Cargando…

N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits

SIMPLE SUMMARY: N6-methyladenosine is the most prevalent internal form of modification found in recent years and plays an important role in gene regulation, which can regulate many physiological processes, such as fat deposition, immunity, and reproduction. The intramuscular fat content is an import...

Descripción completa

Detalles Bibliográficos
Autores principales: Luo, Gang, Wang, Shuhui, Ai, Yaotian, Li, Jiapeng, Ren, Zhanjun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9312354/
https://www.ncbi.nlm.nih.gov/pubmed/36101325
http://dx.doi.org/10.3390/biology11070944
_version_ 1784753824290832384
author Luo, Gang
Wang, Shuhui
Ai, Yaotian
Li, Jiapeng
Ren, Zhanjun
author_facet Luo, Gang
Wang, Shuhui
Ai, Yaotian
Li, Jiapeng
Ren, Zhanjun
author_sort Luo, Gang
collection PubMed
description SIMPLE SUMMARY: N6-methyladenosine is the most prevalent internal form of modification found in recent years and plays an important role in gene regulation, which can regulate many physiological processes, such as fat deposition, immunity, and reproduction. The intramuscular fat content is an important problem to be solved in the development of animal husbandry. In order to find a way to increase the intramuscular fat content of Rex rabbit muscles, we explored the methylation modification genes related to fat deposition in Rex rabbit muscle and adipose tissue. We found 5 differential methylases and 12 key genes for methylation modification related to fat deposition between muscle and adipose tissues samples. In addition, five differential methylases were found to regulate adipogenesis by affecting the expression of screened genes in different ways. These findings provided a theoretical basis for our future research on the function of methylation modification during the growth of fat deposits and provided a new way to increase intramuscular fat in Rex rabbits. ABSTRACT: N6-methyladenosine (m(6)A) is the most prevalent internal form of modification in messenger RNA in higher eukaryotes and plays an important role in cancer, immunity, reproduction, development, and fat deposition. Intramuscular fat is the main factor used to measure the meat quality of an animal. The deposition of intramuscular fat and perirenal fat increases with age. However, there is no data on m(6)A modification of Rex rabbits and its potential biological roles in adipose deposition and muscle growth. Here, we performed two high-throughput sequencing methods, m(6)A-modified RNA immunoprecipitation sequence (MeRIP-seq) and RNA sequence (RNA-seq), to identify key genes with m(6)A modification on fat deposition in the muscle and adipose tissues of Rex rabbits. Then, qRT-PCR was used to identify the differently methylated genes related to fat deposition. Our findings showed that there were 12,876 and 10,973 m(6)A peaks in the rabbit muscle and adipose tissue transcriptomes, respectively. Stop codons, 3′-untranslated regions, and coding regions were found to be mainly enriched for m(6)A peaks. In addition, we found 5 differential methylases and 12 key genes of methylation modification related to fat deposition between muscle and adipose tissues samples. The expression levels of six random key genes were significantly higher in the fat than that in the muscle of Rex rabbits at different stages (p < 0.01). Finally, five differential methylases were found to regulate adipogenesis by affecting the expression of screened genes in different ways. These findings provided a theoretical basis for our future research on the function of m(6)A modification during the growth of fat deposits.
format Online
Article
Text
id pubmed-9312354
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-93123542022-07-26 N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits Luo, Gang Wang, Shuhui Ai, Yaotian Li, Jiapeng Ren, Zhanjun Biology (Basel) Article SIMPLE SUMMARY: N6-methyladenosine is the most prevalent internal form of modification found in recent years and plays an important role in gene regulation, which can regulate many physiological processes, such as fat deposition, immunity, and reproduction. The intramuscular fat content is an important problem to be solved in the development of animal husbandry. In order to find a way to increase the intramuscular fat content of Rex rabbit muscles, we explored the methylation modification genes related to fat deposition in Rex rabbit muscle and adipose tissue. We found 5 differential methylases and 12 key genes for methylation modification related to fat deposition between muscle and adipose tissues samples. In addition, five differential methylases were found to regulate adipogenesis by affecting the expression of screened genes in different ways. These findings provided a theoretical basis for our future research on the function of methylation modification during the growth of fat deposits and provided a new way to increase intramuscular fat in Rex rabbits. ABSTRACT: N6-methyladenosine (m(6)A) is the most prevalent internal form of modification in messenger RNA in higher eukaryotes and plays an important role in cancer, immunity, reproduction, development, and fat deposition. Intramuscular fat is the main factor used to measure the meat quality of an animal. The deposition of intramuscular fat and perirenal fat increases with age. However, there is no data on m(6)A modification of Rex rabbits and its potential biological roles in adipose deposition and muscle growth. Here, we performed two high-throughput sequencing methods, m(6)A-modified RNA immunoprecipitation sequence (MeRIP-seq) and RNA sequence (RNA-seq), to identify key genes with m(6)A modification on fat deposition in the muscle and adipose tissues of Rex rabbits. Then, qRT-PCR was used to identify the differently methylated genes related to fat deposition. Our findings showed that there were 12,876 and 10,973 m(6)A peaks in the rabbit muscle and adipose tissue transcriptomes, respectively. Stop codons, 3′-untranslated regions, and coding regions were found to be mainly enriched for m(6)A peaks. In addition, we found 5 differential methylases and 12 key genes of methylation modification related to fat deposition between muscle and adipose tissues samples. The expression levels of six random key genes were significantly higher in the fat than that in the muscle of Rex rabbits at different stages (p < 0.01). Finally, five differential methylases were found to regulate adipogenesis by affecting the expression of screened genes in different ways. These findings provided a theoretical basis for our future research on the function of m(6)A modification during the growth of fat deposits. MDPI 2022-06-21 /pmc/articles/PMC9312354/ /pubmed/36101325 http://dx.doi.org/10.3390/biology11070944 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Luo, Gang
Wang, Shuhui
Ai, Yaotian
Li, Jiapeng
Ren, Zhanjun
N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title_full N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title_fullStr N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title_full_unstemmed N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title_short N6-Methyladenosine Methylome Profiling of Muscle and Adipose Tissues Reveals Methylase–mRNA Metabolic Regulatory Networks in Fat Deposition of Rex Rabbits
title_sort n6-methyladenosine methylome profiling of muscle and adipose tissues reveals methylase–mrna metabolic regulatory networks in fat deposition of rex rabbits
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9312354/
https://www.ncbi.nlm.nih.gov/pubmed/36101325
http://dx.doi.org/10.3390/biology11070944
work_keys_str_mv AT luogang n6methyladenosinemethylomeprofilingofmuscleandadiposetissuesrevealsmethylasemrnametabolicregulatorynetworksinfatdepositionofrexrabbits
AT wangshuhui n6methyladenosinemethylomeprofilingofmuscleandadiposetissuesrevealsmethylasemrnametabolicregulatorynetworksinfatdepositionofrexrabbits
AT aiyaotian n6methyladenosinemethylomeprofilingofmuscleandadiposetissuesrevealsmethylasemrnametabolicregulatorynetworksinfatdepositionofrexrabbits
AT lijiapeng n6methyladenosinemethylomeprofilingofmuscleandadiposetissuesrevealsmethylasemrnametabolicregulatorynetworksinfatdepositionofrexrabbits
AT renzhanjun n6methyladenosinemethylomeprofilingofmuscleandadiposetissuesrevealsmethylasemrnametabolicregulatorynetworksinfatdepositionofrexrabbits