Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Heatmap of eight candidate reference genes based on Fragments per Kilobase of exon model per Million mapped reads (FPKM) value of transcriptome of rhizosheath development. R30, R60, R90, and R90F indicate the tissues of 30-, 60-, and 90-DPG rhizosheaths and 90-DPG rhizosheath-free roots, respectively. The screening conditions were q-value ≥ 0.05, FPKM ≥ 6, and |log 2 FoldChange| < 1. The eight candidate genes were glycolide-3-phosphate dehydrogenase ( GAPDH ), aldehyde dehydrogenase ( ALDH ), eukaryotic translation initiation factor ( elF ), actin related protein ( ARP6 ), tonoplast intrinsic protein , ( TIP41 ), α-Tubulin ( α-TUB ), protein phosphotase 2A ( PP2A ), and Histone H3 ( HIS-3 ).

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques:

Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Distribution of RT-qPCR Ct values for the eight candidate reference genes across all S. pennata samples. The S. pennata materials of rhizosheaths of different development stages, roots, leaves, flowers, nodes, seeds, and PEG-treated roots were used for RNA extraction and cDNA synthesis that were then utilized for RT-qPCR reactions. Each RT-qPCR Ct value is the average of three independent experiments. The median (horizontal line), upper and lower quartiles (box), and maximum and minimum values (whisker) of each gene are displayed.

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques: Quantitative RT-PCR, RNA Extraction, cDNA Synthesis, Whisker Assay

Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Expression stability values (M) of the eight candidate reference genes calculated by NormFinder.

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques: Expressing

Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Expression stability values of eight candidate reference genes calculated by BestKeeper.

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques: Expressing

Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Comprehensive assessment ranking of the expression stability for the eight candidate reference genes.

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques: Expressing

Journal: Scientific Reports

Article Title: Selection of the reference genes for quantitative gene expression by RT-qPCR in the desert plant Stipagrostis pennata

doi: 10.1038/s41598-021-00833-2

Figure Lengend Snippet: Validation of identified candidate reference genes as internal controls for normalizations of target genes of CL9729 and U3887 . Two stable reference genes of GAPDH and elF (A, B) and two unstable reference genes of ALDH and α-TUB (C, D) were used as internal controls to detect the expression levels of CL9729 and U3887 during different rhizosheath development stages. R30, R60, R90, and R90F indicate the tissues of 30-, 60-, and 90-DPG rhizosheaths and 90-DPG rhizosheath-free roots, respectively.

Article Snippet: Based on the S. pennata rhizosheath development transcriptome data obtained from DNBseq (BGI, Shenzhen, China), a total of eight reference genes were identified using the filter conditions of q-value ≥ 0.05, FPKM value ≥ 6, and |log2FoldChange| < 1.

Techniques: Biomarker Discovery, Expressing