Transcriptome profiling and weighted gene co-expression network analysis of early floral development in Aquilegia coerulea
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Transcriptome profiling and weighted gene co-expression network analysis of early floral development in Aquilegia coerulea
The first phases of floral development include a number of crucial processes that form the basis of the subsequent morphogenesis of floral organs and reproductive success. Currently, the main changes in transcription during this development window have been characterized in the model species Arabidopsis Thaliana, but it is known to know how the dynamics of transcription changes during these development processes in others Plant systems.
Here we led the first profile of in-depth transcriptome in anticipated floral development in aquilegia with four steps of finely dissected development, with eight biological replicas per floor. Use of the analysis of the expression of differential gene and analysis of the weighted gene co-expression network, we have identified the two crucial genes whose expression changes brand transitions between the development steps and the hub genes in Co-expression modules. Our results support the potential functional conservation of key genes at the beginning of floral development that have been identified in other systems, but also reveal a number of unknown or neglected lockers worthy of a further investigation.
In addition, our results highlight not only the dynamics of transcriptional regulation during early floral development, but also the potential involvement of key networks of small RNA and post-translational regulations at these development stages. In the case of a mass radiological or nuclear scenario, it is important to distinguish between non-exposed individuals (worried), low-dose and those who develop the acute hematology radiation syndrome (HARS) in the Three first days postulated. In previous Baboine studies, we identified changes in expression of modified genes after irradiation, which predicted the severity of the severity of the severe subsequent. Similar changes in the expression of four of these genes have been observed using a human human human blood model in vitro. However, these studies provided only limited information on the deadline for changes after exposure to HAR development relations.
Identify the mechanisms underlying the protective effect of tetramethylpyrazine against intitro ototoxicity induced by cisplatin in Hei-Oc1 hearing cells using gene expression profiling
Sensorinal auditory loss is widespread in patients receiving cisplatin therapy. Tetramethylpyrazine (TET) and Tanhinone IIa (TAN IAA) have protective roles against hearing impairment or ototoxicity. This study was intended to study the molecular mechanisms underlying the otoxicity induced by cisplatin and the protective effect of TET and TAN IIA against it. Corti Organ House Ear Institute 1 Hearing cells was treated with titrant doses of Tan IIa, Tet and Cisplatin. In a dosage of cell viability, cisplatin, tanning IIa and TET had IC50 values of 42.89 μm, 151.80 and 1.04×103 mg / l, respectively.
TAN II Cytotoxicity induced by increased cisplatin. However, Tet <75 mg / L concentrations have attenuated cytotoxicity and cisplatin-induced apoptosis. In addition, a sequencing analysis of the RNA was carried out on hearing cells treated for 30 h with a cisplatin of 30 μm alone for 48 hours or combined with 37.5 mg / l tt for 30 h. The genes expressed differentially (DEGS) induced under these conditions have been identified and examined using the ontology of genes and the kyoto encyclopedia of genes and an analysis of the genomes trails. Cisplatin has increased the expression of P53 and Foxo-related genes, such as the FAS, P21 / CDKN1A and BCL-2 link component, but decreased the expression of the insulin-type growth factor (IGF1), as well as Genes in clusters histones (histon) 1 and hist2. Treatment with the Foxo3 and BCL-2 connecting component Tet 3, and increased the expression of the IGF1. In addition, Tet Tet Genes surregulated associated with WNT signaling, but not to genes related to P53. Thus, the otoprotective TET properties can be mediated by activating WNT and IgF1 signaling and the inhibition of Foxo signaling.
Transcriptome profiling and weighted gene co-expression network analysis of early floral development in Aquilegia coerulea
Ladder identification and phylogenetic and expression profiling analyzes, XE gene families in Brassica Rapa L. and Brassica oleracea l
Background: xyloglucan endotransglucosylase / hydrolase genes (XTHS) is a multigen family and play key roles in the regulation of cell wall scalability in growth and plant development. Brassica Rapa and Brassica Oleracea contain XTHES, but a detailed identification and characterization of the fifteenth family of these species, as well as the analysis of their tissue expression profiles, have not been carried out before.
Results: In this study, 53 and 38 Xth Genes have been identified in B. Rapa and B. Oleracea respectively, which contained new members not observed in previous studies. All XTHS of B. Rapa, B. Oleracea and Arabidopsis Thaliana could be classified into three groups, group I / II, III and the Early Diverging Group on the basis of phylogenetic relations. Gene structures and patterns of motifs were similar within each group. All XTHES in this study contained two retained domains characteristic (glyco_hydro and xet_c). The XTHS are located mainly in the cell wall, but some are also located in the cytoplasm.
The analysis of the genes expansion mechanisms revealed that genome triplication events of the entire genome (WGT) and Duplication Tandem (TD) may have been the main mechanisms representing the expansion of the XIENTE GENE FAMILY. Interestingly, TD genes all belonged to the I / II group, suggesting that TD was the main reason for the largest number of genes in these groups. B. OLERACEA had lost more than 10th genes, the domain retained Xet_C and the exudix of active site pattern stored compared to B. Rapa, in accordance with the asymmetric evolution between the two genomes of Brassica. A majority of Xth Genes have presented different tissue-specific expression models based on RNA-SEQ data analyzes. In addition, there was a differential expression of Xth of duplicate genes in both species, indicating that their functional differentiation occurred after B. Rapa and B. Oleracea diverged from a common ancestor.
Description: Rat ovary tissue lysate was prepared by homogenization using a proprietary technique. The tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The rat ovary tissue total protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, Glycerol, Sodium deoxycholate, NP-40, and a cocktail of protease inhibitors. For quality control purposes, the ovary tissue pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The ovary tissue is then Western analyzed by either GAPDH or β-actin antibody, and the expression level is consistent with each lot.
Description: Human ovary tissue lysate was prepared by homogenization using a proprietary technique. The tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The human ovary tissue total protein is provided in a buffer including HEPES (pH7.9), MgCl2, KCl, EDTA, Sucrose, Glycerol, Sodium deoxycholate, NP-40, and a cocktail of protease inhibitors. For quality control purposes, the ovary tissue pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The ovary tissue is then Western analyzed by either GAPDH or β-actin antibody, and the expression level is consistent with each lot.
Description: Fetal human ovary tissue lysate was prepared by homogenization using a proprietary technique. The tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The fetal human ovary tissue total protein is provided in a buffer including HEPES (pH7.9), MgCl2, KCl, EDTA, Sucrose, Glycerol, Sodium deoxycholate, NP-40, and a cocktail of protease inhibitors. For quality control purposes, the ovary tissue pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The ovary tissue is then Western analyzed by either GAPDH or β-actin antibody, and the expression level is consistent with each lot.
Description: Human ovary tissue membrane protein lysate was prepared by isolating the membrane protein from whole tissue homogenates using a proprietary technique. The human ovary tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The membrane protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, Glycerol, sodium deoxycholate, NP-40, and a cocktail of protease inhibitors. For quality control purposes, the isolated ovary tissue membrane protein pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The isolated ovary tissue membrane protein is then Western analyzed by either GAPDH or β-actin antibody to confirm there is no signal or very weak signal.
Description: Human ovary tissue cytoplasmic protein lysate was prepared by isolating the cytoplasmic protein from whole tissue homogenates using a proprietary technique. The human ovary tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The cytoplasmic protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, glycerol, and a cocktail of protease inhibitors. For quality control purposes, the isolated ovary tissue cytoplasmic protein pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The isolated ovary tissue cytoplasmic protein is then Western analyzed by GAPDH antibody, and the expression level is consistent with each lot.
Description: This cell lysate is prepared from rat ovary tissue using Boster's RIPA Lysis Buffer (AR0105) using a standard whole cell lysate protocol. The concentration was determined using the BCA assay process and then diluted using Dithiothreitol (DTT) and a reducing SDS sample loading buffer, heated for 5 minutes at 100˚C.
Description: This cell lysate is prepared from mouse ovary tissue using Boster's RIPA Lysis Buffer (AR0105) using a standard whole cell lysate protocol. The concentration was determined using the BCA assay process and then diluted using Dithiothreitol (DTT) and a reducing SDS sample loading buffer, heated for 5 minutes at 100˚C.
Description: Human ovary tissue membrane protein lysate was prepared by isolating the membrane protein from whole tissue homogenates using a proprietary technique. The human ovary tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The membrane protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, Glycerol, sodium deoxycholate, NP-40, and a cocktail of protease inhibitors. For quality control purposes, the isolated ovary tissue membrane protein pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The isolated ovary tissue membrane protein is then Western analyzed by either GAPDH or β-actin antibody to confirm there is no signal or very weak signal.
Description: Human ovary tissue cytoplasmic protein lysate was prepared by isolating the cytoplasmic protein from whole tissue homogenates using a proprietary technique. The fetal human ovary tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The cytoplasmic protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, glycerol, and a cocktail of protease inhibitors. For quality control purposes, the isolated ovary tissue cytoplasmic protein pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The isolated ovary tissue cytoplasmic protein is then Western analyzed by GAPDH antibody, and the expression level is consistent with each lot.
Description: Human ovary tissue cytoplasmic protein lysate was prepared by isolating the cytoplasmic protein from whole tissue homogenates using a proprietary technique. The human ovary tissue was frozen in liquid nitrogen immediately after excision and then stored at -70°C. The cytoplasmic protein is provided in a buffer including HEPES (pH 7.9), MgCl2, KCl, EDTA, Sucrose, glycerol, and a cocktail of protease inhibitors. For quality control purposes, the isolated ovary tissue cytoplasmic protein pattern on SDS-PAGE gel is shown to be consistent for each lot by visualization with coomassie blue staining. The isolated ovary tissue cytoplasmic protein is then Western analyzed by GAPDH antibody, and the expression level is consistent with each lot.
Description: Our tissue products are produced by strictly following the IRB ethical standards and procedures and from highest quality tissues. Immediately after collection the tissues are placed in liquid nitrogen and examined by certified pathologists. The thickness of each individual section is ~5um. They are Hematoxylin and Eosin stained and quality tested by immunostaining with anti-beta-actin antibodies. Our tissue products are suitable for various studies on cellular level (RNA localization, Protein expression, etc.) on both normal and pathological cases. It is also an excellent control and educational tool.
Conclusions: We conducted the first systematic analysis of different genes families in B. Rapa and B. Oleracea. The results of this survey can be used for reference in other studies on the functions of the Xth Genes and the evolution of this multigen family.
