Journal: Applied and Environmental Microbiology

Article Title: High-Resolution Chrono-Transcriptome of Lactococcus lactis Reveals That It Expresses Proteins with Adapted Size and pI upon Acidification and Nutrient Starvation

doi: 10.1128/aem.02476-21

Figure Lengend Snippet: Hybridization scheme. Synthesized cDNA obtained from the purified total RNA from each sample, labeled with either Cy3 or Cy5 (according to the green or the red hedge of the arrows, respectively), was hybridized according to the indicated dye-swap strategy on 3 DNA microarray slides.

Article Snippet: Hybridization to the probes spotted onto the L. lactis MG1363 mixed amplicon and oligonucleotide DNA microarray slides, covering 2,308 of the 2,435 predicted open reading frames (ORFs), was done using the Slidehyb no. 1 hybridization buffer (Ambion Biosystems, Foster City, CA) for 16 h at 45°C.

Techniques: Hybridization, Synthesized, Purification, Labeling, Microarray

Journal: Vaccines

Article Title: Molecular Events in Immune Responses to Sublingual Influenza Vaccine with Hemagglutinin Antigen and Poly(I:C) Adjuvant in Nonhuman Primates, Cynomolgus Macaques

doi: 10.3390/vaccines12060643

Figure Lengend Snippet: Points in time for sublingual vaccinations and assessments of anti-HA (hemagglutinin) antibodies, blood tests, plasma cytokines, quantitative reverse transcription PCR (RT-qPCR), and DNA microarray analyses. RT-qPCR and DNA microarray analyses were conducted with RNA isolated from white blood cells (WBC). Vaccinations were performed four times at 0 (1st), 6 (2nd), 18 (3rd), and 30 (4th) weeks. Arrows indicate sampling timepoints for each assay.

Article Snippet: The labeled cRNA was subsequently fragmented using the Gene Expression Hybridization Kit (Agilent Technologies, Santa Clara, CA, USA) and then set onto Whole Human Genome DNA Microarray 4× 44K v2 slides (Agilent Technologies, Santa Clara, CA, USA).

Techniques: Reverse Transcription, Quantitative RT-PCR, Microarray, Isolation, Sampling

Journal: Radiation research

Article Title: RENEB Inter-Laboratory Comparison 2021: The Gene Expression Assay

doi: 10.1667/RADE-22-00206.1

Figure Lengend Snippet: Overview of Methodological Details of Either qRT-PCR (Quantitative Reverse Transcription Polymerase Chain Reaction) or Microarrays Used by the Contributing Teams

Article Snippet: Labeled cRNA samples were applied on the DNA microarray slides (44k whole human genome, G4112F, Agilent).

Techniques: Reverse Transcription, Polymerase Chain Reaction, Microarray, Isolation, Lysis, Concentration Assay, Sequencing, Labeling, SYBR Green Assay, Multiplex Assay, TaqMan Assay, Real-time Polymerase Chain Reaction, Software, Extraction

Journal: Plant Direct

Article Title: Overexpression of exogenous biuret hydrolase in rice plants confers tolerance to biuret toxicity

doi: 10.1002/pld3.290

Figure Lengend Snippet: Microarray‐based transcriptome analysis in rice suspension cells under biuret toxicity. (a) Biuret toxicity in rice suspension cells. Cells were subcultured into a culture medium supplemented with 0, 0.1, 0.3, and 1.0 mmol/L biuret. Fresh cell weight per culture flask was measured seven days after subcloning. Values are expressed means ± SD ( n = 3). Different alphabets indicate significant differences among groups ( p < 0.05, Tukey's test). (b) Changes in the fresh cell weight over time. Rice cells were subcultured into the culture medium supplemented with 0 and 0.3 mmol/L biuret on day 0. The cells on day three and day 5 were used for subsequent microarray analyses. White circles indicate the control cells, and black circles indicate biuret‐treated cells. Values are expressed means ± SD ( n = 2). An asterisk indicates a significant difference between the treatments ( p < 0.05, t test). (c) Relationship between the normalized average gene expression levels and fold changes of gene expression of the 3‐day‐old biuret‐treated cells to the control cells. Each symbol denotes each microarray spot. Values are geometrical means of two arrays ( n = 2). (d) Relationship between the normalized average gene expression levels and fold changes of gene expression of the 5‐day‐old biuret‐treated cells to the control cells. Each symbol denotes each microarray spot. Eleven points with high non‐significant fold‐change are omitted from the figure. Values are geometrical means of two arrays ( n = 2). (e) Numbers of differentially expressed genes

Article Snippet: Two‐color microarray analysis with two biological replicates was performed using Agilent Rice Oligo DNA Microarray 4x44K slide (Agilent, Santa Clara, CA, USA) according to the manufacturer's instructions to estimate the ratio of transcript abundance between the treatments at each culture period.

Techniques: Microarray, Subcloning, Expressing