Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C

Sara R Selitsky; Jeanette Baran-Gale; Masao Honda; Daisuke Yamane; Takahiro Masaki; Emily E Fannin; Bernadette Guerra; Takayoshi Shirasaki; Tetsuro Shimakami; Shuichi Kaneko; Robert E Lanford; Stanley M Lemon; Praveen Sethupathy

doi:10.1038/srep07675

Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C

Sara R Selitsky, Jeanette Baran-Gale, Masao Honda, Daisuke Yamane, Takahiro Masaki, Emily E Fannin, Bernadette Guerra, Takayoshi Shirasaki, Tetsuro Shimakami, Shuichi Kaneko, Robert E Lanford, Stanley M Lemon, Praveen Sethupathy

Research output: Contribution to journal › Article › peer-review

Abstract

Persistent infections with hepatitis B virus (HBV) or hepatitis C virus (HCV) account for the majority of cases of hepatic cirrhosis and hepatocellular carcinoma (HCC) worldwide. Small, non-coding RNAs play important roles in virus-host interactions. We used high throughput sequencing to conduct an unbiased profiling of small (14-40 nts) RNAs in liver from Japanese subjects with advanced hepatitis B or C and hepatocellular carcinoma (HCC). Small RNAs derived from tRNAs, specifically 30-35 nucleotide-long 5' tRNA-halves (5' tRHs), were abundant in non-malignant liver and significantly increased in humans and chimpanzees with chronic viral hepatitis. 5' tRH abundance exceeded microRNA abundance in most infected non-cancerous tissues. In contrast, in matched cancer tissue, 5' tRH abundance was reduced, and relative abundance of individual 5' tRHs was altered. In hepatitis B-associated HCC, 5' tRH abundance correlated with expression of the tRNA-cleaving ribonuclease, angiogenin. These results demonstrate that tRHs are the most abundant small RNAs in chronically infected liver and that their abundance is altered in liver cancer.

Original language	English
Pages (from-to)	7675
Journal	Scientific Reports
Volume	5
DOIs	https://doi.org/10.1038/srep07675
Publication status	Published - 2015

Keywords

Animals
Base Sequence
Carcinoma, Hepatocellular
Hepatitis B, Chronic
Hepatitis C, Chronic
High-Throughput Nucleotide Sequencing
Humans
Immunoprecipitation
Liver
Liver Neoplasms
MicroRNAs
Molecular Sequence Data
Pan troglodytes
RNA, Transfer
Real-Time Polymerase Chain Reaction
Ribonuclease, Pancreatic
Sequence Analysis, RNA

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title = "Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C",

abstract = "Persistent infections with hepatitis B virus (HBV) or hepatitis C virus (HCV) account for the majority of cases of hepatic cirrhosis and hepatocellular carcinoma (HCC) worldwide. Small, non-coding RNAs play important roles in virus-host interactions. We used high throughput sequencing to conduct an unbiased profiling of small (14-40 nts) RNAs in liver from Japanese subjects with advanced hepatitis B or C and hepatocellular carcinoma (HCC). Small RNAs derived from tRNAs, specifically 30-35 nucleotide-long 5' tRNA-halves (5' tRHs), were abundant in non-malignant liver and significantly increased in humans and chimpanzees with chronic viral hepatitis. 5' tRH abundance exceeded microRNA abundance in most infected non-cancerous tissues. In contrast, in matched cancer tissue, 5' tRH abundance was reduced, and relative abundance of individual 5' tRHs was altered. In hepatitis B-associated HCC, 5' tRH abundance correlated with expression of the tRNA-cleaving ribonuclease, angiogenin. These results demonstrate that tRHs are the most abundant small RNAs in chronically infected liver and that their abundance is altered in liver cancer.",

keywords = "Animals, Base Sequence, Carcinoma, Hepatocellular, Hepatitis B, Chronic, Hepatitis C, Chronic, High-Throughput Nucleotide Sequencing, Humans, Immunoprecipitation, Liver, Liver Neoplasms, MicroRNAs, Molecular Sequence Data, Pan troglodytes, RNA, Transfer, Real-Time Polymerase Chain Reaction, Ribonuclease, Pancreatic, Sequence Analysis, RNA",

author = "Selitsky, {Sara R} and Jeanette Baran-Gale and Masao Honda and Daisuke Yamane and Takahiro Masaki and Fannin, {Emily E} and Bernadette Guerra and Takayoshi Shirasaki and Tetsuro Shimakami and Shuichi Kaneko and Lanford, {Robert E} and Lemon, {Stanley M} and Praveen Sethupathy",

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doi = "10.1038/srep07675",

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journal = "Scientific Reports",

issn = "2045-2322",

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T1 - Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C

AU - Selitsky, Sara R

AU - Baran-Gale, Jeanette

AU - Honda, Masao

AU - Yamane, Daisuke

AU - Masaki, Takahiro

AU - Fannin, Emily E

AU - Guerra, Bernadette

AU - Shirasaki, Takayoshi

AU - Shimakami, Tetsuro

AU - Kaneko, Shuichi

AU - Lanford, Robert E

AU - Lemon, Stanley M

AU - Sethupathy, Praveen

PY - 2015

Y1 - 2015

N2 - Persistent infections with hepatitis B virus (HBV) or hepatitis C virus (HCV) account for the majority of cases of hepatic cirrhosis and hepatocellular carcinoma (HCC) worldwide. Small, non-coding RNAs play important roles in virus-host interactions. We used high throughput sequencing to conduct an unbiased profiling of small (14-40 nts) RNAs in liver from Japanese subjects with advanced hepatitis B or C and hepatocellular carcinoma (HCC). Small RNAs derived from tRNAs, specifically 30-35 nucleotide-long 5' tRNA-halves (5' tRHs), were abundant in non-malignant liver and significantly increased in humans and chimpanzees with chronic viral hepatitis. 5' tRH abundance exceeded microRNA abundance in most infected non-cancerous tissues. In contrast, in matched cancer tissue, 5' tRH abundance was reduced, and relative abundance of individual 5' tRHs was altered. In hepatitis B-associated HCC, 5' tRH abundance correlated with expression of the tRNA-cleaving ribonuclease, angiogenin. These results demonstrate that tRHs are the most abundant small RNAs in chronically infected liver and that their abundance is altered in liver cancer.

AB - Persistent infections with hepatitis B virus (HBV) or hepatitis C virus (HCV) account for the majority of cases of hepatic cirrhosis and hepatocellular carcinoma (HCC) worldwide. Small, non-coding RNAs play important roles in virus-host interactions. We used high throughput sequencing to conduct an unbiased profiling of small (14-40 nts) RNAs in liver from Japanese subjects with advanced hepatitis B or C and hepatocellular carcinoma (HCC). Small RNAs derived from tRNAs, specifically 30-35 nucleotide-long 5' tRNA-halves (5' tRHs), were abundant in non-malignant liver and significantly increased in humans and chimpanzees with chronic viral hepatitis. 5' tRH abundance exceeded microRNA abundance in most infected non-cancerous tissues. In contrast, in matched cancer tissue, 5' tRH abundance was reduced, and relative abundance of individual 5' tRHs was altered. In hepatitis B-associated HCC, 5' tRH abundance correlated with expression of the tRNA-cleaving ribonuclease, angiogenin. These results demonstrate that tRHs are the most abundant small RNAs in chronically infected liver and that their abundance is altered in liver cancer.

KW - Animals

KW - Base Sequence

KW - Carcinoma, Hepatocellular

KW - Hepatitis B, Chronic

KW - Hepatitis C, Chronic

KW - High-Throughput Nucleotide Sequencing

KW - Humans

KW - Immunoprecipitation

KW - Liver

KW - Liver Neoplasms

KW - MicroRNAs

KW - Molecular Sequence Data

KW - Pan troglodytes

KW - RNA, Transfer

KW - Real-Time Polymerase Chain Reaction

KW - Ribonuclease, Pancreatic

KW - Sequence Analysis, RNA

U2 - 10.1038/srep07675

DO - 10.1038/srep07675

M3 - Article

C2 - 25567797

VL - 5

SP - 7675

JO - Scientific Reports

JF - Scientific Reports

SN - 2045-2322

ER -

Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C

Abstract

Keywords

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