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Mo F, Zhang N, Qiu Y, Meng L, Cheng M, Liu J, Yao L, Lv R, Liu Y, Zhang Y, Chen X, Wang A. Molecular Characterization, Gene Evolution and Expression Analysis of the F-Box Gene Family in Tomato ( Solanum lycopersicum). Genes (Basel) 2021; 12:417. [PMID: 33799396 PMCID: PMC7998346 DOI: 10.3390/genes12030417] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 03/05/2021] [Accepted: 03/09/2021] [Indexed: 11/23/2022] Open
Abstract
F-box genes play an important role in the growth and development of plants, but there are few studies on its role in a plant's response to abiotic stresses. In order to further study the functions of F-box genes in tomato (Solanum lycopersicum, Sl), a total of 139 F-box genes were identified in the whole genome of tomato using bioinformatics methods, and the basic information, transcript structure, conserved motif, cis-elements, chromosomal location, gene evolution, phylogenetic relationship, expression patterns and the expression under cold stress, drought stress, jasmonic acid (JA) treatment and salicylic acid (SA) treatment were analyzed. The results showed that SlFBX genes were distributed on 12 chromosomes of tomato and were prone to TD (tandem duplication) at the ends of chromosomes. WGD (whole genome duplication), TD, PD (proximal duplication) and TRD (transposed duplication) modes seem play an important role in the expansion and evolution of tomato SlFBX genes. The most recent divergence occurred 1.3042 million years ago, between SlFBX89 and SlFBX103. The cis-elements in SlFBX genes' promoter regions were mainly responded to phytohormone and abiotic stress. Expression analysis based on transcriptome data and qRT-PCR (Real-time quantitative PCR) analysis of SlFBX genes showed that most SlFBX genes were differentially expressed under abiotic stress. SlFBX24 was significantly up-regulated at 12 h under cold stress. This study reported the SlFBX gene family of tomato for the first time, providing a theoretical basis for the detailed study of SlFBX genes in the future, especially the function of SlFBX genes under abiotic stress.
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Affiliation(s)
- Fulei Mo
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; (F.M.); (Y.Q.); (M.C.); (Y.Z.)
| | - Nian Zhang
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
| | - Youwen Qiu
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; (F.M.); (Y.Q.); (M.C.); (Y.Z.)
| | - Lingjun Meng
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
| | - Mozhen Cheng
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; (F.M.); (Y.Q.); (M.C.); (Y.Z.)
| | - Jiayin Liu
- College of Arts and Sciences, Northeast Agricultural University, Harbin 150030, China; (J.L.); (L.Y.)
| | - Lanning Yao
- College of Arts and Sciences, Northeast Agricultural University, Harbin 150030, China; (J.L.); (L.Y.)
| | - Rui Lv
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
| | - Yuxin Liu
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
| | - Yao Zhang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; (F.M.); (Y.Q.); (M.C.); (Y.Z.)
| | - Xiuling Chen
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
| | - Aoxue Wang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; (F.M.); (Y.Q.); (M.C.); (Y.Z.)
- College of Horticulture and Landscape Architecture, Northeast Agricultural University, Harbin 150030, China; (N.Z.); (L.M.); (R.L.); (Y.L.)
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Genome wide characterization, evolution and expression analysis of FBA gene family under salt stress in Gossypium species. Biologia (Bratisl) 2019. [DOI: 10.2478/s11756-019-00296-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Yu H, Khalid MHB, Lu F, Sun F, Qu J, Liu B, Li W, Fu F. Isolation and identification of a vegetative organ-specific promoter from maize. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2019; 25:277-287. [PMID: 30804649 PMCID: PMC6352524 DOI: 10.1007/s12298-018-0546-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2018] [Revised: 04/28/2018] [Accepted: 05/03/2018] [Indexed: 05/03/2023]
Abstract
To avoid the unregulated overexpression of the exogenous genes, specific or inducible expression is necessary for some exogenous genes in transgenic plants. But little is known about organ- or tissue-specific promoters in maize. In the present study, the expression of a maize pentatricopeptide repeat (PPR) protein encoding gene, GRMZM2G129783, was analyzed by RNA-sequencing data and confirmed by quantitative real time PCR. The results showed that the PPR GRMZM2G129783 gene specifically expressed in vegetative organs. Consequently, a 1830 bp sequence upstream of the start codon of the promoter for GRMZM2G129783 gene was isolated from maize genome (P 1830 ). To validate whether the promoter possesses the vegetative organ-specificity, the full-length and three 5'-end deletion fragments of P 1830 of different length (1387, 437, and 146 bp) were fused with glucuronidase (GUS) gene to generate promoter::GUS constructs and transformed into tobacco. The transient expression and fluorometric GUS assay in transgenic tobacco showed that all promoter could drive the expression of the GUS gene, the - 437 to - 146 bp region possessed some crucial elements for root-specific expression, and the shortest and optimal sequence to maintain transcription activity was 146 and 437 bp in length, respectively. These results indicate that the promoter of the PPR GRMZM2G129783 gene is a vegetative organ-specific promoter and will be useful in transgenic modification of commercial crops for moderate specific expression after further evaluation in monocotyledons.
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Affiliation(s)
- HaoQiang Yu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - Muhammad Hayder Bin Khalid
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - FengZhong Lu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - FuAi Sun
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - JingTao Qu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - BingLiang Liu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - WanChen Li
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
| | - FengLing Fu
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture; Maize Research Institute, Sichuan Agricultural University, Chengdu, 611130 People’s Republic of China
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Lv GY, Guo XG, Xie LP, Xie CG, Zhang XH, Yang Y, Xiao L, Tang YY, Pan XL, Guo AG, Xu H. Molecular Characterization, Gene Evolution, and Expression Analysis of the Fructose-1, 6-bisphosphate Aldolase (FBA) Gene Family in Wheat ( Triticum aestivum L.). FRONTIERS IN PLANT SCIENCE 2017; 8:1030. [PMID: 28659962 PMCID: PMC5470051 DOI: 10.3389/fpls.2017.01030] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2017] [Accepted: 05/29/2017] [Indexed: 05/17/2023]
Abstract
Fructose-1, 6-bisphosphate aldolase (FBA) is a key plant enzyme that is involved in glycolysis, gluconeogenesis, and the Calvin cycle. It plays significant roles in biotic and abiotic stress responses, as well as in regulating growth and development processes. In the present paper, 21 genes encoding TaFBA isoenzymes were identified, characterized, and categorized into three groups: class I chloroplast/plastid FBA (CpFBA), class I cytosol FBA (cFBA), and class II chloroplast/plastid FBA. By using a prediction online database and genomic PCR analysis of Chinese Spring nulli-tetrasomic lines, we have confirmed the chromosomal location of these genes in 12 chromosomes of four homologous groups. Sequence and genomic structure analysis revealed the high identity of the allelic TaFBA genes and the origin of different TaFBA genes. Numerous putative environment stimulus-responsive cis-elements have been identified in 1,500-bp regions of TaFBA gene promoters, of which the most abundant are the light-regulated elements (LREs). Phylogenetic reconstruction using the deduced protein sequence of 245 FBA genes indicated an independent evolutionary pathway for the class I and class II groups. Although, earlier studies have indicated that class II FBA only occurs in prokaryote and fungi, our results have demonstrated that a few class II CpFBAs exist in wheat and other closely related species. Class I TaFBA was predicted to be tetramers and class II to be dimers. Gene expression analysis based on microarray and transcriptome databases suggested the distinct role of TaFBAs in different tissues and developmental stages. The TaFBA 4-9 genes were highly expressed in leaves and might play important roles in wheat development. The differential expression patterns of the TaFBA genes in light/dark and a few abiotic stress conditions were also analyzed. The results suggested that LRE cis-elements of TaFBA gene promoters were not directly related to light responses. Most TaFBA genes had higher expression levels in the roots than in the shoots when under various stresses. Class I cytosol TaFBA genes, particularly TaFBA10/12/18 and TaFBA13/16, and three class II TaFBA genes are involved in responses to various abiotic stresses. Class I CpFBA genes in wheat are apparently sensitive to different stress conditions.
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Affiliation(s)
- Geng-Yin Lv
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Xiao-Guang Guo
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Li-Ping Xie
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Chang-Gen Xie
- College of Life Sciences, Northwest A & F UniversityYangling, China
- State Key Laboratory of Crop Stress Biology for Arid AreasYangling, China
| | - Xiao-Hong Zhang
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Yuan Yang
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Lei Xiao
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Yu-Ying Tang
- College of Life Sciences, Northwest A & F UniversityYangling, China
| | - Xing-Lai Pan
- Department of Food Crop Science, Cotton Research Institute, Shanxi Academy of Agricultural Sciences (CAAS)Yuncheng, China
| | - Ai-Guang Guo
- College of Life Sciences, Northwest A & F UniversityYangling, China
- State Key Laboratory of Crop Stress Biology for Arid AreasYangling, China
| | - Hong Xu
- College of Life Sciences, Northwest A & F UniversityYangling, China
- State Key Laboratory of Crop Stress Biology for Arid AreasYangling, China
- *Correspondence: Hong Xu
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Purev M, Kim MK, Samdan N, Yang DC. Isolation of a novel fructose-1,6-bisphosphate aldolase gene from Codonopsis lanceolata and analysis of the response of this gene to abiotic stresses. Mol Biol 2008. [DOI: 10.1134/s0026893308020027] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Wei H, Dhanaraj AL, Rowland LJ, Fu Y, Krebs SL, Arora R. Comparative analysis of expressed sequence tags from cold-acclimated and non-acclimated leaves of Rhododendron catawbiense Michx. PLANTA 2005; 221:406-16. [PMID: 15933892 DOI: 10.1007/s00425-004-1440-1] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2004] [Accepted: 10/26/2004] [Indexed: 05/02/2023]
Abstract
An expressed sequence tag (EST) analysis approach was undertaken to identify major genes involved in cold acclimation of Rhododendron, a broad-leaf, woody evergreen species. Two cDNA libraries were constructed, one from winter-collected (cold-acclimated, CA; leaf freezing tolerance -53 degrees C) leaves, and the other from summer-collected (non-acclimated, NA; leaf freezing tolerance -7 degrees C) leaves of field-grown Rhododendron catawbiense plants. A total of 862 5'-end high-quality ESTs were generated by sequencing cDNA clones from the two libraries (423 from CA and 439 from NA library). Only about 6.3% of assembled unique transcripts were shared between the libraries, suggesting remarkable differences in gene expression between CA and NA leaves. Analysis of the relative frequency at which specific cDNAs were picked from each library indicated that four genes or gene families were highly abundant in the CA library including early light-induced proteins (ELIP), dehydrins/late embryogenesis abundant proteins (LEA), cytochrome P450, and beta-amylase. Similarly, seven genes or gene families were highly abundant in the NA library and included chlorophyll a/b-binding protein, NADH dehydrogenase subunit I, plastidic aldolase, and serine:glyoxylate aminotransferase, among others. Northern blot analyses for seven selected abundant genes confirmed their preferential expression in either CA or NA leaf tissues. Our results suggest that osmotic regulation, desiccation tolerance, photoinhibition tolerance, and photosynthesis adjustment are some of the key components of cold adaptation in Rhododendron.
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Affiliation(s)
- Hui Wei
- Department of Horticulture, Iowa State University, Ames, IA 50011, USA
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Yamada S, Komori T, Hashimoto A, Kuwata S, Imaseki H, Kubo T. Differential expression of plastidic aldolase genes in Nicotiana plants under salt stress. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2000; 154:61-69. [PMID: 10725559 DOI: 10.1016/s0168-9452(00)00188-6] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Two homologous genes of plastidic fructose-1,6-bisphosphate aldolase (AldP) isozymes were isolated from green leaves of a salt stress-tolerant Nicotiana species, Nicotiana paniculata, by differential screening. The products of the corresponding genes, NpAldP1 and NpAldP2, were 91% identical to each other and 70-85% identical to the other known plant plastidic aldolases. Although these two genes showed similar organ-specific expression and daily cycles, their responses to salt stress differed: mRNA accumulation of NpAldP2 increased, but that of NpAldP1 slightly decreased. The mRNA accumulations of their counterparts of two other Nicotiana species, NeAldP1 and NeAldP2 (Nicotiana excelsior), and NaAldP1 and NaAldP2 (Nicotiana arentsii) were studied under the same stress condition. N. arentsii conserved accumulation profiles similar to N. paniculata, but N. excelsior did not. In N. excelsior, accumulation of NeAldP1 decreased to 50% of the control after stress and gradually recovered thereafter, whereas accumulation of NeAldP2 temporarily decreased and reached 250% of the control by the third day of stress. Southern blot analysis indicated that NpAldP1, NpAldP2, NaAldP1, and NaAldP2 include one or two closely related genes and NeAldP1 and NeAldP2 several.
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Affiliation(s)
- S Yamada
- Plant Breeding and Genetics Research Laboratory, Japan Tobacco Inc., 700 Higashibara, Toyoda-cho, Iwata-gun, Shizuoka, Japan
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