title: Genomic characterization, phylogenetic comparison and differential expression of the cyclic nucleotide-gated channels gene family in pear (Pyrus bretchneideri Rehd.).
abstract: The cyclic nucleotide-gated channel (CNGC) family is involved in the uptake of various cations, such as Ca(2+), to regulate plant growth and respond to biotic and abiotic stresses. However, there is far less information about this family in woody plants such as pear. Here, we provided a genome-wide identification and analysis of the CNGC gene family in pear. Phylogenetic analysis showed that the 21 pear CNGC genes could be divided into five groups (I, II, III, IVA and IVB). The majority of gene duplications in pear appeared to have been caused by segmental duplication and occurred 32.94-39.14 million years ago. Evolutionary analysis showed that positive selection had driven the evolution of pear CNGCs. Motif analyses showed that Group I CNGCs generally contained 26 motifs, which was the greatest number of motifs in all CNGC groups. Among these, eight motifs were shared by each group, suggesting that these domains play a conservative role in CNGC activity. Tissue-specific expression analysis indicated that functional diversification of the duplicated CNGC genes was a major feature of long-term evolution. Our results also suggested that the P-S6 and PBC & hinge domains had co-evolved during the evolution. These results provide valuable information to increase our understanding of the function, evolution and expression analyses of the CNGC gene family in higher plants.
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 2012204007@njau.edu.cn.
authors.forename: Jianqing
authors.initials: J
authors.lastname: Chen
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 441234395@qq.com.
authors.forename: Hao
authors.initials: H
authors.lastname: Yin
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 779650801@qq.com.
authors.forename: Jinping
authors.initials: J
authors.lastname: Gu
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: lileiting@foxmail.com.
authors.forename: Leiting
authors.initials: L
authors.lastname: Li
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 530875604@qq.com.
authors.forename: Zhe
authors.initials: Z
authors.lastname: Liu
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 7643207@qq.com.
authors.forename: Xueting
authors.initials: X
authors.lastname: Jiang
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 475582467@qq.com.
authors.forename: Hongsheng
authors.initials: H
authors.lastname: Zhou
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: 543673887@qq.com.
authors.forename: Shuwei
authors.initials: S
authors.lastname: Wei
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: slzhang@njau.edu.cn.
authors.forename: Shaoling
authors.initials: S
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Crop Genetics and Germplasm Enhancement, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: juyouwu@njau.edu.cn.
authors.forename: Juyou
authors.initials: J
authors.lastname: Wu
mesh_terms: D054815:Cyclic Nucleotide-Gated Cation Channels / Q000737:chemistry / Q000235:genetics*; D019143:Evolution, Molecular; D020440:Gene Duplication; D005810:Multigene Family; D009928:Organ Specificity; D010802:Phylogeny; D010940:Plant Proteins / Q000737:chemistry / Q000235:genetics*; D031989:Pyrus / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D012641:Selection, Genetic
chemical_list: D054815:Cyclic Nucleotide-Gated Cation Channels; D010940:Plant Proteins
keywords: CNGC; Expression pattern; Gene duplication; Gene family; Pear; Phylogenetic analysis