Several studies have shown that anti-VEGF agents can inhibit corneal NV

tegory include much more DEGs. Totally, this comparison group includes 713 DEGs, of which, 675 were up-regulated genes. A directed acyclic graph was used to illustrate the affiliation and functional scope of the 10 most significantly enriched GO categories. In the comparison of CT and DT, DEGs were intensively enriched in the following five GO categories: metabolic process, stress response, organic substance metabolic process, primary metabolic process and cellular macromolecular complex assembly, which included 4076 DEGs. In the comparison of CT and RWT, the top 3 significantly enriched GO categories were metabolic process, cellular metabolic process and translation. Fig 1. Verification of differentially expressed genes in DT vs. CT group and in RW vs. CT group by qRT-PCR. doi:10.1371/journal.pone.0128041.g001 9 / 20 Transcriptome Profiling of Potato Fig 2. Gene Ontology categories of assembled differentially expressed genes in the comparison groups. doi:10.1371/journal.pone.0128041.g002 To further identify the key regulatory genes related to drought- and water-stimulus responses, as well as genes involved in starch and sucrose metabolism, we focused on DEGs of the same GO terms but showed opposite expression regulation patterns between the two comparison treatments, that is, transcripts that were regulated in an opposite direction in DT and RWT compared to CT. Additionally, 19 genes were up-regulated in DT and down-regulated in RWT, of which 13 were related to drought-stress and water-stimulus responses. In the pathway annotation analysis, data was compared with the published KOBAS database. A total number of 4549 DEGs were enriched in 314 pathways. Intra-group 11 / 20 Transcriptome Profiling of Potato analysis of each comparison was then performed to identify the 10 most significantly enriched pathways. Revealing DEGs were intensively enriched in 14 pathways. The above results suggest that DEGs with opposite expression regulation patterns were mainly involved in drought- and water-stimulus response and regulation via the carotenoid biosynthesis pathway, which affect the synthesis and signal transduction pathways of other endogenous hormones. Drought stress and water stimulus responsive TFs TF-encoding genes are key factors in the process of stress signal perception and transduction. Based on the sequencing analyses, a total number of 1630, 1527 and 1596 TF-encoding genes were detected in CT, DT and RWT, respectively. In the comparison to the control treatment, both drought and re-watering treatments reduced the number of TF-encoding genes detected. In the comparison between DT and RWT with CT, a total number of 1019 and 866 TF-encoding DEGs were identified, respectively. Further analyses revealed that in the comparison between DT and CT, the identified 1019 DEGs fell into 50 TF families, and most of DEGs belong to bHLH, ERF and MYB families. AEB 071 site Similarly, in the comparison between RWT and CT, the identified DEGs were involved in a total of 52 TF families, PubMed ID:http://www.ncbi.nlm.nih.gov/pubmed/19697345 and most of them also belong to ERF, bHLH, and MYB families. When it comes to RWT vs. DT, 1018 DEGs were involved in a total of 51 TF families. bHLH, ERF, C2H2 and MYB were the top 4 families with the most differently PubMed ID:http://www.ncbi.nlm.nih.gov/pubmed/19698726 expressed genes. Overall, significant changes occurred in the transcripts of the following eight TF families: bHLH, ERF, MYB, C2H2, NAC, WRKY, HD-ZIP and bZIP. DEGs belonging to the above eight transcription factor families accounted for almost 50% of the total different