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https://www.readbyqxmd.com/read/29029285/selection-of-reference-genes-for-expression-studies-in-diaphorina-citri-hemiptera-liviidae
#1
Meire Menezes Bassan, Je Ssika Angelotti-Mendonc A, Gustavo Rodrigues Alves, Pedro Takao Yamamoto, Francisco de Assis Alves Moura O Filho
The Asian citrus psyllid, Diaphorina citri Kuwayama (Hemiptera: Liviidae), is considered the main vector of the bacteria associated with huanglongbing, a very serious disease that has threatened the world citrus industry. The absence of efficient control management protocols, including a lack of resistant cultivars, has led to the development of different approaches to study this pathosystem. The production of resistant genotypes relies on D. citri gene expression analyses by RT-qPCR to assess control of the vector population...
September 27, 2017: Journal of Economic Entomology
https://www.readbyqxmd.com/read/29017502/the-presence-of-residual-gold-nanoparticles-in-samples-interferes-with-the-rt-qpcr-assay-used-for-gene-expression-profiling
#2
Natasha M Sanabria, Mary Gulumian
BACKGROUND: RT-qPCR is routinely used in expression profiling of toxicity pathway genes. However, genetic and molecular level studies used to determine, understand and clarify potential risks of engineered nanomaterials (ENMs) are still incomplete. Concerns regarding possible interference caused by intracellular ENMs during analyses have been raised. The aim of this study was to verify a qPCR procedure for gene expression assays, which can be used in toxicity and exposure assessments...
October 10, 2017: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/28987956/determination-of-stable-reference-genes-for-rt-qpcr-expression-data-in-mechanistic-pain-studies-on-pig-dorsal-root-ganglia-and-spinal-cord
#3
Dale A Sandercock, Jennifer E Coe, Pierpaolo Di Giminiani, Sandra A Edwards
RNA expression levels for genes of interest must be normalised with appropriate reference or "housekeeping" genes that are stably expressed across samples and treatments. This study determined the most stable reference genes from a panel of 6 porcine candidate genes: beta actin (ACTB), beta-2-microglobulin (B2M), eukaryotic elongation factor 1 gamma-like protein (eEF-1), glyceraldehyde-3-phosphate dehydrogenase (GAPDH), succinate dehydrogenase complex subunit A (SDHA), Ubiquitin C (UBC) in sacral dorsal root ganglia and spinal cord samples collected from 16 tail docked pigs (2/3rds of tail amputated) 1, 4, 8 and 16weeks after tail injury (4 pigs/time point)...
September 28, 2017: Research in Veterinary Science
https://www.readbyqxmd.com/read/28970964/identification-of-reference-genes-in-blood-before-and-after-entering-the-plateau-for-sybr-green-rt-qpcr-studies
#4
Jun Xiao, Xiaowei Li, Juan Liu, Xiu Fan, Huifen Lei, Cuiying Li
BACKGROUND: Tibetans have lived at high altitudes for thousands of years, and they have unique physiological traits that enable them to tolerate this hypoxic environment. However, the genetic basis of these traits is still unknown. As a sensitive and highly efficient technique, RT-qPCR is widely used in gene expression analyses to provide insight into the molecular mechanisms underlying environmental changes. However, the quantitative analysis of gene expression in blood is limited by a shortage of stable reference genes for the normalization of mRNA levels...
2017: PeerJ
https://www.readbyqxmd.com/read/28966627/identification-of-optimal-reference-genes-for-expression-analysis-in-radish-raphanus-sativus-l-and-its-relatives-based-on-expression-stability
#5
Mengmeng Duan, Jinglei Wang, Xiaohui Zhang, Haohui Yang, Haiping Wang, Yang Qiu, Jiangping Song, Yangdong Guo, Xixiang Li
Radish (Raphanus sativus) is an important cruciferous root crop with a close relationship to Chinese cabbage (Brassica rapa). RT-qPCR is used extensively to evaluate the expression levels of target genes, and accurate measurement of target gene expression with this method is determined by the valid reference genes used for data nomalization in different experimental conditions. Screening for appropriate reference genes with stable expression based on RT-qPCR data is important for gene expression and functional analysis research in radish and its relatives...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28964897/comprehensive-evaluation-of-candidate-reference-genes-for-gene-expression-studies-in-lysiphlebia-japonica-hymenoptera-aphidiidae-using-rt-qpcr
#6
Xue-Ke Gao, Shuai Zhang, Jun-Yu Luo, Chun-Yi Wang, Li-Min Lü, Li-Juan Zhang, Xiang-Zhen Zhu, Li Wang, Hui Lu, Jin-Jie Cui
Lysiphlebia japonica (Ashmead) is a predominant parasitoid of cotton-melon aphids in the fields of northern China with a proven ability to effectively control cotton aphid populations in early summer. For accurate normalization of gene expression in L. japonica using quantitative reverse transcriptase-polymerase chain reaction (RT-qPCR), reference genes with stable gene expression patterns are essential. However, no appropriate reference genes is L. japonica have been investigated to date. In the present study, 12 selected housekeeping genes from L...
September 27, 2017: Gene
https://www.readbyqxmd.com/read/28955764/the-delayed-effect-of-mustard-gas-on-housekeeping-gene-expression-in-lung-biopsy-of-chemical-injuries
#7
Marzieh Eghtedardoost, Zuhair Mohammad Hassan, Nayereh Askari, Alireza Sadeghipour, Mohammad Mahdi Naghizadeh, Sara Ghafarpour, Tooba Ghazanfari
OBJECTIVE: Sulfur mustard (SM) was used as a chemical weapon in Iraq-Iran war. Exposed people have major complications in important organs such as pulmonary system. Some studies have shown that SM could affect the expression of endogenous genes and non-housekeeping genes, time dependently. To understand the accurate molecular mechanism of the delayed effect of SM, the identification of the gene expression pattern in these patients is essential. Hence, we have evaluated mRNA expression of four common housekeeping genes (ACTIN, PGK1, β2m, GAPDH) in SM-exposed and non-exposed (control) formalin-fixed, paraffin-embedded (FFPE) human lung tissues...
September 2017: Biochemistry and Biophysics Reports
https://www.readbyqxmd.com/read/28955312/a-response-surface-methodology-approach-to-investigate-the-effect-of-sulfur-dioxide-ph-and-ethanol-on-dbcd-and-dbvpr-gene-expression-and-on-the-volatile-phenol-production-in-dekkera-brettanomyces-bruxellensis-cbs2499
#8
Federica Valdetara, Daniela Fracassetti, Alessia Campanello, Carlo Costa, Roberto Foschino, Concetta Compagno, Ileana Vigentini
Dekkera/Brettanomyces bruxellensis, the main spoilage yeast in barrel-aged wine, metabolize hydroxycinnamic acids into off-flavors, namely ethylphenols. Recently, both the enzymes involved in this transformation, the cinnamate decarboxylase (DbCD) and the vinylphenol reductase (DbVPR), have been identified. To counteract microbial proliferation in wine, sulfur dioxide (SO2) is used commonly to stabilize the final product, but limiting its use is advised to preserve human health and boost sustainability in winemaking...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28949053/cervical-cancer-stem-like-cells-systematic-review-and-identification-of-reference-genes-for-gene-expression
#9
Rafael Paschoal de Campos, Iago Carvalho Schultz, Paola de Andrade Mello, Samuel Davies, Manuela Sangalli Gasparin, Ana Paula Santin Bertoni, Andréia Buffon, Márcia Rosângela Wink
Cervical cancer is the fourth most common cancer affecting women worldwide. Among many factors, the presence of cancer stem cells, a subpopulation of cells inside the tumor, has been associated with a worse prognosis. Considering the importance of gene expression studies to understand the biology of cervical cancer stem cells (CCSC), this work identifies stable reference genes for cervical cancer cell lines SiHa, HeLa and ME180 as well as their respective cancer stem-like cells. A literature review was performed to identify validated reference genes currently used to normalize RT-qPCR data in cervical cancer cell lines...
September 26, 2017: Cell Biology International
https://www.readbyqxmd.com/read/28946009/selection-of-reference-genes-for-quantitative-real-time-pcr-analysis-in-chicken-ovary-following-silver-nanoparticle-treatment
#10
Dorota Katarzyńska-Banasik, Małgorzata Grzesiak, Andrzej Sechman
Reliable results of quantitative real time PCR (qPCR) analysis require normalization of target gene expression level using reference genes (RGs). However housekeeping genes expression may vary under experimental conditions, so selection of the proper RGs is a crucial step in a qPCR analysis. Several algorithms have been developed to address this problem: geNorm, NormFinder and BestKeeper. In this study, we have used these three tools to evaluate the stability of RGs in the ovarian tissues of hens treated with silver nanoparticles...
September 20, 2017: Environmental Toxicology and Pharmacology
https://www.readbyqxmd.com/read/28934340/using-rna-seq-data-to-select-reference-genes-for-normalizing-gene-expression-in-apple-roots
#11
Zhe Zhou, Peihua Cong, Yi Tian, Yanmin Zhu
Gene expression in apple roots in response to various stress conditions is a less-explored research subject. Reliable reference genes for normalizing quantitative gene expression data have not been carefully investigated. In this study, the suitability of a set of 15 apple genes were evaluated for their potential use as reliable reference genes. These genes were selected based on their low variance of gene expression in apple root tissues from a recent RNA-seq data set, and a few previously reported apple reference genes for other tissue types...
2017: PloS One
https://www.readbyqxmd.com/read/28919905/candidate-reference-genes-selection-and-application-for-rt-qpcr-analysis-in-kenaf-with-cytoplasmic-male-sterility-background
#12
Bujin Zhou, Peng Chen, Aziz Khan, Yanhong Zhao, Lihong Chen, Dongmei Liu, Xiaofang Liao, Xiangjun Kong, Ruiyang Zhou
Cytoplasmic male sterility (CMS) is a maternally inherited trait that results in the production of dysfunctional pollen. Based on reliable reference gene-normalized real-time quantitative PCR (RT-qPCR) data, examining gene expression profile can provide valuable information on the molecular mechanism of kenaf CMS. However, studies have not been conducted regarding selection of reference genes for normalizing RT-qPCR data in the CMS and maintainer lines of kenaf crop. Therefore, we studied 10 candidate reference genes (ACT3, ELF1A, G6PD, PEPKR1, TUB, TUA, CYP, GAPDH, H3, and 18S) to assess their expression stability at three stages of pollen development in CMS line 722A and maintainer line 722B of kenaf...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28917607/selection-of-reliable-reference-genes-for-gene-expression-studies-in-botrytis-cinerea
#13
He Ren, Xiaoqing Wu, Yuping Lyu, Hongzi Zhou, Xueying Xie, Xinjian Zhang, Hetong Yang
Botrytis cinerea is an important plant pathogen causing grey mold disease in a wide range of plant species. The aim of this study was to identify reliable reference genes that can be used for the analysis of relative gene expression in B. cinerea with quantitative real-time reverse transcription PCR (qRT-PCR). Six commonly used housekeeping genes including actin (ACT), glyceraldehyde-3-phosphate dehydrogenase (GAPDH), ubiquitin (UBQ), ubiquitin-conjugating enzyme (UCE), α-tubulin (α-TUB) and β-tubulin (β-TUB) were selected to test their expression stabilities in B...
November 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28900431/genome-wide-identification-and-evaluation-of-reference-genes-for-quantitative-rt-pcr-analysis-during-tomato-fruit-development
#14
Yuan Cheng, Wuying Bian, Xin Pang, Jiahong Yu, Golam J Ahammed, Guozhi Zhou, Rongqing Wang, Meiying Ruan, Zhimiao Li, Qingjing Ye, Zhuping Yao, Yuejian Yang, Hongjian Wan
Gene expression analysis in tomato fruit has drawn increasing attention nowadays. Quantitative real-time PCR (qPCR) is a routine technique for gene expression analysis. In qPCR operation, reliability of results largely depends on the choice of appropriate reference genes (RGs). Although tomato is a model for fruit biology study, few RGs for qPCR analysis in tomato fruit had yet been developed. In this study, we initially identified 38 most stably expressed genes based on tomato transcriptome data set, and their expression stabilities were further determined in a set of tomato fruit samples of four different fruit developmental stages (Immature, mature green, breaker, mature red) using qPCR analysis...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28880574/selection-of-suitable-internal-control-genes-for-accurate-normalization-of-real-time-quantitative-pcr-data-of-buffalo-bubalus-bubalis-blastocysts-produced-by-scnt-and-ivf
#15
Tanushri Jerath Sood, Swati Viviyan Lagah, Ankita Sharma, Suresh Kumar Singla, Manishi Mukesh, Manmohan Singh Chauhan, Radheysham Manik, Prabhat Palta
We evaluated the suitability of 10 candidate internal control genes (ICGs), belonging to different functional classes, namely ACTB, EEF1A1, GAPDH, HPRT1, HMBS, RPS15, RPS18, RPS23, SDHA, and UBC for normalizing the real-time quantitative polymerase chain reaction (qPCR) data of blastocyst-stage buffalo embryos produced by hand-made cloning and in vitro fertilization (IVF). Total RNA was isolated from three pools, each of cloned and IVF blastocysts (n = 50/pool) for cDNA synthesis. Two different statistical algorithms geNorm and NormFinder were used for evaluating the stability of these genes...
October 2017: Cellular Reprogramming
https://www.readbyqxmd.com/read/28878356/selection-of-reference-genes-suitable-for-normalization-of-qpcr-data-under-abiotic-stresses-in-bioenergy-crop-arundo-donax-l
#16
Michele Poli, Silvio Salvi, Mingai Li, Claudio Varotto
Suitable reference gene selection in qRT-PCR is a key pre-requisite to produce reliable data in gene expression analyses. In this study, novel primers for six commonly used reference genes (AC1, TLF, Act2, TUB α, EF-1α and GAPDH) plus two new candidates (pDUF221 and RPN6) were designed and comparatively tested for expression stability under abiotic stresses (osmotic, heavy metal and heat shock) in shoot, root and their combination of Arundo donax L., a raising non-food energy crop. Expression stability rankings from the most to the least stable gene in each condition and in two tissues (young shoots and roots) were generated with geNorm, NormFinder and BestKeeper programs...
September 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28859135/identification-of-mir-16-as-an-endogenous-reference-gene-for-the-normalization-of-urinary-exosomal-mirna-expression-data-from-ckd-patients
#17
Tim Lange, Sylvia Stracke, Rainer Rettig, Uwe Lendeckel, Jana Kuhn, Rabea Schlüter, Volkhard Rippe, Karlhans Endlich, Nicole Endlich
Chronic kidney disease (CKD) is a severe disorder with an increasing incidence worldwide. An early detection may help to prevent its progression and to minimize the risk of cardiovascular diseases as one of the major comorbidities. Recently, extracellular miRNAs like urinary exosomal miRNAs became of great interest as non-invasive biomarkers which can be determined by RT-qPCR. But until now, there is no consensus regarding the normalization of miRNAs isolated from body fluids. The present study analyzed the miRNAs miR-16, miR-92a, miR-21, miR-124a and the small nuclear RNA RNU6B for their applicability as an endogenous reference gene in expression studies of exosomal miRNAs isolated from CKD patients...
2017: PloS One
https://www.readbyqxmd.com/read/28854748/pattern-recognition-receptor-genes-expression-profiling-in-indigenous-chickens-of-india-and-white-leghorn
#18
S Haunshi, Arun Kumar Burramsetty, T R Kannaki, K S Raja Ravindra, R N Chatterjee
Pattern recognition receptors (PRR) such as Toll-like receptors, NOD-like receptors, RIG-I helicase receptors, and C-type lectin receptors play a critical role in innate immunity as a first line of defense against invading pathogens through recognition of pathogen and/or damage-associated molecular patterns. Genetic makeup of birds is known to play a role in resistance or susceptibility to various infectious diseases. Therefore, the present study was carried out to elucidate the differential expression of PRR and some of the cytokine genes in peripheral blood mononuclear cells of indigenous chicken breeds such as Ghagus and Nicobari and an exotic chicken breed, White Leghorn (WLH)...
September 1, 2017: Poultry Science
https://www.readbyqxmd.com/read/28827728/reference-mirnas-for-colorectal-cancer-analysis-and-verification-of-current-data
#19
E Danese, A M Minicozzi, M Benati, E Paviati, G Lima-Oliveira, M Gusella, F Pasini, G L Salvagno, M Montagnana, G Lippi
MicroRNAs (miRNAs) hold great promise in cancer research. The use of appropriate reference miRNAs for normalization of qPCR data is crucial for accurate expression analysis. We present here analysis and verification of current data, proposing a workflow strategy for identification of reference miRNAs in colorectal cancer (CRC). We performed a systematic review of studies aimed to identify stable reference miRNAs in CRC through high-throughput screening. Among the candidate miRNAs selected from the literature we excluded those predicted to target oncogenes or tumor suppressor gene...
August 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28826607/a-strategy-to-find-suitable-reference-genes-for-mirna-quantitative-pcr-analysis-and-its-application-to-cervical-specimens
#20
Iris Babion, Barbara C Snoek, Mark A van de Wiel, Saskia M Wilting, Renske D M Steenbergen
miRNAs represent an emerging class of promising biomarkers for cancer diagnostics. To perform reliable miRNA expression analysis using quantitative PCR, adequate data normalization is essential to remove nonbiological, technical variations. Ideal reference genes should be biologically stable and reduce technical variability of miRNA expression analysis. Herein is a new strategy for the identification and evaluation of reference genes that can be applied for miRNA-based diagnostic tests without entailing excessive additional experiments...
September 2017: Journal of Molecular Diagnostics: JMD
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