Faculty Opinions recommendation of Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis.

By S. Davis. 2006

1,431 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/d2e0c20000eb6307ee90ed88ad8d8ce635ba7d3d

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In Molecular Biology

Citations in the corpus

A gene expression atlas of the model legume Medicago truncatula. (2008, background): “Genes with a constant expression level throughout development and in the face of environmental challenges, which often fulfill housekeeping roles in cells, are useful reference points for comparative gene expression analysis (Czechowski et al., 2005).”
Plant hormone jasmonate prioritizes defense over growth by interfering with gibberellin signaling cascade (2012, methodology): “First-strand cDNA was synthesized by using M-MLV reverse transcriptase (Invitrogen) and oligo(dT) as primers. actin2 (AT3G18780), cap-binding protein 20 (CBP20; AT5G44200), protein phosphatase 2A subunit A3 (PP2AA3; AT1G13320), and ubiquitin-conjugating enzyme 21 (UBC21; AT5G25760) (54) were used as”
Identification of suitable reference genes for studying gene expression in cucumber plants subjected to abiotic stress and growth regulators (2011, methodology): “A number of new candidate reference genes for Arabidopsis have been recently proposed (Czechowski et al. 2005) and their expression stability has been already evaluated under some experimental conditions (Czechowski et al. 2005; Remans et al. 2008).”
Eleven Golden Rules of Quantitative RT-PCR (2008, background): “…prior to RT-PCR towww.plantcell.org/cgi/doi/10.1105/tpc.108.061143 The Plant Cell, Vol. 20: 1736–1737, July 2008, www.plantcell.org ª 2008 American Society of Plant Biologists normalize data for reference gene transcripts prior to assessment of their expression stability (Czechowski et al., 2005).”
RefGenes: identification of reliable and condition specific reference genes for RT-qPCR data normalization (2011, background): “In fact, the experiments described above, as well as previously published work, e.g., [18] demonstrate that the availability of quality controlled and normalized oligonucleotide microarray data (such as Affymetrix GeneChip arrays) allows to identify better reference gene candidates than commonly…”
Evaluation of coffee reference genes for relative expression studies by quantitative real-time RT-PCR (2009, methodology): “genes for qPCR gene expression studies in coffee we evaluated eight coffee candidate reference genes (GAPDH, S24, UBI9, UBQ10, rpl39, psaB, PP2A, and AP47; Czechowski et al. 2005; Fernandez et al. 2004; Salmona et al. 2008; Simkin et al. 2006), and the expression stability of these genes was subse”
PHO2, MicroRNA399, and PHR1 Define a Phosphate-Signaling Pathway in Plants1[W][OA] (2006, methodology): “RNA Isolation, cDNA Preparation, and qRT-PCR RNA isolation, cDNA preparation, and qRT-PCR were performed according to Czechowski et al. (2005).”
An optimized grapevine RNA isolation procedure and statistical determination of reference genes for real-time RT-PCR during berry development (2006, neutral): “Results and discussion Microarray datasets can be a rich source of information for selecting real-time RT-PCR reference genes, as was done for Arabidopsis using the large public collection of data from Affymetrix GeneChip experiments [12].”
MicroRNA399 is a long-distance signal for the regulation of plant phosphate homeostasis (2008, methodology): “Phosphate and sulfur starvation were initiated after 3 weeks by changing to medium containing no phosphate or sulfur, respectively, and phloem sap was collected from inflorescence stems as described above.”
RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome (2010, background): “Housekeeping genes (HKGs) are commonly used as reference genes to normalize expression counts across tissues and developmental stages [31].”
Disease-induced assemblage of a plant-beneficial bacterial consortium (2018, methodology): “Expression levels were normalized to the reference gene At1g13320 , which encodes PROTEIN PHOSPHATASE 2A SUBUNIT A3 (PP2A-A3) [24] using the 2 − ΔΔ CT method described previously [25, 26].”