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Shakhova ES, Markina NM, Mitiouchkina T, Bugaeva EN, Karataeva TA, Palkina KA, Fakhranurova LI, Yampolsky IV, Sarkisyan KS, Mishin AS. Systematic Comparison of Plant Promoters in Nicotiana spp. Expression Systems. Int J Mol Sci 2022; 23. [PMID: 36499768 DOI: 10.3390/ijms232315441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2022] [Revised: 11/25/2022] [Accepted: 12/02/2022] [Indexed: 12/12/2022] Open
Abstract
We report a systematic comparison of 19 plant promoters and 20 promoter-terminator combinations in two expression systems: agroinfiltration in Nicotiana benthamiana leaves, and Nicotiana tabacum BY-2 plant cell packs. The set of promoters tested comprised those not present in previously published work, including several computationally predicted synthetic promoters validated here for the first time. The expression of EGFP driven by different promoters varied by more than two orders of magnitude and was largely consistent between two tested Nicotiana systems. We confirmed previous reports of significant modulation of expression by terminators, as well as synergistic effects of promoters and terminators. Additionally, we observed non-linear effects of gene dosage on expression level. The dataset presented here can inform the design of genetic constructs for plant engineering and transient expression assays.
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Wu L, Xiao H, Zhao L, Cheng Q. CRISPR/Cas9-mediated generation of fls2 mutant in Nicotiana benthamiana for investigating the flagellin recognition spectrum of diverse FLS2 receptors. Plant Biotechnol J 2022; 20:1853-1855. [PMID: 35880295 PMCID: PMC9491447 DOI: 10.1111/pbi.13898] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Revised: 07/11/2022] [Accepted: 07/22/2022] [Indexed: 06/15/2023]
Affiliation(s)
- Ling Wu
- Key Laboratory of Forest Genetics & Biotechnology of Ministry of Education, Co‐Innovation Center for Sustainable Forestry in Southern ChinaNanjing Forestry UniversityNanjingChina
| | - Hongju Xiao
- Key Laboratory of Forest Genetics & Biotechnology of Ministry of Education, Co‐Innovation Center for Sustainable Forestry in Southern ChinaNanjing Forestry UniversityNanjingChina
| | - Lijuan Zhao
- Key Laboratory of Forest Genetics & Biotechnology of Ministry of Education, Co‐Innovation Center for Sustainable Forestry in Southern ChinaNanjing Forestry UniversityNanjingChina
| | - Qiang Cheng
- Key Laboratory of Forest Genetics & Biotechnology of Ministry of Education, Co‐Innovation Center for Sustainable Forestry in Southern ChinaNanjing Forestry UniversityNanjingChina
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Ailizati A, Nagahage ISP, Miyagi A, Ishikawa T, Kawai-Yamada M, Demura T, Yamaguchi M. An Arabidopsis NAC domain transcriptional activator VND7 negatively regulates VNI2 expression. Plant Biotechnol (Tokyo) 2021; 38:415-420. [PMID: 35087306 PMCID: PMC8761584 DOI: 10.5511/plantbiotechnology.21.1013a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 10/13/2021] [Indexed: 05/12/2023]
Abstract
A NAC domain transcription factor, VND-INTERACTING2 (VNI2) is originally isolated as an interacting protein with another NAC domain transcription factor, VASCULAR-RELATED NAC-DOMAIN7 (VND7), a master regulator of xylem vessel element differentiation. VND7 directly or indirectly induces expression of a number of genes associated with xylem vessel element differentiation, while VNI2 inhibits the transcriptional activation activities of VND7 by forming a protein complex. VNI2 is expressed at an earlier stage of xylem vessel element differentiation than VND7. Here, to investigate whether VND7 also affects VNI2, a transient expression assay was performed. We demonstrated that VND7 downregulated VNI2 expression. Other transcription factors involved in xylem vessel formation did not show the negative regulation of VNI2 expression. Rather, MYB83, a downstream target of VND7, upregulated VNI2 expression. By using the deletion series of the VNI2 promoter, a 400 bp region was identified as being responsible for downregulation by VND7. These data suggested that VND7 and VNI2 mutually regulate each other, and VNI2 expression is both positively and negatively regulated in the transcriptional cascade.
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Affiliation(s)
- Aili Ailizati
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
| | | | - Atsuko Miyagi
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
| | - Toshiki Ishikawa
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
| | - Maki Kawai-Yamada
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
| | - Taku Demura
- Graduate School of Biological Sciences, Nara Institute of Science and Technology (NAIST), Nara 630-0192, Japan
| | - Masatoshi Yamaguchi
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
- E-mail: Tel: +81-48-858-3109 Fax: +81-48-858-3107
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Nagahage ISP, Sakamoto S, Nagano M, Ishikawa T, Kawai-Yamada M, Mitsuda N, Yamaguchi M. An NAC domain transcription factor ATAF2 acts as transcriptional activator or repressor dependent on promoter context. Plant Biotechnol (Tokyo) 2018; 35:285-289. [PMID: 31819735 PMCID: PMC6879359 DOI: 10.5511/plantbiotechnology.18.0507a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
The ARABIDOPSIS THALIANA ACTIVATION FACTOR 2 (ATAF2) protein has been demonstrated to be involved in various biological processes including biotic stress responses, photo morphogenesis, and auxin catabolism. However, the transcriptional function of ATAF2 currently remains elusive. Therefore, to further understand the molecular function of ATAF2, we evaluated the transcriptional activities of ATAF2 using a transient assay system in this study. We used an effector consisting of a GAL4-DNA binding domain (GAL4-BD) fused to ATAF2, and observed upregulated reporter gene expression, suggesting that ATAF2 potentially has transcriptional activation activity. ATAF2 has been shown to activate reporter gene expression under the control of the ORE1 promoter. By contrast, ATAF2 significantly repressed reporter gene expression driven by the NIT2 promoter. These data suggest that ATAF2 is a bifunctional transcription factor that can alter target gene expression depending on the promoter sequences.
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Affiliation(s)
| | - Shingo Sakamoto
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki 305-8566, Japan
| | - Minoru Nagano
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama 338-8570, Japan
| | - Toshiki Ishikawa
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama 338-8570, Japan
| | - Maki Kawai-Yamada
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama 338-8570, Japan
| | - Nobutaka Mitsuda
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama 338-8570, Japan
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki 305-8566, Japan
| | - Masatoshi Yamaguchi
- Graduate School of Science and Engineering, Saitama University, Saitama, Saitama 338-8570, Japan
- E-mail: Tel: +81-48-858-3109 Fax: +81-48-858-3107
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Shan S, Mavrodiev EV, Li R, Zhang Z, Hauser BA, Soltis PS, Soltis DE, Yang B. Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy. Mol Ecol Resour 2018; 18:1427-1443. [PMID: 30086204 DOI: 10.1111/1755-0998.12935] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2018] [Revised: 07/23/2018] [Accepted: 07/28/2018] [Indexed: 01/21/2023]
Abstract
Tragopogon (Asteraceae) is an excellent natural system for studies of recent polyploidy. Development of an efficient CRISPR/Cas9-based genome editing platform in Tragopogon will facilitate novel studies of the genetic consequences of polyploidy. Here, we report our initial results of developing CRISPR/Cas9 in Tragopogon. We have established a feasible tissue culture and transformation protocol for Tragopogon. Through protoplast transient assays, use of the TragCRISPR system (i.e. the CRISPR/Cas9 system adapted for Tragopogon) was capable of introducing site-specific mutations in Tragopogon protoplasts. Agrobacterium-mediated transformation with Cas9-sgRNA constructs targeting the phytoene desaturase gene (TraPDS) was implemented in this model polyploid system. Sequencing of PCR amplicons from the target regions indicated simultaneous mutations of two alleles and four alleles of TraPDS in albino shoots from Tragopogon porrifolius (2x) and Tragopogon mirus (4x), respectively. The average proportions of successfully transformed calli with the albino phenotype were 87% and 78% in the diploid and polyploid, respectively. This appears to be the first demonstration of CRISPR/Cas9-based genome editing in any naturally formed neopolyploid system. Although a more efficient tissue culture system should be developed in Tragopogon, application of a robust CRISPR/Cas9 system will permit unique studies of biased fractionation, the gene-balance hypothesis and cytonuclear interactions in polyploids. In addition, the CRISPR/Cas9 platform enables investigations of those genes involved in phenotypic changes in polyploids and will also facilitate novel functional biology studies in Asteraceae. Our workflow provides a guide for applying CRISPR/Cas9 to other nongenetic model plant systems.
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Affiliation(s)
- Shengchen Shan
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida.,Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa.,Florida Museum of Natural History, University of Florida, Gainesville, Florida
| | - Evgeny V Mavrodiev
- Florida Museum of Natural History, University of Florida, Gainesville, Florida
| | - Riqing Li
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa
| | - Zhengzhi Zhang
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa
| | - Bernard A Hauser
- Department of Biology, University of Florida, Gainesville, Florida
| | - Pamela S Soltis
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida.,Florida Museum of Natural History, University of Florida, Gainesville, Florida.,Biodiversity Institute, University of Florida, Gainesville, Florida
| | - Douglas E Soltis
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida.,Florida Museum of Natural History, University of Florida, Gainesville, Florida.,Department of Biology, University of Florida, Gainesville, Florida.,Biodiversity Institute, University of Florida, Gainesville, Florida
| | - Bing Yang
- Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, Iowa
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Liu Y, Merrick P, Zhang Z, Ji C, Yang B, Fei S. Targeted mutagenesis in tetraploid switchgrass (Panicum virgatum L.) using CRISPR/Cas9. Plant Biotechnol J 2018; 16. [PMID: 28640964 PMCID: PMC5787850 DOI: 10.1111/pbi.12778] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
The CRISPR/Cas9 system has become a powerful tool for targeted mutagenesis. Switchgrass (Panicum virgatum L.) is a high yielding perennial grass species that has been designated as a model biomass crop by the U.S. Department of Energy. The self-infertility and high ploidy level make it difficult to study gene function or improve germplasm. To overcome these constraints, we explored the feasibility of using CRISPR/Cas9 for targeted mutagenesis in a tetraploid cultivar 'Alamo' switchgrass. We first developed a transient assay by which a non-functional green-fluorescent protein gene containing a 1-bp frameshift insertion in its 5' coding region was successfully mutated by a Cas9/sgRNA complex resulting in its restored function. Agrobacterium-mediated stable transformation of embryogenic calli derived from mature caryopses averaged a 3.0% transformation efficiency targeting the genes of teosinte branched 1(tb1)a and b and phosphoglycerate mutase (PGM). With a single construct containing two sgRNAs targeting different regions of tb1a and tb1b genes, primary transformants (T0) containing CRISPR/Cas9-induced mutations were obtained at frequencies of 95.5% (tb1a) and 11% (tb1b), respectively, with T0 mutants exhibiting increased tiller production. Meanwhile, a mutation frequency of 13.7% was obtained for the PGM gene with a CRISPR/Cas9 construct containing a single sgRNA. Among the PGM T0 mutants, six are heterozygous and one is homozygous for a 1-bp deletion in the target region with no apparent phenotypical alterations. We show that CRISPR/Cas9 system can generate targeted mutagenesis effectively and obtain targeted homozygous mutants in T0 generation in switchgrass, circumventing the need of inbreeding.
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Affiliation(s)
- Yang Liu
- Interdepartmental Graduate Major in Plant BiologyIowa State UniversityAmesIAUSA
- Department of HorticultureIowa State UniversityAmesIAUSA
| | - Paul Merrick
- Department of HorticultureIowa State UniversityAmesIAUSA
- Interdepartmental Graduate Major in Genetics and GenomicsIowa State UniversityAmesIAUSA
| | - Zhengzhi Zhang
- Department of Genetics, Development and Cell BiologyIowa State UniversityAmesIAUSA
| | - Chonghui Ji
- Department of Genetics, Development and Cell BiologyIowa State UniversityAmesIAUSA
| | - Bing Yang
- Interdepartmental Graduate Major in Plant BiologyIowa State UniversityAmesIAUSA
- Interdepartmental Graduate Major in Genetics and GenomicsIowa State UniversityAmesIAUSA
- Department of Genetics, Development and Cell BiologyIowa State UniversityAmesIAUSA
| | - Shui‐zhang Fei
- Interdepartmental Graduate Major in Plant BiologyIowa State UniversityAmesIAUSA
- Department of HorticultureIowa State UniversityAmesIAUSA
- Interdepartmental Graduate Major in Genetics and GenomicsIowa State UniversityAmesIAUSA
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Zhang K, Yue D, Wei W, Hu Y, Feng J, Zou Z. Characterization and Functional Analysis of Calmodulin and Calmodulin-Like Genes in Fragaria vesca. Front Plant Sci 2016; 7:1820. [PMID: 27990153 PMCID: PMC5130985 DOI: 10.3389/fpls.2016.01820] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2016] [Accepted: 11/18/2016] [Indexed: 05/14/2023]
Abstract
Calcium is a universal messenger that is involved in the modulation of diverse developmental and adaptive processes in response to various stimuli. Calmodulin (CaM) and calmodulin-like (CML) proteins are major calcium sensors in all eukaryotes, and they have been extensively investigated for many years in plants and animals. However, little is known about CaMs and CMLs in woodland strawberry (Fragaria vesca). In this study, we performed a genome-wide analysis of the strawberry genome and identified 4 CaM and 36 CML genes. Bioinformatics analyses, including gene structure, phylogenetic tree, synteny and three-dimensional model assessments, revealed the conservation and divergence of FvCaMs and FvCMLs, thus providing insight regarding their functions. In addition, the transcript abundance of four FvCaM genes and the four most related FvCML genes were examined in different tissues and in response to multiple stress and hormone treatments. Moreover, we investigated the subcellular localization of several FvCaMs and FvCMLs, revealing their potential interactions based on the localizations and potential functions. Furthermore, overexpression of five FvCaM and FvCML genes could not induce a hypersensitive response, but four of the five genes could increase resistance to Agrobacterium tumefaciens in Nicotiana benthamiana leaves. This study provides evidence for the biological roles of FvCaM and CML genes, and the results lay the foundation for future functional studies of these genes.
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Affiliation(s)
- Kai Zhang
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
| | - Dingyi Yue
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
| | - Wei Wei
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
| | - Yang Hu
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
| | - Jiayue Feng
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
| | - Zhirong Zou
- Key Laboratory of Protected Horticultural Engineering in Northwest, Ministry of AgricultureYangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F UniversityYangling, China
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Leonelli L, Erickson E, Lyska D, Niyogi KK. Transient expression in Nicotiana benthamiana for rapid functional analysis of genes involved in non-photochemical quenching and carotenoid biosynthesis. Plant J 2016; 88:375-386. [PMID: 27407008 PMCID: PMC5516181 DOI: 10.1111/tpj.13268] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2016] [Revised: 06/30/2016] [Accepted: 07/04/2016] [Indexed: 05/21/2023]
Abstract
Plants must switch rapidly between light harvesting and photoprotection in response to environmental fluctuations in light intensity. This switch can lead to losses in absorbed energy usage, as photoprotective energy dissipation mechanisms can take minutes to hours to fully relax. One possible way to improve photosynthesis is to engineer these energy dissipation mechanisms (measured as non-photochemical quenching of chlorophyll a fluorescence, NPQ) to induce and relax more quickly, resulting in smaller losses under dynamic light conditions. Previous studies aimed at understanding the enzymes involved in the regulation of NPQ have relied primarily on labor-intensive and time-consuming generation of stable transgenic lines and mutant populations - approaches limited to organisms amenable to genetic manipulation and mapping. To enable rapid functional testing of NPQ-related genes from diverse organisms, we performed Agrobacterium tumefaciens-mediated transient expression assays in Nicotiana benthamiana to test if NPQ kinetics could be modified in fully expanded leaves. By expressing Arabidopsis thaliana genes known to be involved in NPQ, we confirmed the viability of this method for studying dynamic photosynthetic processes. Subsequently, we used naturally occurring variation in photosystem II subunit S, a modulator of NPQ in plants, to explore how differences in amino acid sequence affect NPQ capacity and kinetics. Finally, we functionally characterized four predicted carotenoid biosynthesis genes from the marine algae Nannochloropsis oceanica and Thalassiosira pseudonana and examined the effect of their expression on NPQ in N. benthamiana. This method offers a powerful alternative to traditional gene characterization methods by providing a fast and easy platform for assessing gene function in planta.
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Affiliation(s)
- Lauriebeth Leonelli
- Howard Hughes Medical InstituteDepartment of Plant and Microbial BiologyUniversity of CaliforniaBerkeleyCA94720‐3102USA
| | - Erika Erickson
- Howard Hughes Medical InstituteDepartment of Plant and Microbial BiologyUniversity of CaliforniaBerkeleyCA94720‐3102USA
- Molecular Biophysics and Integrated Bioimaging DivisionLawrence Berkeley National LaboratoryBerkeleyCA94720USA
| | - Dagmar Lyska
- Howard Hughes Medical InstituteDepartment of Plant and Microbial BiologyUniversity of CaliforniaBerkeleyCA94720‐3102USA
- Molecular Biophysics and Integrated Bioimaging DivisionLawrence Berkeley National LaboratoryBerkeleyCA94720USA
| | - Krishna K. Niyogi
- Howard Hughes Medical InstituteDepartment of Plant and Microbial BiologyUniversity of CaliforniaBerkeleyCA94720‐3102USA
- Molecular Biophysics and Integrated Bioimaging DivisionLawrence Berkeley National LaboratoryBerkeleyCA94720USA
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Davies JP, Reddy V, Liu XL, Reddy AS, Ainley WM, Thompson M, Sastry-Dent L, Cao Z, Connell J, Gonzalez DO, Wagner DR. Identification and use of the sugarcane bacilliform virus enhancer in transgenic maize. BMC Plant Biol 2014; 14:359. [PMID: 25526789 PMCID: PMC4302606 DOI: 10.1186/s12870-014-0359-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2014] [Accepted: 11/27/2014] [Indexed: 05/03/2023]
Abstract
BACKGROUND Transcriptional enhancers are able to increase transcription from heterologous promoters when placed upstream, downstream and in either orientation, relative to the promoter. Transcriptional enhancers have been used to enhance expression of specific promoters in transgenic plants and in activation tagging studies to help elucidate gene function. RESULTS A transcriptional enhancer from the Sugarcane Bacilliform Virus - Ireng Maleng isolate (SCBV-IM) that can cause increased transcription when integrated into the the genome near maize genes has been identified. In transgenic maize, the SCBV-IM promoter was shown to be comparable in strength to the maize ubiquitin 1 promoter in young leaf and root tissues. The promoter was dissected to identify sequences that confer high activity in transient assays. Enhancer sequences were identified and shown to increase the activity of a heterologous truncated promoter. These enhancer sequences were shown to be more active when arrayed in 4 copy arrays than in 1 or 2 copy arrays. When the enhancer array was transformed into maize plants it caused an increase in accumulation of transcripts of genes near the site of integration in the genome. CONCLUSIONS The SCBV-IM enhancer can activate transcription upstream or downstream of genes and in either orientation. It may be a useful tool to activate enhance from specific promoters or in activation tagging.
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Affiliation(s)
- John P Davies
- />Dow AgroSciences, 16160 SW Upper Boones Ferry Rd, Portland, OR 97224 USA
| | - Vaka Reddy
- />Dow AgroSciences, 16160 SW Upper Boones Ferry Rd, Portland, OR 97224 USA
- />Current address: GEVO, Inc., 345 Inverness Dr S C-310, Englewood, CO 80112 USA
| | - Xing L Liu
- />Dow AgroSciences, 16160 SW Upper Boones Ferry Rd, Portland, OR 97224 USA
| | - Avutu S Reddy
- />Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, IN 46268 USA
| | | | - Mark Thompson
- />Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, IN 46268 USA
| | | | - Zehui Cao
- />Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, IN 46268 USA
| | - James Connell
- />Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, IN 46268 USA
| | | | - Douglas Ry Wagner
- />Dow AgroSciences, 16160 SW Upper Boones Ferry Rd, Portland, OR 97224 USA
- />Dow AgroSciences, 9330 Zionsville Rd, Indianapolis, IN 46268 USA
- />Current address: Agrinos, Inc, 279 Cousteau Place, Davis, CA 95618 USA
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Bedon F, Ziolkowski L, Walford SA, Dennis ES, Llewellyn DJ. Members of the MYBMIXTA-like transcription factors may orchestrate the initiation of fiber development in cotton seeds. Front Plant Sci 2014; 5:179. [PMID: 24860577 PMCID: PMC4028877 DOI: 10.3389/fpls.2014.00179] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2014] [Accepted: 04/14/2014] [Indexed: 05/24/2023]
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11
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Banu SA, Huda KMK, Tuteja N. Isolation and functional characterization of the promoter of a DEAD-box helicase Psp68 using Agrobacterium-mediated transient assay. Plant Signal Behav 2014; 9:e28992. [PMID: 24785194 PMCID: PMC4091197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 04/11/2014] [Revised: 04/23/2014] [Accepted: 04/23/2014] [Indexed: 02/28/2024]
Abstract
Helicases are molecular motor proteins that perform a variety of cellular functions including transcription, translation, DNA replication and repair, RNA maturation, ribosome synthesis, nuclear export and splicing processes. The p68 is an evolutionarily conserved protein which plays pivotal roles in all aspect RNA metabolism processes. It is well established that helicases provides abiotic stress adaptation in plants but analysis of cis-regulatory elements present in the upstream regions is still infancy. Here we report isolation and functional characterization of the promoter of a DEAD-box helicase Psp68 in response to abiotic stress and hormonal regulation. The promoter of Psp68 was isolated by gene walking PCR from pea genomic DNA library constructed in BD genome walker kit. In silico analysis revealed that promoter of Psp68 contained a TATA, a CAAT motif and also harbors some important stress and hormone associated cis regulatory elements, including E-box, AGAAA, GATA-box, ACGT, GAAAA and GTCTC. Functional analyses were performed by Agrobacterium-mediated transient assay in tobacco leaves. Very high level of GUS activity was observed in agroinfiltrated tobacco leaves by the construct carrying the Psp68 promoter::GUS, subjected to abiotic stress and exogenous hormonal treatments. Stress-inducible nature of Psp68 promoter opens possibility for the study of the gene regulation under stress condition. Therefore, may be useful in the field of agriculture and biotechnology.
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Affiliation(s)
- Sufara Akhter Banu
- International Centre for Genetic Engineering and Biotechnology; Aruna Asaf Ali Marg; New Delhi, India
| | - Kazi Md Kamrul Huda
- International Centre for Genetic Engineering and Biotechnology; Aruna Asaf Ali Marg; New Delhi, India
| | - Narendra Tuteja
- International Centre for Genetic Engineering and Biotechnology; Aruna Asaf Ali Marg; New Delhi, India
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12
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Banu SA, Huda KMK, Tuteja N. Isolation and functional characterization of the promoter of a DEAD-box helicase Psp68 using Agrobacterium-mediated transient assay. Plant Signal Behav 2014; 9:e28992. [PMID: 24785194 PMCID: PMC4091197 DOI: 10.4161/psb.28992] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Helicases are molecular motor proteins that perform a variety of cellular functions including transcription, translation, DNA replication and repair, RNA maturation, ribosome synthesis, nuclear export and splicing processes. The p68 is an evolutionarily conserved protein which plays pivotal roles in all aspect RNA metabolism processes. It is well established that helicases provides abiotic stress adaptation in plants but analysis of cis-regulatory elements present in the upstream regions is still infancy. Here we report isolation and functional characterization of the promoter of a DEAD-box helicase Psp68 in response to abiotic stress and hormonal regulation. The promoter of Psp68 was isolated by gene walking PCR from pea genomic DNA library constructed in BD genome walker kit. In silico analysis revealed that promoter of Psp68 contained a TATA, a CAAT motif and also harbors some important stress and hormone associated cis regulatory elements, including E-box, AGAAA, GATA-box, ACGT, GAAAA and GTCTC. Functional analyses were performed by Agrobacterium-mediated transient assay in tobacco leaves. Very high level of GUS activity was observed in agroinfiltrated tobacco leaves by the construct carrying the Psp68 promoter::GUS, subjected to abiotic stress and exogenous hormonal treatments. Stress-inducible nature of Psp68 promoter opens possibility for the study of the gene regulation under stress condition. Therefore, may be useful in the field of agriculture and biotechnology.
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13
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Terefe-Ayana D, Yasmin A, Le TL, Kaufmann H, Biber A, Kühr A, Linde M, Debener T. Mining disease-resistance genes in roses: functional and molecular characterization of the rdr1 locus. Front Plant Sci 2011; 2:35. [PMID: 22639591 PMCID: PMC3355636 DOI: 10.3389/fpls.2011.00035] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2011] [Accepted: 07/18/2011] [Indexed: 05/03/2023]
Abstract
The interaction of roses with the leaf spot pathogen Diplocarpon rosae (the cause of black spot on roses) is an interesting pathosystem because it involves a long-lived woody perennial, with life history traits very different from most model plants, and a hemibiotrophic pathogen with moderate levels of gene flow. Here we present data on the molecular structure of the first monogenic dominant resistance gene from roses, Rdr1, directed against one isolate of D. rosae. Complete sequencing of the locus carrying the Rdr1 gene resulted in a sequence of 265,477 bp with a cluster of nine highly related TIR-NBS-LRR (TNL) candidate genes. After sequencing revealed candidate genes for Rdr1, we implemented a gene expression analysis and selected five genes out of the nine TNLs. We then silenced the whole TNL gene family using RNAi (Rdr1-RNAi) constructed from the most conserved sequence region and demonstrated a loss of resistance in the normally resistant genotype. To identify the functional TNL gene, we further screened the five TNL candidate genes with a transient leaf infiltration assay. The transient expression assay indicated a single TNL gene (muRdr1H), partially restoring resistance in the susceptible genotype. Rdr1 was found to localize within the muRdr1 gene family; the genes within this locus contain characteristic motifs of active TNL genes and belong to a young cluster of R genes. The transient leaf assay can be used to further analyze the rose black spot interaction and its evolution, extending the analyses to additional R genes and to additional pathogenic types of the pathogen.
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Affiliation(s)
- Diro Terefe-Ayana
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Aneela Yasmin
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Thanh Loan Le
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Helgard Kaufmann
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Anja Biber
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Astrid Kühr
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Marcus Linde
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
| | - Thomas Debener
- Institute for Plant Genetics, Leibniz University HannoverHannover, Germany
- *Correspondence: Thomas Debener, Institute for Plant Genetics, Leibniz University Hannover, Herrenhäuser Str. 2, D-30419 Hannover, Germany. e-mail:
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