93 research outputs found
Molecular Characterization and Tissue Localization of an F-Box Only Protein from Silkworm, Bombyx mori
The eukaryotic F-box protein family is characterized by an F-box motif that has been shown to be critical for the controlled degradation of regulatory proteins. We identified a
gene encoding an F-box protein from a cDNA library of silkworm pupae, which has an
ORF of 1821 bp, encoding a predicted 606 amino acids. Bioinformatic analysis on the
amino acid sequence shows that BmFBXO21 has a low degree of similarity to proteins
from other species, and may be related to the regulation of cell-cycle progression. We
have detected the expression pattern of BmFBXO21 mRNA and protein and performed
immunohistochemistry at three different levels. Expression was highest in the spinning
stage, and in the tissues of head, epidermis, and genital organs
Analysis of the dermatophyte Trichophyton rubrum expressed sequence tags
BACKGROUND: Dermatophytes are the primary causative agent of dermatophytoses, a disease that affects billions of individuals worldwide. Trichophyton rubrum is the most common of the superficial fungi. Although T. rubrum is a recognized pathogen for humans, little is known about how its transcriptional pattern is related to development of the fungus and establishment of disease. It is therefore necessary to identify genes whose expression is relevant to growth, metabolism and virulence of T. rubrum. RESULTS: We generated 10 cDNA libraries covering nearly the entire growth phase and used them to isolate 11,085 unique expressed sequence tags (ESTs), including 3,816 contigs and 7,269 singletons. Comparisons with the GenBank non-redundant (NR) protein database revealed putative functions or matched homologs from other organisms for 7,764 (70%) of the ESTs. The remaining 3,321 (30%) of ESTs were only weakly similar or not similar to known sequences, suggesting that these ESTs represent novel genes. CONCLUSION: The present data provide a comprehensive view of fungal physiological processes including metabolism, sexual and asexual growth cycles, signal transduction and pathogenic mechanisms
Recommended from our members
Light-induced charge density wave in LaTe3
When electrons in a solid are excited with light, they can alter the free
energy landscape and access phases of matter that are beyond reach in thermal
equilibrium. This accessibility becomes of vast importance in the presence of
phase competition, when one state of matter is preferred over another by only a
small energy scale that, in principle, is surmountable by light. Here, we study
a layered compound, LaTe, where a small in-plane (a-c plane) lattice
anisotropy results in a unidirectional charge density wave (CDW) along the
c-axis. Using ultrafast electron diffraction, we find that after
photoexcitation, the CDW along the c-axis is weakened and subsequently, a
different competing CDW along the a-axis emerges. The timescales characterizing
the relaxation of this new CDW and the reestablishment of the original CDW are
nearly identical, which points towards a strong competition between the two
orders. The new density wave represents a transient non-equilibrium phase of
matter with no equilibrium counterpart, and this study thus provides a
framework for unleashing similar states of matter that are "trapped" under
equilibrium conditions
Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery
The Shigella bacteria cause bacillary dysentery, which remains a significant threat to public health. The genus status and species classification appear no longer valid, as compelling evidence indicates that Shigella, as well as enteroinvasive Escherichia coli, are derived from multiple origins of E.coli and form a single pathovar. Nevertheless, Shigella dysenteriae serotype 1 causes deadly epidemics but Shigella boydii is restricted to the Indian subcontinent, while Shigella flexneri and Shigella sonnei are prevalent in developing and developed countries respectively. To begin to explain these distinctive epidemiological and pathological features at the genome level, we have carried out comparative genomics on four representative strains. Each of the Shigella genomes includes a virulence plasmid that encodes conserved primary virulence determinants. The Shigella chromosomes share most of their genes with that of E.coli K12 strain MG1655, but each has over 200 pseudogenes, 300∼700 copies of insertion sequence (IS) elements, and numerous deletions, insertions, translocations and inversions. There is extensive diversity of putative virulence genes, mostly acquired via bacteriophage-mediated lateral gene transfer. Hence, via convergent evolution involving gain and loss of functions, through bacteriophage-mediated gene acquisition, IS-mediated DNA rearrangements and formation of pseudogenes, the Shigella spp. became highly specific human pathogens with variable epidemiological and pathological features
The use of global transcriptional analysis to reveal the biological and cellular events involved in distinct development phases of Trichophyton rubrum conidial germination
<p>Abstract</p> <p>Background</p> <p>Conidia are considered to be the primary cause of infections by <it>Trichophyton rubrum</it>.</p> <p>Results</p> <p>We have developed a cDNA microarray containing 10250 ESTs to monitor the transcriptional strategy of conidial germination. A total of 1561 genes that had their expression levels specially altered in the process were obtained and hierarchically clustered with respect to their expression profiles. By functional analysis, we provided a global view of an important biological system related to conidial germination, including characterization of the pattern of gene expression at sequential developmental phases, and changes of gene expression profiles corresponding to morphological transitions. We matched the EST sequences to GO terms in the <it>Saccharomyces </it>Genome Database (SGD). A number of homologues of <it>Saccharomyces cerevisiae </it>genes related to signalling pathways and some important cellular processes were found to be involved in <it>T. rubrum </it>germination. These genes and signalling pathways may play roles in distinct steps, such as activating conidial germination, maintenance of isotropic growth, establishment of cell polarity and morphological transitions.</p> <p>Conclusion</p> <p>Our results may provide insights into molecular mechanisms of conidial germination at the cell level, and may enhance our understanding of regulation of gene expression related to the morphological construction of <it>T. rubrum</it>.</p
Dynamical slowing down in an ultrafast photo-induced phase transition
Complex systems, which consist of a large number of interacting constituents,
often exhibit universal behavior near a phase transition. A slowdown of certain
dynamical observables is one such recurring feature found in a vast array of
contexts. This phenomenon, known as critical slowing down, is well studied
mostly in thermodynamic phase transitions. However, it is less understood in
highly nonequilibrium settings, where the time it takes to traverse the phase
boundary becomes comparable to the timescale of dynamical fluctuations. Using
transient optical spectroscopy and femtosecond electron diffraction, we studied
a photo-induced transition of a model charge-density-wave (CDW) compound,
LaTe. We observed that it takes the longest time to suppress the order
parameter at the threshold photoexcitation density, where the CDW transiently
vanishes. This finding can be quantitatively captured by generalizing the
time-dependent Landau theory to a system far from equilibrium. The experimental
observation and theoretical understanding of dynamical slowing down may offer
insight into other general principles behind nonequilibrium phase transitions
in many-body systems
Identification of <em>CHIP</em> as a novel causative gene for autosomal recessive cerebellar ataxia
Autosomal recessive cerebellar ataxias are a group of neurodegenerative disorders that are characterized by complex clinical and genetic heterogeneity. Although more than 20 disease-causing genes have been identified, many patients are still currently without a molecular diagnosis. In a two-generation autosomal recessive cerebellar ataxia family, we mapped a linkage to a minimal candidate region on chromosome 16p13.3 flanked by single-nucleotide polymorphism markers rs11248850 and rs1218762. By combining the defined linkage region with the whole-exome sequencing results, we identified a homozygous mutation (c.493CT) in CHIP (NM_005861) in this family. Using Sanger sequencing, we also identified two compound heterozygous mutations (c.389AT/c.441GT; c.621C>G/c.707GC) in CHIP gene in two additional kindreds. These mutations co-segregated exactly with the disease in these families and were not observed in 500 control subjects with matched ancestry. CHIP colocalized with NR2A, a subunit of the N-methyl-D-aspartate receptor, in the cerebellum, pons, medulla oblongata, hippocampus and cerebral cortex. Wild-type, but not disease-associated mutant CHIPs promoted the degradation of NR2A, which may underlie the pathogenesis of ataxia. In conclusion, using a combination of whole-exome sequencing and linkage analysis, we identified CHIP, encoding a U-box containing ubiquitin E3 ligase, as a novel causative gene for autosomal recessive cerebellar ataxia
Characterization of an aspartate aminotransferase encoded by YPO0623 with frequent nonsense mutations in Yersinia pestis
Yersinia pestis, the causative agent of plague, is a genetically monomorphic bacterial pathogen that evolved from Yersinia pseudotuberculosis approximately 7,400 years ago. We observed unusually frequent mutations in Y. pestis YPO0623, mostly resulting in protein translation termination, which implies a strong natural selection. These mutations were found in all phylogenetic lineages of Y. pestis, and there was no apparent pattern in the spatial distribution of the mutant strains. Based on these findings, we aimed to investigate the biological function of YPO0623 and the reasons for its frequent mutation in Y. pestis. Our in vitro and in vivo assays revealed that the deletion of YPO0623 enhanced the growth of Y. pestis in nutrient-rich environments and led to increased tolerance to heat and cold shocks. With RNA-seq analysis, we also discovered that the deletion of YPO0623 resulted in the upregulation of genes associated with the type VI secretion system (T6SS) at 26°C, which probably plays a crucial role in the response of Y. pestis to environment fluctuations. Furthermore, bioinformatic analysis showed that YPO0623 has high homology with a PLP-dependent aspartate aminotransferase in Salmonella enterica, and the enzyme activity assays confirmed its aspartate aminotransferase activity. However, the enzyme activity of YPO0623 was significantly lower than that in other bacteria. These observations provide some insights into the underlying reasons for the high-frequency nonsense mutations in YPO0623, and further investigations are needed to determine the exact mechanism
- …