Nuclear expression of an environmentally friendly synthetic protein based polymer gene in tobacco cells

Summary We report here expression of a protein based polymer gene (Gly-Val-Gly-Val-Pro)₁₂₁, coding for three amino acids in a pentamer sequence repeated 121 times via the nuclear genome of tobacco cells. Transformed tobacco cells were obtained by particle bombardment. Stably transformed cells show the presence of the polymer gene in the tobacco nuclear genome (2–5 copies); introduced polymer gene is transcribed efficiently as revealed by Northern blots; Western blots show the presence of the polymer protein. To the best of our knowledge, this report represents the first demonstration of expression of a synthetic gene (with no natural analog) in higher plants.     

GNAS Mutations Identify a Set of Right-Sided,RAS Mutant,Villous Colon Cancers

The purpose of this study is to determine the genetic frequency of GNAS activating mutations in colorectal cancer and the corresponding pathology of GNAS mutant tumors. Oncogenic mutations in GNAS have been described in a number of neoplasms including those of the pituitary, kidney, pancreas, and, more recently, in colon cancer. To ascertain the frequency in colon cancer we employed a sensitive pyrosequencing platform for mutation detection of the R201C and R201H GNAS hotspots in tumor samples representing all clinical stages. We additionally assayed for KRAS and BRAF mutations as previous reports have shown that these often co-occur with activating GNAS mutations. Of the 428 colon tumors assayed, mutations in GNAS were present in 10 of the samples (2.3%), indicating this is a significant, albeit infrequent, mutation in colorectal tumors. Nine GNAS mutant tumors (90%) harbored concomitant activating mutations in either the KRAS or BRAF oncogene, which was significantly greater than the mutation frequency of these genes in the tumor population (56%, p<0.0305). All ten of the GNAS mutant tumors arose in the right (proximal) colon (p<0.007), and 7 of 8 reviewed cases exhibited a marked villous morphology. Taken together, these data indicate that GNAS mutant colon tumors commonly have synchronous mutations in KRAS or BRAF, are right-sided in location, and are associated with a villous morphology.     

Tracing the origin of functional and conserved domains in the human proteome: implications for protein evolution at the modular level

Background  

The functional repertoire of the human proteome is an incremental collection of functions accomplished by protein domains evolved along the Homo sapiens lineage. Therefore, knowledge on the origin of these functionalities provides a better understanding of the domain and protein evolution in human. The lack of proper comprehension about such origin has impelled us to study the evolutionary origin of human proteome in a unique way as detailed in this study.     

Hyper expression of an environmentally friendly synthetic polymer gene

Summary Biodegradable polymers offer an environmentally friendly alternative to petroleum-based polymers. Applications of protein based polymers include the use of these compounds in the fields of medicine, molecular-based energy conversions, the manufacture of unique fibers, coatings and biodegradable plastics. We report here expression of a synthetic gene G-(VPGVG) ₁₁₉-VPGV coding for the EG-120mer (elastomer) in E. coli. Polymer expression is observed in uninduced cells grown in terrific broth in polyacrylamide gels negatively stained with CuCl₂. Electron micrographs reveal formation of inclusion bodies in uninduced cells occupying upto 80–90% of the cell volume under optimal growth conditions. To the best of our knowledge this report represents the first demonstration of hyper expression of a synthetic gene (with no natural analog) in E. coli.     

Flowering and morphogenic responses of new Aster hybrids to photoperiod

Photoperiod treatments of 13, 14.5, 16 and 17.5 h were used to determine the photoperiodic response of the interspecific Aster hybrids 'Painted Lady', 'Snowflake' and 'Blue Butterfly' belonging to 'Butterfly' series, under glasshouse conditions. Rate of flowering was higher under 13-h photoperiods decreasing up to 16-h photoperiods. The rate of flowering for 13- and 17.5-h photoperiods was nearly similar but under the longest photoperiod flowering was erratic and sometimes abortion of the apical bud was observed. Pholoperiod affected the morphology of the plant. Increasing photo-periods up to 16 h induced an increase of internode length of the main axis, of total length of lateral shoots, the number of ray florets. In a 13-h photoperiod the plants produced a paniculate-racemose shaped inflorescence while in longer photoperiods the inflorescence was paniculate-corymbose shaped.     

A Meta Analysis of Pancreatic Microarray Datasets Yields New Targets as Cancer Genes and Biomarkers

The lack of specific symptoms at early tumor stages, together with a high biological aggressiveness of the tumor contribute to the high mortality rate for pancreatic cancer (PC), which has a five year survival rate of less than 5%. Improved screening for earlier diagnosis, through the detection of diagnostic and prognostic biomarkers provides the best hope of increasing the rate of curatively resectable carcinomas. Though many serum markers have been reported to be elevated in patients with PC, so far, most of these markers have not been implemented into clinical routine due to low sensitivity or specificity. In this study, we have identified genes that are significantly upregulated in PC, through a meta-analysis of large number of microarray datasets. We demonstrate that the biological functions ascribed to these genes are clearly associated with PC and metastasis, and that that these genes exhibit a strong link to pathways involved with inflammation and the immune response. This investigation has yielded new targets for cancer genes, and potential biomarkers for pancreatic cancer. The candidate list of cancer genes includes protein kinase genes, new members of gene families currently associated with PC, as well as genes not previously linked to PC. In this study, we are also able to move towards developing a signature for hypomethylated genes, which could be useful for early detection of PC. We also show that the significantly upregulated 800+ genes in our analysis can serve as an enriched pool for tissue and serum protein biomarkers in pancreatic cancer.     

Tracing the origin of functional and conserved domains in the human proteome: implications for protein evolution at the modular level

Background

The highly homologous PE_PGRS (Proline-glutamic acid_polymorphic GC-rich repetitive sequence) genes are members of the PE multigene family which is found only in mycobacteria. PE genes are particularly abundant within the genomes of pathogenic mycobacteria where they seem to have expanded as a result of gene duplication events. PE_PGRS genes are characterized by their high GC content and extensive repetitive sequences, making them prone to recombination events and genetic variability.

Results

Comparative sequence analysis of Mycobacterium tuberculosis genes PE_PGRS17 (Rv0978c) and PE_PGRS18 (Rv0980c) revealed a striking genetic variation associated with this typical tandem duplicate. In comparison to the M. tuberculosis reference strain H37Rv, the variation (named the 12/40 polymorphism) consists of an in-frame 12-bp insertion invariably accompanied by a set of 40 single nucleotide polymorphisms (SNPs) that occurs either in PE_PGRS17 or in both genes. Sequence analysis of the paralogous genes in a representative set of worldwide distributed tubercle bacilli isolates revealed data which supported previously proposed evolutionary scenarios for the M. tuberculosis complex (MTBC) and confirmed the very ancient origin of " M. canettii " and other smooth tubercle bacilli. Strikingly, the identified polymorphism appears to be coincident with the emergence of the post-bottleneck successful clone from which the MTBC expanded. Furthermore, the findings provide direct and clear evidence for the natural occurrence of gene conversion in mycobacteria, which appears to be restricted to modern M. tuberculosis strains.

Conclusion

This study provides a new perspective to explore the molecular events that accompanied the evolution, clonal expansion, and recent diversification of tubercle bacilli.     

Odorants for Surveillance and Control of the Asian Citrus Psyllid (Diaphorina citri)

Background

The Asian Citrus Psyllid (ACP), Diaphorina citri, can transmit the bacterium Candidatus Liberibacter while feeding on citrus flush shoots. This bacterium causes Huanglongbing (HLB), a major disease of citrus cultivation worldwide necessitating the development of new tools for ACP surveillance and control. The olfactory system of ACP is sensitive to variety of odorants released by citrus plants and offers an opportunity to develop new attractants and repellents.

Results

In this study, we performed single-unit electrophysiology to identify odorants that are strong activators, inhibitors, and prolonged activators of ACP odorant receptor neurons (ORNs). We identified a suite of odorants that activated the ORNs with high specificity and sensitivity, which may be useful in eliciting behavior such as attraction. In separate experiments, we also identified odorants that evoked prolonged ORN responses and antagonistic odorants able to suppress neuronal responses to activators, both of which can be useful in lowering attraction to hosts. In field trials, we tested the electrophysiologically identified activating odorants and identified a 3-odor blend that enhances trap catches by ∼230%.

Conclusion

These findings provide a set of odorants that can be used to develop affordable and safe odor-based surveillance and masking strategies for this dangerous pest insect.     

Theoretical Investigation of Plasmonic Properties of Quantum-Sized Silver Nanoparticles

Plasmonic nanoparticles (NPs) like silver (Ag) strongly absorb the incident light and produce enhanced localized electric field at the localized surface plasmon resonance (LSPR) frequency. Enormous theoretical and experimental research has focused on the plasmonic properties of the metallic nanoparticles with sizes greater than 10 nm. However, such studies on smaller sized NPs in the size range of 3 to 10 nm (quantum-sized regime) are sparse. In this size regime, the conduction band of the metal particles discretizes, thus altering plasmon properties of the NPs from classical to the quantum regime. In this study, plasmonic properties of the spherical Ag NPs in size range of 3 to 20 nm were investigated using both quantum and classical modeling to understand the importance of invoking quantum regime to accurately describing their properties in this size regime. Theoretical calculations using standard Mie theory were carried out to monitor the LSPR peak shift and electric field enhancement as a function of the size of the bare plasmonic nanoparticle and the refractive index (RI) of the surrounding medium. Comparisons were made with and without invoking quantum regime. Also, the optical properties of metallic NPs conjugated with a chemical ligand using multi-layered Mie theory were studied, and interesting trends were observed.

     

Mutations in TP53, ZNF750, and RB1 typify ocular sebaceous carcinoma

<正>Sebaceous carcinoma(SC) of the eyelid is a rare but aggressive malignancy, accounting for 3%e5% of eyelid malignancies in the United States, and up to 35% in Asian populations(Deprez and Uffer, 2009; Xu et al., 2018; Yu et al., 2018). It is frequently mistaken for benign conditions or less aggressive malignancies such as basal cell carcinoma(Muqit et al., 2013), and the effects of delay in diagnosis can be devastating to patients. Aggressive surgical resection is the primary treatment of these tumors and often involves orbital