Genexpressionsanalyse an Tiermodellen des akuten neonatalen Lungenversagens: Evaluation dreier potentieller Housekeeping-Gene für die Real-Time PCR

2004 ◽  
Vol 208 (S 1) ◽  
Author(s):  
D Rawer ◽  
A Hilgendorff ◽  
M Dörner ◽  
A Trotter ◽  
J Leick ◽  
...  
2008 ◽  
Vol 18 (1) ◽  
pp. 53-58 ◽  
Author(s):  
Lina Maloukh ◽  
Jaroslav Matousek ◽  
Erik Van Bockstaele ◽  
Isabel Roldán-Ruiz

2018 ◽  
Vol 7 (1) ◽  
pp. 19
Author(s):  
Vivi Sofia ◽  
Hirowati Ali ◽  
Rizki Rahmadian ◽  
Fitri Amita

Disease Modifying Osteoarthritis Drugs (DMOADs) merupakan agen yang dapat mencegah, menghambat perkembangan atau mengembalikan perubahan morfologi pada penderita osteoarthritis. Salah satu yang termasuk DMOADs ini adalah diacerein. Diacerein menstimulasi terbentuknya Tissue Inhibitor Metalloproteinase-1 (TIMP-1) pada percobaan hewan. Tujuan penelitian ini adalah mengetahui pengaruh penggunaan diacerein pada ekspresi genTIMP-1 pada sel primer jaringan sinovial pasien osteoartritis. Pada penelitian ini dilakukan penambahan diacerein pada sel primer jaringan sinovial grade 4. Ekspresi gen dilihat dengan menggunakan alat Real Time PCR dari sampel yang telah diinkubasi dalam kurun waktu 24 jam dan 48 jam, kemudian dibandingkan dengan kontrol menggunakan metode ΔCT dengan GAPDH sebagai housekeeping gene. Dari hasil pengukuran ekspresi gen sampel 24 jam dan 48 jam didapatkan nilai berturut-turut 0,0179 dan 0,7423 dengan nilai kontrol 0,0005. Berdasarkan hasil penelitian, diketahui bahwa pada inkubasi diacerein selama 24 jam mampu meningkatkan ekspresi gen TIMP-1 dengan peningkatan sebesar 5,87 kali dibandingkan kelompok kontrol, sedangkan pada inkubasi selama 48 jam, diacerein mampu meningkatkan ekspresi gen TIMP-1 dengan peningkatan sebesar 1,53 kali jika dibandingkan dengan kelompok kontrol. Pada penelitian ini dapat disimpulkan bahwa overekspresi gen TIMP-1 berkaitan dengan pemberian diacerein pada osteoartritis.


2006 ◽  
Vol 18 (2) ◽  
pp. 111 ◽  
Author(s):  
A. Reeder ◽  
V. Schutzkus ◽  
J. Wiebelhaus-Finger ◽  
H. Khatib ◽  
R. L. Monson ◽  
...  

Previous results indicated that there was a difference in transcriptional activity depending on the method used to remove the cumulus cells after IVF (Zeringue et al. 2005 LabChip 5, 86-90). However, specific gene expression was not examined and therefore was the goal of the present study. The objective of this study was to compare the transcription levels of the HSP70.1 gene in bovine in vitro production (IVP) embryos that underwent cumulus removal by vortexing, hand stripping, or microfluidic treatment. Quantitative real-time PCR was used to estimate transcription levels of the HSP70.1 gene in bovine IVP zygotes and two-cell embryos. Transcription levels were compared between embryos that underwent three methods of cumulus removal. Presumptive zygotes were harvested at 2 or 24 h after cumulus removal by vortexing, by hand stripping, or by microfluidic means in order to compare the relative embryonic stress of these three treatments. Bovine in vitro embryos were produced by standard means with the only variable being the cumulus removal technique 24 h after fertilization. At 2 and 24 h post-cumulus removal, randomly selected presumptive zygotes were taken out of culture, preserved in RNAlater (Ambion, Inc., Austin, TX, USA) and stored at -20�C. RNA was extracted from single embryos via Qiagen's RNeasy Micro kit (Valencia, CA, USA). RNA was amplified and PCR products were detected with SYBR Green 1 (Applied Biosystems, Foster City, CA, USA) using an Opticon Monitor 3 real-time PCR machine (Bio-Rad Laboratories, Inc., Waltham, MA, USA). The threshold cycle (CT) numbers were determined for the amplified cDNA of the bovine HSP70.1 mRNA and for the housekeeping gene, acidic ribosomal phosphoprotein (PO), used as a reference. Then the amount of HSP70.1 was divided by the amount of PO to obtain a normalized HSP70.1 value expressed as the ratio of HSP70.1/PO. Ratios were analyzed by the GENMOD procedure in SAS (SAS Institute, Inc., Cary, NC, USA) accounting for replicates and treatments. Transcription levels of the HSP70.1 gene did not differ significantly between the microfluidically treated and vortexed groups of zygotes at 2 h post-cumulus removal (P = 0.1032) or between the hand-stripped and vortexed groups (P = 0.7567). In contrast, at 24 h post-cumulus removal, the embryos in the microfluidically treated group showed significantly higher levels of HSP70.1 transcription than the vortexed group (P = 0.0115). The transcription levels did not differ significantly between the hand-stripped and vortexed groups (P = 0.7875). This work strongly suggests that there is de novo RNA transcription in the early embryonic stages of the bovine. In addition to previously described improved developmental kinetics, the use of microfluidics in IVP leads to statistically significant differences in RNA transcription levels of HSP70.1.


2012 ◽  
Vol 78 (8) ◽  
pp. 2613-2622 ◽  
Author(s):  
Jana Junick ◽  
Michael Blaut

ABSTRACTQuantitative real-time PCR assays targeting thegroELgene for the specific enumeration of 12 human fecalBifidobacteriumspecies were developed. The housekeeping genegroEL(HSP60in eukaryotes) was used as a discriminative marker for the differentiation ofBifidobacterium adolescentis,B. angulatum,B. animalis,B. bifidum,B. breve,B. catenulatum,B. dentium,B. gallicum,B. longum,B. pseudocatenulatum,B. pseudolongum, andB. thermophilum. The bifidobacterial chromosome contains a single copy of thegroELgene, allowing the determination of the cell number by quantification of thegroELcopy number. Real-time PCR assays were validated by comparing fecal samples spiked with known numbers of a givenBifidobacteriumspecies. Independent of theBifidobacteriumspecies tested, the proportion ofgroELcopies recovered from fecal samples spiked with 5 to 9 log10cells/g feces was approximately 50%. The quantification limit was 5 to 6 log10groELcopies/g feces. The interassay variability was less than 10%, and variability between different DNA extractions was less than 23%. The method developed was applied to fecal samples from healthy adults and full-term breast-fed infants. Bifidobacterial diversity in both adults and infants was low, with mostly ≤3Bifidobacteriumspecies andB. longumfrequently detected. The predominant species in infant and adult fecal samples wereB. breveandB. adolescentis, respectively. It was possible to distinguishB. catenulatumandB. pseudocatenulatum. We conclude that thegroELgene is a suitable molecular marker for the specific and accurate quantification of human fecalBifidobacteriumspecies by real-time PCR.


2020 ◽  
Vol 4 (Supplement_1) ◽  
Author(s):  
Sunetra Mondal ◽  
Chinmay Saha ◽  
Nitai P Bhattacharyya ◽  
Satinath Mukhopadhyay

Abstract Turner’s syndrome (TS) is a common aneuploidy diagnosed by peripheral blood karyotyping in patients. Karyotyping involves manual labour, time and costs. Quantitative real-time PCR (qPCR) is a rapid molecular diagnostic test for TS that yields results of upto 48 samples within two hours at low cost with reasonable accuracy. To assess the sensitivity and specificity of qPCR in the rapid diagnosis of TS, genomic DNA was isolated and estimated from peripheral blood from 50 TS patients(45,XO-23, XO/XX mosaics - 10, Isochromosome Xq-12, XO/XY mosaics - 5), 25 normal females(46,XX) and 5 normal males(46,XY). qPCR was done using 96 well plates, fast real-time PCR. 4 primers were used - two on Xp [SHOX and ARSE] and two on Xq (VAMP7 and XIST). Autosomal gene HBB was used as housekeeping gene. The ΔΔ CT method was used for calculation of the ‘X gene dose’ with respect to the housekeeping gene and X genes from normal females. Differences of doses of the four X-chromosomal primers in different karyotypes were analysed. ROC curves were plotted to determine cut-offs to discriminate the different karyotypes of TS from normal females. qPCR could distinguish classical TS from normal females with >95% sensitivity and specificity. SHOX gene primer was the best to diagnose TS of all karyotypes combined and also classical TS(XO) from normal females. qPCR could also identify non-classical TS with >92% sensitivity and specificity,the best primer being ARSE, for detecting both mosaics and isochromosomes. The cut-offs determined from our study corroborates with past similar studies.1,2 qPCR using an appropriate panel of primers on the short and long arms of X chromosomes can be a rapid and cheaper alternative to karyotyping to diagnose TS of different karyotypes. The choice of primers should be guided by the need for a more sensitive or specific test depending on the clinical scenario. If used as a neonatal screening test, SHOX should be the best primer. For diagnostic purposes, when the pre-test probability is low, a more specific primer like SHOX would be more appropriate. However, when the pre-test probability is high, a sensitive primer for ruling out TS like VAMP7 is better. In case there is a high pre test probability of the patient having a non-classic TS rather than classic TS, ARSE should be used. This is the first study to show good sensitivity of qPCR in detecting non-classic TS of different karyotypes in addition to classic TS. References: 1. Ibarra-Ramírez M, Martínez-de-Villarreal LE. Clinical and genetic aspects of Turner’s syndrome. Medicina universitaria. 2016 Jan 1;18(70):42-8. 2 .Rocha MN et al. Applicability of real-time PCR methodology in the neonatal detection of Turner syndrome. Hormone and metabolic research. 2010 Aug;42(09):677-81.


2007 ◽  
Vol 19 (1) ◽  
pp. 246
Author(s):  
A. Baji Gal ◽  
S. Mamo ◽  
S. Bodo ◽  
A. Dinnyes

Real-time PCR has the potential to accurately quantify the mRNA level of selected genes in single cells and individual pre-implantation-stage embryos. The goal of our study was to examine the variations in gene expression within individual embryos of the same stage and between embryos of the same stage but from different sources. In our study, we determined expression level of the 7 most commonly used housekeeping genes in 8-cell-stage mouse embryos produced under different culture conditions. Messenger RNA of 6 embryos each that was derived in vivo, or cultured in vitro from the zygote stage, or derived from oocytes activated parthenogenetically and developed in vitro were extracted individually followed by reverse transcription into cDNA. Optimized real-time PCR was performed for cytoplasmic beta-actin (Actb), glyceraldehyde-3-phosphate dehydrogenase (Gapdh), H2A histone family, member Z (H2afz), hypoxanthine guanine phosphoribosyl transferase 1 (Hprt1), ubiquitin C (Ubc), peptidylprolyl isomerase A (cyclophilin A) (Ppia), and eukaryotic translation elongation factor 1 epsilon 1 (Eef1e1) genes. The results were analyzed, and the percentage standard error of the mean relative expression value was compared for all genes. All 7 genes were presented above the detection limit in all samples. One or two individual embryos showed 2- to 4-fold higher mRNA levels than the average for all genes in the group. The embryos cultured in vitro showed much higher expression levels of H2afz, Ppia, and Eef1e1 genes than those in the in vivo group. The parthenogenetic group was similar to the in vivo group in expression of Actb, H2afz, Hprt, and Eef1e1 genes, but showed significant differences (P < 0.05; Student's t-test) compared to the in vitro group (Table 1). The percent standard error of the mean decreased gradually as the number of samples was increased. The 6 individual embryos in similar groups showed relatively low variability compared to embryos at similar stage but produced in different conditions. Interestingly, the parthenogenetic embryos showed a level of gene expression comparable to that of the in vivo ones, notwithstanding their culture in vitro. In conclusion, morphological observations and similarity in developmental stage alone cannot guarantee the uniformity of embryo samples, and a minimum of 4–6 replicates per treatment is needed. Moreover, we showed that culture condition itself has an effect on housekeeping gene expression, which, if neglected, might result in misinterpretation of data. Table 1.Relative expression values of the different culture groups (mean ±SE; n =6 embryos) This work was supported by EU FP6 (MEXT-CT-2003-509582 and 518240), Wellcome Trust (Grant No. 070246), and Hungarian National Science Fund (OTKA) (Grant No. T046171).


2018 ◽  
Vol 7 (1) ◽  
pp. 19
Author(s):  
Vivi Sofia ◽  
Hirowati Ali ◽  
Rizki Rahmadian ◽  
Fitri Amita

Disease Modifying Osteoarthritis Drugs (DMOADs) merupakan agen yang dapat mencegah, menghambat perkembangan atau mengembalikan perubahan morfologi pada penderita osteoarthritis. Salah satu yang termasuk DMOADs ini adalah diacerein. Diacerein menstimulasi terbentuknya Tissue Inhibitor Metalloproteinase-1 (TIMP-1) pada percobaan hewan. Tujuan penelitian ini adalah mengetahui pengaruh penggunaan diacerein pada ekspresi genTIMP-1 pada sel primer jaringan sinovial pasien osteoartritis. Pada penelitian ini dilakukan penambahan diacerein pada sel primer jaringan sinovial grade 4. Ekspresi gen dilihat dengan menggunakan alat Real Time PCR dari sampel yang telah diinkubasi dalam kurun waktu 24 jam dan 48 jam, kemudian dibandingkan dengan kontrol menggunakan metode ΔCT dengan GAPDH sebagai housekeeping gene. Dari hasil pengukuran ekspresi gen sampel 24 jam dan 48 jam didapatkan nilai berturut-turut 0,0179 dan 0,7423 dengan nilai kontrol 0,0005. Berdasarkan hasil penelitian, diketahui bahwa pada inkubasi diacerein selama 24 jam mampu meningkatkan ekspresi gen TIMP-1 dengan peningkatan sebesar 5,87 kali dibandingkan kelompok kontrol, sedangkan pada inkubasi selama 48 jam, diacerein mampu meningkatkan ekspresi gen TIMP-1 dengan peningkatan sebesar 1,53 kali jika dibandingkan dengan kelompok kontrol. Pada penelitian ini dapat disimpulkan bahwa overekspresi gen TIMP-1 berkaitan dengan pemberian diacerein pada osteoartritis.


2012 ◽  
Vol 1 (1) ◽  
Author(s):  
Jacqueline Zimmermann ◽  
Andreas Hermann ◽  
Thomas Hummel ◽  
Mandy Scheibe ◽  
Martin Witt

Background: Previous research suggests that chemosensory stimuli mediated by branches of the trigeminal nerve are perceived differentially dependent on the location within the nasal cavity. Aim: The aim of this study was to acquire data on the occurrence of various trigeminal receptor mRNAs in different locations of the nasal mucosa using real-time PCR. Subjects & Methods: Biopsies of 12 healthy individuals (mean age: 37.8 years) were taken from the insertions of the middle and inferior turbinates, as well as anterior ventral and posterior dorsal septum. Real time-PCR was performed using primers for TRPA1 (ankyrin-like receptor with transmembrane domain I), ACCN3 (acidsensing ion channel), TRPV1 (transient receptor potential vanilloid receptor 1), TRPM8 (transient receptor potential receptor M8), and CALCB1 (calcitonin gene-related product). As housekeeping gene, HMBS was used. All primers were positively tested in a human trigeminal ganglion. Results: Strongest expression was shown for TRPV1 and ACCN3 in septal regions of male individuals, TRPM8 was not detected. TRPA1 mRNA was most strongly detected in anterior septal areas of female subjects. Younger subjects presented stronger receptor mRNA expressions than older ones. Conclusions: Present data of this small group did not reveal a significant coherence between expression of trigeminal receptor mRNAs and specific locations in the nasal cavity.


Author(s):  
Shoroq Mohammed AL Temimi ◽  
Adel Mosa AL-Rekabi

MicroRNA-146b is one of the widely studied microRNAs in thyroid cancers and has been shown to be frequently upregulated in papillary thyroid carcinoma and plays a crucial role in tumorigenesis, progression and may become a potential therapeutic target and biomarker of tumor diagnosis and prognosis. Estimation of microRNA-146b gene expression levels in fresh tissues of solitary thyroid nodulein comparison to normal adjacent tissue of same patients by using stem-loop follow by Taq-Man Real Time PCR (RT-PCR) technique to distinguish the benign nodule from papillary carcinoma and correlate with age, genderof patients,size of tumor,lymph node involvement and stage of tumors. Stem-loop Real time -PCR was performed to identify the level of microRNA-146b gene expression in fresh tissues of solitary thyroid nodule in comparison to normal adjacent tissues of same patients. The expression levels of microRNA-146b were normalized to housekeeping gene by using the livak method. The expression level of tissue microRNA-146b in papillary thyroid carcinoma cases was significantly higher than that benign cases and normal adjacent tissues. Receiver operating characteristic curve analyses indicated that use of tissue microRNA-146b have a high diagnostic sensitivity and specificity for papillary thyroid carcinomain correlated with nodal status and advance tumor- stage. The microRNA‑146b as a new novel diagnostic and prognostic biomarker forpapillary thyroid carcinoma.


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