Cargando…

Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection

OBJECTIVE: Fibroblast growth factors (FGFs) play critical roles in embryo development, and immune responses to infectious diseases. In this study, to investigate the roles of FGFs, we performed genome-wide identification, expression, and functional analyses of FGF family members in chickens. METHODS...

Descripción completa

Detalles Bibliográficos
Autores principales: Truong, Anh Duc, Tran, Ha Thi Thanh, Chu, Nhu Thi, Nguyen, Huyen Thi, Vu, Thi Hao, Hong, Yeojin, Song, Ki-Duk, Dang, Hoang Vu, Hong, Yeong Ho
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Animal Bioscience 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9996274/
https://www.ncbi.nlm.nih.gov/pubmed/36397707
http://dx.doi.org/10.5713/ab.22.0277
_version_ 1784903007049089024
author Truong, Anh Duc
Tran, Ha Thi Thanh
Chu, Nhu Thi
Nguyen, Huyen Thi
Vu, Thi Hao
Hong, Yeojin
Song, Ki-Duk
Dang, Hoang Vu
Hong, Yeong Ho
author_facet Truong, Anh Duc
Tran, Ha Thi Thanh
Chu, Nhu Thi
Nguyen, Huyen Thi
Vu, Thi Hao
Hong, Yeojin
Song, Ki-Duk
Dang, Hoang Vu
Hong, Yeong Ho
author_sort Truong, Anh Duc
collection PubMed
description OBJECTIVE: Fibroblast growth factors (FGFs) play critical roles in embryo development, and immune responses to infectious diseases. In this study, to investigate the roles of FGFs, we performed genome-wide identification, expression, and functional analyses of FGF family members in chickens. METHODS: Chicken FGFs genes were identified and analyzed by using bioinformatics approach. Expression profiles and Hierarchical cluster analysis of the FGFs genes in different chicken tissues were obtained from the genome-wide RNA-seq. RESULTS: A total of 20 FGF genes were identified in the chicken genome, which were classified into seven distinct groups (A–F) in the phylogenetic tree. Gene structure analysis revealed that members of the same clade had the same or similar exon-intron structure. Chromosome mapping suggested that FGF genes were widely dispersed across the chicken genome and were located on chromosomes 1, 4–6, 9–10, 13, 15, 28, and Z. In addition, the interactions among FGF proteins and between FGFs and mitogen-activated protein kinase (MAPK) proteins are limited, indicating that the remaining functions of FGF proteins should be further investigated in chickens. Kyoto encyclopedia of genes and genomes pathway analysis showed that FGF gene interacts with MAPK genes and are involved in stimulating signaling pathway and regulating immune responses. Furthermore, this study identified 15 differentially expressed genes (DEG) in 21 different growth stages during early chicken embryo development. RNA-sequencing data identified the DEG of FGFs on 1- and 3-days post infection in two indigenous Ri chicken lines infected with the highly pathogenic avian influenza virus H5N1 (HPAIV). Finally, all the genes examined through quantitative real-time polymerase chain reaction and RNA-Seq analyses showed similar responses to HPAIV infection in indigenous Ri chicken lines (R(2) = 0.92–0.95, p<0.01). CONCLUSION: This study provides significant insights into the potential functions of FGFs in chickens, including the regulation of MAPK signaling pathways and the immune response of chickens to HPAIV infections.
format Online
Article
Text
id pubmed-9996274
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Animal Bioscience
record_format MEDLINE/PubMed
spelling pubmed-99962742023-04-01 Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection Truong, Anh Duc Tran, Ha Thi Thanh Chu, Nhu Thi Nguyen, Huyen Thi Vu, Thi Hao Hong, Yeojin Song, Ki-Duk Dang, Hoang Vu Hong, Yeong Ho Anim Biosci Article OBJECTIVE: Fibroblast growth factors (FGFs) play critical roles in embryo development, and immune responses to infectious diseases. In this study, to investigate the roles of FGFs, we performed genome-wide identification, expression, and functional analyses of FGF family members in chickens. METHODS: Chicken FGFs genes were identified and analyzed by using bioinformatics approach. Expression profiles and Hierarchical cluster analysis of the FGFs genes in different chicken tissues were obtained from the genome-wide RNA-seq. RESULTS: A total of 20 FGF genes were identified in the chicken genome, which were classified into seven distinct groups (A–F) in the phylogenetic tree. Gene structure analysis revealed that members of the same clade had the same or similar exon-intron structure. Chromosome mapping suggested that FGF genes were widely dispersed across the chicken genome and were located on chromosomes 1, 4–6, 9–10, 13, 15, 28, and Z. In addition, the interactions among FGF proteins and between FGFs and mitogen-activated protein kinase (MAPK) proteins are limited, indicating that the remaining functions of FGF proteins should be further investigated in chickens. Kyoto encyclopedia of genes and genomes pathway analysis showed that FGF gene interacts with MAPK genes and are involved in stimulating signaling pathway and regulating immune responses. Furthermore, this study identified 15 differentially expressed genes (DEG) in 21 different growth stages during early chicken embryo development. RNA-sequencing data identified the DEG of FGFs on 1- and 3-days post infection in two indigenous Ri chicken lines infected with the highly pathogenic avian influenza virus H5N1 (HPAIV). Finally, all the genes examined through quantitative real-time polymerase chain reaction and RNA-Seq analyses showed similar responses to HPAIV infection in indigenous Ri chicken lines (R(2) = 0.92–0.95, p<0.01). CONCLUSION: This study provides significant insights into the potential functions of FGFs in chickens, including the regulation of MAPK signaling pathways and the immune response of chickens to HPAIV infections. Animal Bioscience 2023-04 2022-11-14 /pmc/articles/PMC9996274/ /pubmed/36397707 http://dx.doi.org/10.5713/ab.22.0277 Text en Copyright © 2023 by Animal Bioscience https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Article
Truong, Anh Duc
Tran, Ha Thi Thanh
Chu, Nhu Thi
Nguyen, Huyen Thi
Vu, Thi Hao
Hong, Yeojin
Song, Ki-Duk
Dang, Hoang Vu
Hong, Yeong Ho
Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title_full Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title_fullStr Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title_full_unstemmed Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title_short Genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and Vietnamese indigenous Ri chickens against highly pathogenic avian influenza H5N1 virus infection
title_sort genome-wide identification, organization, and expression profiles of the chicken fibroblast growth factor genes in public databases and vietnamese indigenous ri chickens against highly pathogenic avian influenza h5n1 virus infection
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9996274/
https://www.ncbi.nlm.nih.gov/pubmed/36397707
http://dx.doi.org/10.5713/ab.22.0277
work_keys_str_mv AT truonganhduc genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT tranhathithanh genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT chunhuthi genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT nguyenhuyenthi genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT vuthihao genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT hongyeojin genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT songkiduk genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT danghoangvu genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection
AT hongyeongho genomewideidentificationorganizationandexpressionprofilesofthechickenfibroblastgrowthfactorgenesinpublicdatabasesandvietnameseindigenousrichickensagainsthighlypathogenicavianinfluenzah5n1virusinfection