Genome-wide identification and expression analysis of the BTB domain-containing protein gene family in tomato
BTB (broad-complex, tramtrack, and bric-a-brac) family proteins are characterized by the presence of a protein–protein interaction BTB domain. BTB proteins have diverse functions, including transcriptional regulation, protein degradation, chromatin remodeling, and cytoskeletal regulation. However, l...
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Published in | Genes & genomics Vol. 40; no. 1; pp. 1 - 15 |
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Main Authors | , , , , , , |
Format | Journal Article |
Language | English |
Published |
Seoul
The Genetics Society of Korea
2018
Springer Springer Nature B.V 한국유전학회 |
Subjects | |
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Abstract | BTB (broad-complex, tramtrack, and bric-a-brac) family proteins are characterized by the presence of a protein–protein interaction BTB domain. BTB proteins have diverse functions, including transcriptional regulation, protein degradation, chromatin remodeling, and cytoskeletal regulation. However, little is known about this gene family in tomato (
Solanum lycopersicum
), the most important model plant for crop species. In this study, 38 BTB genes were identified based on tomato whole-genome sequence. Phylogenetic analysis of BTB proteins in tomato revealed that
SlBTB
proteins could be divided into at least 4 subfamilies. The
SlBTB
proteins contains 1–3 BTB domains, and several other types of functional domains, including KCTD (Potassium channel tetramerization domain-containing), the MATH (meprin and TRAF homology), ANK (Ankyrin repeats), NPR1 (nonexpressor of pathogenesis-related proteins1), NPH3 (Nonphototropic Hypocotyl 3), TAZ zinc finger, C-terminal Kelch, Skp1 and Arm (Armadillo/beta-catenin-like repeat) domains are also found in some tomato BTB proteins. Moreover, their expression patterns in tissues/stages, in response to different abiotic stress treatments and hormones were also investigated. This study provides the first comprehensive analysis of BTB gene family in the tomato genome. The data will undoubtedly be useful for better understanding the potential functions of BTB genes, and their possible roles in mediating hormone cross-talk and abiotic stress in tomato as well as in some other relative species. |
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AbstractList | BTB (broad-complex, tramtrack, and bric-a-brac) family proteins are characterized by the presence of a protein-protein interaction BTB domain. BTB proteins have diverse functions, including transcriptional regulation, protein degradation, chromatin remodeling, and cytoskeletal regulation. However, little is known about this gene family in tomato (Solanum lycopersicum), the most important model plant for crop species. In this study, 38 BTB genes were identified based on tomato whole-genome sequence. Phylogenetic analysis of BTB proteins in tomato revealed that SlBTB proteins could be divided into at least 4 subfamilies. The SlBTB proteins contains 1-3 BTB domains, and several other types of functional domains, including KCTD (Potassium channel tetramerization domain-containing), the MATH (meprin and TRAF homology), ANK (Ankyrin repeats), NPR1 (nonexpressor of pathogenesis-related proteins1), NPH3 (Nonphototropic Hypocotyl 3), TAZ zinc finger, C-terminal Kelch, Skp1 and Arm (Armadillo/beta-catenin-like repeat) domains are also found in some tomato BTB proteins. Moreover, their expression patterns in tissues/stages, in response to different abiotic stress treatments and hormones were also investigated. This study provides the first comprehensive analysis of BTB gene family in the tomato genome. The data will undoubtedly be useful for better understanding the potential functions of BTB genes, and their possible roles in mediating hormone cross-talk and abiotic stress in tomato as well as in some other relative species. BTB (broad-complex, tramtrack, and bric-a-brac) family proteins are characterized by the presence of a protein–protein interaction BTB domain. BTB proteins have diverse functions, including transcriptional regulation, protein degradation, chromatin remodeling, and cytoskeletal regulation. However, little is known about this gene family in tomato ( Solanum lycopersicum ), the most important model plant for crop species. In this study, 38 BTB genes were identified based on tomato whole-genome sequence. Phylogenetic analysis of BTB proteins in tomato revealed that SlBTB proteins could be divided into at least 4 subfamilies. The SlBTB proteins contains 1–3 BTB domains, and several other types of functional domains, including KCTD (Potassium channel tetramerization domain-containing), the MATH (meprin and TRAF homology), ANK (Ankyrin repeats), NPR1 (nonexpressor of pathogenesis-related proteins1), NPH3 (Nonphototropic Hypocotyl 3), TAZ zinc finger, C-terminal Kelch, Skp1 and Arm (Armadillo/beta-catenin-like repeat) domains are also found in some tomato BTB proteins. Moreover, their expression patterns in tissues/stages, in response to different abiotic stress treatments and hormones were also investigated. This study provides the first comprehensive analysis of BTB gene family in the tomato genome. The data will undoubtedly be useful for better understanding the potential functions of BTB genes, and their possible roles in mediating hormone cross-talk and abiotic stress in tomato as well as in some other relative species. BTB (broad-complex, tramtrack, and bric-abrac) family proteins are characterized by the presence of a protein–protein interaction BTB domain. BTB proteins have diverse functions, including transcriptional regulation, protein degradation, chromatin remodeling, and cytoskeletal regulation. However, little is known about this gene family in tomato (Solanum lycopersicum), the most important model plant for crop species. In this study, 38 BTB genes were identified based on tomato whole-genome sequence. Phylogenetic analysis of BTB proteins in tomato revealed that SlBTB proteins could be divided into at least 4 subfamilies. The SlBTB proteins contains 1–3 BTB domains, and several other types of functional domains, including KCTD (Potassium channel tetramerization domain-containing), the MATH (meprin and TRAF homology), ANK (Ankyrin repeats), NPR1 (nonexpressor of pathogenesis-related proteins1), NPH3 (Nonphototropic Hypocotyl 3), TAZ zinc finger, C-terminal Kelch, Skp1 and Arm (Armadillo/betacatenin- like repeat) domains are also found in some tomato BTB proteins. Moreover, their expression patterns in tissues/ stages, in response to different abiotic stress treatments and hormones were also investigated. This study provides the first comprehensive analysis of BTB gene family in the tomato genome. The data will undoubtedly be useful for better understanding the potential functions of BTB genes, and their possible roles in mediating hormone cross-talk and abiotic stress in tomato as well as in some other relative species. KCI Citation Count: 5 |
Audience | Academic |
Author | Su, Xiaoxing Su, Chenggang Pan, Yu Li, Jinhua Wang, Yinlei Zhang, Xingguo Yang, Wei |
Author_xml | – sequence: 1 givenname: Jinhua surname: Li fullname: Li, Jinhua organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University – sequence: 2 givenname: Xiaoxing surname: Su fullname: Su, Xiaoxing organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University – sequence: 3 givenname: Yinlei surname: Wang fullname: Wang, Yinlei organization: Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences – sequence: 4 givenname: Wei surname: Yang fullname: Yang, Wei organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University – sequence: 5 givenname: Yu surname: Pan fullname: Pan, Yu organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University – sequence: 6 givenname: Chenggang surname: Su fullname: Su, Chenggang organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University – sequence: 7 givenname: Xingguo surname: Zhang fullname: Zhang, Xingguo email: zhangdupian@swu.edu.cn organization: Key Laboratory of Horticulture Science for Southern Mountainous Regions, Ministry of Education; College of Horticulture and Landscape Architechture, Southwest University |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/29892895$$D View this record in MEDLINE/PubMed https://www.kci.go.kr/kciportal/ci/sereArticleSearch/ciSereArtiView.kci?sereArticleSearchBean.artiId=ART002311063$$DAccess content in National Research Foundation of Korea (NRF) |
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SubjectTerms | Abiotic stress Amino Acid Sequence Animal Genetics and Genomics Ankyrins Biomedical and Life Sciences BTB-POZ Domain - genetics BTB-POZ Domain - physiology Chromatin Chromatin remodeling Chromosomes, Plant - metabolism Cytoskeleton DNA binding proteins Gene Expression Regulation, Plant - genetics Gene regulation Genes Genome Genome-Wide Association Study Genomes Genomics Homology Human Genetics Life Sciences Lycopersicon esculentum - genetics Microbial Genetics and Genomics Multigene Family - genetics Nucleotide sequence Phylogeny Plant Genetics and Genomics Plant Proteins - genetics Protein Interaction Domains and Motifs Protein-protein interactions Proteins Proteolysis Research Article Solanum lycopersicum Transcription Transcriptome - genetics Whole Genome Sequencing Zinc finger proteins β-Catenin 생물학 |
Title | Genome-wide identification and expression analysis of the BTB domain-containing protein gene family in tomato |
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