当前位置： SCI文献检索 > Scientific Reports期刊下所有文献 > Selection and Validation of Reference Genes for Gene Expression Studies in Codonopsis pilosula Based on Transcriptome Sequence Data.

Selection and Validation of Reference Genes for Gene Expression Studies in Codonopsis pilosula Based on Transcriptome Sequence Data.

Abstract：

:Relative gene expression analyses by RT-qPCR (reverse transcription-quantitative PCR) are highly dependent on the reference genes in normalizing the expression data of target genes. Therefore, inappropriate endogenous control genes will lead to inaccurate target gene expression profiles, and the selection and validation of suitable internal reference genes becomes essential. In this study, we retrieved the commonly used reference genes in transcriptome datasets of Codonopsis pilosula by RNA-Seq (unpublished data), and selected 15 candidate reference genes according to the coefficient of variation (CV) and fold change (FC) value of gene expression. The expression levels of candidate reference genes, which is at different growth stages, undergoing cold stress and drought stress, was determined by RT-qPCR. The expression stability of these genes was evaluated using software packages and algorithms including ΔCt, geNorm, NormFinder and Bestkeeper. Then appropriate reference genes were screened and validated by target gene-UDGPase (UDP glucose pyrophosphorylase). The optimal RGs combinations of C. pilosula, including PP2A59γ, CPY20-1, UBCE32, RPL5B and UBC18 for developmental stage, RPL5B, RPL13 and PP2A59γ for cold treatment, RPL13 and PP2A59γ for drought treatment, were found and proposed as reference genes for future work. This paper laid foundations for both the selection of reference genes and exploration in metabolic mechanism of C. pilosula.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Liang L,He Z,Yu H,Wang E,Zhang X,Zhang B,Zhang C,Liang Z

doi

10.1038/s41598-020-58328-5

subject

Has Abstract

pub_date

2020-01-28 00:00:00

pages

1362

issue

1

issn

2045-2322

pii

10.1038/s41598-020-58328-5

journal_volume

10

pub_type

杂志文章

相关文献

Scientific Reports文献大全
  • Predictors for malignancy risk in subcentimeter thyroid nodules categorized as atypia/follicular lesion of undetermined significance by fine needle aspiration.

    abstract：:Little work has been done on the prediction of malignancy risk in patients with subcentimeter thyroid nodule (TN) categorized as atypia/follicular lesion of undetermined significance (AUS/FLUS). We performed a retrospective analysis on the medical records of subcentimeter TNs whose initial fine-needle aspiration (FNA)...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-019-50597-z

    authors： Ding J,Jiang L,Fang J,Jiang Y,Zhu Y,Hua T,Yuan Y,Wu W

    更新日期：2019-10-18 00:00:00

  • Sirt1 AS lncRNA interacts with its mRNA to inhibit muscle formation by attenuating function of miR-34a.

    abstract：:Recent studies demonstrate the functions of long non-coding RNAs (lncRNAs) in mediating gene expression at the transcriptional or translational level. Our previous study identified a Sirt1 antisense (AS) lncRNA transcribed from the Sirt1 AS strand. However, its role and regulatory mechanism is still unknown in myogene...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep21865

    authors： Wang GQ,Wang Y,Xiong Y,Chen XC,Ma ML,Cai R,Gao Y,Sun YM,Yang GS,Pang WJ

    更新日期：2016-02-23 00:00:00

  • Predicting episodic memory formation for movie events.

    abstract：:Episodic memories are long lasting and full of detail, yet imperfect and malleable. We quantitatively evaluated recollection of short audiovisual segments from movies as a proxy to real-life memory formation in 161 subjects at 15 minutes up to a year after encoding. Memories were reproducible within and across individ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep30175

    authors： Tang H,Singer J,Ison MJ,Pivazyan G,Romaine M,Frias R,Meller E,Boulin A,Carroll J,Perron V,Dowcett S,Arellano M,Kreiman G

    更新日期：2016-09-30 00:00:00

  • Characterization of aspartyl aminopeptidase from Toxoplasma gondii.

    abstract：:Aminopeptidases have emerged as new promising drug targets for the development of novel anti-parasitic drugs. An aspartyl aminopeptidase-like gene has been identified in the Toxoplasma gondii genome (TgAAP), although its function remains unknown. In this study, we characterized TgAAP and performed functional analysis ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep34448

    authors： Zheng J,Cheng Z,Jia H,Zheng Y

    更新日期：2016-09-28 00:00:00

  • Highly Sensitive Detection of Minimal Cardiac Ischemia using Positron Emission Tomography Imaging of Activated Platelets.

    abstract：:A reliable method for the diagnosis of minimal cardiac ischemia would meet a strong demand for the sensitive diagnosis of coronary artery disease in cardiac stress testing and risk stratification in patients with chest pain but unremarkable ECGs and biomarkers. We hypothesized that platelets accumulate early on in isc...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep38161

    authors： Ziegler M,Alt K,Paterson BM,Kanellakis P,Bobik A,Donnelly PS,Hagemeyer CE,Peter K

    更新日期：2016-12-02 00:00:00

  • Identification of Symmetrical RNA Editing Events in the Mitochondria of Salvia miltiorrhiza by Strand-specific RNA Sequencing.

    abstract：:Salvia miltiorrhiza is one of the most widely-used medicinal plants. Here, we systematically analyzed the RNA editing events in its mitochondria. We developed a pipeline using REDItools to predict RNA editing events from stand-specific RNA-Seq data. The predictions were validated using reverse transcription, RT-PCR am...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep42250

    authors： Wu B,Chen H,Shao J,Zhang H,Wu K,Liu C

    更新日期：2017-02-10 00:00:00

  • Regulation of PCGEM1 by p54/nrb in prostate cancer.

    abstract：:PCGEM1 is a long non-coding RNA (lncRNA) that is often upregulated in prostate cancer. However, little is known how PCGEM1 is regulated. In the present study, we show transcriptional regulation of PCGEM1 in response to androgen deprivation by p54/nrb. While ectopic expression of p54/nrb increases, suppression of p54/n...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep34529

    authors： Ho TT,Huang J,Zhou N,Zhang Z,Koirala P,Zhou X,Wu F,Ding X,Mo YY

    更新日期：2016-09-29 00:00:00

  • Elucidating the modes of action for bioactive compounds in a cell-specific manner by large-scale chemically-induced transcriptomics.

    abstract：:The identification of the modes of action of bioactive compounds is a major challenge in chemical systems biology of diseases. Genome-wide expression profiling of transcriptional responses to compound treatment for human cell lines is a promising unbiased approach for the mode-of-action analysis. Here we developed a n...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep40164

    authors： Iwata M,Sawada R,Iwata H,Kotera M,Yamanishi Y

    更新日期：2017-01-10 00:00:00

  • Comparing passive measures of fatigue-like behavior in mice.

    abstract：:Fatigue is a very common and costly symptom associated with various diseases and disorders. Nonetheless, understanding the pathobiology and developing of therapies for fatigue have been difficult, partly because of a lack of consensus on the measures to phenotype this behavior, both in clinical settings and in animal ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-018-32654-1

    authors： Wolff BS,Raheem SA,Saligan LN

    更新日期：2018-09-24 00:00:00

  • Novel phages of healthy skin metaviromes from South Africa.

    abstract：:Recent skin metagenomic studies have investigated the harbored viral diversity and its possible influence on healthy skin microbial populations, and tried to establish global patterns of skin-phage evolution. However, the detail associated with the phages that potentially play a role in skin health has not been invest...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-018-30705-1

    authors： van Zyl LJ,Abrahams Y,Stander EA,Kirby-McCollough B,Jourdain R,Clavaud C,Breton L,Trindade M

    更新日期：2018-08-16 00:00:00

  • Impact of heterocirculene molecular symmetry upon two-dimensional crystallization.

    abstract：:Despite the development of crystal engineering, it remains a great challenge to predict the crystal structure even for the simplest molecules, and a clear link between molecular and crystal symmetry is missing in general. Here we demonstrate that the two-dimensional (2D) crystallization of heterocirculenes on a Au(111...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep05415

    authors： Xiao WD,Zhang YY,Tao L,Aït-Mansour K,Chernichenko KY,Nenajdenko VG,Ruffieux P,Du SX,Gao HJ,Fasel R

    更新日期：2014-06-24 00:00:00

  • Detection of subclonal L1 transductions in colorectal cancer by long-distance inverse-PCR and Nanopore sequencing.

    abstract：:Long interspersed nuclear elements-1 (L1s) are a large family of retrotransposons. Retrotransposons are repetitive sequences that are capable of autonomous mobility via a copy-and-paste mechanism. In most copy events, only the L1 sequence is inserted, however, they can also mobilize the flanking non-repetitive region ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-017-15076-3

    authors： Pradhan B,Cajuso T,Katainen R,Sulo P,Tanskanen T,Kilpivaara O,Pitkänen E,Aaltonen LA,Kauppi L,Palin K

    更新日期：2017-11-06 00:00:00

  • A Novel Aldosterone Antagonist Limits Renal Injury in 5/6 Nephrectomy.

    abstract：:Aldosterone antagonists slow the progression of chronic kidney disease (CKD), but their use is limited by hyperkalemia, especially when associated with RAS inhibitors. We examined the renoprotective effects of Ly, a novel non-steroidal mineralocorticoid receptor (MR) blocker, through two experimental protocols: In Pro...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-017-08383-2

    authors： Fujihara CK,Kowala MC,Breyer MD,Sena CR,Rodrigues MV,Arias SCA,Fanelli C,Malheiros DM,Jadhav PK,Montrose-Rafizadeh C,Krieger JE,Zatz R

    更新日期：2017-08-11 00:00:00

  • Context-induced contrast and assimilation effects in explicit and implicit measures of agency.

    abstract：:Virtual-hand-illusion studies often use explicit and implicit measures of body ownership but no agreed-on implicit measure of agency exists. We investigated whether the Intentional Binding (IB) effect could serve as such a measure. A pilot study confirmed that current consistency increases both perceived agency and IB...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-019-40545-2

    authors： Ma K,Hommel B,Chen H

    更新日期：2019-03-07 00:00:00

  • Irisin levels in genetic and essential obesity: clues for a potential dual role.

    abstract：:Irisin is conventionally regarded as a myokine involved in the browning of white adipose tissue, energy expenditure and glucose tolerance. Its potential link to fat accumulation and metabolic dysfunction is debated. We sought to explore the relationship between circulating irisin and components of body composition in ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-020-57855-5

    authors： Mai S,Grugni G,Mele C,Vietti R,Vigna L,Sartorio A,Aimaretti G,Scacchi M,Marzullo P

    更新日期：2020-01-23 00:00:00

  • Roll-to-roll slot-die coating of 400 mm wide, flexible, transparent Ag nanowire films for flexible touch screen panels.

    abstract：:We report fabrication of large area Ag nanowire (NW) film coated using a continuous roll-to-roll (RTR) slot die coater as a viable alternative to conventional ITO electrodes for cost-effective and large-area flexible touch screen panels (TSPs). By controlling the flow rate of shear-thinning Ag NW ink in the slot die, ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep34322

    authors： Kim DJ,Shin HI,Ko EH,Kim KH,Kim TW,Kim HK

    更新日期：2016-09-28 00:00:00

  • Mapping the genetic diversity of HLA haplotypes in the Japanese populations.

    abstract：:Japan has often been viewed as an Asian country that possesses a genetically homogenous community. The basis for partitioning the country into prefectures has largely been geographical, although cultural and linguistic differences still exist between some of the districts/prefectures, especially between Okinawa and th...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep17855

    authors： Saw WY,Liu X,Khor CC,Takeuchi F,Katsuya T,Kimura R,Nabika T,Ohkubo T,Tabara Y,Yamamoto K,Yokota M,Japanese Genome Variation Consortium.,Teo YY,Kato N

    更新日期：2015-12-09 00:00:00

  • Air-like plasmonics with ultralow-refractive-index silica aerogels.

    abstract：:The coupling of the surface plasmon near-field into the sensing medium is key to the sensitivity of surface plasmon-based sensing devices. A low-index dielectric is necessary for the sensing medium to support a highly-penetrating surface plasmon evanescent field that extends well into the dielectric medium. The air-li...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-019-38859-2

    authors： Kim Y,Baek S,Gupta P,Kim C,Chang K,Ryu SP,Kang H,Kim WS,Myoung J,Park W,Kim K

    更新日期：2019-02-19 00:00:00

  • Impact of Comorbidities and Smoking on the Outcome in Aneurysmal Subarachnoid Hemorrhage.

    abstract：:The intention of this observational study is to show the significant impact of comorbidities and smoking on the outcome in aneurysmal subarachnoid hemorrhage (SAH). During this observational study 203 cases of treatment of ruptured intracranial aneurysms were analyzed. We examined and classified prospectively the 12 m...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-018-30878-9

    authors： Hammer A,Steiner A,Ranaie G,Yakubov E,Erbguth F,Hammer CM,Killer-Oberpfalzer M,Steiner H,Janssen H

    更新日期：2018-08-17 00:00:00

  • Fermionic order by disorder in a van der Waals antiferromagnet.

    abstract：:CeTe3 is a unique platform to investigate the itinerant magnetism in a van der Waals (vdW) coupled metal. Despite chemical pressure being a promising route to boost quantum fluctuation in this system, a systematic study on the chemical pressure effect on Ce3+(4f1) states is absent. Here, we report on the successful gr...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-020-72300-3

    authors： Okuma R,Ueta D,Kuniyoshi S,Fujisawa Y,Smith B,Hsu CH,Inagaki Y,Si W,Kawae T,Lin H,Chuang FC,Masuda T,Kobayashi R,Okada Y

    更新日期：2020-09-17 00:00:00

  • Insecticidal and Genotoxic effects of some indigenous plant extracts in Culex quinquefasciatus Say Mosquitoes.

    abstract：:Five different weed plants viz. Convulvulus arvensis, Chenopodium murale, Tribulus terrestris, Trianthema portulacastrum, and Achyranthes aspera were investigated for their entomocidal and genotoxic effects against Culex quinquefasciatus mosquitoes. High mortality was observed at 72 hours in a dose dependent manner. A...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-020-63815-w

    authors： Zulhussnain M,Zahoor MK,Rizvi H,Zahoor MA,Rasul A,Ahmad A,Majeed HN,Rasul A,Ranian K,Jabeen F

    更新日期：2020-04-22 00:00:00

  • Characterization of the electrical conductivity of bone and its correlation to osseous structure.

    abstract：:The interaction of osseous tissue with electric fields is an important subject. The electrical stimulation of bone promotes osteogenesis, while bone impedance has been proposed as a measure of osteoporosis, to follow fracture healing, or as a method to improve safety of surgical procedures. However, a deeper understan...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-018-26836-0

    authors： Balmer TW,Vesztergom S,Broekmann P,Stahel A,Büchler P

    更新日期：2018-06-05 00:00:00

  • A model of human lung fibrogenesis for the assessment of anti-fibrotic strategies in idiopathic pulmonary fibrosis.

    abstract：:Idiopathic pulmonary fibrosis (IPF) is a progressive interstitial lung disease with limited therapeutic options. KCa3.1 ion channels play a critical role in TGFβ1-dependent pro-fibrotic responses in human lung myofibroblasts. We aimed to develop a human lung parenchymal model of fibrogenesis and test the efficacy of t...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-017-18555-9

    authors： Roach KM,Sutcliffe A,Matthews L,Elliott G,Newby C,Amrani Y,Bradding P

    更新日期：2018-01-10 00:00:00

  • Randomized clinical trial: Effective gluten degradation by Aspergillus niger-derived enzyme in a complex meal setting.

    abstract：:The Aspergillus niger-derived prolyl endoprotease (AN-PEP) has previously been shown to degrade gluten in healthy subjects when added to an intragastrically infused meal. The current study investigated the efficacy of AN-PEP in a physiological meal setting. In this randomized placebo-controlled crossover study, 18 glu...

    journal_title：Scientific reports

    pub_type： 杂志文章,随机对照试验

    doi：10.1038/s41598-017-13587-7

    authors： König J,Holster S,Bruins MJ,Brummer RJ

    更新日期：2017-10-12 00:00:00

  • Detection of timescales in evolving complex systems.

    abstract：:Most complex systems are intrinsically dynamic in nature. The evolution of a dynamic complex system is typically represented as a sequence of snapshots, where each snapshot describes the configuration of the system at a particular instant of time. This is often done by using constant intervals but a better approach wo...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep39713

    authors： Darst RK,Granell C,Arenas A,Gómez S,Saramäki J,Fortunato S

    更新日期：2016-12-22 00:00:00

  • Mendelian randomization analysis rules out disylipidaemia as colorectal cancer cause.

    abstract：:Dyslipidemia and statin use have been associated with colorectal cancer (CRC), but prospective studies have shown mixed results. We aimed to determine whether dyslipidemia is causally linked to CRC risk using a Mendelian randomization approach and to explore the association of statins with CRC. A case-control study wa...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-019-49880-w

    authors： Ibáñez-Sanz G,Díez-Villanueva A,Riera-Ponsati M,Fernández-Villa T,Fernández Navarro P,Bustamante M,Llorca J,Amiano P,Ascunce N,Fernández-Tardón G,Salcedo Bellido I,Salas D,Capelo Álvarez R,Crous-Bou M,Ortega-Valín L,Pérez-G

    更新日期：2019-09-16 00:00:00

  • Biological surface properties in extracellular vesicles and their effect on cargo proteins.

    abstract：:Ultracentrifugationon sucrose density gradientappears to be the best purification protocol for extracellular vesicle (EVs) purification. After this step, to reduce disulfide bridges linking exogenous proteins to the vesicles, the collected samples are routinely washed and treated with dithiothreitol (DTT). Such incuba...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/s41598-019-47598-3

    authors： Santucci L,Bruschi M,Del Zotto G,Antonini F,Ghiggeri GM,Panfoli I,Candiano G

    更新日期：2019-09-10 00:00:00

  • Author Correction: Interferon-Dependent and Respiratory Virus-Specific Interference in Dual Infections of Airway Epithelia.

    abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title：Scientific reports

    pub_type： 已发布勘误

    doi：10.1038/s41598-020-69600-z

    authors： Essaidi-Laziosi M,Geiser J,Huang S,Constant S,Kaiser L,Tapparel C

    更新日期：2020-07-22 00:00:00

  • Modelling survival: exposure pattern, species sensitivity and uncertainty.

    abstract：:The General Unified Threshold model for Survival (GUTS) integrates previously published toxicokinetic-toxicodynamic models and estimates survival with explicitly defined assumptions. Importantly, GUTS accounts for time-variable exposure to the stressor. We performed three studies to test the ability of GUTS to predict...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep29178

    authors： Ashauer R,Albert C,Augustine S,Cedergreen N,Charles S,Ducrot V,Focks A,Gabsi F,Gergs A,Goussen B,Jager T,Kramer NI,Nyman AM,Poulsen V,Reichenberger S,Schäfer RB,Van den Brink PJ,Veltman K,Vogel S,Zimmer EI,Preuss

    更新日期：2016-07-06 00:00:00

  • Template-mediated Synthesis of Hollow Microporous Organic Nanorods with Tunable Aspect Ratio.

    abstract：:Hollow microporous organic nanorods (HMORs) with hypercrosslinked polymer (HCPs) shells were synthesized through emulsion polymerization followed by hypercrosslinking. The HMORs have tunable aspect ratios, high BET surface areas and monodispersed morphologies, showing good performance in gas adsorpion. ...

    journal_title：Scientific reports

    pub_type： 杂志文章

    doi：10.1038/srep31359

    authors： Li Q,Jin S,Tan B

    更新日期：2016-08-10 00:00:00