title: Genome-wide identification, phylogeny, and expression of fibroblast growth genes in common carp.
abstract: Fibroblast growth factors (FGFs) are a large family of polypeptide growth factors, which are found in organisms ranging from nematodes to humans. In vertebrates, a number of FGFs have been shown to play important roles in developing embryos and adult organisms. Among the vertebrate species, FGFs are highly conserved in both gene structure and amino-acid sequence. However, studies on teleost FGFs are mainly limited to model species, hence we investigated FGFs in the common carp genome. We identified 35 FGFs in the common carp genome. Phylogenetic analysis revealed that most of the FGFs are highly conserved, though recent gene duplication and gene losses do exist. By examining the copy number of FGFs in several vertebrate genomes, we found that eight FGFs in common carp have undergone gene duplications, including FGF6a, FGF6b, FGF7, FGF8b, FGF10a, FGF11b, FGF13a, and FGF18b. The expression patterns of all FGFs were examined in various tissues, including the blood, brain, gill, heart, intestine, muscle, skin, spleen and kidney, showing that most of the FGFs were ubiquitously expressed, indicating their critical role in common carp. To some extent, examination of gene families with detailed phylogenetic or orthology analysis verified the authenticity and accuracy of assembly and annotation of the recently published common carp whole genome sequences. Gene families are also considered as a unique source for evolutionary studies. Moreover, the whole set of common carp FGF gene family provides an important genomic resource for future biochemical, physiological, and phylogenetic studies on FGFs in teleosts.
authors.affiliation: College of Life Sciences, Shanghai Ocean University, Shanghai 201306, China; CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Likun
authors.initials: L
authors.lastname: Jiang
authors.affiliation: CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Songhao
authors.initials: S
authors.lastname: Zhang
authors.affiliation: College of Life Sciences, Shanghai Ocean University, Shanghai 201306, China; CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Chuanju
authors.initials: C
authors.lastname: Dong
authors.affiliation: College of Life Sciences, Shanghai Ocean University, Shanghai 201306, China; CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Baohua
authors.initials: B
authors.lastname: Chen
authors.affiliation: College of Life Sciences, Shanghai Ocean University, Shanghai 201306, China; CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Jingyan
authors.initials: J
authors.lastname: Feng
authors.affiliation: College of Life Sciences, Shanghai Ocean University, Shanghai 201306, China; CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China.
authors.forename: Wenzhu
authors.initials: W
authors.lastname: Peng
authors.affiliation: Department of Zoology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia; Department of Zoology, GC University, Faisalabad, Pakistan.
authors.forename: Shahid
authors.initials: S
authors.lastname: Mahboob
authors.affiliation: Department of Zoology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia.
authors.forename: Khalid A
authors.initials: KA
authors.lastname: Al-Ghanim
authors.affiliation: CAFS Key Laboratory of Aquatic Genomics, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China; Beijing Key Laboratory of Fishery Biotechnology, Centre for Applied Aquatic Genomics, Chinese Academy of Fishery Sciences, Beijing 100141, China. Electronic address: xupeng@cafs.ac.cn.
authors.forename: Peng
authors.initials: P
authors.lastname: Xu
mesh_terms: D000818:Animals; D002347:Carps / Q000235:genetics*; D005346:Fibroblast Growth Factors / Q000096:biosynthesis / Q000235:genetics* / Q000302:isolation & purification; D015870:Gene Expression; D016678:Genome; D005810:Multigene Family / Q000235:genetics; D010802:Phylogeny
chemical_list: D005346:Fibroblast Growth Factors
keywords: Common carp genome; Fibroblast growth factors; Gene duplication; Gene family