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RNA-Seq analysis reveals new evidence for inflammation-related changes in aged kidney.

ABSTRACT: Age-related dysregulated inflammation plays an essential role as a major risk factor underlying the pathophysiological aging process. To better understand how inflammatory processes are related to aging at the molecular level, we sequenced the transcriptome of young and aged rat kidney using RNA-Seq to detect known genes, novel genes, and alternative splicing events that are differentially expressed. By comparing young (6 months of age) and old (25 months of age) rats, we detected 722 up-regulated genes and 111 down-regulated genes. In the aged rats, we found 32 novel genes and 107 alternatively spliced genes. Notably, 6.6% of the up-regulated genes were related to inflammation (P < 2.2 × 10-16, Fisher exact t-test); 15.6% were novel genes with functional protein domains (P = 1.4 × 10-5); and 6.5% were genes showing alternative splicing events (P = 3.3 × 10-4). Based on the results of pathway analysis, we detected the involvement of inflammation-related pathways such as cytokines (P = 4.4 × 10-16), which were found up-regulated in the aged rats. Furthermore, an up-regulated inflammatory gene analysis identified the involvement of transcription factors, such as STAT4, EGR1, and FOSL1, which regulate cancer as well as inflammation in aging processes. Thus, RNA changes in these pathways support their involvement in the pro-inflammatory status during aging. We propose that whole RNA-Seq is a useful tool to identify novel genes and alternative splicing events by documenting broadly implicated inflammation-related genes involved in aging processes.

SUBMITTER: Park D

PROVIDER: S-EPMC5058662 | biostudies-literature | 2016 May

REPOSITORIES: biostudies-literature

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RNA-Seq analysis reveals new evidence for inflammation-related changes in aged kidney.

Park Daeui D Kim Byoung-Chul BC Kim Chul-Hong CH Choi Yeon Ja YJ Jeong Hyoung Oh HO Kim Mi Eun ME Lee Jun Sik JS Park Min Hi MH Chung Ki Wung KW Kim Dae Hyun DH Lee Jaewon J Im Dong-Soon DS Yoon Seokjoo S Lee Sunghoon S Yu Byung Pal BP Bhak Jong J Chung Hae Young HY

Oncotarget 20160501 21

Age-related dysregulated inflammation plays an essential role as a major risk factor underlying the pathophysiological aging process. To better understand how inflammatory processes are related to aging at the molecular level, we sequenced the transcriptome of young and aged rat kidney using RNA-Seq to detect known genes, novel genes, and alternative splicing events that are differentially expressed. By comparing young (6 months of age) and old (25 months of age) rats, we detected 722 up-regulat ...[more]

PMID: 27153548

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RNA-Seq analysis reveals new evidence for inflammation-related changes in aged kidney.

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RNA-Seq analysis reveals new evidence for inflammation-related changes in aged kidney.

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