone fold domain (HFD) of 25 fungal CenH3's. The collection consisted mostly of hemiascomycetous yeasts, but also included basidiomycetes, euascomycetes, and an archaeascomycete. The HFD phylogeny closely recapitulated known evolutionary relationships between the species, supporting CenH3 orthology. The fungal CenH3's lacked significant homology in their N termini except for those of the Saccharomyces/Kluyveromyces clade that all contained a region homologous to the essential N-terminal domain found in Saccharomyces cerevisiae Cse4. The ability of several heterologous CenH3's to function in S. cerevisiae was tested and found to correlate with evolutionary distance. Domain swapping between S. cerevisiae Cse4 and the noncomplementing Pichia angusta ortholog showed that species specificity could not be explained by the presence or absence of any recognized secondary structural element of the HFD.
Functional Characterization of Drosophila Translin and Trax
Authors: Claußen Maike , Koch Rafael , Jin Zhao-Yang , Suter Beat 
Published: October 2006

Abstract
The vertebrate RNA and ssDNA-binding protein Translin has been suggested to function in a variety of cellular processes, including DNA damage response, RNA transport, and translational control. The Translin-associated factor X (Trax) interacts with Translin, and Trax protein stability depends on the presence of Translin. To determine the function of the Drosophila Translin and Trax, we generated a translin null mutant and isolated a trax nonsense mutation. translin and trax single and double mutants are viable, fertile, and phenotypically normal. Meiotic recombination rates and chromosome segregation are also not affected in translin and trax mutants. In addition, we found no evidence for an increased sensitivity for DNA double-strand damage in embryos and developing larvae. Together with the lack of evidence for their involvement in DNA double-strand break checkpoints, this argues against a critical role for Translin and Trax in sensing or repairing such DNA damage. However, Drosophila translin is essential for stabilizing the Translin interaction partner Trax, a function that is surprisingly conserved throughout evolution. Conversely, trax is not essential for Translin stability as trax mutants exhibit normal levels of Translin protein.
Evolution of Amino-Acid Sequences and Codon Usage on the Drosophila miranda Neo-Sex Chromosomes
Authors: Bartolomé Carolina , Charlesworth Brian 
Published: October 2006

Abstract
We have studied patterns of DNA sequence variation and evolution for 22 genes located on the neo-X and neo-Y chromosomes of Drosophila miranda. As found previously, nucleotide site diversity is greatly reduced on the neo-Y chromosome, with a severely distorted frequency spectrum. There is also an accelerated rate of amino-acid sequence evolution on the neo-Y chromosome. Comparisons of nonsynonymous and silent variation and divergence suggest that amino-acid sequences on the neo-X chromosome are subject to purifying selection, whereas this is much weaker on the neo-Y. The same applies to synonymous variants affecting codon usage. There is also an indication of a recent relaxation of selection on synonymous mutations for genes on other chromosomes. Genes that are weakly expressed on the neo-Y chromosome appear to have a faster rate of accumulation of both nonsynonymous and unpreferred synonymous mutations than genes with high levels of expression, although the rate of accumulation when both types of mutation are pooled is higher for the neo-Y chromosome than for the neo-X chromosome even for highly expressed genes.
Cis-regulatory Evolution of Chalcone-Synthase Expression in the Genus Arabidopsis
Authors: de Meaux Juliette , Pop A , Mitchell-Olds T 
Published: October 2006

Abstract
The contribution of cis-regulation to adaptive evolutionary change is believed to be essential, yet little is known about the evolutionary rules that govern regulatory sequences. Here, we characterize the short-term evolutionary dynamics of a cis-regulatory region within and among two closely related species, A. lyrata and A. halleri, and compare our findings to A. thaliana. We focused on the cis-regulatory region of chalcone synthase (CHS), a key enzyme involved in the synthesis of plant secondary metabolites. We observed patterns of nucleotide diversity that differ among species but do not depart from neutral expectations. Using intra- and interspecific F1 progeny, we have evaluated functional cis-regulatory variation in response to light and herbivory, environmental cues, which are known to induce CHS expression. We find that substantial cis-regulatory variation segregates within and among populations as well as between species, some of which results from interspecific genetic introgression. We further demonstrate that, in A. thaliana, CHS cis-regulation in response to herbivory is greater than in A. lyrata or A. halleri. Our work indicates that the evolutionary dynamics of a cis-regulatory region is characterized by pervasive functional variation, achieved mostly by modification of response modules to one but not all environmental cues. Our study did not detect the footprint of selection on this variation.
The Anatomy of the Sphenopalatine Artery for the Endoscopic Sinus Surgeon
Authors: Simmen Daniel B. , Raghavan Ullas , Briner Hans Rudolf , Manestar Mirjana , Groscurth Peter , Jones Nick S. 
Published: October 2006

Background This study was performed to determine the variations in the branching pattern of the sphenopalatine artery medial to the crista ethmoidalis. Seventy-seven cadaver head sides that had been sectioned sagittally in the midline with their septum removed were used after injecting pink latex to highlight the arterial vessels. Methods The mucosa from the middle meatus from the level of the basal lamella was removed until the artery and its branches were seen and then was examined under the microscope to identify the position of the arterial branches. Results The sphenopalatine artery and its branches were identified in 75 specimens. Of these 75 specimens, 73 (97%) had 2 or more branches medial to the crista ethmoidalis, 49 (67%) had 3 or more branches, 26 (35%) had 4 or more branches, and 1 specimen had 10 branches. In two specimens the artery presented as a single trunk. Conclusion The sphenopalatine artery normally starts to branch lateral to the crista ethmoidalis and these branches vary widely. It is important that the surgeon who undertakes ligation or cautery of the artery is aware of these variations, otherwise they may overlook some of the branches. With an endoscopic approach, removal of the crista ethmoidalis helps visualize these branches.
Light and Electron Microscopic Study of Primary Atrophic Rhinitis Mucosa
Authors: Sayed Ramadan Hashem , Abou-Elhamd Kamal-Eldin Ahmed , Makhlouf Madeha M. M. 
Published: October 2006

Background This study examined the light and the electron microscopic changes in the mucosa of primary atrophic rhinitis and compared them with the normal nasal mucosa to establish the changes in the surfactant system. A prospective original study was performed. Methods Twenty cases of primary atrophic rhinitis were randomly selected in the outpatient clinic of Sohag University Ear, Nose, and Throat Department. Ten volunteers with no history of chronic nasal disease and with normal rhinopharyngeal picture were selected as control cases. A small punch biopsy was performed with a small forceps under local anesthesia from the medial edge of the inferior turbinate. After histological laboratory preparations, semithin sections (0.5–1 μm) were prepared by using an LKB ultramicrotome. The sections were stained by toluidine blue, examined by light microscope, and photographed. Ultrathin sections (500–800) from selected areas of the trimmed blocks were made and collected on copper grids. The ultrathin sections were then contrasted in uranyl acetate for 10 minutes and examined by electron microscope Jeol JEM-1010. Results Light microscopy of primary atrophic epithelium revealed typical nonkeratinized stratified squamous epithelium to keratinized squamous epithelium with a thin layer of keratin on the surface. Well-developed desmosomes appeared between the epithelial cells. In the lamina propria, no submucosal glands could be seen. Electron microscopy of it revealed that the stratification of the epithelium increased. Sloughing of the superficial cells was observed in some regions of the proliferating epithelium. Epithelial penetration with neutrophils (mainly) and lymphocytes (some) could be seen. No numerous multilamellar bodies (MLBs) could be detected in these cases. An increased amount of collagenous fibers was observed in the basement membrane. Conclusion In primary atrophic rhinitis, the epithelial cells revealed that desmosomes are characteristic of the metaplastic squamous epithelium and had no MLB in their cytoplasm, and cells in which occasional MLBs had been established showed interdigitations between them and the surrounding cells, suggesting an association between the surfactant deficiency and the development of desmosomes.
Effect of Cooling on Electrical Field Stimulation and Norepinephrine-Induced Contraction in Isolated Hypertrophic Human Nasal Mucosa
Authors: Chu Yueng-Hsiang , Wu Chin-Chen , Wang Hsing-Won 
Published: October 2006

BackgroundExposure to cold causes cutaneous vasoconstriction to reduce body heat loss, while the nasal cavity warms up the inspired cold air. This suggests cooling might evoke a different response in nasal mucosa blood vessels than in cutaneous blood vessels. Thus, the aim of this study was to evaluate the effect of cooling (to 24°C) on the vascular response of isolated nasal mucosa.MethodsAn in vitro isometric contraction of nasal mucosa excised from patients suffered from chronic nasal congestion was continuously recorded. Either electrical field stimulation (EFS) or exogenous norepinephrine (NE) was applied to the turbinate mucosa strip at 37 and 24°C, and the influence of cooling (to 24°C) was evaluated.ResultsEFS (1, 2, 4, and 8 Hz) produced frequency-dependent contractions at 37 and 24°C. Cooling did not alter the magnitude but significantly prolonged the duration of EFS-induced contraction. Exogenous NE (10-8to 10-4M) produced concentration-dependent contractions at 37 and 24°C. Cooling significantly enhanced the contractile responses evoked by NE between 3 × 10-6and 1 × 10-4M.ConclusionCooling (to 24°C) prolonged the EFS-induced and enhanced NE (3 × 10-6to 1 × 10-4M)-induced contraction of isolated human nasal mucosa.
Associative Practices in the Management of Complexity
Authors: Verebes Tom 
Published: October 2006

AbstractTom Verebes, a co‐director of the Architectural Association's Design Research Laboratory (DRL), writes about the programme's recent research in generative and parametric‐based software, as well as the actualisation of these innovations through automated fabrication technologies. One example is the DRL's recent initiative to collaborate with Gehry Technologies as a means of using an experimental academic environment to test professional design software applications currently in development. As Verebes shows, this integration extends into his own collaborative design office, ocean D, one of the surviving branches of the original OCEAN network that emerged in the early 1990s (discussed elsewhere in the issue by Michael Hensel). For Verebes, as for Brett Steele (also featured in this publication), academic research serves as a laboratory for the production of new practices. Copyright © 2006 John Wiley & Sons, Ltd.
Designing Commonspaces: Riffing with Michael Hardt on the Multitude and Collective Intelligence
Authors: Hight Christopher 
Published: October 2006

AbstractMichael Hardt has made an indispensable contribution to current understanding of the impact of globalisation on social, economic and political practice, especially in his two books, Empire and Multitude: War and Democracy in the Age of Empire. In order to engage Hardt with many of the projects and ideas raised in this issue, guest‐editors Christopher Hight and Chris Perry invited him to participate in a blog. The blog format enabled the resulting exchange between Christopher Hight and Hardt to be an open platform relating concepts like ‘empire’ and ‘multitude’ to contemporary design practice, and even raised challenges implicit in Hardt's own work. It also provided a productive alternative to the expropriation of a theorist's writings to legitimatise a particular design approach or methodology. Copyright © 2006 John Wiley & Sons, Ltd.
Clouds make nerds look good: field evidence of the impact of incidental factors on decision making
Authors: Simonsohn Uri 
Published: October 2006

AbstractAbundant experimental research has documented that incidental primes and emotions are capable of influencing people's judgments and choices. This paper examines whether the influence of such incidental factors is large enough to be observable in the field, by analyzing 682 actual university admission decisions. As predicted, applicants' academic attributes are weighted more heavily on cloudier days and non‐academic attributes on sunnier days. The documented effects are of both statistical and practical significance: changes in cloud cover can increase a candidate's predicted probability of admission by an average of up to 11.9%. These results also shed light on the causes behind the long demonstrated unreliability of experts making repeated judgments from the same data. Copyright © 2006 John Wiley & Sons, Ltd.
Bone morphogenetic protein‐4 expression in the adult rat brain
Authors: Mikawa Sumiko , Wang Cong , Sato Kohji 
Published: October 2006

AbstractBone morphogenetic protein‐4 (BMP4) is a member of the transforming growth factor‐β (TGF‐β) superfamily and plays important roles in multiple biological events. Although BMP4 expression has been well described in the early development of the central nervous system (CNS), little information is available on its expression in the adult CNS. Therefore, we investigated BMP4 expression in the adult rat CNS by using immunohistochemistry. BMP4 is intensely expressed in most neurons and their dendrites. In addition, intense BMP4 expression was also observed in the neuropil of the gray matters where high plasticity is reported, such as the molecular layer of the cerebellum and the superficial layer of the superior colliculus. Furthermore, we found that astrocytes also express BMP4 protein. These data indicate that BMP4 is more widely expressed throughout the adult CNS than previously reported, and its continued abundant expression in the adult brain strongly supports the idea that BMP4 plays pivotal roles also in the adult brain. J. Comp. Neurol. 499:613–625, 2006. © 2006 Wiley‐Liss, Inc.