Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2020 Jul 22;10:12228. doi: 10.1038/s41598-020-68917-z

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

PMC Copyright notice

Analysis of nitrate-responsive leaf transcriptomes of light-grown and etiolated rice seedlings. Scatter plots show the correlation between the biological replicates of transcriptomes in light (A) and dark (B) conditions. The correlation coefficients of normalized ratios were calculated between the dye swapped nitrated treated samples in light (R² = 0.9795) and dark (R² = 0.9567). The volcano plots of microarray data are shown for light (C) and dark (D). The X-axis represents the fold change (log₂) and p-value on Y-axis. The dashed horizontal line shown on the plots represents the p value cut-off (p = 0.05) and the genes above this line are statistically significant. Each transcript is represented by scattered dots. The red and green coloured scattered dots represent the up- and down-regulated DEGs, respectively. (E) Column graph shows the numbers of up-regulated or down-regulated nitrate-responsive genes in light and dark conditions. (F) Bar graph depicting the subcellular localization of DEGs-encoded proteins identified in light and dark. (G) The DEGs were functionally annotated into different biological processes using Expath tool. Top 10 statistically significant biological processes (P < 0.05) were visualized using TreeMap software (https://www.treemap.com/). The size of the box is inversely proportional to the ranking of the biological processes by p value and coloured according to their statistically significant p value (−log₂). In other words, a biological process with the lowest p value has the biggest box size and its colour intensity shows its statistical significance. BP-LN biological process-light nitrate, BP-DN biological process-dark nitrate.