1
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Marin-Recinos MF, Pucker B. Genetic factors explaining anthocyanin pigmentation differences. BMC PLANT BIOLOGY 2024; 24:627. [PMID: 38961369 PMCID: PMC11221117 DOI: 10.1186/s12870-024-05316-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2023] [Accepted: 06/20/2024] [Indexed: 07/05/2024]
Abstract
BACKGROUND Anthocyanins are important contributors to coloration across a wide phylogenetic range of plants. Biological functions of anthocyanins span from reproduction to protection against biotic and abiotic stressors. Owing to a clearly visible phenotype of mutants, the anthocyanin biosynthesis and its sophisticated regulation have been studied in numerous plant species. Genes encoding the anthocyanin biosynthesis enzymes are regulated by a transcription factor complex comprising MYB, bHLH and WD40 proteins. RESULTS A systematic comparison of anthocyanin-pigmented vs. non-pigmented varieties was performed within numerous plant species covering the taxonomic diversity of flowering plants. The literature was screened for cases in which genetic factors causing anthocyanin loss were reported. Additionally, transcriptomic data sets from four previous studies were reanalyzed to determine the genes possibly responsible for color variation based on their expression pattern. The contribution of different structural and regulatory genes to the intraspecific pigmentation differences was quantified. Differences concerning transcription factors are by far the most frequent explanation for pigmentation differences observed between two varieties of the same species. Among the transcription factors in the analyzed cases, MYB genes are significantly more prone to account for pigmentation differences compared to bHLH or WD40 genes. Among the structural genes, DFR genes are most often associated with anthocyanin loss. CONCLUSIONS These findings support previous assumptions about the susceptibility of transcriptional regulation to evolutionary changes and its importance for the evolution of novel coloration phenotypes. Our findings underline the particular significance of MYBs and their apparent prevalent role in the specificity of the MBW complex.
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Affiliation(s)
- Maria F Marin-Recinos
- Plant Biotechnology and Bioinformatics, Institute of Plant Biology and BRICS, TU Braunschweig, Braunschweig, Germany
| | - Boas Pucker
- Plant Biotechnology and Bioinformatics, Institute of Plant Biology and BRICS, TU Braunschweig, Braunschweig, Germany.
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2
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Moss SMA, Zhou Y, Butelli E, Waite CN, Yeh SM, Cordiner SB, Harris NN, Copsey L, Schwinn KE, Davies KM, Hudson A, Martin C, Albert NW. Painted flowers: Eluta generates pigment patterning in Antirrhinum. THE NEW PHYTOLOGIST 2024; 243:738-752. [PMID: 38822654 DOI: 10.1111/nph.19866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Accepted: 05/03/2024] [Indexed: 06/03/2024]
Abstract
In the early 1900s, Erwin Baur established Antirrhinum majus as a model system, identifying and characterising numerous flower colour variants. This included Picturatum/Eluta, which restricts the accumulation of magenta anthocyanin pigments, forming bullseye markings on the flower face. We identified the gene underlying the Eluta locus by transposon-tagging, using an Antirrhinum line that spontaneously lost the nonsuppressive el phenotype. A candidate MYB repressor gene at this locus contained a CACTA transposable element. We subsequently identified plants where this element excised, reverting to a suppressive Eluta phenotype. El alleles inhibit expression of anthocyanin biosynthetic genes, confirming it to be a regulatory locus. The modes of action of Eluta were investigated by generating stable transgenic tobacco lines, biolistic transformation of Antirrhinum petals and promoter activation/repression assays. Eluta competes with MYB activators for promoter cis-elements, and also by titrating essential cofactors (bHLH proteins) to reduce transcription of target genes. Eluta restricts the pigmentation established by the R2R3-MYB factors, Rosea and Venosa, with the greatest repression on those parts of the petals where Eluta is most highly expressed. Baur questioned the origin of heredity units determining flower colour variation in cultivated A. majus. Our findings support introgression from wild species into cultivated varieties.
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Affiliation(s)
- Sarah M A Moss
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | - Yanfei Zhou
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | | | - Chethi N Waite
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | - Shin-Mei Yeh
- The New Zealand Institute for Plant and Food Research Ltd, Auckland, 1025, New Zealand
| | - Sarah B Cordiner
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | - Nilangani N Harris
- The New Zealand Institute for Crop and Food Research Ltd, Palmerston North, 4410, New Zealand
| | | | - Kathy E Schwinn
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | - Kevin M Davies
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
| | | | | | - Nick W Albert
- The New Zealand Institute for Plant and Food Research Ltd, Palmerston North, 4410, New Zealand
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3
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Li T, Wang J, Zhang Z, Fan Y, Qin H, Yin Y, Dai G, Cao Y, Tang L. Anthocyanin biosynthesis in goji berry is inactivated by deletion in a bHLH transcription factor LrLAN1b promoter. PLANT PHYSIOLOGY 2024; 195:1461-1474. [PMID: 38431527 DOI: 10.1093/plphys/kiae122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Revised: 09/27/2023] [Accepted: 10/08/2023] [Indexed: 03/05/2024]
Abstract
Black goji berry (Lycium ruthenicum Murray) contains a rich source of health-promoting anthocyanins which are used in herbal medicine and nutraceutical foods in China. A natural variant producing white berries allowed us to identify two key genes involved in the regulation of anthocyanin biosynthesis in goji berries: one encoding a MYB transcription factor (LrAN2-like) and one encoding a basic helix-loop-helix (bHLH) transcription factor (LrAN1b). We previously found that LrAN1b expression was lost in the white berry variant, but the molecular basis for this phenotype was unknown. Here, we identified the molecular mechanism for loss of anthocyanins in white goji berries. In white goji, the LrAN1b promoter region has a 229 bp deletion that removes three MYB-binding elements and one bHLH-binding element, which are key to its expression. Complementation of the white goji berry LrAN1b allele with the LrAN1b promoter restored pigmentation. Virus-induced gene silencing of LrAN1b in black goji berry reduced fruit anthocyanin biosynthesis. Molecular analyses showed that LrAN2-like and another bHLH transcription factor LrJAF13 can activate LrAN1b by binding directly to the MYB-recognizing element and bHLH-recognizing element of its promoter-deletion region. LrAN1b expression is enhanced by the interaction of LrAN2-like with LrJAF13 and the WD40 protein LrAN11. LrAN2-like and LrAN11 interact with either LrJAF13 or LrAN1b to form two MYB-bHLH-WD40 complexes, which hierarchically regulate anthocyanin biosynthesis in black goji berry. This study on a natural variant builds a comprehensive anthocyanin regulatory network that may be manipulated to tailor goji berry traits.
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Affiliation(s)
- Tingting Li
- Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, Sichuan Province 610065, China
| | - Jingjin Wang
- Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, Sichuan Province 610065, China
| | - Zihan Zhang
- Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, Sichuan Province 610065, China
| | - Yunfang Fan
- Institute of Wolfberry Engineering Technology, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region 750002, China
- National Wolfberry Engineering Research Center, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region, 750002, China
| | - Huan Qin
- Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, Sichuan Province 610065, China
| | - Yue Yin
- Institute of Wolfberry Engineering Technology, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region 750002, China
- National Wolfberry Engineering Research Center, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region, 750002, China
| | - Guoli Dai
- Institute of Wolfberry Engineering Technology, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region 750002, China
- National Wolfberry Engineering Research Center, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region, 750002, China
| | - Youlong Cao
- Institute of Wolfberry Engineering Technology, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region 750002, China
- National Wolfberry Engineering Research Center, Ningxia Academy of Agriculture and Forestry Sciences, Yinchuan, Ningxia Hui Autonomous Region, 750002, China
| | - Lin Tang
- Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, Sichuan Province 610065, China
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4
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Grützner R, König K, Horn C, Engler C, Laub A, Vogt T, Marillonnet S. A transient expression tool box for anthocyanin biosynthesis in Nicotiana benthamiana. PLANT BIOTECHNOLOGY JOURNAL 2024; 22:1238-1250. [PMID: 38124296 PMCID: PMC11022804 DOI: 10.1111/pbi.14261] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 11/17/2023] [Accepted: 11/26/2023] [Indexed: 12/23/2023]
Abstract
Transient expression in Nicotiana benthamiana offers a robust platform for the rapid production of complex secondary metabolites. It has proven highly effective in helping identify genes associated with pathways responsible for synthesizing various valuable natural compounds. While this approach has seen considerable success, it has yet to be applied to uncovering genes involved in anthocyanin biosynthetic pathways. This is because only a single anthocyanin, delphinidin 3-O-rutinoside, can be produced in N. benthamiana by activation of anthocyanin biosynthesis using transcription factors. The production of other anthocyanins would necessitate the suppression of certain endogenous flavonoid biosynthesis genes while transiently expressing others. In this work, we present a series of tools for the reconstitution of anthocyanin biosynthetic pathways in N. benthamiana leaves. These tools include constructs for the expression or silencing of anthocyanin biosynthetic genes and a mutant N. benthamiana line generated using CRISPR. By infiltration of defined sets of constructs, the basic anthocyanins pelargonidin 3-O-glucoside, cyanidin 3-O-glucoside and delphinidin 3-O-glucoside could be obtained in high amounts in a few days. Additionally, co-infiltration of supplementary pathway genes enabled the synthesis of more complex anthocyanins. These tools should be useful to identify genes involved in the biosynthesis of complex anthocyanins. They also make it possible to produce novel anthocyanins not found in nature. As an example, we reconstituted the pathway for biosynthesis of Arabidopsis anthocyanin A5, a cyanidin derivative and achieved the biosynthesis of the pelargonidin and delphinidin variants of A5, pelargonidin A5 and delphinidin A5.
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Affiliation(s)
- Ramona Grützner
- Department of Cell and Metabolic BiologyLeibniz Institute of Plant BiochemistryHalleGermany
| | - Kristin König
- Department of Cell and Metabolic BiologyLeibniz Institute of Plant BiochemistryHalleGermany
| | - Claudia Horn
- Department of Cell and Metabolic BiologyLeibniz Institute of Plant BiochemistryHalleGermany
| | | | - Annegret Laub
- Department of Bioorganic ChemistryLeibniz Institute of Plant BiochemistryHalleGermany
| | - Thomas Vogt
- Department of Cell and Metabolic BiologyLeibniz Institute of Plant BiochemistryHalleGermany
| | - Sylvestre Marillonnet
- Department of Cell and Metabolic BiologyLeibniz Institute of Plant BiochemistryHalleGermany
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5
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Hou X, Singh SK, Werkman JR, Liu Y, Yuan Q, Wu X, Patra B, Sui X, Lyu R, Wang B, Liu X, Li Y, Ma W, Pattanaik S, Yuan L. Partial desensitization of MYC2 transcription factor alters the interaction with jasmonate signaling components and affects specialized metabolism. Int J Biol Macromol 2023; 252:126472. [PMID: 37625752 DOI: 10.1016/j.ijbiomac.2023.126472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2023] [Revised: 08/20/2023] [Accepted: 08/21/2023] [Indexed: 08/27/2023]
Abstract
The activity of bHLH transcription factor MYC2, a key regulator in jasmonate signaling and plant specialized metabolism, is sensitive to repression by JASMONATE-ZIM-domain (JAZ) proteins and co-activation by the mediator subunit MED25. The substitution of a conserved aspartic acid (D) to asparagine (N) in the JAZ-interacting domain (JID) of Arabidopsis MYC2 affects interaction with JAZ, although the mechanism remained unclear. The effects of the conserved residue MYC2D128 on interaction with MED25 have not been investigated. Using tobacco as a model, we generated all possible substitutions of aspartic acid 128 (D128) in NtMYC2a. NtMYC2aD128N partially desensitized the repression by JAZ proteins, while strongly interacting with MED25, resulting in increased expression of nicotine pathway genes and nicotine accumulation in tobacco hairy roots overexpressing NtMYC2aD128N compared to those overexpressing NtMYC2a. The proline substitution, NtMYC2aD128P, negatively affected transactivation and abolished the interaction with JAZ proteins and MED25. Structural modeling and simulation suggest that the overall stability of the JID binding pocket is a predominant cause for the observed effects of substitutions at D128. The D128N substitution has an overall stabilizing effect on the binding pocket, which is destabilized by D128P. Our study offers an innovative tool to increase the production of plant natural products.
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Affiliation(s)
- Xin Hou
- Department of Tobacco, College of Plant Protection, Shandong Agricultural University, Shandong Province Key Laboratory of Agricultural Microbiology, Tai'an 271018, China
| | - Sanjay Kumar Singh
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Joshua R Werkman
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Yongliang Liu
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Qinghua Yuan
- Crop Research Institute, Guangdong Academy of Agricultural Sciences, Key Laboratory of Crop Genetic Improvement of Guangdong Province, Guangdong Provincial Engineering & Technology Research Center for Tobacco Breeding and Comprehensive Utilization, Guangzhou 510640, China
| | - Xia Wu
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Barunava Patra
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Xueyi Sui
- Tobacco Breeding and Biotechnology Center, Yunnan Academy of Tobacco Agricultural Sciences, Kunming 650021, Yunnan, China
| | - Ruiqing Lyu
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA
| | - Bingwu Wang
- Tobacco Breeding and Biotechnology Center, Yunnan Academy of Tobacco Agricultural Sciences, Kunming 650021, Yunnan, China
| | - Xiaoyu Liu
- Pomology Institute, Shanxi Agricultural University, Taigu 030815, Shanxi, China
| | - Yongqing Li
- Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510520, China
| | - Wei Ma
- School of Biological Sciences, Nanyang Technological University, Singapore 637551, Singapore
| | - Sitakanta Pattanaik
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA.
| | - Ling Yuan
- Department of Plant and Soil Sciences, Kentucky Tobacco Research and Development Center, University of Kentucky, Lexington, KY 40546, USA.
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6
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Xu H, Guan Y, Shan C, Xiao W, Wu M. Development of thermoultrasound assisted blanching to improve enzyme inactivation efficiency, drying characteristics, energy consumption, and physiochemical properties of sweet potatoes. ULTRASONICS SONOCHEMISTRY 2023; 101:106670. [PMID: 37922719 PMCID: PMC10643530 DOI: 10.1016/j.ultsonch.2023.106670] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Revised: 10/26/2023] [Accepted: 10/28/2023] [Indexed: 11/07/2023]
Abstract
Thermoultrasound (USB) as a promising alternative to traditional hot water (HWB) blanching was employed to blanch sweet potatoes and its influence on enzyme activity, drying behavior, energy consumption and physiochemical properties of sweet potatoes were investigated. Results showed that successive increases in blanching temperature and time resulted in significant (p < 0.05) decreases in PPO and POD activities. Compared to HWB, USB led to more effective drying by promoting texture softening, moisture diffusion, microstructure alterations, and microchannels formation, which significantly reduced energy consumption and improved the overall quality of the dried sample. Specifically, USB at 65 °C for 15 min improved water holding capacity and ABTS, while USB at 65 °C for 30 min improved color (more red and yellow), total phenolic content, total carotenoid content, and DPPH. Unfortunately, blanching process showed detrimental effects on the amino acid composition of dried samples. Overall, the development of thermoultrasound assisted blanching for sweet potatoes has the potential to revolutionize the processing and production of high-quality sweet potato products, while also improving the sustainability of food processing operations.
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Affiliation(s)
- Huihuang Xu
- College of Engineering, China Agricultural University, No. 17 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Yaru Guan
- College of Engineering, China Agricultural University, No. 17 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Chun Shan
- College of Engineering, China Agricultural University, No. 17 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Wanru Xiao
- College of Engineering, China Agricultural University, No. 17 Qinghua East Road, Haidian District, Beijing 100083, China
| | - Min Wu
- College of Engineering, China Agricultural University, No. 17 Qinghua East Road, Haidian District, Beijing 100083, China.
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7
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Zhao Y, Liu G, Yang F, Liang Y, Gao Q, Xiang C, Li X, Yang R, Zhang G, Jiang H, Yu L, Yang S. Multilayered regulation of secondary metabolism in medicinal plants. MOLECULAR HORTICULTURE 2023; 3:11. [PMID: 37789448 PMCID: PMC10514987 DOI: 10.1186/s43897-023-00059-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 04/27/2023] [Indexed: 10/05/2023]
Abstract
Medicinal plants represent a huge reservoir of secondary metabolites (SMs), substances with significant pharmaceutical and industrial potential. However, obtaining secondary metabolites remains a challenge due to their low-yield accumulation in medicinal plants; moreover, these secondary metabolites are produced through tightly coordinated pathways involving many spatiotemporally and environmentally regulated steps. The first regulatory layer involves a complex network of transcription factors; a second, more recently discovered layer of complexity in the regulation of SMs is epigenetic modification, such as DNA methylation, histone modification and small RNA-based mechanisms, which can jointly or separately influence secondary metabolites by regulating gene expression. Here, we summarize the findings in the fields of genetic and epigenetic regulation with a special emphasis on SMs in medicinal plants, providing a new perspective on the multiple layers of regulation of gene expression.
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Affiliation(s)
- Yan Zhao
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Guanze Liu
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
| | - Feng Yang
- Institute of Chinese Medicinal Materials, Nanjing Agricultural University, Nanjing, 210095, China
| | - Yanli Liang
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Qingqing Gao
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Chunfan Xiang
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Xia Li
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Run Yang
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Guanghui Zhang
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China
- College of Agronomy & Biotechnology, Yunnan Agricultural University, Kunming, 650201, China
| | - Huifeng Jiang
- Key Laboratory of Engineering Biology for Low-Carbon Manufacturing, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China.
| | - Lei Yu
- College of Agronomy, Yunnan Urban Agricultural Engineering and Technological Research Center, Kunming University, Kunming, 650214, China.
| | - Shengchao Yang
- Key Laboratory of Medicinal Plant Biology of Yunnan Province, National & Local Joint Engineering Research Center on Germplasms Innovation & Utilization of Chinese Medicinal Materials in Southwest China, Yunnan Agricultural University, 650201, Kunming, China.
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8
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Guo L, Yao H, Chen W, Wang X, Ye P, Xu Z, Zhang S, Wu H. Natural products of medicinal plants: biosynthesis and bioengineering in post-genomic era. HORTICULTURE RESEARCH 2022; 9:uhac223. [PMID: 36479585 PMCID: PMC9720450 DOI: 10.1093/hr/uhac223] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Accepted: 09/22/2022] [Indexed: 06/01/2023]
Abstract
Globally, medicinal plant natural products (PNPs) are a major source of substances used in traditional and modern medicine. As we human race face the tremendous public health challenge posed by emerging infectious diseases, antibiotic resistance and surging drug prices etc., harnessing the healing power of medicinal plants gifted from mother nature is more urgent than ever in helping us survive future challenge in a sustainable way. PNP research efforts in the pre-genomic era focus on discovering bioactive molecules with pharmaceutical activities, and identifying individual genes responsible for biosynthesis. Critically, systemic biological, multi- and inter-disciplinary approaches integrating and interrogating all accessible data from genomics, metabolomics, structural biology, and chemical informatics are necessary to accelerate the full characterization of biosynthetic and regulatory circuitry for producing PNPs in medicinal plants. In this review, we attempt to provide a brief update on the current research of PNPs in medicinal plants by focusing on how different state-of-the-art biotechnologies facilitate their discovery, the molecular basis of their biosynthesis, as well as synthetic biology. Finally, we humbly provide a foresight of the research trend for understanding the biology of medicinal plants in the coming decades.
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Affiliation(s)
- Li Guo
- Shandong Laboratory of Advanced Agricultural Sciences at Weifang, Peking University Institute of Advanced Agricultural Sciences, Weifang, Shandong 261000, China
| | - Hui Yao
- Key Laboratory of Bioactive Substances and Resources Utilization of Chinese Herbal Medicine, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China
| | - Weikai Chen
- Shandong Laboratory of Advanced Agricultural Sciences at Weifang, Peking University Institute of Advanced Agricultural Sciences, Weifang, Shandong 261000, China
| | - Xumei Wang
- School of Pharmacy, Xi’an Jiaotong University, Xi’an 710061, China
| | - Peng Ye
- State Key laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Laboratory For Lingnan Modern Agriculture, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Zhichao Xu
- College of Life Science, Northeast Forestry University, Harbin 150040, China
| | - Sisheng Zhang
- State Key laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Laboratory For Lingnan Modern Agriculture, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Hong Wu
- State Key laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Laboratory For Lingnan Modern Agriculture, College of Life Sciences, South China Agricultural University, Guangzhou 510642, China
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9
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Li M, Zhang H, Yang Y, Wang H, Xue Z, Fan Y, Sun P, Zhang H, Zhang X, Jin W. Rosa1, a Transposable Element-Like Insertion, Produces Red Petal Coloration in Rose Through Altering RcMYB114 Transcription. FRONTIERS IN PLANT SCIENCE 2022; 13:857684. [PMID: 35574133 PMCID: PMC9100400 DOI: 10.3389/fpls.2022.857684] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Accepted: 04/11/2022] [Indexed: 06/15/2023]
Abstract
Rose (Rosa sp.) flowers have a rich diversity of colors resulting from the differential accumulation of anthocyanins, flavonols, and carotenoids. However, the genetic and molecular determinants of the red-petal trait in roses remains poorly understood. Here we report that a transposable element-like insertion (Rosa1) into RcMYB114, a R2R3-MYB transcription factor's promoter region causes its transcription, resulting in red petals. In red-petal varieties, RcMYB114 is expressed specifically in flower organs, but is absent from non-red varieties. Sequencing, yeast two-hybrid, transient transformation, and promoter activity assays of RcMYB114 independently confirmed the role of Rosa1 in altering RcMYB114's transcription and downstream effects on flower color. Genetic and molecular evidence confirmed that the Rosa1 transposable element-like insertion, which is a previously unknown DNA transposable element, is different from those in other plants and is a reliable molecular marker to screen red-petal roses.
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Affiliation(s)
- Maofu Li
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Hui Zhang
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- Institute of Botany, University of Chinese Academy of Sciences, Beijing, China
| | - Yuan Yang
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center for Deciduous Fruit Trees, Beijing, China
| | - Hua Wang
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Zhen Xue
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- Institute of Botany, University of Chinese Academy of Sciences, Beijing, China
| | - Youwei Fan
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Pei Sun
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Hong Zhang
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Xinzhu Zhang
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
| | - Wanmei Jin
- Institute of Forestry and Pomology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (North China), Ministry of Agriculture and Rural Affairs, Beijing, China
- Beijing Engineering Research Center of Functional Floriculture, Beijing, China
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10
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Zhuang Y, Manzitto-Tripp EA. Co-expression network analyses of anthocyanin biosynthesis genes in Ruellia (Wild Petunias; Acanthaceae). BMC Ecol Evol 2022; 22:27. [PMID: 35260074 PMCID: PMC8905905 DOI: 10.1186/s12862-021-01955-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Accepted: 12/22/2021] [Indexed: 11/26/2022] Open
Abstract
Background Anthocyanins are major pigments contributing to flower coloration and as such knowledge of molecular architecture underlying the anthocyanin biosynthetic pathway (ABP) is key to understanding flower color diversification. To identify ABP structural genes and associated regulatory networks, we sequenced 16 transcriptomes generated from 10 species of Ruellia and then conducted co-expression analyses among resulting data. Results Complete coding sequences for 12 candidate structural loci representing eight genes plus nine candidate regulatory loci were assembled. Analysis of non-synonymous/synonymous (dn/ds) mutation rates indicated all identified loci are under purifying selection, suggesting overall selection to prevent the accumulation of deleterious mutations. Additionally, upstream enzymes have lower rates of molecular evolution compared to downstream enzymes. However, site-specific tests of selection yielded evidence for positive selection at several sites, including four in F3'H2 and five in DFR3, and these sites are located in protein binding regions. A species-level phylogenetic tree constructed using a newly implemented hybrid transcriptome–RADseq approach implicates several flower color transitions among the 10 species. We found evidence of both regulatory and structural mutations to F3′5'H in helping to explain the evolution of red flowers from purple-flowered ancestors. Conclusions Sequence comparisons and co-expression analyses of ABP loci revealed that mutations in regulatory loci are likely to play a greater role in flower color transitions in Ruellia compared to mutations in underlying structural genes. Supplementary Information The online version contains supplementary material available at 10.1186/s12862-021-01955-x.
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Affiliation(s)
- Yongbin Zhuang
- Department of Ecology and Evolutionary Biology, University of Colorado, UCB 334, Boulder, CO, 80309, USA.,Museum of Natural History, University of Colorado, UCB 350, Boulder, CO, 80309, USA.,College of Agronomy, Shandong Agricultural University, Taian, 271018, Shandong, China
| | - Erin A Manzitto-Tripp
- Department of Ecology and Evolutionary Biology, University of Colorado, UCB 334, Boulder, CO, 80309, USA. .,Museum of Natural History, University of Colorado, UCB 350, Boulder, CO, 80309, USA.
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11
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Albert NW, Lafferty DJ, Moss SMA, Davies KM. Flavonoids – flowers, fruit, forage and the future. J R Soc N Z 2022. [DOI: 10.1080/03036758.2022.2034654] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Nick W. Albert
- The New Zealand Institute for Plant and Food Research Limited, Palmerston North, New Zealand
| | - Declan J. Lafferty
- The New Zealand Institute for Plant and Food Research Limited, Palmerston North, New Zealand
| | - Sarah M. A. Moss
- The New Zealand Institute for Plant and Food Research Limited, Palmerston North, New Zealand
| | - Kevin M. Davies
- The New Zealand Institute for Plant and Food Research Limited, Palmerston North, New Zealand
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12
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McAtee PA, Nardozza S, Richardson A, Wohlers M, Schaffer RJ. A Data Driven Approach to Assess Complex Colour Profiles in Plant Tissues. FRONTIERS IN PLANT SCIENCE 2022; 12:808138. [PMID: 35154203 PMCID: PMC8826216 DOI: 10.3389/fpls.2021.808138] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Accepted: 12/15/2021] [Indexed: 06/14/2023]
Abstract
The ability to quantify the colour of fruit is extremely important for a number of applied fields including plant breeding, postharvest assessment, and consumer quality assessment. Fruit and other plant organs display highly complex colour patterning. This complexity makes it challenging to compare and contrast colours in an accurate and time efficient manner. Multiple methodologies exist that attempt to digitally quantify colour in complex images but these either require a priori knowledge to assign colours to a particular bin, or fit the colours present within segment of the colour space into a single colour value using a thresholding approach. A major drawback of these methodologies is that, through the process of averaging, they tend to synthetically generate values that may not exist within the context of the original image. As such, to date there are no published methodologies that assess colour patterning using a data driven approach. In this study we present a methodology to acquire and process digital images of biological samples that contain complex colour gradients. The CIE (Commission Internationale de l'Eclairage/International Commission on Illumination) ΔE2000 formula was used to determine the perceptually unique colours (PUC) within images of fruit containing complex colour gradients. This process, on average, resulted in a 98% reduction in colour values from the number of unique colours (UC) in the original image. This data driven procedure summarised the colour data values while maintaining a linear relationship with the normalised colour complexity contained in the total image. A weighted ΔE2000 distance metric was used to generate a distance matrix and facilitated clustering of summarised colour data. Clustering showed that our data driven methodology has the ability to group these complex images into their respective binomial families while maintaining the ability to detect subtle colour differences. This methodology was also able to differentiate closely related images. We provide a high quality set of complex biological images that span the visual spectrum that can be used in future colorimetric research to benchmark colourimetric method development.
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Affiliation(s)
- Peter Andrew McAtee
- The New Zealand Institute for Plant & Food Research (PFR), Auckland, New Zealand
| | - Simona Nardozza
- The New Zealand Institute for Plant & Food Research (PFR), Auckland, New Zealand
| | - Annette Richardson
- The New Zealand Institute for Plant & Food Research (PFR), Kerikeri, New Zealand
| | - Mark Wohlers
- The New Zealand Institute for Plant & Food Research (PFR), Auckland, New Zealand
| | - Robert James Schaffer
- The New Zealand Institute for Plant & Food Research (PFR), Motueka, New Zealand
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
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13
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Li M, Coneva V, Robbins KR, Clark D, Chitwood D, Frank M. Quantitative dissection of color patterning in the foliar ornamental coleus. PLANT PHYSIOLOGY 2021; 187:1310-1324. [PMID: 34618067 PMCID: PMC8566300 DOI: 10.1093/plphys/kiab393] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Accepted: 07/17/2021] [Indexed: 05/04/2023]
Abstract
Coleus (Coleus scutellarioides) is a popular ornamental plant that exhibits a diverse array of foliar color patterns. New cultivars are currently hand selected by both amateur and experienced plant breeders. In this study, we reimagine breeding for color patterning using a quantitative color analysis framework. Despite impressive advances in high-throughput data collection and processing, complex color patterns remain challenging to extract from image datasets. Using a phenotyping approach called "ColourQuant," we extract and analyze pigmentation patterns from one of the largest coleus breeding populations in the world. Working with this massive dataset, we can analyze quantitative relationships between maternal plants and their progeny, identify features that underlie breeder-selections, and collect and compare public input on trait preferences. This study is one of the most comprehensive explorations into complex color patterning in plant biology and provides insights and tools for exploring the color pallet of the plant kingdom.
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Affiliation(s)
- Mao Li
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
| | - Viktoriya Coneva
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
| | - Kelly R Robbins
- School of Integrative Plant Science, Cornell University, Ithaca, New York 14850, USA
| | - David Clark
- Department of Environmental Horticulture, University of Florida, Gainesville, Florida 32611-0670, USA
| | - Dan Chitwood
- Department of Horticulture, Michigan State University, East Lansing, Michigan 48824, USA
- Department of Computational Mathematics, Michigan State University, East Lansing, Michigan 48824, USA
| | - Margaret Frank
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
- School of Integrative Plant Science, Cornell University, Ithaca, New York 14850, USA
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14
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Piao C, Wu J, Cui ML. The combination of R2R3-MYB gene AmRosea1 and hairy root culture is a useful tool for rapidly induction and production of anthocyanins in Antirrhinum majus L. AMB Express 2021; 11:128. [PMID: 34519881 PMCID: PMC8440734 DOI: 10.1186/s13568-021-01286-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2021] [Accepted: 08/18/2021] [Indexed: 11/11/2022] Open
Abstract
Anthocyanins are the largest group of water-soluble pigments and beneficial for human health. Although most plants roots have the potential to express natural biosynthesis pathways required to produce specialized metabolites such as anthocyanins, the anthocyanin synthesis is specifically silenced in roots. To explore the molecular mechanism of absence and production ability of anthocyanin in the roots, investigated the effect of a bHLH gene AmDelila, and an R2R3-MYB gene AmRosea1, which are the master regulators of anthocyanin biosynthesis in Antirrhinum majus flowers, by expressing these genes in transformed hairy roots of A. majus. Co-ectopic expression of both AmDelila and AmRosea1 significantly upregulated the expression of the key target structural genes in the anthocyanin biosynthesis pathway. Furthermore, this resulted in strongly enhanced anthocyanin accumulation in transformed hairy roots. Ectopic expression of AmDelila alone did not gives rise to any significant anthocyanin accumulation, however, ectopic expression of AmRosea1 alone clearly upregulated expression of the main structural genes as well as greatly promoted anthocyanin accumulation in transformed hairy roots, where the contents reached 0.773–2.064 mg/g fresh weight. These results suggest that AmRosea1 plays a key role in the regulatory network in controlling the initiation of anthocyanin biosynthesis in roots, and the combination of AmRosea1 and hairy root culture is a powerful tool to study and production of anthocyanins in the roots of A. majus.
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15
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LaFountain AM, Yuan YW. Repressors of anthocyanin biosynthesis. THE NEW PHYTOLOGIST 2021; 231:933-949. [PMID: 33864686 PMCID: PMC8764531 DOI: 10.1111/nph.17397] [Citation(s) in RCA: 103] [Impact Index Per Article: 34.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Accepted: 03/29/2021] [Indexed: 05/07/2023]
Abstract
Anthocyanins play a variety of adaptive roles in both vegetative tissues and reproductive organs of plants. The broad functionality of these compounds requires sophisticated regulation of the anthocyanin biosynthesis pathway to allow proper localization, timing, and optimal intensity of pigment deposition. While it is well-established that the committed steps of anthocyanin biosynthesis are activated by a highly conserved MYB-bHLH-WDR (MBW) protein complex in virtually all flowering plants, anthocyanin repression seems to be achieved by a wide variety of protein and small RNA families that function in different tissue types and in response to different developmental, environmental, and hormonal cues. In this review, we survey recent progress in the identification of anthocyanin repressors and the characterization of their molecular mechanisms. We find that these seemingly very different repression modules act through a remarkably similar logic, the so-called 'double-negative logic'. Much of the double-negative regulation of anthocyanin production involves signal-induced degradation or sequestration of the repressors from the MBW protein complex. We discuss the functional and evolutionary advantages of this logic design compared with simple or sequential positive regulation. These advantages provide a plausible explanation as to why plants have evolved so many anthocyanin repressors.
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Affiliation(s)
- Amy M LaFountain
- Department of Ecology and Evolutionary Biology, University of Connecticut, 75 North Eagleville Road, Storrs, CT, 06269-3043, USA
| | - Yao-Wu Yuan
- Department of Ecology and Evolutionary Biology, University of Connecticut, 75 North Eagleville Road, Storrs, CT, 06269-3043, USA
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16
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Albert NW, Butelli E, Moss SM, Piazza P, Waite CN, Schwinn KE, Davies KM, Martin C. Discrete bHLH transcription factors play functionally overlapping roles in pigmentation patterning in flowers of Antirrhinum majus. THE NEW PHYTOLOGIST 2021; 231:849-863. [PMID: 33616943 PMCID: PMC8248400 DOI: 10.1111/nph.17142] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2020] [Accepted: 11/30/2020] [Indexed: 05/08/2023]
Abstract
Floral pigmentation patterning is important for pollinator attraction as well as aesthetic appeal. Patterning of anthocyanin accumulation is frequently associated with variation in activity of the Myb, bHLH and WDR transcription factor complex (MBW) that regulates anthocyanin biosynthesis. Investigation of two classic mutants in Antirrhinum majus, mutabilis and incolorata I, showed they affect a gene encoding a bHLH protein belonging to subclade bHLH-2. The previously characterised gene, Delila, which encodes a bHLH-1 protein, has a bicoloured mutant phenotype, with residual lobe-specific pigmentation conferred by Incolorata I. Both Incolorata I and Delila induce expression of the anthocyanin biosynthetic gene DFR. Rosea 1 (Myb) and WDR1 proteins compete for interaction with Delila, but interact positively to promote Incolorata I activity. Delila positively regulates Incolorata I and WDR1 expression. Hierarchical regulation can explain the bicoloured patterning of delila mutants, through effects on both regulatory gene expression and the activity of promoters of biosynthetic genes like DFR that mediate MBW regulation. bHLH-1 and bHLH-2 proteins contribute to establishing patterns of pigment distribution in A. majus flowers in two ways: through functional redundancy in regulating anthocyanin biosynthetic gene expression, and through differences between the proteins in their ability to regulate genes encoding transcription factors.
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Affiliation(s)
- Nick W. Albert
- Plant & Food Research Food Industry Science CentreFitzherbert Science CentreBatchelar RoadPalmerston North4474New Zealand
| | | | - Sarah M.A. Moss
- Plant & Food Research Food Industry Science CentreFitzherbert Science CentreBatchelar RoadPalmerston North4474New Zealand
| | - Paolo Piazza
- Oxford Genomics CentreUniversity of OxfordRoosevelt DriveOxford,OX3 7BNUK
| | - Chethi N. Waite
- Plant & Food Research Food Industry Science CentreFitzherbert Science CentreBatchelar RoadPalmerston North4474New Zealand
| | - Kathy E. Schwinn
- Plant & Food Research Food Industry Science CentreFitzherbert Science CentreBatchelar RoadPalmerston North4474New Zealand
| | - Kevin M. Davies
- Plant & Food Research Food Industry Science CentreFitzherbert Science CentreBatchelar RoadPalmerston North4474New Zealand
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17
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Shen G, Wu R, Xia Y, Pang Y. Identification of Transcription Factor Genes and Functional Characterization of PlMYB1 From Pueraria lobata. FRONTIERS IN PLANT SCIENCE 2021; 12:743518. [PMID: 34691120 PMCID: PMC8531098 DOI: 10.3389/fpls.2021.743518] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2021] [Accepted: 09/13/2021] [Indexed: 05/10/2023]
Abstract
Kudzu, Pueraria lobata, is a traditional Chinese food and medicinal herb that has been commonly used since ancient times. Kudzu roots are rich sources of isoflavonoids, e.g., puerarin, with beneficial effects on human health. To gain global information on the isoflavonoid biosynthetic regulation network in kudzu, de novo transcriptome sequencings were performed using two genotypes of kudzu with and without puerarin accumulation in roots. RNAseq data showed that the genes of the isoflavonoid biosynthetic pathway were significantly represented in the upregulated genes in the kudzu with puerarin. To discover regulatory genes, 105, 112, and 143 genes encoding MYB, bHLH, and WD40 transcription regulators were identified and classified, respectively. Among them, three MYB, four bHLHs, and one WD40 gene were found to be highly identical to their orthologs involved in flavonoid biosynthesis in other plants. Notably, the expression profiles of PlMYB1, PlHLH3-4, and PlWD40-1 genes were closely correlated with isoflavonoid accumulation profiles in different tissues and cell cultures of kudzu. Over-expression of PlMYB1 in Arabidopsis thaliana significantly increased the accumulation of anthocyanins in leaves and proanthocyanidins in seeds, by activating AtDFR, AtANR, and AtANS genes. Our study provided valuable comparative transcriptome information for further identification of regulatory or structural genes involved in the isoflavonoid pathway in P. lobata, as well as for bioengineering of bioactive isoflavonoid compounds.
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Affiliation(s)
- Guoan Shen
- The Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, China
| | - Ranran Wu
- Key Laboratory of Plant Resources/Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Yaying Xia
- Key Laboratory of Plant Resources/Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Yongzhen Pang
- Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
- *Correspondence: Yongzhen Pang,
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18
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Xu X, Yuan Y, Feng B, Deng W. CRISPR/Cas9-mediated gene-editing technology in fruit quality improvement. FOOD QUALITY AND SAFETY 2020. [DOI: 10.1093/fqsafe/fyaa028] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Abstract
Fruits are an essential part of a healthy, balanced diet and it is particularly important for fibre, essential vitamins, and trace elements. Improvement in the quality of fruit and elongation of shelf life are crucial goals for researchers. However, traditional techniques have some drawbacks, such as long period, low efficiency, and difficulty in the modification of target genes, which limit the progress of the study. Recently, the clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 technique was developed and has become the most popular gene-editing technology with high efficiency, simplicity, and low cost. CRISPR/Cas9 technique is widely accepted to analyse gene function and complete genetic modification. This review introduces the latest progress of CRISPR/Cas9 technology in fruit quality improvement. For example, CRISPR/Cas9-mediated targeted mutagenesis of RIPENING INHIBITOR gene (RIN), Lycopene desaturase (PDS), Pectate lyases (PL), SlMYB12, and CLAVATA3 (CLV3) can affect fruit ripening, fruit bioactive compounds, fruit texture, fruit colouration, and fruit size. CRISPR/Cas9-mediated mutagenesis has become an efficient method to modify target genes and improve fruit quality.
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Affiliation(s)
- Xin Xu
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, China
| | - Yujin Yuan
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, China
| | - Bihong Feng
- College of Agriculture, Guangxi University, Nanning, China
| | - Wei Deng
- Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, Chongqing, China
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19
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Zhang Z, Chen J, Liang C, Liu F, Hou X, Zou X. Genome-Wide Identification and Characterization of the bHLH Transcription Factor Family in Pepper ( Capsicum annuum L.). Front Genet 2020; 11:570156. [PMID: 33101390 PMCID: PMC7545091 DOI: 10.3389/fgene.2020.570156] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2020] [Accepted: 09/03/2020] [Indexed: 12/26/2022] Open
Abstract
Plant basic helix–loop–helix (bHLH) transcription factors are involved in the regulation of various biological processes in plant growth, development, and stress response. However, members of this important transcription factor family have not been systematically identified and analyzed in pepper (Capsicum annuum L.). In this study, we identified 122 CabHLH genes in the pepper genome and renamed them based on their chromosomal locations. CabHLHs were divided into 21 subfamilies according to their phylogenetic relationships, and genes from the same subfamily had similar motif compositions and gene structures. Sixteen pairs of tandem and segmental duplicated genes were detected in the CabHLH family. Cis-elements identification and expression analysis of the CabHLHs revealed that they may be involved in plant development and stress responses. This study is the first comprehensive analysis of the CabHLH genes and will serve as a reference for further characterization of their molecular functions.
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Affiliation(s)
- Zhishuo Zhang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China.,Hunan Vegetable Research Institute, Changsha, China
| | - Juan Chen
- Hunan Vegetable Research Institute, Changsha, China
| | | | - Feng Liu
- Hunan Vegetable Research Institute, Changsha, China
| | - Xilin Hou
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Xuexiao Zou
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China.,Hunan Vegetable Research Institute, Changsha, China.,College of Horticulture, Hunan Agricultural University, Changsha, China
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20
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Nawaz I, Tariq R, Nazir T, Khan I, Basit A, Gul H, Anwar T, Awan SA, Bacha SAS, Zhang L, Zhang C, Cong P. RNA-Seq profiling reveals the plant hormones and molecular mechanisms stimulating the early ripening in apple. Genomics 2020; 113:493-502. [PMID: 32966860 DOI: 10.1016/j.ygeno.2020.09.040] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Revised: 08/23/2020] [Accepted: 09/19/2020] [Indexed: 10/23/2022]
Abstract
Fruit development and ripening are essential components of human and animal diets. Fruit ripening is also a vital plant trait for plant shelf life at the commercial level. In the present study, two apple cultivars, Hanfu wild (HC) and Hanfu mutant (HM), were employed for RNA-Sequencing (RNA-Seq) to explore the genes involved in fruit ripening. We retrieved 2642 genes, differentially expressed in HC and HM apple cultivars. Gene ontology (GO) analysis revealed the 569 categories, significantly enriched in biological process, cellular component, and molecular function. KEGG analysis exhibited the plant hormone transduction and flavonoid-anthocyanin biosynthesis pathways, might be involved in the fruit ripening and anthocyanin biosynthesis mechanism. A cluster of 13 and 26 DEGs was retrieved, representing the plant hormones and transcription factors, respectively, that may be important for early ripening in HM genotype. This transcriptome study would be useful for researchers to functionally characterize the DEGs responsible for early ripening.
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Affiliation(s)
- Iqra Nawaz
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Research Insitute of Pomology, Chinese Academy of Agricultural Sciences, 125100 Xingcheng, Liaoning, China
| | - Rezwan Tariq
- Department of Biotechnology, University of Okara, Punjab Zip code: 56300, Pakistan
| | - Talha Nazir
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Imran Khan
- Department of Grassland Science, Animal Science and Technology College, Sichuan Agricultural University, Chengdu 611130, China
| | - Abdul Basit
- Department of Plant Pathology, Agriculture College, Guizhou University, Guiyang 550025, China
| | - Hera Gul
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Research Insitute of Pomology, Chinese Academy of Agricultural Sciences, 125100 Xingcheng, Liaoning, China
| | - Tauqir Anwar
- The Directorate General, Pest Warning & Quality Control of Pesticides, Punjab Agriculture Department, Lahore 54000, Punjab, Pakistan
| | - Samrah Afzal Awan
- Department of Grassland Science, Animal Science and Technology College, Sichuan Agricultural University, Chengdu 611130, China
| | - Syed Asim Shah Bacha
- Research Institute of Pomology, Chinese Academy of Agricultural Sciences (CAAS), Key Laboratory of Quality and Safety Risk Assessment for Fruit, Ministry of Agriculture, Xinghai South Street 98, Xingcheng 125100, China
| | - Liyi Zhang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Research Insitute of Pomology, Chinese Academy of Agricultural Sciences, 125100 Xingcheng, Liaoning, China
| | - Caixia Zhang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Research Insitute of Pomology, Chinese Academy of Agricultural Sciences, 125100 Xingcheng, Liaoning, China.
| | - Peihua Cong
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Research Insitute of Pomology, Chinese Academy of Agricultural Sciences, 125100 Xingcheng, Liaoning, China.
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21
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Gutierrez N, Avila CM, Torres AM. The bHLH transcription factor VfTT8 underlies zt2, the locus determining zero tannin content in faba bean (Vicia faba L.). Sci Rep 2020; 10:14299. [PMID: 32868815 PMCID: PMC7459296 DOI: 10.1038/s41598-020-71070-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2020] [Accepted: 08/06/2020] [Indexed: 11/24/2022] Open
Abstract
Faba bean (Vicia faba L.) is an important protein-rich fodder crop, which is widely cultivated in temperate areas. However, antinutritional compounds such as condensed tannins, limit the use of this protein source in monogastric feed formulations. Previous studies demonstrated that two recessive and complementary genes, zt1 and zt2, control absence of tannin and white flower colour in faba bean. An ortholog of the Medicago WD40 transcription factor TTG1 was reported to encode the zt1 phenotype, but the responsible gene for zt2 is still unknown. Here we used a candidate gene approach combined with linkage mapping, comparative genomics and gene expression to fine map the zt2 genomic region and to identify the regulatory gene controlling both traits. Seventy-two genes, including 23 MYB and bHLH regulatory genes predicted to be associated with anthocyanin expression together with WRKY proteins, were screened and genotyped in three mapping populations. The linkage groups constructed identified the regulatory gene, TRANSPARENT TESTA8 (TT8), encoding a basic helix-loop-helix (bHLH) transcription factor, as the candidate for zt2. This finding was supported by qPCR analysis and further validated in different genetic backgrounds. Accordingly, VfTT8 was downregulated in white flowered types while showing high levels of expression in wild genotypes. Our results provide new insights on the regulatory mechanisms of tannin biosynthesis in faba bean and will facilitate the development of an ultimate zt2 diagnostic marker for the fast generation of new value-added cultivars free of tannins and with improved nutritional value.
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Affiliation(s)
- Natalia Gutierrez
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain.
| | - Carmen M Avila
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
| | - Ana M Torres
- Área de Genómica y Biotecnología, IFAPA-Centro Alameda del Obispo, Apdo 3092, 14080, Córdoba, Spain
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Lim GH, Kim SW, Ryu J, Kang SY, Kim JB, Kim SH. Upregulation of the MYB2 Transcription Factor Is Associated with Increased Accumulation of Anthocyanin in the Leaves of Dendrobium bigibbum. Int J Mol Sci 2020; 21:ijms21165653. [PMID: 32781758 PMCID: PMC7460623 DOI: 10.3390/ijms21165653] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Accepted: 07/31/2020] [Indexed: 12/15/2022] Open
Abstract
Orchids with colorful leaves and flowers have significant ornamental value. Here, we used γ-irradiation-based mutagenesis to produce a Dendrobium bigibbum mutant that developed purple instead of the normal green leaves. RNA sequencing of the mutant plant identified 2513 differentially expressed genes, including 1870 up- and 706 downregulated genes. The purple leaf color of mutant leaves was associated with increased expression of genes that encoded key biosynthetic enzymes in the anthocyanin biosynthetic pathway. In addition, the mutant leaves also showed increased expression of several families of transcription factors including the MYB2 gene. Transient overexpression of D. biggibumMYB2 in Nicotiana benthamiana was associated with increased expression of endogenous anthocyanin biosynthesis genes. Interestingly, transient overexpression of orthologous MYB2 genes from other orchids did not upregulate expression of endogenous anthocyanin biosynthesis genes. Together, these results suggest that the purple coloration of D. biggibum leaves is at least associated with increased expression of the MYB2 gene, and the MYB2 orthologs from orchids likely function differently, regardless of their high level of similarity.
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Affiliation(s)
- Gah-Hyun Lim
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
| | - Se Won Kim
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
- National Institute of Agricultural Sciences, Rural Development Administration, Jeonju 54874, Korea
| | - Jaihyunk Ryu
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
| | - Si-Yong Kang
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
| | - Jin-Baek Kim
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
| | - Sang Hoon Kim
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup 56212, Korea; (G.-H.L.); (S.W.K.); (J.R.); (S.-Y.K.); (J.-B.K.)
- Correspondence: ; Tel.: +82-63-570-3318; Fax: +82-63-570-3811
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Sun W, Jin X, Ma Z, Chen H, Liu M. Basic helix-loop-helix (bHLH) gene family in Tartary buckwheat (Fagopyrum tataricum): Genome-wide identification, phylogeny, evolutionary expansion and expression analyses. Int J Biol Macromol 2019; 155:1478-1490. [PMID: 31734362 DOI: 10.1016/j.ijbiomac.2019.11.126] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Revised: 10/25/2019] [Accepted: 11/13/2019] [Indexed: 12/31/2022]
Abstract
Tartary buckwheat (Fagopyrum tataricum) a kind of edible and medicinal plant, is of great nutritional value. It is difficult to remove the hull of Tartary buckwheat fruit and breeding new easy-dehulled varieties has been one of the major breeding objectives. The bHLH gene family plays a vital role in plant growth and fruit dehiscence. In order to improve Tartary buckwheat breeding, we need to study the bHLH gene family for excavating genes with potential regulation of fruit development and dehiscence. Here, 164 Fagopyrum tataricum bHLH (FtbHLH) genes were identified. Analyses of gene structure and motif composition illustrate that the members of specific FtbHLH subfamily are relatively conserved. Synteny and phylogenetic analyses of bHLH genes in Tartary buckwheat and other plants lay a foundation for further exploring the evolutionary characteristic of the FtbHLH genes (FtbHLHs). qRT-PCR experiments showed that FtbHLHs expression patterns were different in plant organs, indicating that they may perform diverse functions. In addition, some genes that potentially regulate flower and fruit development and easy dehulling were screened out. Overall, this study will be helpful for further analyzing the biological function of FtbHLHs and provides clues for improving the genetic breeding and economic value of the Tartary buckwheat.
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Affiliation(s)
- Wenjun Sun
- Shanghai Jiao Tong University, School of Agriculture and Biology, Shanghai, China; Sichuan Agricultural University, College of Life Science, Ya'an, China
| | - Xiu Jin
- Sichuan Agricultural University, College of Life Science, Ya'an, China
| | - Zhaotang Ma
- Shanghai Jiao Tong University, School of Agriculture and Biology, Shanghai, China; Sichuan Agricultural University, College of Life Science, Ya'an, China
| | - Hui Chen
- Sichuan Agricultural University, College of Life Science, Ya'an, China.
| | - Moyang Liu
- Shanghai Jiao Tong University, School of Agriculture and Biology, Shanghai, China.
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24
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Zhao Y, Zhang YY, Liu H, Zhang XS, Ni R, Wang PY, Gao S, Lou HX, Cheng AX. Functional characterization of a liverworts bHLH transcription factor involved in the regulation of bisbibenzyls and flavonoids biosynthesis. BMC PLANT BIOLOGY 2019; 19:497. [PMID: 31726984 PMCID: PMC6854758 DOI: 10.1186/s12870-019-2109-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2019] [Accepted: 10/31/2019] [Indexed: 05/03/2023]
Abstract
BACKGROUND The basic helix-loop-helix (bHLH) transcription factors (TFs), as one of the largest families of TFs, play important roles in the regulation of many secondary metabolites including flavonoids. Their involvement in flavonoids synthesis is well established in vascular plants, but not as yet in the bryophytes. In liverworts, both bisbibenzyls and flavonoids are derived through the phenylpropanoids pathway and share several upstream enzymes. RESULTS In this study, we cloned and characterized the function of PabHLH1, a bHLH family protein encoded by the liverworts species Plagiochasma appendiculatum. PabHLH1 is phylogenetically related to the IIIf subfamily bHLHs involved in flavonoids biosynthesis. A transient expression experiment showed that PabHLH1 is deposited in the nucleus and cytoplasm, while the yeast one hybrid assay showed that it has transactivational activity. When PabHLH1 was overexpressed in P. appendiculatum thallus, a positive correlation was established between the content of bibenzyls and flavonoids and the transcriptional abundance of corresponding genes involved in the biosynthesis pathway of these compounds. The heterologous expression of PabHLH1 in Arabidopsis thaliana resulted in the activation of flavonoids and anthocyanins synthesis, involving the up-regulation of structural genes acting both early and late in the flavonoids synthesis pathway. The transcription level of PabHLH1 in P. appendiculatum thallus responded positively to stress induced by either exposure to UV radiation or treatment with salicylic acid. CONCLUSION PabHLH1 was involved in the regulation of the biosynthesis of flavonoids as well as bibenzyls in liverworts and stimulated the accumulation of the flavonols and anthocyanins in Arabidopsis.
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Affiliation(s)
- Yu Zhao
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Yu-Ying Zhang
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Hui Liu
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Xiao-Shuang Zhang
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Rong Ni
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Piao-Yi Wang
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Shuai Gao
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Hong-Xiang Lou
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
| | - Ai-Xia Cheng
- Key Laboratory of Chemical Biology of Natural Products, Ministry of Education, School of Pharmaceutical Sciences, Shandong University, Jinan, 250012 China
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25
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Jung S, Venkatesh J, Kang MY, Kwon JK, Kang BC. A non-LTR retrotransposon activates anthocyanin biosynthesis by regulating a MYB transcription factor in Capsicum annuum. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 287:110181. [PMID: 31481212 DOI: 10.1016/j.plantsci.2019.110181] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2019] [Revised: 06/24/2019] [Accepted: 06/28/2019] [Indexed: 05/20/2023]
Abstract
The flavonoid compound anthocyanin is an important plant metabolite with nutritional and aesthetic value as well as anti-oxidative capacity. MYB transcription factors are key regulators of anthocyanin biosynthesis in plants. In pepper (Capsicum annuum), the CaAn2 gene, encoding an R2R3 MYB transcription factor, regulates anthocyanin biosynthesis. However, no functional study or structural analysis of functional and dysfunctional CaAn2 alleles has been performed. Here, to elucidate the function of CaAn2, we generated transgenic Nicotiana benthamiana and Arabidopsis thaliana plants expressing CaAn2. All of the tissues in these plants were purple. Promoter analysis of CaAn2 in purple C. annuum 'KC00134' plants revealed the insertion of a non-long terminal repeat (LTR) retrotransposon designated Ca-nLTR-A. To determine the promoter activity and functional domain of Ca-nLTR-A, various constructs carrying different domains of Ca-nLTR-A fused with GUS were transformed into N. benthamiana. Promoter analysis showed that the 3' untranslated region (UTR) of the second open reading frame of Ca-nLTR-A is responsible for CaAn2 expression in 'KC00134'. Sequence analysis of Ca-nLTR-A identified transcription factor binding sites known to regulate anthocyanin biosynthesis. This study indicates that insertion of a non-LTR retrotransposon in the promoter may activate expression of CaAn2 by recruiting transcription factors at the 3' UTR and thus provides the first example of exaptation of a non-LTR retrotransposon into a new promoter in plants.
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Affiliation(s)
- Soyoung Jung
- Department of Plant Science, Plant Genomics & Breeding Institute, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Republic of Korea.
| | - Jelli Venkatesh
- Department of Plant Science, Plant Genomics & Breeding Institute, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Republic of Korea.
| | - Min-Young Kang
- Department of Plant Science, Plant Genomics & Breeding Institute, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Republic of Korea.
| | - Jin-Kyung Kwon
- Department of Plant Science, Plant Genomics & Breeding Institute, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Republic of Korea.
| | - Byoung-Cheorl Kang
- Department of Plant Science, Plant Genomics & Breeding Institute, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Republic of Korea.
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26
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Cheng X, Xiong R, Liu H, Wu M, Chen F, Xiang Y. Basic helix-loop-helix gene family: Genome wide identification, phylogeny, and expression in Moso bamboo. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2018; 132:104-119. [PMID: 30179736 DOI: 10.1016/j.plaphy.2018.08.036] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Revised: 08/28/2018] [Accepted: 08/28/2018] [Indexed: 05/26/2023]
Abstract
Studies have shown that basic helix-loop-helix (bHLH) transcription factors play important roles in plant growth and survival, and response to various biotic/abiotic stresses. We identified a total of 448 bHLH genes. These genes were classified into 21 bHLH subfamilies, and most genes in a given subfamily had similar gene structures and conserved motifs. We identified 176 homologous pairs in the three species. We calculated Ka, Ks, and Ka/Ks to analyze the replication relationships among the three species. Multiple sequence analysis revealed that the PebHLH genes had the distinct bHLH structure. The gene ontology annotation analysis showed that the PebHLH genes had many molecular functions. Promoter cis-element analysis revealed that most of the PebHLH genes contained cis-elements that can respond to various biotic/abiotic stress-related events. The tissue expression patterns of the PebHLH genes indicated that most members were expressed in leaves, roots, and stems. Quantitative real-time PCR analysis showed that 21 selected PebHLH genes were differentially regulated after abscisic acid, drought, and methyl jasmonate treatments. This study has laid the basis for studying the functions of AtbHLH, OsbHLH, and PebHLH genes, and will contribute to future studies of the functions of bHLH genes in other plant species.
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Affiliation(s)
- Xinran Cheng
- Laboratory of Modern Biotechnology, School of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei, 230036, China
| | - Rui Xiong
- Laboratory of Modern Biotechnology, School of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei, 230036, China
| | - Huanlong Liu
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei, 230036, China
| | - Min Wu
- National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei, 230036, China
| | - Feng Chen
- Laboratory of Modern Biotechnology, School of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei, 230036, China
| | - Yan Xiang
- Laboratory of Modern Biotechnology, School of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei, 230036, China; National Engineering Laboratory of Crop Stress Resistance Breeding, Anhui Agricultural University, Hefei, 230036, China.
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27
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Guo J, Liu C, Wang P, Cheng Q, Sun L, Yang W, Shen H. The Aborted Microspores ( AMS)-Like Gene Is Required for Anther and Microspore Development in Pepper ( Capsicum annuum L.). Int J Mol Sci 2018; 19:ijms19051341. [PMID: 29724052 PMCID: PMC5983743 DOI: 10.3390/ijms19051341] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Revised: 04/27/2018] [Accepted: 04/30/2018] [Indexed: 12/01/2022] Open
Abstract
Pepper (Capsicum annuum L.) is an economically important vegetable crop worldwide. Although many genes associated with anther and pollen development have been identified, little is known about the mechanism of pollen abortion in pepper. Here, we identified and isolated two putative aborted microspore (AMS) isoforms from pepper flowers: CaAMS1 and CaAMS2. Sequence analysis showed that CaAMS2 was generated by retention of the fourth intron in CaAMS1 pre-mRNA. CaAMS1 encodes a putative protein with a basic helix-loop-helix (bHLH) domain belonging to the MYC subfamily of bHLH transcription factors, and it is localized to the nucleus. Truncated CaAMS2-1 and CaAMS2-2 are produced by alternative splicing. Quantitative real-time PCR analysis showed that CaAMS (referred to CaAMS1 and CaAMS2-2) was preferentially expressed in stamens and its expression level gradually decreases with flower development. RNA in situ hybridization analysis showed that CaAMS is strongly expressed in the tapetum at the tetrad and uninucleate stages. Downregulation of CaAMS led to partial shortened filaments, shriveled, indehiscent stamens and abortive pollens in pepper flowers. Several genes involved in pollen exine formation were downregulated in defective CaAMS-silenced anthers. Thus, CaAMS seems to play an important role in pepper tapetum and pollen development by regulating a complex genetic network.
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Affiliation(s)
- Jinju Guo
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
| | - Chen Liu
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
- Shandong Key Laboratory of Greenhouse Vegetable Biology, Institute of Vegetables and Flowers, Shandong Academy of Agricultural Sciences, Shandong Branch of National Vegetable Improvement Center, Jinan 250100, China.
| | - Peng Wang
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
| | - Qing Cheng
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
| | - Liang Sun
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
| | - Wencai Yang
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
| | - Huolin Shen
- Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, College of Horticulture, China Agricultural University, Beijing 100193, China.
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28
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Transcriptome-wide identification and expression profile analysis of the bHLH family genes in Camellia sinensis. Funct Integr Genomics 2018; 18:489-503. [PMID: 29651641 DOI: 10.1007/s10142-018-0608-x] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2017] [Revised: 10/28/2017] [Accepted: 03/21/2018] [Indexed: 01/01/2023]
Abstract
The tea plant is an important commercial horticulture crop cultivated worldwide. Yield and quality of this plant are influenced by abiotic stress. The bHLH family transcription factors play a pivotal role in the growth and development, including abiotic stress response, of plants. A growing number of bHLH proteins have been functionally characterized in plants. However, few studies have focused on the bHLH proteins in tea plants. In this study, 120 CsbHLH TFs were identified from tea plants using computational prediction method. Structural analysis detected 23 conservative residues, with over 50% identities in the bHLH domain. Moreover, 103 CsbHLH proteins were assumed to bind DNA and encompassed 98 E-Box binders and 85 G-Box binders. The CsbHLH proteins were grouped into 20 subfamilies based on phylogenetic analysis and a previous classification system. A survey of transcriptome profiling screened 22 and 39 CsbHLH genes that were upregulated under heat and drought stress. Nine CsbHLH genes were validated using qRT-PCR. Results were approximately in accordance with transcriptome data. These genes could be induced by one or more abiotic stresses.
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29
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Gumi AM, Guha PK, Mazumder A, Jayaswal P, Mondal TK. Characterization of OglDREB2A gene from African rice ( Oryza glaberrima), comparative analysis and its transcriptional regulation under salinity stress. 3 Biotech 2018; 8:91. [PMID: 29430353 PMCID: PMC5796934 DOI: 10.1007/s13205-018-1098-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2017] [Accepted: 01/05/2018] [Indexed: 01/17/2023] Open
Abstract
In this study, AP2 DNA-binding domain-containing transcription factor, OglDREB2A, was cloned from the African rice (Oryza glaberrima) and compared with 3000 rice genotypes. Further, the phylogenetic and various structural analysis was performed using in silico approaches. Further, to understand its allelic variation in rice, SNPs and indels were detected among the 3000 rice genotypes which indicated that while coding region is highly conserved, yet noncoding regions such as UTR and intron contained most of the variation. Phylogenetic analysis of the OglDREB2A sequence in different Oryza as well as in diverse eudicot species revealed that DREB from various Oryza species were diversed much earlier than other genes. Further, structural features and in silico analyses provided insights into different properties of OglDREB2A protein. The neutrality test on the coding region of OglDREB2A from different genotypes of O. glaberrima showed the lack of selection in this gene. Among the different developmental stages, it was upregulated at tillering and flag leaf under salinity treatment indicating its positive role in seedling and reproductive stage tolerance. Real-time PCR analysis also indicated the conserve expression pattern of this gene under salinity stress across the three different Oryza species having different degree of salinity tolerance.
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Affiliation(s)
- Abubakar Mohammad Gumi
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012 India
- Present Address: Department of Biological Sciences, Usmanu Danfodiyo University, Sokoto, Nigeria
| | - Pritam Kanti Guha
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012 India
- ICAR-National Research Centre on Plant Biotechnology, LBS Building, IARI, New Delhi, 110012 India
| | - Abhishek Mazumder
- ICAR-National Research Centre on Plant Biotechnology, LBS Building, IARI, New Delhi, 110012 India
| | - Pawan Jayaswal
- ICAR-National Research Centre on Plant Biotechnology, LBS Building, IARI, New Delhi, 110012 India
| | - Tapan Kumar Mondal
- ICAR-National Bureau of Plant Genetic Resources, IARI Campus, Pusa, New Delhi, 110012 India
- ICAR-National Research Centre on Plant Biotechnology, LBS Building, IARI, New Delhi, 110012 India
- Present Address: Department of Biological Sciences, Usmanu Danfodiyo University, Sokoto, Nigeria
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30
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Lloyd A, Brockman A, Aguirre L, Campbell A, Bean A, Cantero A, Gonzalez A. Advances in the MYB-bHLH-WD Repeat (MBW) Pigment Regulatory Model: Addition of a WRKY Factor and Co-option of an Anthocyanin MYB for Betalain Regulation. PLANT & CELL PHYSIOLOGY 2017; 58:1431-1441. [PMID: 28575507 PMCID: PMC5914458 DOI: 10.1093/pcp/pcx075] [Citation(s) in RCA: 242] [Impact Index Per Article: 34.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Accepted: 05/11/2017] [Indexed: 05/19/2023]
Abstract
Flavonoids are secondary metabolites derived from the general phenylpropanoid pathway and are widespread throughout the plant kingdom. The functions of flavonoids are diverse, including defense against phytopathogens, protection against UV light damage and oxidative stress, regulation of auxin transport and allelopathy. One of the most conspicuous functions of flavonoids has long attracted the attention of pollinators and scientist alike: the vivid shades of red, pink, orange, blue and purple on display in the flowers of angiosperms. Thus, flavonoid pigments have perhaps been the most intensely studied phenylpropanoids. From Mendel to McClintock and up to the present, studies centered on flavonoid pigments have resulted in some of the most important scientific discoveries of the last 150 years, including the first examples of transcriptional regulation in plants. Here we focus on the highly conserved MYB-bHLH-WD repeat (MBW) transcriptional complex model for the regulation of the flavonoid pigment pathway. We will survey the history of the MBW model spanning the last three decades, highlighting the major findings that have contributed to our current understanding. In particular, recent discoveries regarding WRKY protein control of the flavonoid pigment pathway and its relationship to the MBW complex will be emphasized. In addition, we will discuss recent findings about the regulation of the beet betalain pigment pathway, and how a MYB member of the MBW complex was co-opted to regulate this chemically unrelated but functionally equivalent pathway.
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Affiliation(s)
- Alan Lloyd
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway, Austin, TX 78712, USA
- The Freshman Research Initiative, The University of Texas at Austin, Austin, TX 78712, USA
| | - Austen Brockman
- The Freshman Research Initiative, The University of Texas at Austin, Austin, TX 78712, USA
| | - Lyndsey Aguirre
- The Freshman Research Initiative, The University of Texas at Austin, Austin, TX 78712, USA
| | - Annabelle Campbell
- The Freshman Research Initiative, The University of Texas at Austin, Austin, TX 78712, USA
| | - Alex Bean
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway, Austin, TX 78712, USA
| | - Araceli Cantero
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway, Austin, TX 78712, USA
| | - Antonio Gonzalez
- Department of Molecular Biosciences and The Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway, Austin, TX 78712, USA
- The Freshman Research Initiative, The University of Texas at Austin, Austin, TX 78712, USA
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31
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Wiltshire EJ, Eady CC, Collings DA. Induction of anthocyanin in the inner epidermis of red onion leaves by environmental stimuli and transient expression of transcription factors. PLANT CELL REPORTS 2017; 36:987-1000. [PMID: 28361257 DOI: 10.1007/s00299-017-2132-1] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2017] [Accepted: 03/10/2017] [Indexed: 06/07/2023]
Abstract
Novel imaging approaches have allowed measurements of the anthocyanin induction in onion epidermal cells that can be induced through water stress or transient expression of exogenous transcription factors. Environmental and genetic mechanisms that allow the normally colourless inner epidermal cells of red onion (Allium cepa) bulbs to accumulate anthocyanin were quantified by both absorbance ratios and fluorescence. We observed that water-stressing excised leaf segments induced anthocyanin formation, and fluorescence indicated that this anthocyanin was spectrally similar to the anthocyanin in the outer epidermal cells. This environmental induction may require a signal emanating from the leaf mesophyll, as induction did not occur in detached epidermal peels. Exogenous transcription factors that successfully drive anthocyanin biosynthesis in other species were also tested through transient gene expression using particle bombardment. Although the petunia R2R3-MYB factor AN2 induced anthocyanin in both excised leaves and epidermal peels, several transcription factors including maize C1 and Lc inhibited normal anthocyanin development in excised leaves. This inhibition may be due to moderate levels of conservation between the exogenous transcription factors and endogenous Allium transcription factors. The over-expressed exogenous transcription factors cannot drive anthocyanin biosynthesis themselves, but bind to the endogenous transcription factors and prevent them from driving anthocyanin biosynthesis.
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Affiliation(s)
- Elizabeth J Wiltshire
- School of Biological Sciences, The University of Canterbury, Private Bag 4800, Christchurch, 8140, New Zealand
| | - Colin C Eady
- The New Zealand Institute for Plant & Food Research Limited, PO Box 4704, Christchurch, 8140, New Zealand
- New Zealand Agriseeds, 2547 Old West Coast Road, RD1, Christchurch, 7671, New Zealand
| | - David A Collings
- School of Biological Sciences, The University of Canterbury, Private Bag 4800, Christchurch, 8140, New Zealand.
- School of Environmental and Life Sciences, The University of Newcastle, Callaghan, NSW, 2308, Australia.
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32
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Kallam K, Appelhagen I, Luo J, Albert N, Zhang H, Deroles S, Hill L, Findlay K, Andersen ØM, Davies K, Martin C. Aromatic Decoration Determines the Formation of Anthocyanic Vacuolar Inclusions. Curr Biol 2017; 27:945-957. [PMID: 28318977 PMCID: PMC5387179 DOI: 10.1016/j.cub.2017.02.027] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2016] [Revised: 02/09/2017] [Accepted: 02/13/2017] [Indexed: 11/05/2022]
Abstract
Anthocyanins are some of the most widely occurring secondary metabolites in plants, responsible for the orange, red, purple, and blue colors of flowers and fruits and red colors of autumn leaves. These pigments accumulate in vacuoles, and their color is influenced by chemical decorations, vacuolar pH, the presence of copigments, and metal ions. Anthocyanins are usually soluble in the vacuole, but in some plants, they accumulate as discrete sub-vacuolar structures. Studies have distinguished intensely colored intra-vacuolar bodies observed in the cells of highly colored tissues, termed anthocyanic vacuolar inclusions (AVIs), from more globular, membrane-bound anthocyanoplasts. We describe a system in tobacco that adds additional decorations to the basic anthocyanin, cyanidin 3-O-rutinoside, normally formed by this species. Using this system, we have been able to establish which decorations underpin the formation of AVIs, the conditions promoting AVI formation, and, consequently, the mechanism by which they form.
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Affiliation(s)
- Kalyani Kallam
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK
| | - Ingo Appelhagen
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK
| | - Jie Luo
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Nick Albert
- New Zealand Institute for Plant and Food Research Limited, Private Bag 11-600, Palmerston North 4442, New Zealand
| | - Huaibi Zhang
- New Zealand Institute for Plant and Food Research Limited, Private Bag 11-600, Palmerston North 4442, New Zealand
| | - Simon Deroles
- New Zealand Institute for Plant and Food Research Limited, Private Bag 11-600, Palmerston North 4442, New Zealand
| | - Lionel Hill
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK
| | - Kim Findlay
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK
| | - Øyvind M Andersen
- Department of Chemistry, University of Bergen, Postboks 7803, 5020 Bergen, Norway
| | - Kevin Davies
- New Zealand Institute for Plant and Food Research Limited, Private Bag 11-600, Palmerston North 4442, New Zealand
| | - Cathie Martin
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK.
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Jiang F, Chen XP, Hu WS, Zheng SQ. Identification of differentially expressed genes implicated in peel color (red and green) of Dimocarpus confinis. SPRINGERPLUS 2016; 5:1088. [PMID: 27468388 PMCID: PMC4947078 DOI: 10.1186/s40064-016-2743-y] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/10/2016] [Accepted: 07/02/2016] [Indexed: 01/08/2023]
Abstract
Nowadays, there are few reports about regulatory genes implicated in peel color of longan. The basic genetic research of longan has been in stagnation for a long time as a lack of transcriptomic and genetic information. To predict candidate genes associated with peel color, Gene Functional Annotation and Coding Sequence prediction were used to perform functional annotation for our assembled unigenes and investigate differentially expressed genes (DEGs) of fruitlet peels from Longli (Dimocarpus confinis). Finally, a total of 24,044 (44.19 %) unigenes were annotated at least in one database after BLAST search to NCBI non-redundant protein sequence, NCBI non-redundant nucleotide sequences, Kyoto Encyclopedia of Genes and Genomes (KEGG) Ortholog, manually annotated and reviewed protein sequence database (Swiss-Prot), Protein family, Gene Ontology, euKaryotic Ortholog Groups databases. After searching against the KEGG-GENE protein database, a result of 6228 (11.45 %) unigenes were assigned to 245 KEGG pathways. Via comparing the distributions of expression value of all corresponding unigenes from red peel and green peel fruit, it could be intuitively concluded that high similarity was existed in the two distributions; however, on the whole, between two distributions of log RPKM expression value, some differences indicated that expression level in green-peel fruit group is slightly higher than values in red-peel fruit group. Finally, a total of 1349 unigenes were identified as DEGs after blasting the DEGs to public sequence databases, and 32 peel-color-related genes were identified in longan. Our results suggest that a number of unigenes involved in longan metabolic process, including anthocyanin biosynthesis. In addition, DRF, F3H, ANS, CYP75A1 and C1 may be the key ones. The study on key genes related to peel color will be contributed to revealing the molecular mechanisms of regulating peel color in woody plants.
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Affiliation(s)
- Fan Jiang
- />Fujian Fruit Breeding Engineering Technology Research Center for Longan and Loquat, Fuzhou, 350013 Fujian China
- />Fruit Research Institute, Fujian Academy of Agricultural Science, Fuzhou, 350013 Fujian China
| | - Xiu-ping Chen
- />Fujian Fruit Breeding Engineering Technology Research Center for Longan and Loquat, Fuzhou, 350013 Fujian China
- />Fruit Research Institute, Fujian Academy of Agricultural Science, Fuzhou, 350013 Fujian China
| | - Wen-shun Hu
- />Fujian Fruit Breeding Engineering Technology Research Center for Longan and Loquat, Fuzhou, 350013 Fujian China
- />Fruit Research Institute, Fujian Academy of Agricultural Science, Fuzhou, 350013 Fujian China
| | - Shao-quan Zheng
- />Fujian Fruit Breeding Engineering Technology Research Center for Longan and Loquat, Fuzhou, 350013 Fujian China
- />Fruit Research Institute, Fujian Academy of Agricultural Science, Fuzhou, 350013 Fujian China
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Liu Y, Lin-Wang K, Espley RV, Wang L, Yang H, Yu B, Dare A, Varkonyi-Gasic E, Wang J, Zhang J, Wang D, Allan AC. Functional diversification of the potato R2R3 MYB anthocyanin activators AN1, MYBA1, and MYB113 and their interaction with basic helix-loop-helix cofactors. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:2159-76. [PMID: 26884602 PMCID: PMC4809278 DOI: 10.1093/jxb/erw014] [Citation(s) in RCA: 111] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
In potato (Solanum tuberosum L.), R2R3 MYBs are involved in the regulation of anthocyanin biosynthesis. We examined sequences of these MYBs in cultivated potatoes, which are more complex than diploid potato due to ploidy and heterozygosity. We found amino acid variants in the C-terminus of the MYB StAN1, termed R0, R1, and R3, due to the presence of a repeated 10-amino acid motif. These variant MYBs showed some expression in both white and pigmented tubers. We found several new alleles or gene family members of R2R3 MYBs,StMYBA1 and StMYB113, which were also expressed in white potato tubers. From functional analysis in tobacco, we showed that the presence of a C-terminal 10-amino acid motif is optimal for activating anthocyanin accumulation. Engineering a motif back into a MYB lacking this sequence enhanced its activating ability. Versions of StMYBA1 and StMYB113 can also activate anthocyanin accumulation in tobacco leaves, with the exception of StMYB113-3, which has a partial R2R3 domain. We isolated five family members of potato StbHLH1, and one StJAF13, to test their ability to interact with MYB variants. The results showed that two alleles of StbHLH1 from white skin and red skin are non-functional, while three other StbHLH1s have different co-regulating abilities, and need to be activated by StJAF13. Combined with expression analysis in potato tuber, results suggest that StbHLH1 and StJAF13a re key co-regulators of anthocyanin biosynthesis, while the transcripts of MYB variants StAN1,StMYBA1, and StMYB113 are well expressed, even in the absence of pigmentation.
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Affiliation(s)
- Yuhui Liu
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China
| | - Kui Lin-Wang
- Plant & Food Research Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand
| | - Richard V Espley
- Plant & Food Research Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand
| | - Li Wang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China College of Life Science and Technology, Gansu Agricultural University, Lanzhou 730070, China
| | - Hongyu Yang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Bin Yu
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China
| | - Andrew Dare
- Plant & Food Research Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand
| | - Erika Varkonyi-Gasic
- Plant & Food Research Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand
| | - Jing Wang
- College of Food Science and Engineering, Gansu Agricultural University, Lanzhou 730070, China
| | - Junlian Zhang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China College of Horticulture, Gansu Agricultural University, Lanzhou 730070, China
| | - Di Wang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou 730070, China
| | - Andrew C Allan
- Plant & Food Research Mt Albert, Private Bag 92169, Auckland Mail Centre, Auckland 1142, New Zealand School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand
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Brock MT, Lucas LK, Anderson NA, Rubin MJ, Markelz RJC, Covington MF, Devisetty UK, Chapple C, Maloof JN, Weinig C. Genetic architecture, biochemical underpinnings and ecological impact of floral UV patterning. Mol Ecol 2016; 25:1122-40. [PMID: 26800256 DOI: 10.1111/mec.13542] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2015] [Revised: 12/17/2015] [Accepted: 12/22/2015] [Indexed: 11/29/2022]
Abstract
Floral attraction traits can significantly affect pollinator visitation patterns, but adaptive evolution of these traits may be constrained by correlations with other traits. In some cases, molecular pathways contributing to floral attraction are well characterized, offering the opportunity to explore loci potentially underlying variation among individuals. Here, we quantify the range of variation in floral UV patterning (i.e. UV 'bulls-eye nectar guides) among crop and wild accessions of Brassica rapa. We then use experimental crosses to examine the genetic architecture, candidate loci and biochemical underpinnings of this patterning as well as phenotypic manipulations to test the ecological impact. We find qualitative variation in UV patterning between wild (commonly lacking UV patterns) and crop (commonly exhibiting UV patterns) accessions. Similar to the majority of crops, recombinant inbred lines (RILs) derived from an oilseed crop × WI fast-plant® cross exhibit UV patterns, the size of which varies extensively among genotypes. In RILs, we further observe strong statistical-genetic and QTL correlations within petal morphological traits and within measurements of petal UV patterning; however, correlations between morphology and UV patterning are weak or nonsignificant, suggesting that UV patterning is regulated and may evolve independently of overall petal size. HPLC analyses reveal a high concentration of sinapoyl glucose in UV-absorbing petal regions, which, in concert with physical locations of UV-trait QTLs, suggest a regulatory and structural gene as candidates underlying observed quantitative variation. Finally, insects prefer flowers with UV bulls-eye patterns over those that lack patterns, validating the importance of UV patterning in pollen-limited populations of B. rapa.
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Affiliation(s)
- Marcus T Brock
- Department of Botany, University of Wyoming, Laramie, WY, 82071, USA
| | - Lauren K Lucas
- Department of Biology, Utah State University, Logan, UT, 84322, USA
| | - Nickolas A Anderson
- Department of Biochemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - Matthew J Rubin
- Department of Botany, University of Wyoming, Laramie, WY, 82071, USA
| | - R J Cody Markelz
- Department of Plant Biology, University of California, Davis, CA, 95616, USA
| | - Michael F Covington
- Department of Plant Biology, University of California, Davis, CA, 95616, USA
| | - Upendra K Devisetty
- Department of Plant Biology, University of California, Davis, CA, 95616, USA
| | - Clint Chapple
- Department of Biochemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - Julin N Maloof
- Department of Plant Biology, University of California, Davis, CA, 95616, USA
| | - Cynthia Weinig
- Department of Botany, University of Wyoming, Laramie, WY, 82071, USA.,Department of Molecular Biology, University of Wyoming, Laramie, WY, 82071, USA
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Gao L, Yang H, Liu H, Yang J, Hu Y. Extensive Transcriptome Changes Underlying the Flower Color Intensity Variation in Paeonia ostii. FRONTIERS IN PLANT SCIENCE 2016; 6:1205. [PMID: 26779235 PMCID: PMC4702479 DOI: 10.3389/fpls.2015.01205] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2015] [Accepted: 12/14/2015] [Indexed: 05/03/2023]
Abstract
Tree peonies are a group of traditional ornamental plants, especially in East Asia, with Paeonia ostii as one of the most important ancestral species. P. ostii has flowers with varying colors, ranging from nearly white, light pink to deep pink. However, few studies have been done to unravel the molecular mechanisms underlying the flower color intensity variation in plants. Based on comparative analyses of the pigment composition and transcriptomes of P. ostii with different flower color intensities, we found that the anthocyanin concentration was significantly correlated with the flower color intensity in P. ostii. Transcriptome analysis by RNA-Sequencing revealed 7187 genes that were differentially expressed between flowers with different color intensities. Functional enrichment analysis of differentially expressed genes revealed multiple pathways possibly responsible for color intensity variation in P. ostii, including flavonoid biosynthesis, fatty acid oxidation, carbohydrate metabolism, and hormone-mediated signaling. Particularly, while anthocyanin biosynthesis genes showing positive correlations between their expression and anthocyanin concentration in flowers, two transcription factors, PoMYB2 and PoSPL1, seem to negatively regulate anthocyanin accumulation by affecting the activation capacity of the MYB-bHLH-WDR complex, exhibiting an inverse relationship between their expression and anthocyanin accumulation. Our results showed that, although anthocyanin biosynthesis had a direct effect on the pigmentation of the P. ostii flower, other metabolic and hormone-mediated signaling pathways were also contributed to the flower color intensity variation in P. ostii, suggesting complex coordinated changes in the transcriptional network. Differential expression of genes encoding anthocyanin repressors seems to be the major factor responsible for the intensity variation in anthocyanin pigmentation in P. ostii.
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Affiliation(s)
- Lexuan Gao
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Plant Science Research Center, Chinese Academy of SciencesShanghai, China
| | - Hongxing Yang
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Plant Science Research Center, Chinese Academy of SciencesShanghai, China
| | - Hongfeng Liu
- School of Landscape Architecture, Beijing Forestry UniversityBeijing, China
| | - Ji Yang
- Center for Evolutionary Biology and Institute of Biodiversity Science, Fudan UniversityShanghai, China
| | - Yonghong Hu
- Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Plant Science Research Center, Chinese Academy of SciencesShanghai, China
- School of Landscape Architecture, Beijing Forestry UniversityBeijing, China
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Liu Y, Lin-Wang K, Deng C, Warran B, Wang L, Yu B, Yang H, Wang J, Espley RV, Zhang J, Wang D, Allan AC. Comparative Transcriptome Analysis of White and Purple Potato to Identify Genes Involved in Anthocyanin Biosynthesis. PLoS One 2015; 10:e0129148. [PMID: 26053878 PMCID: PMC4459980 DOI: 10.1371/journal.pone.0129148] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2014] [Accepted: 05/05/2015] [Indexed: 11/25/2022] Open
Abstract
INTRODUCTION The potato (Solanum tuberosum) cultivar 'Xin Daping' is tetraploid with white skin and white flesh, while the cultivar 'Hei Meiren' is also tetraploid with purple skin and purple flesh. Comparative transcriptome analysis of white and purple cultivars was carried out using high-throughput RNA sequencing in order to further understand the mechanism of anthocyanin biosynthesis in potato. METHODS AND RESULTS By aligning transcript reads to the recently published diploid potato genome and de novo assembly, 209 million paired-end Illumina RNA-seq reads from these tetraploid cultivars were assembled on to 60,930 transcripts, of which 27,754 (45.55%) are novel transcripts and 9393 alternative transcripts. Using a comparison of the RNA-sequence datasets, multiple versions of the genes encoding anthocyanin biosynthetic steps and regulatory transcription factors were identified. Other novel genes potentially involved in anthocyanin biosynthesis in potato tubers were also discovered. Real-time qPCR validation of candidate genes revealed good correlation with the transcriptome data. SNPs (Single Nucleotide Polymorphism) and indels were predicted and validated for the transcription factors MYB AN1 and bHLH1 and the biosynthetic gene anthocyanidin 3-O-glucosyltransferase (UFGT). CONCLUSIONS These results contribute to our understanding of the molecular mechanism of white and purple potato development, by identifying differential responses of biosynthetic gene family members together with the variation in structural genes and transcription factors in this highly heterozygous crop. This provides an excellent platform and resource for future genetic and functional genomic research.
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Affiliation(s)
- Yuhui Liu
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
| | - Kui Lin-Wang
- The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Auckland, New Zealand
| | - Cecilia Deng
- The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Auckland, New Zealand
| | - Ben Warran
- The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Auckland, New Zealand
| | - Li Wang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, China
| | - Bin Yu
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
| | - Hongyu Yang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
- College of Horticulture, Gansu Agricultural University, Lanzhou, China
| | - Jing Wang
- College of Food Science and Engineering, Gansu Agricultural University, Lanzhou, China
| | - Richard V. Espley
- The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Auckland, New Zealand
| | - Junlian Zhang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
- College of Horticulture, Gansu Agricultural University, Lanzhou, China
| | - Di Wang
- Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China
| | - Andrew C. Allan
- The New Zealand Institute for Plant & Food Research Limited (Plant & Food Research) Mt Albert, Auckland, New Zealand
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
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Hsu CC, Chen YY, Tsai WC, Chen WH, Chen HH. Three R2R3-MYB transcription factors regulate distinct floral pigmentation patterning in Phalaenopsis spp. PLANT PHYSIOLOGY 2015; 168:175-91. [PMID: 25739699 PMCID: PMC4424010 DOI: 10.1104/pp.114.254599] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2014] [Accepted: 02/27/2015] [Indexed: 05/19/2023]
Abstract
Orchidaceae are well known for their fascinating floral morphologic features, specialized pollination, and distinctive ecological strategies. With their long-lasting flowers of various colors and pigmentation patterning, Phalaenopsis spp. have become important ornamental plants worldwide. In this study, we identified three R2R3-MYB transcription factors PeMYB2, PeMYB11, and PeMYB12. Their expression profiles were concomitant with red color formation in Phalaenopsis spp. flowers. Transient assay of overexpression of three PeMYBs verified that PeMYB2 resulted in anthocyanin accumulation, and these PeMYBs could activate the expression of three downstream structural genes Phalaenopsis spp. Flavanone 3-hydroxylase5, Phalaenopsis spp. Dihydroflavonol 4-reductase1, and Phalaenopsis spp. Anthocyanidin synthase3. In addition, these three PeMYBs participated in the distinct pigmentation patterning in a single flower, which was revealed by virus-induced gene silencing. In the sepals/petals, silencing of PeMYB2, PeMYB11, and PeMYB12 resulted in the loss of the full-red pigmentation, red spots, and venation patterns, respectively. Moreover, different pigmentation patterning was regulated by PeMYBs in the sepals/petals and lip. PeMYB11 was responsive to the red spots in the callus of the lip, and PeMYB12 participated in the full pigmentation in the central lobe of the lip. The differential pigmentation patterning was validated by RNA in situ hybridization. Additional assessment was performed in six Phalaenopsis spp. cultivars with different color patterns. The combined expression of these three PeMYBs in different ratios leads to a wealth of complicated floral pigmentation patterning in Phalaenopsis spp.
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Affiliation(s)
- Chia-Chi Hsu
- Department of Life Sciences (C.-C.H., Y.-Y.C., H.-H.C.),Institute of Tropical Plant Sciences (W.-C.T.), andOrchid Research and Development Center (W.-C.T., W.-H.C., H.-H.C.), National Cheng Kung University, Tainan 701, Taiwan
| | - You-Yi Chen
- Department of Life Sciences (C.-C.H., Y.-Y.C., H.-H.C.),Institute of Tropical Plant Sciences (W.-C.T.), andOrchid Research and Development Center (W.-C.T., W.-H.C., H.-H.C.), National Cheng Kung University, Tainan 701, Taiwan
| | - Wen-Chieh Tsai
- Department of Life Sciences (C.-C.H., Y.-Y.C., H.-H.C.),Institute of Tropical Plant Sciences (W.-C.T.), andOrchid Research and Development Center (W.-C.T., W.-H.C., H.-H.C.), National Cheng Kung University, Tainan 701, Taiwan
| | - Wen-Huei Chen
- Department of Life Sciences (C.-C.H., Y.-Y.C., H.-H.C.),Institute of Tropical Plant Sciences (W.-C.T.), andOrchid Research and Development Center (W.-C.T., W.-H.C., H.-H.C.), National Cheng Kung University, Tainan 701, Taiwan
| | - Hong-Hwa Chen
- Department of Life Sciences (C.-C.H., Y.-Y.C., H.-H.C.),Institute of Tropical Plant Sciences (W.-C.T.), andOrchid Research and Development Center (W.-C.T., W.-H.C., H.-H.C.), National Cheng Kung University, Tainan 701, Taiwan
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Lo Piero AR. The State of the Art in Biosynthesis of Anthocyanins and Its Regulation in Pigmented Sweet Oranges [(Citrus sinensis) L. Osbeck]. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2015; 63:4031-4041. [PMID: 25871434 DOI: 10.1021/acs.jafc.5b01123] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Anthocyanins are water-soluble pigments belonging to the flavonoid compound family involved in nature in several aspects of plant development and defense. By bestowing much of the color and flavor on fruits and vegetables, they are components of the human diet and, thanks to their radical-scavenging properties, are not considered exclusively as food products but also as therapeutic agents. Several cultivars of red (or blood) oranges [Citrus sinensis (L.) Osbeck], such as Tarocco, Moro, and Sanguinello, are characterized by the presence of anthocyanins in both the rind and fruit juice vesicles. The amount and composition of anthocyanins in the pigmented orange cultivar vary greatly depending on variety, maturity, region of cultivation, and many other environmental conditions. Most of the blood orange varieties require a wide day-night thermal range to maximize color formation. Therefore, the production of red oranges characterized by high anthocyanin levels is limited to a few regions and in particular to the Sicilian area around Mount Etna in Italy, where the characteristic climate conditions yield fruits of unique color intensity and quality. In this review, both the basic information and the most recent advances in red orange anthocyanins are reported, with intense attention given to their biosynthesis and regulation.
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Affiliation(s)
- Angela Roberta Lo Piero
- Department of Agriculture, Food and Environment (Di3A), University of Catania, Via Santa Sofia 98, 95123 Catania, Italy
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Wada T, Onishi M, Kunihiro A, Tominaga-Wada R. Overexpressing CAPRICE and GLABRA3 did not change the anthocyanin content of tomato (Solanum lycopersicum) fruit peel. PLANT SIGNALING & BEHAVIOR 2015; 10:e1000131. [PMID: 26039466 PMCID: PMC4622734 DOI: 10.1080/15592324.2014.1000131] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2014] [Revised: 11/20/2014] [Accepted: 12/05/2014] [Indexed: 05/20/2023]
Abstract
In Arabidopsis thaliana, the R3-type MYB transcription factor CAPRICE (CPC) and bHLH transcription factor GLABRA3 (GL3) cooperatively regulate epidermal cell differentiation. CPC and GL3 are involved in root-hair differentiation, trichome initiation and anthocyanin biosynthesis in Arabidopsis epidermal cells. Previously, we showed that CPC and GL3 also influence anthocyanin accumulation in tomato. Introduction of 35S::CPC into tomato significantly inhibits anthocyanin accumulation in cotyledons, leaves and stems. In contrast, introduction of GL3::GL3 strongly enhances anthocyanin accumulation in cotyledons, leaves and stems of tomato. In this study, we investigated the effect of CPC and GL3 on anthocyanin accumulation in the epidermis of tomato fruit. Unlike the results with vegetative tissues, overexpression of CPC and GL3 did not influence anthocyanin biosynthesis in tomato fruit peel.
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Affiliation(s)
- Takuji Wada
- Graduate School of Biosphere Sciences; Hiroshima University; Higashi-Hiroshima, Japan
| | - Mio Onishi
- Graduate School of Biosphere Sciences; Hiroshima University; Higashi-Hiroshima, Japan
| | - Asuka Kunihiro
- Graduate School of Biosphere Sciences; Hiroshima University; Higashi-Hiroshima, Japan
| | - Rumi Tominaga-Wada
- Graduate School of Biosphere Sciences; Hiroshima University; Higashi-Hiroshima, Japan
- Correspondence to: Rumi Tominaga-Wada;
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Identification of Yellow Pigmentation Genes in Brassica rapa ssp. pekinensis Using Br300 Microarray. Int J Genomics 2014; 2014:204969. [PMID: 25629030 PMCID: PMC4297637 DOI: 10.1155/2014/204969] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2014] [Accepted: 12/14/2014] [Indexed: 11/17/2022] Open
Abstract
The yellow color of inner leaves in Chinese cabbage depends on its lutein and carotene content. To identify responsible genes for yellow pigmentation in leaves, the transcriptome profiles of white (Kenshin) and yellow leaves (Wheessen) were examined using the Br300K oligomeric chip in Chinese cabbage. In yellow leaves, genes involved in carotene synthesis (BrPSY, BrPDS, BrCRTISO, and BrLCYE), lutein, and zeaxanthin synthesis (BrCYP97A3 and BrHYDB) were upregulated, while those associated with carotene degradation (BrNCED3, BrNCED4, and BrNCED6) were downregulated. These expression patterns might support that the content of both lutein and total carotenoid was much higher in the yellow leaves than that in the white leaves. These results indicate that the yellow leaves accumulate high levels of both lutein and β-carotene due to stimulation of synthesis and that the degradation rate is inhibited. A large number of responsible genes as novel genes were specifically expressed in yellow inner leaves, suggesting the possible involvement in pigment synthesis. Finally, we identified three transcription factors (BrA20/AN1-like, BrBIM1, and BrZFP8) that are specifically expressed and confirmed their relatedness in carotenoid synthesis from Arabidopsis plants.
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Yuan YW, Sagawa JM, Frost L, Vela JP, Bradshaw HD. Transcriptional control of floral anthocyanin pigmentation in monkeyflowers (Mimulus). THE NEW PHYTOLOGIST 2014; 204:1013-27. [PMID: 25103615 PMCID: PMC4221532 DOI: 10.1111/nph.12968] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2014] [Accepted: 07/05/2014] [Indexed: 05/04/2023]
Abstract
A molecular description of the control of floral pigmentation in a multi-species group displaying various flower color patterns is of great interest for understanding the molecular bases of phenotypic diversification and pollinator-mediated speciation. Through transcriptome profiling, mutant analyses and transgenic experiments, we aim to establish a 'baseline' floral anthocyanin regulation model in Mimulus lewisii and to examine the different ways of tinkering with this model in generating the diversity of floral anthocyanin patterns in other Mimulus species. We find one WD40 and one bHLH gene controlling anthocyanin pigmentation in the entire corolla of M. lewisii and two R2R3-MYB genes, PELAN and NEGAN, controlling anthocyanin production in the petal lobe and nectar guide, respectively. The autoregulation of NEGAN might be a critical property to generate anthocyanin spots. Independent losses of PELAN expression (via different mechanisms) explain two natural yellow-flowered populations of M. cardinalis (typically red-flowered). The NEGAN ortholog is the only anthocyanin-activating MYB expressed in the M. guttatus flowers. The mutant lines and transgenic tools available for M. lewisii will enable gene-by-gene replacement experiments to dissect the genetic and developmental bases of more complex floral color patterns, and to test hypotheses on phenotypic evolution in general.
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Affiliation(s)
- Yao-Wu Yuan
- Department of Biology, University of Washington, Seattle, WA 98195, USA
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, 06269, USA
| | - Janelle M. Sagawa
- Department of Biology, University of Washington, Seattle, WA 98195, USA
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, 06269, USA
| | - Laura Frost
- Department of Biology, University of Washington, Seattle, WA 98195, USA
| | - James P. Vela
- Department of Biology, University of Washington, Seattle, WA 98195, USA
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Schwinn KE, Boase MR, Bradley JM, Lewis DH, Deroles SC, Martin CR, Davies KM. MYB and bHLH transcription factor transgenes increase anthocyanin pigmentation in petunia and lisianthus plants, and the petunia phenotypes are strongly enhanced under field conditions. FRONTIERS IN PLANT SCIENCE 2014; 5:603. [PMID: 25414715 PMCID: PMC4220640 DOI: 10.3389/fpls.2014.00603] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2014] [Accepted: 10/16/2014] [Indexed: 05/17/2023]
Abstract
Petunia line Mitchell [MP, Petunia axillaris × (P. axillaris × P. hybrida)] and Eustoma grandiflorum (lisianthus) plants were produced containing a transgene for over-expression of the R2R3-MYB transcription factor [TF; ROSEA1 (ROS1)] that up-regulates flavonoid biosynthesis in Antirrhinum majus. The petunia lines were also crossed with previously produced MP lines containing a Zea mays flavonoid-related basic helix-loop-helix TF transgene (LEAF COLOR, LC), which induces strong vegetative pigmentation when these 35S:LC plants are exposed to high-light levels. 35S:ROS1 lisianthus transgenics had limited changes in anthocyanin pigmentation, specifically, precocious pigmentation of flower petals and increased pigmentation of sepals. RNA transcript levels for two anthocyanin biosynthetic genes, chalcone synthase and anthocyanidin synthase, were increased in the 35S:ROS1 lisianthus petals compared to those of control lines. With MP, the 35S:ROS1 calli showed novel red pigmentation in culture, but this was generally not seen in tissue culture plantlets regenerated from the calli or young plants transferred to soil in the greenhouse. Anthocyanin pigmentation was enhanced in the stems of mature 35S:ROS1 MP plants, but the MP white-flower phenotype was not complemented. Progeny from a 35S:ROS1 × 35S:LC cross had novel pigmentation phenotypes that were not present in either parental line or MP. In particular, there was increased pigment in the petal throat region, and the anthers changed from yellow to purple pigmentation. An outdoor field trial was conducted with the 35S:ROS1, 35S:LC, 35S:ROS1 × 35S:LC and control MP lines. Field conditions rapidly induced intense foliage pigmentation in 35S:LC plants, a phenotype not observed in control MP or equivalent 35S:LC plants maintained in a greenhouse. No difference in plant stature, seed germination, or plant survival was observed between transgenic and control plants.
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Affiliation(s)
- Kathy E. Schwinn
- New Zealand Institute for Plant and Food Research Limited, Palmerston NorthNew Zealand
| | - Murray R. Boase
- New Zealand Institute for Plant and Food Research Limited, Palmerston NorthNew Zealand
| | - J. Marie Bradley
- New Zealand Institute for Plant and Food Research Limited, WellingtonNew Zealand
| | - David H. Lewis
- New Zealand Institute for Plant and Food Research Limited, Palmerston NorthNew Zealand
| | - Simon C. Deroles
- New Zealand Institute for Plant and Food Research Limited, Palmerston NorthNew Zealand
| | | | - Kevin M. Davies
- New Zealand Institute for Plant and Food Research Limited, Palmerston NorthNew Zealand
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Xie Q, Hu Z, Zhang Y, Tian S, Wang Z, Zhao Z, Yang Y, Chen G. Accumulation and molecular regulation of anthocyanin in purple tumorous stem mustard (Brassica juncea var. tumida Tsen et Lee). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2014; 62:7813-21. [PMID: 25055052 DOI: 10.1021/jf501790a] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Tumorous stem mustard (Brassica juncea var. tumida Tsen et Lee) is an economically and nutritionally important dietary vegetable in Asian countries. Purple tumorous stem mustard contains inflated tumorous stem and abundant anthocyanin accumulation in leaves. Here, 20 anthocyanins were separated and identified from the purple tumorous stem mustard by high-performance liquid chromatography-electrospray ionization-tandem mass spectrometry (HPLC-ESI-MS/MS). In order to investigate the regulatory anthocyanin production in purple tumorous stem mustard, the expression of anthocyanin biosynthetic and regulatory genes in leaves from purple and green cultivars were examined. Regulatory gene BjTT8 and all biosynthetic genes were dramatically upregulated in the purple variety. Moreover, the transcript level of BjTT8 and all structural genes, except BjPAL, were all significantly higher in light-treated sprouts than in the dark. These results indicate that transcriptional activation of BjTT8 is associated with upregulation of most anthocyanin biosynthetic genes, to produce anthocyanins in purple tumorous stem mustard.
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Affiliation(s)
- Qiaoli Xie
- Bioengineering College, Campus A, Chongqing University , 174 Shapingba Main Street, Chongqing 400030, People's Republic of China
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45
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Uematsu C, Katayama H, Makino I, Inagaki A, Arakawa O, Martin C. Peace, a MYB-like transcription factor, regulates petal pigmentation in flowering peach 'Genpei' bearing variegated and fully pigmented flowers. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:1081-94. [PMID: 24453228 PMCID: PMC3935565 DOI: 10.1093/jxb/ert456] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Flowering peach Prunus persica cv. Genpei bears pink and variegated flowers on a single tree. The structural genes involved in anthocyanin biosynthesis were expressed strongly in pink petals but only very weakly or not at all in variegated petals. A cDNA clone encoding a MYB-like gene, isolated from pink petals was strongly expressed only in pink petals. Introduction of this gene, via biolistics gave magenta spots in the white areas of variegated petals, therefore this gene was named as Peace (peach anthocyanin colour enhancement). Differences in Peace expression determine the pattern of flower colouration in flowering peach. The R2R3 DNA-binding domain of Peace is similar to those of other plant MYBs regulating anthocyanin biosynthesis. Key amino acids for tertiary structure and the motif for interaction with bHLH proteins were conserved in Peace. Phylogenetic analysis indicates that Peace is closely related to AtMYB123 (TT2), which regulates proanthocyanidin biosynthesis in Arabidopsis, and to anthocyanin regulators in monocots rather than to regulators in dicots. This is the first report that a TT2-like R2R3 MYB has been shown to regulate anthocyanin biosynthesis.
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Affiliation(s)
- Chiyomi Uematsu
- Botanical Gardens, Graduate School of Science, Osaka City University, Osaka 576-0004, Japan
- * To whom correspondence should be addressed. E-mail:
| | - Hironori Katayama
- Food Resources Research and Education Center, Kobe University, Hyogo 675-2103, Japan
| | - Izumi Makino
- Botanical Gardens, Graduate School of Science, Osaka City University, Osaka 576-0004, Japan
| | - Azusa Inagaki
- Botanical Gardens, Graduate School of Science, Osaka City University, Osaka 576-0004, Japan
- Present address: Department of Pathology, Graduate School of Medicine, Osaka City University, Osaka 545–8585, Japan
| | - Osamu Arakawa
- Faculty of Agriculture and Life Science, Hirosaki University, Aomori 036-8561, Japan
| | - Cathie Martin
- Department of Metabolic Biology, John Innes Centre, Norwich NR4 7UH, UK
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Outchkourov NS, Carollo CA, Gomez-Roldan V, de Vos RCH, Bosch D, Hall RD, Beekwilder J. Control of anthocyanin and non-flavonoid compounds by anthocyanin-regulating MYB and bHLH transcription factors in Nicotiana benthamiana leaves. FRONTIERS IN PLANT SCIENCE 2014; 5:519. [PMID: 25339964 PMCID: PMC4189325 DOI: 10.3389/fpls.2014.00519] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2014] [Accepted: 09/15/2014] [Indexed: 05/02/2023]
Abstract
Coloration of plant organs such as fruit, leaves and flowers through anthocyanin production is governed by a combination of MYB and bHLH type transcription factors (TFs). In this study we introduced Rosea1 (ROS1, a MYB type) and Delila (DEL, a bHLH type), into Nicotiana benthamiana leaves by agroinfiltration. ROS1 and DEL form a pair of well-characterized TFs from Snapdragon (Antirrhinum majus), which specifically induce anthocyanin accumulation when expressed in tomato fruit. In N. benthamiana, robust induction of a single anthocyanin, delphinidin-3-rutinoside (D3R) was observed after expression of both ROS1 and DEL. Surprisingly in addition to D3R, a range of additional metabolites were also strongly and specifically up-regulated upon expression of ROS1 and DEL. Except for the D3R, these induced compounds were not derived from the flavonoid pathway. Most notable among these are nornicotine conjugates with butanoyl, hexanoyl, and octanoyl hydrophobic moieties, and phenylpropanoid-polyamine conjugates such as caffeoyl putrescine. The defensive properties of the induced molecules were addressed in bioassays using the tobacco specialist lepidopteran insect Manduca sexta. Our study showed that the effect of ROS1 and DEL expression in N. benthamiana leaves extends beyond the flavonoid pathway. Apparently the same transcription factor may regulate different secondary metabolite pathways in different plant species.
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Affiliation(s)
- Nikolay S. Outchkourov
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
- Laboratory of Plant Physiology, Wageningen University and Research CentreWageningen, Netherlands
| | - Carlos A. Carollo
- Laboratory of Pharmacognosy, Federal University of Mato Grosso do Sul, Campo GrandeBrazil
| | - Victoria Gomez-Roldan
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
| | - Ric C. H. de Vos
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
| | - Dirk Bosch
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
| | - Robert D. Hall
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
- Laboratory of Plant Physiology, Wageningen University and Research CentreWageningen, Netherlands
| | - Jules Beekwilder
- Business Unit Bioscience, Plant Research International, Wageningen University and Research CentreWageningen, Netherlands
- *Correspondence: Jules Beekwilder, Business Unit Bioscience, Plant Research International, Wageningen University and Research Centre, P.O. Box 16, 6700 AA Wageningen, Netherlands e-mail:
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Gao Z, Liu C, Zhang Y, Li Y, Yi K, Zhao X, Cui ML. The promoter structure differentiation of a MYB transcription factor RLC1 causes red leaf coloration in Empire Red Leaf Cotton under light. PLoS One 2013; 8:e77891. [PMID: 24205014 PMCID: PMC3812142 DOI: 10.1371/journal.pone.0077891] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2013] [Accepted: 09/05/2013] [Indexed: 12/21/2022] Open
Abstract
The red leaf coloration of Empire Red Leaf Cotton (ERLC) (Gossypium hirsutum L.), resulted from anthocyanin accumulation in light, is a well known dominant agricultural trait. However, the underpin molecular mechanism remains elusive. To explore this, we compared the molecular biological basis of anthocyanin accumulation in both ERLC and the green leaf cotton variety CCRI 24 (Gossypium hirsutum L.). Introduction of R2R3-MYB transcription factor Rosea1, the master regulator anthocyanin biosynthesis in Antirrhinum majus, into CCRI 24 induced anthocyanin accumulation, indicating structural genes for anthocyanin biosynthesis are not defected and the leaf coloration might be caused by variation of regulatory genes expression. Expression analysis found that a transcription factor RLC1 (Red Leaf Cotton 1) which encodes the ortholog of PAP1/Rosea1 was highly expressed in leaves of ERLC but barely expressed in CCRI 24 in light. Ectopic expression of RLC1 from ERLC and CCRI 24 in hairy roots of Antirrhinum majus and CCRI 24 significantly enhanced anthocyanin accumulation. Comparison of RLC1 promoter sequences between ERLC and CCRI 24 revealed two 228-bp tandem repeats presented in ERLC with only one repeat in CCRI 24. Transient assays in cotton leave tissue evidenced that the tandem repeats in ERLC is responsible for light-induced RLC1 expression and therefore anthocyanin accumulation. Taken together, our results in this article strongly support an important step toward understanding the role of R2R3-MYB transcription factors in the regulatory menchanisms of anthocyanin accumulation in red leaf cotton under light.
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Affiliation(s)
- Zhenrui Gao
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China
| | - Chuanliang Liu
- State Key Laboratory of Cotton Biology, Anyang, China
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences, Anyang, China
| | - Yanzhao Zhang
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China
| | - Ying Li
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China
| | - Keke Yi
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Xinhua Zhao
- State Key Laboratory of Cotton Biology, Anyang, China
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences, Anyang, China
| | - Min-Long Cui
- Key Laboratory of Pollution Ecology and Environmental Engineering, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China
- State Key Laboratory of Cotton Biology, Anyang, China
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Whitney HM, Milne G, Rands SA, Vignolini S, Martin C, Glover BJ. The influence of pigmentation patterning on bumblebee foraging from flowers of Antirrhinum majus. Naturwissenschaften 2013; 100:249-56. [DOI: 10.1007/s00114-013-1020-y] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2012] [Revised: 01/21/2013] [Accepted: 01/24/2013] [Indexed: 11/28/2022]
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Martins TR, Berg JJ, Blinka S, Rausher MD, Baum DA. Precise spatio-temporal regulation of the anthocyanin biosynthetic pathway leads to petal spot formation in Clarkia gracilis (Onagraceae). THE NEW PHYTOLOGIST 2013; 197:958-969. [PMID: 23231386 PMCID: PMC3540125 DOI: 10.1111/nph.12062] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/06/2012] [Accepted: 10/19/2012] [Indexed: 05/18/2023]
Abstract
Petal spots are widespread in angiosperms and are often implicated in pollinator attraction. Clarkia gracilis petals each have a single red-purple spot that contrasts against a pink background. The position and presence of spots in C. gracilis are determined by the epistatic interaction of alleles at two as yet unidentified loci. We used HPLC to identify the different pigments produced in the petals, and qualitative and quantitative RT-PCR to assay for spatio-temporal patterns of expression of different anthocyanin pathway genes. We found that spots contain different pigments from the remainder of the petal, being composed of cyanidin/peonidin-based, instead of malvidin-based anthocyanins. Expression assays of anthocyanin pathway genes showed that the dihydroflavonol-4-reductase 2 (Dfr2) gene has a spot-specific expression pattern and acts as a switch for spot production. Co-segregation analyses implicated the gene products of the P and I loci as trans-regulators of this switch. Spot pigments appear earlier in development as a result of early expression of Dfr2 and the flavonoid 3' hydroxylase 1 (F3'h1) gene. Pigments in the background appear later, as a result of later expression of Dfr1 and the flavonoid 3'-5' hydroxylase 1 (F3'5'h1) genes. The evolution of this spot production mechanism appears to have been facilitated by duplication of the Dfr gene and to have required substantial reworking of the anthocyanin pathway regulatory network.
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Affiliation(s)
- Talline R. Martins
- Department of Botany, University of Wisconsin, Madison, Wisconsin 53706
- Department of Biology, Duke University, Durham, North Carolina 27708
| | - Jeremy J. Berg
- Department of Botany, University of Wisconsin, Madison, Wisconsin 53706
| | - Steven Blinka
- Department of Botany, University of Wisconsin, Madison, Wisconsin 53706
| | - Mark D. Rausher
- Department of Biology, Duke University, Durham, North Carolina 27708
| | - David A. Baum
- Department of Botany, University of Wisconsin, Madison, Wisconsin 53706
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