Exploring the genetic basis of chronic periodontitis: a genome-wide association study
HUMAN MOLECULAR GENETICS
Authors: Divaris, Kimon; Monda, Keri L.; North, Kari E.; Olshan, Andrew F.; Reynolds, Lindsay M.; Hsueh, Wen-Chi; Lange, Ethan M.; Moss, Kevin; Barros, Silvana P.; Weyant, Robert J.; Liu, Yongmei; Newman, Anne B.; Beck, James D.; Offenbacher, Steven
Abstract
Chronic periodontitis (CP) is a common oral disease that confers substantial systemic inflammatory and microbial burden and is a major cause of tooth loss. Here, we present the results of a genome-wide association study of CP that was carried out in a cohort of 4504 European Americans (EA) participating in the Atherosclerosis Risk in Communities (ARIC) Study (mean ageu62 years, moderate CPu43 and severe CPu17). We detected no genome-wide significant association signals for CP; however, we found suggestive evidence of association (P 5 10(6)) for six loci, including NIN, NPY, WNT5A for severe CP and NCR2, EMR1, 10p15 for moderate CP. Three of these loci had concordant effect size and direction in an independent sample of 656 adult EA participants of the Health, Aging, and Body Composition (Health ABC) Study. Meta-analysis pooled estimates were severe CP (n 958 versus health: n 1909)uNPY, rs2521634 [G]: odds ratio [OR 1.49 (95 confidence interval (CI 1.281.73, P 3.5 10(7)))]; moderate CP (n 2293)uNCR2, rs7762544 [G]: OR 1.40 (95 CI 1.241.59, P 7.5 10(8)), EMR1, rs3826782 [A]: OR 2.01 (95 CI 1.522.65, P 8.2 10(7)). Canonical pathway analysis indicated significant enrichment of nervous system signaling, cellular immune response and cytokine signaling pathways. A significant interaction of NUAK1 (rs11112872, interaction P 2.9 10(9)) with smoking in ARIC was not replicated in Health ABC, although estimates of heritable variance in severe CP explained by all single nucleotide polymorphisms increased from 18 to 52 with the inclusion of a genome-wide interaction term with smoking. These genome-wide association results provide information on multiple candidate regions and pathways for interrogation in future genetic studies of CP.
Bioinformatic analysis identifies key transcriptome signatures in temporal lobe epilepsy
CNS NEUROSCIENCE & THERAPEUTICS
Authors: Chen, Qing-Lan; Xia, Lu; Zhong, Shao-Ping; Wang, Qiang; Ding, Jing; Wang, Xin
Abstract
Aims To identify transcriptome signatures underlying epileptogenesis in temporal lobe epilepsy (TLE). Methods Robust rank aggregation analysis was used to integrate multiple microarrays in rodent models of TLE and determine differentially expressed genes (DEGs) in acute, latent, and chronic stages. Functional annotation and protein-protein interaction analysis were performed to explore the potential functions of the DEGs and identify hub genes with the highest intramodular connectivity. The association between hub genes and hippocampal sclerosis/seizure frequency was analyzed using publicly available RNA-sequencing datasets from TLE patients. We subsequently established a pilocarpine-induced status epilepticus (SE) model in rats and validated mRNA expression of hub genes by quantitative reverse transcription PCR (qRT-PCR). Results The DEGs in the acute, latent, and chronic phases of TLE in animal models were prominently enriched in inflammatory response. Hub genes identified in the acute phase mainly participated in biological processes including inflammation, blood-brain barrier damage, and cell adhesion. The hub genes in the latent phase were related to microglia/macrophage activation (Emr1 and Aif1) and phagocytosis (Cd68, Tyrobp, and Lyz). In the chronic phase, the hub genes were associated with activation of complements and microglia/macrophages. We further found that some hub genes identified in human TLE, such as Tlr2, Lgals3, and Stat3, were positively correlated with seizure frequency. Other hub genes, including Lgals3 and Serpine1, were associated with hippocampus sclerosis. qRT-PCR analysis confirmed that the mRNA levels of hub genes in rat hippocampus were significantly up-regulated after SE induction. Conclusions Our integrated analysis identified hub genes in different stages of epilepsy. The functional annotations suggest that the activation and phagocytic activities of microglia/macrophages may play critical roles in epileptogenesis of TLE.