Porphyromonas gingivalis, a major pathogen of chronic periodontitis, colonizes in subgingival crevice and affects surrounding oral tissues, especially in periodontitis patients. Oral cancer mainly occurs in old-aged persons, and are exposed to the P. gingivalis, released from periodontitis, one of the most common inflammatory disease of oral cavity. Thus oral cancer cells may be infected with P. gingivalis, and its biologic behavior are autologously and/or heterogeneously modulated by altering gene expression. Exosomes which are derived from cells contain not only coding genes but also non-coding RNAs such as long non-coding RNAs, miRNA, and piRNAs. Here, to investigate the effect of P. gingivalis on oral cancer cells and to gain insight into the crosstalk between inflammatory signal from tumor microenvironment and oral cancer, we observed miRNA profiles of exosomes from P. gingivalis–infected oral cancer cells. Upregulation of 6 miRNAs, miR-203-3p, miR-6516-3p, miR-483-5p, miR-1275, miR-8485, and miR-19a-3p, were observed whereas 14 miRNAs including let-7a-3p, miR-106a-5p were downregulated. In addition, KEGG pathway analysis using the upregulated- and downregulated- miRNAs showed association with cell adhesion molecules pathway and ECM-receptor interaction pathway, respectively. These findings suggest that P. gingivalis could modulate biologic behavior of oral cancer cells through changes of exosomal miRNAs.

The role of CXCR7, a seven-transmembrane G-protein coupled chemokine receptor, which binds with high affinity to chemokine CXCL11 and CXCL12 in oral cancer cells and the effect of transient CXCR7-downregulation on proliferation and migration of oral squamous cell carcinoma (OSCC) cells have not been reported. The aim of the present study was to evaluate the effects of CXCR7 on an OSCC cell line. In this study, we down-regulated CXCR7 in the KOSCC25B OSCC cell line by siRNA. In vitro cell proliferation and migration assays were used to investigate the effect of CXCR7- downregulation on cell proliferation and migration in si.KOSCC25B cells. The CXCR7 down-regulated OSCC cells grew significantly slower than the negative control siRNA transfected KOSCC25B cells (p<0.05). Additionally, migration of si.KOSCC25B cells decreased significantly compared with non-transfected KOSCC25B cells (p<0.007). These results suggest that down-regulation of CXCR7 induces anti-proliferative and anti-migratory effects in OSCC, and that CXCR7 may be a useful target molecule for the treatment of OSCC.

Bovine viral diarrhea virus (BVDV) is a major pathogen that may be one of the main reasons for economic losses in the livestock industry. BVDV is a well-characterized member of Flaviviridae family with plus-stranded RNA viruses. Non-structural NS5B protein is RNA-dependent RNA polymerase, which is responsible for viral RNA synthesis and genome replication of BVDV. Therefore, the NS5B polymerase is a key target for the discovery of anti-BVDV drugs. A number of small-molecule inhibitors against the NS5B polymerase have been reported in literature of which we collected series molecules having various scaffold with their biological data determined by evident experimental conditions, methods and procedures. Then, we constructed database of 655 small-molecule NS5B inhibitors having definitive activity values, structural parameters, and physicochemical properties (such as molecular hydrophobicity, hydrophilicity, polarity, Hbond donors and H-bond acceptors) associated with their absorption and permeability through a cheminformatics approach. The database was opened to provide insight for allosteric NS5B inhibitors of BVDV with an accessible platform on the web (http://nabic.rda.go.kr/chemical genomic database/BVDV RNA dependent RNA polymerase inhibitors). This molecular information in the database would be useful in attempting to identify features and decision factors that enhance anti-BVDV activity or increase selectivity of the allosteric inhibitor. These anti-BVDV molecules could also be screening for the purpose of exploiting potent NS5B inhibitors in the same family (e.g., HCV, CSFV, YFV, WNV, and DENV).

Chicken Insulin-like Growth Factor-1 (cIGF-1), one of the most important hormone for regulating physiological function includes body growth, muscle volume, bone density, chicken cell development and metabolism. In order to find in vitro Knokdown expression of cIGF-1, this study introduced tetracycline inducible RNA interference expression system (TetRNAi system). Tet system can inductively control high expression of extrinsic genes and expression of intrinsic genes. So it has advantages such as minimized physiological side-effects any cell and low cytotoxicity. RNAi system is proving to be a powerful experimental tool for inhibition of gene expression and post-transcriptional mechanism of gene silencing. RNAi is mediated by small interfering RNA (siRNA) consisting of 19- to 23- nucleotide double-stranded RNA duplexes that promote specific endonucleolytic cleavage of mRNA targets through an RNA-induced silencing. Then, this study RNAi-based gene knockdown can be achieved by retroviral-based expression systems. Stable integration of our inducible siRNA vector allowed the production of siRNA on doxycycline induction, followed by specific down regulation of chicken IGF-1 gene. Analyses of Real-time PCR to determine expression of the cIGF-1 gene showed successful from chicken embronic fibroblast (CEF) cells with the reduced rate of an approximately 92%. Our results demonstrate the successful regulation of cIGF-1 knockdown expression in CEF cells and support the application of an tetracycline inducible RNAi expression system in transgenic Mini chicken production. This research was supported by Bio-industry Technology Development Program, Ministry for Food, Agriculture, Forestry and Fisheries, Republic of Korea.

Nitrogen is a key component in the growth of crop plant. To increase the yield of crops, an enormous amount of nitrogen fertilizer is currently being used, which increases the total production cost and leads to environmental pollution by the residual nitrogen sources. For these reasons, researchers have tried to improve the crop’s nitrogen use efficiency (NUE) as a solution for reducing the amount of nitrogen fertilizer used. MicroRNAs are a class of small non-coding RNAs regulating the expression of target genes. Recent studies suggested that the expression pool of microRNAs changes in response to a variety of nutrient deficiencies and that such changes play important roles in adapting to or resisting the consequential nutritional stresses. Here, we aim to identify and characterize rice microRNAs whose expression changes upon nitrogen starvation and re-supplementation. By applying RNA-Seq, we observed that the expression of a set of genes involved in nitrogen assimilation was altered in response to nitrogen deprivation. We also found that a considerable number of microRNAs exhibited dynamic expression changes in a nitrogen supply state-dependent manner and that the expression of genes targeted by those differentially regulated microRNAs was altered reciprocally. Our study suggests that microRNAs may have roles in regulating the response of rice to nitrogen supply state and subsequently modulating NUE.

MicroRNAs (miRNAs) are a class of non-coding RNAs approximately 21-nt in length which play important roles in regulating gene expression in plants. Although many miRNA studies have focused on a few model plants, miRNAs and their target genes remain largely unknown in hot pepper (Capsicum annuum), one of the most important crops cultivated worldwide. We here employed high-throughput small-RNA and degradome sequencing to comprehensively identify small-RNAs and their targets in pepper. From these, we identified several novel targets of miRNAs, including the major de novo methylation enzyme involved in RNA-directed DNA methylation in plants. Furthermore, we identified several highly abundant 22-nt miRNA families that target conserved domains in NB-LRRs and trigger the production of phased secondary siRNAs. We showed that transient co-expression of can-miR482 with Rpi-blb1, one of the potato NB-LRRs, resulted in the attenuation of the hypersenstive responses in Nicotiana benthamiana, suggesting that interaction between miR-482 family and disease resistance proteins is likely to serve as a conserved trigger for defense mechanism in Solanaceae. This work provides the first reliable draft of the pepper small RNA transcriptome that offers an expanded picture of miRNAs in relation to NB-LRR regulation, providing a basis for understanding the functional roles of miRNAs in disease resistance pepper.

Small RNAs, such as microRNAs (miRNAs) and small interfering RNAs (siRNAs), play crucial roles in post-transcriptional gene silencing (PTGS) in eukaryotes. Small RNAs function cell-autonomously as well as non-cell-autonomously. It has been well characterized that pathogenic fungi secrete some effector molecules facilitating their infection into plants. However, it is unclear whether molecules produced in plant cells are able to move into fungal cells during infection. To test if small RNAs generated from plant cells can move to fungal cells during infection, we generated transgenic Arabidopsis and rice plants expressing siRNAs targeting GFP gene generated from double-stranded RNA interference (dsRNAi) constructs for GFP gene. And then these transgenic plants were inoculated with transgenic rice blast fungus, Magnaporthe oryzae, expressing GFP transgene. Here, we showed that ectopic expression of siRNAs targeting GFP gene in transgenic plants significantly suppressed GFP expression in rice blast fungi inoculated, indicating that small RNA molecules generated in plant cells can move into infected fungal cells and efficiently degrade fungal GFP transcripts. Our results would provide a new small RNA-based strategy for the development of resistant crops against fungal pathogens.

MicroRNAs (miRNAs) are a class of non-coding RNAs approximately 21-nt in length which play important roles in regulating gene expression in plants. Although many miRNA studies have focused on a few model plants, miRNAs and their target genes remain largely unknown in hot pepper (Capsicum annuum), one of the most important crops cultivated worldwide. We here employed high-throughput sequencing to comprehensively identify small RNAs and their targets in pepper. From these, we identified several novel targets of miRNAs, including the major de novo methylation enzyme involved in RNA-directed DNA methylation in plants. Furthermore, we identified several highly abundant 22-nt miRNA families that target conserved domains in NB-LRRs. We showed that transient co-expression of the miRNA with NB-LRRs, resulted in the attenuation of the hypersenstive responses in Nicotiana benthamiana, suggesting that interaction between miRNA family and disease resistance proteins is likely to serve as a conserved trigger for defense mechanism in Solanaceae. This work provides the first reliable draft of the small RNA transcriptome in pepper that offers an expanded picture of miRNAs in relation to NB-LRR regulation, providing a basis for understanding the functional roles of miRNAs in disease resistance.