title: Genome-wide identification of hsp40 genes in channel catfish and their regulated expression after bacterial infection.
abstract: Heat shock proteins (HSPs) consist of a large group of chaperones whose expression is induced by high temperature, hypoxia, infection and a number of other stresses. Among all the HSPs, Hsp40 is the largest HSP family, which bind to Hsp70 ATPase domain in assisting protein folding. In this study, we identified 57 hsp40s in channel catfish (Ictalurus punctatus) through in silico analysis using RNA-Seq and genome databases. These genes can be classified into three different types, Type I, II and III, based on their structural similarities. Phylogenetic and syntenic analyses provided strong evidence in supporting the orthologies of these HSPs. Meta-analyses of RNA-Seq datasets were conducted to analyze expression profile of Hsp40s following bacterial infection. Twenty seven hsp40s were found to be significantly up- or down-regulated in the liver after infection with E. ictaluri; 19 hsp40s were found to be significantly regulated in the intestine after infection with E. ictaluri; and 19 hsp40s were found to be significantly regulated in the gill following infection with F. columnare. Altogether, a total of 42 Hsp40 genes were regulated under disease situations involving three tissues and two bacterial infections. The significant regulated expression of Hsp40 genes after bacterial infection suggested their involvement in disease defenses in catfish.
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Lin
authors.initials: L
authors.lastname: Song
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Jiaren
authors.initials: J
authors.lastname: Zhang
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Chao
authors.initials: C
authors.lastname: Li
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Jun
authors.initials: J
authors.lastname: Yao
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Chen
authors.initials: C
authors.lastname: Jiang
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Yun
authors.initials: Y
authors.lastname: Li
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Shikai
authors.initials: S
authors.lastname: Liu
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, United States of America.
authors.forename: Zhanjiang
authors.initials: Z
authors.lastname: Liu
mesh_terms: D000818:Animals; D056915:DNA Copy Number Variations; D004756:Enterobacteriaceae Infections / Q000235:genetics; D019143:Evolution, Molecular; D005393:Fish Diseases / Q000235:genetics / Q000382:microbiology; D029941:Fish Proteins / Q000235:genetics*; D045826:Flavobacteriaceae Infections / Q000235:genetics; D005786:Gene Expression Regulation; D023281:Genomics; D016905:Gram-Negative Bacterial Infections / Q000235:genetics / Q000662:veterinary*; D050956:HSP40 Heat-Shock Proteins / Q000235:genetics*; D006801:Humans; D007059:Ictaluridae / Q000235:genetics* / Q000382:microbiology*; D010802:Phylogeny; D017423:Sequence Analysis, RNA; D013045:Species Specificity; D026801:Synteny
chemical_list: D029941:Fish Proteins; D050956:HSP40 Heat-Shock Proteins