title: Analysis of 52 Rab GTPases from channel catfish and their involvement in immune responses after bacterial infections.
abstract: Rab genes, encoding a large family of monomeric G-proteins, contain over 60 members in the human genome. They have been recognized as crucial regulators for membrane trafficking including cargo sorting, vesicle formation, budding, motility, docking, fusion, secretory and endocytic pathway of host immune responses. However, little is known of the Rab gene family in teleost fish species. The development of full-length transcripts and whole genome sequences allow the identification and annotation of Rab GTPase gene family in catfish. In this study, a total of 52 Rab genes were identified from catfish cDNA and genome databases. Phylogenetic analysis assigned them into eleven subfamilies. Most Rab GTPases are conserved among vertebrates, though some of which are absent in fish genomes. Analysis of multiple RNA-seq datasets, along with real time PCR analysis revealed up-regulation of 10 Rab genes after bacterial infection. These included Rab3a, Rab4a, Rab4b, Rab5a, Rab5c, Rab7a, Rab9a, Rab11a, Rab11b, and Rab33a. Their up-regulation are temporally and spatially regulated in various tissues, but mostly induced at early stages after infection and in the gill and liver tissues, with the exception of Rab5c that is mostly up-regulated in the head kidney and trunk kidney. The complex pattern of their induced expression suggested both specific and cooperative actions of a these Rab genes in the acute immune responses to bacterial infection.
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Ruijia
authors: R
authors: Wang
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Yu
authors: Y
authors: Zhang
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Shikai
authors: S
authors: Liu
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Chao
authors: C
authors: Li
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Luyang
authors: L
authors: Sun
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Lisui
authors: L
authors: Bao
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA.
authors: Jianbin
authors: J
authors: Feng
authors: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, and Program of Cell and Molecular Biosciences, Auburn University, 203 Swingle Hall, Auburn, AL 36849, USA. Electronic address: liuzhan@auburn.edu.
authors: Zhanjiang
authors: Z
authors: Liu
mesh_terms: D000818:Animals; D020610:Edwardsiella ictaluri / Q000276:immunology*; D004756:Enterobacteriaceae Infections / Q000276:immunology / Q000662:veterinary*; D005393:Fish Diseases / Q000276:immunology* / Q000382:microbiology; D029941:Fish Proteins / Q000235:genetics* / Q000378:metabolism; D018628:Gene Dosage; D015870:Gene Expression; D007059:Ictaluridae / Q000276:immunology / Q000378:metabolism / Q000382:microbiology*; D007113:Immunity, Innate / Q000235:genetics; D010802:Phylogeny; D015533:Transcriptional Activation / Q000276:immunology; D020691:rab GTP-Binding Proteins / Q000235:genetics* / Q000378:metabolism
chemical_list: D029941:Fish Proteins; D020691:rab GTP-Binding Proteins
keywords: Acute phase, infection; Catfish; Disease; Fish; Innate immunity; Rab