TY - JOUR
T1 - Genome-wide comparison and in silico analysis of splicing factor SYF2/NTC31/p29 in eukaryotes
T2 - Special focus on vertebrates
AU - Huang, Bao Xing
AU - Jia, Zi Chang
AU - Yang, Xue
AU - Cheng, Chao Lin
AU - Liu, Xiao Rong
AU - Zhang, Jianhua
AU - Chen, Mo Xian
AU - Yang, Jing Fang
AU - Chen, Yun Sheng
N1 - This work was supported by the Program for Science Technology and Innovation Committee of Shenzhen (2021N062-JCYJ20210324115408023), the Natural Science Foundation of Jiangsu Province (SBK2020042924), the Scientific Research Innovation Team of Young Scholars in Colleges and Universities of Shandong Province (2019KJE011), the National Natural Science Foundation of China (NSFC32001932), and the Hong Kong Research Grant Council (AoE/M-05/12, AoE/M-403/16, GRF12100318, 12103219, 12103220).
Publisher Copyright:
Copyright © 2022 Huang, Jia, Yang, Cheng, Liu, Zhang, Chen, Yang and Chen.
PY - 2022/9/2
Y1 - 2022/9/2
N2 - The gene SYF2—an RNA splicing factor—can interact with Cyclin D-type binding protein 1 (GICP) in many biological processes, including splicing regulation, cell cycle regulation, and DNA damage repair. In our previous study we performed genome-wide identification and functional analysis of SYF2 in plant species. The phylogenetic relationships and expression profiles of SYF2 have not been systematically studied in animals, however. To this end, the gene structure, genes, and protein conserved motifs of 102 SYF2 homologous genes from 91 different animal species were systematically analyzed, along with conserved splicing sites in 45 representative vertebrate species. A differential comparative analysis of expression patterns in humans and mice was made. Molecular bioinformatics analysis of SYF2 showed the gene was conserved and functional in different animal species. In addition, expression pattern analysis found that SYF2 was highly expressed in hematopoietic stem cells, T cells, and lymphoid progenitor cells; in ovary, lung, and spleen; and in other cells and organs. This suggests that changes in SYF2 expression may be associated with disease development in these cells, tissues, or organs. In conclusion, our study analyzes the SYF2 disease resistance genes of different animal species through bioinformatics, reveals the relationship between the SYF2 genotype and the occurrence of certain diseases, and provides a theoretical basis for follow-up study of the relationship between the SYF2 gene and animal diseases.
AB - The gene SYF2—an RNA splicing factor—can interact with Cyclin D-type binding protein 1 (GICP) in many biological processes, including splicing regulation, cell cycle regulation, and DNA damage repair. In our previous study we performed genome-wide identification and functional analysis of SYF2 in plant species. The phylogenetic relationships and expression profiles of SYF2 have not been systematically studied in animals, however. To this end, the gene structure, genes, and protein conserved motifs of 102 SYF2 homologous genes from 91 different animal species were systematically analyzed, along with conserved splicing sites in 45 representative vertebrate species. A differential comparative analysis of expression patterns in humans and mice was made. Molecular bioinformatics analysis of SYF2 showed the gene was conserved and functional in different animal species. In addition, expression pattern analysis found that SYF2 was highly expressed in hematopoietic stem cells, T cells, and lymphoid progenitor cells; in ovary, lung, and spleen; and in other cells and organs. This suggests that changes in SYF2 expression may be associated with disease development in these cells, tissues, or organs. In conclusion, our study analyzes the SYF2 disease resistance genes of different animal species through bioinformatics, reveals the relationship between the SYF2 genotype and the occurrence of certain diseases, and provides a theoretical basis for follow-up study of the relationship between the SYF2 gene and animal diseases.
KW - alternative splicing
KW - expression profile
KW - gene family
KW - proteogenomics
KW - SYF2
UR - http://www.scopus.com/inward/record.url?scp=85138188515&partnerID=8YFLogxK
U2 - 10.3389/fgene.2022.873869
DO - 10.3389/fgene.2022.873869
M3 - Journal article
AN - SCOPUS:85138188515
SN - 1664-8021
VL - 13
JO - Frontiers in Genetics
JF - Frontiers in Genetics
M1 - 873869
ER -