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Zhang C, Yu L, He X, Shi C, Li S, Zhao F, Fan X. In Situ Fabrication of SnO 2 Nanowalls for Robust Acetylene Sensing at Low Temperature. Chemphyschem 2024; 25:e202300634. [PMID: 38415889 DOI: 10.1002/cphc.202300634] [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] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2023] [Revised: 02/02/2024] [Indexed: 02/29/2024]
Abstract
Acetylene (C2 H2 ) monitoring in real time and online is essential for erasing transformer risks and guaranteeing normal equipment operation and operator safety. This study examines the direct fabrication of ultrathin SnO2 nanowalls on Ag-Pd substrates using a simple solvothermal method that doesn't demand the use of any additional motivators or templates. The thickness and shape of the nanowalls can be controlled by varying the cetyl trimethyl ammonium bromide (CTAB) concentration in the solvent. As observed, the gas sensor (SnO2 -3) fabricated by 2.4 g CTAB exhibits superior gas-sensing features. This is primarily due to the hollow structure constructed by the arrangement of nanowalls, which delivers not only enough gas diffusion pathways but also enough reaction sites during the gas sensing processes. The findings suggest that low-cost SnO2 nanowalls created using a straightforward procedure could be taken into consideration as prospective candidates for use in industrial C2 H2 sensing applications.
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Affiliation(s)
- Chuantao Zhang
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Lingmin Yu
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Xingyu He
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Chao Shi
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Senlin Li
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Fan Zhao
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
| | - Xinhui Fan
- School of Materials and Chemical Engineering, Xi'an Technological University, Xi'an, 710021, China
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2
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Liu Y, Ma X, Li Y, Yang X, Cheng W. Zinc Finger Protein8 ( GhZFP8) Regulates the Initiation of Trichomes in Arabidopsis and the Development of Fiber in Cotton. Plants (Basel) 2024; 13:492. [PMID: 38498441 PMCID: PMC10892670 DOI: 10.3390/plants13040492] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Revised: 02/01/2024] [Accepted: 02/05/2024] [Indexed: 03/20/2024]
Abstract
Cotton is one of the most important natural fibers used in the textile industry worldwide. It is important to identify the key factors involved in cotton fiber development. In this study, zinc finger protein8 (GhZFP8) encoding a C2H2 transcription factor (TF) was cloned from cotton. qPCR showed that the transcripts of GhZFP8 in cotton were detected in the leaves and fibers at 3, 6, and 30 days post-anthesis (DPA), but not in the roots, stems, or flowers. The overexpression of GhZFP8 increased the trichome number on the siliques, leaves, and inflorescence, but inhibited the growth. The expression of trichome development and cell-elongation-related genes decreased obviously in GhZFP8 overexpressor Arabidopsis. Indole-3-acetic acid (IAA) and 1-Aminocyclopropanecarboxylic acid (ACC) contents were much higher in GhZFP8 overexpressors than that found in the wild type, but the gibberellin (GA) content was lower. The interference of GhZFP8 in cotton caused smaller bolls and shorter fibers than that of the control. The results of DNA affinity purification (DAP)-seq showed that GhZFP8 could bind to the promoter, exon, intron, and intergenic region of the target genes, which are involved in photosynthesis, signal transduction, synthesis of biomass, etc. Our findings implied that GhZFP8 processed multiple biological functions and regulated the development of cotton fiber.
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Affiliation(s)
- Yongchang Liu
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.L.); (X.Y.)
| | - Xiaomei Ma
- Cotton Research Institute, Xinjiang Science Academy of Agriculture and Reclaimation, Shihezi 832000, China;
| | - Ying Li
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.L.); (X.Y.)
| | - Xiaoyu Yang
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.L.); (X.Y.)
| | - Wenhan Cheng
- College of Bioengineering, Jingchu University of Technology, Jingmen 448000, China; (Y.L.); (X.Y.)
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3
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Selva C, Yang X, Shirley NJ, Whitford R, Baumann U, Tucker MR. HvSL1 and HvMADS16 promote stamen identity to restrict multiple ovary formation in barley. J Exp Bot 2023; 74:5039-5056. [PMID: 37279531 PMCID: PMC10498024 DOI: 10.1093/jxb/erad218] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [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: 10/14/2022] [Accepted: 06/01/2023] [Indexed: 06/08/2023]
Abstract
Correct floral development is the result of a sophisticated balance of molecular cues. Floral mutants provide insight into the main genetic determinants that integrate these cues, as well as providing opportunities to assess functional variation across species. In this study, we characterize the barley (Hordeum vulgare) multiovary mutants mov2.g and mov1, and propose causative gene sequences: a C2H2 zinc-finger gene HvSL1 and a B-class gene HvMADS16, respectively. In the absence of HvSL1, florets lack stamens but exhibit functional supernumerary carpels, resulting in multiple grains per floret. Deletion of HvMADS16 in mov1 causes homeotic conversion of lodicules and stamens into bract-like organs and carpels that contain non-functional ovules. Based on developmental, genetic, and molecular data, we propose a model by which stamen specification in barley is defined by HvSL1 acting upstream of HvMADS16. The present work identifies strong conservation of stamen formation pathways with other cereals, but also reveals intriguing species-specific differences. The findings lay the foundation for a better understanding of floral architecture in Triticeae, a key target for crop improvement.
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Affiliation(s)
- Caterina Selva
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
| | - Xiujuan Yang
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
| | - Neil J Shirley
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
| | - Ryan Whitford
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
| | - Ute Baumann
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
| | - Matthew R Tucker
- Waite Research Institute, School of Agriculture Food and Wine, University of Adelaide, Waite Campus, Urrbrae 5064, South Australia, Australia
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Wang S, Xu Z, Li M, Lv M, Shen S, Shi Y, Li F. Structural insights into the recognition of telomeric variant repeat TTGGGG by broad-complex, tramtrack and bric-à-brac - zinc finger protein ZBTB10. J Biol Chem 2023; 299:102918. [PMID: 36657642 DOI: 10.1016/j.jbc.2023.102918] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2022] [Revised: 01/12/2023] [Accepted: 01/13/2023] [Indexed: 01/17/2023] Open
Abstract
Multiple proteins bind to telomeric DNA and are important for the role of telomeres in genome stability. A recent study established a broad-complex, tramtrack and bric-à-brac - zinc finger (BTB-ZF) protein, ZBTB10 (zinc finger and BTB domain-containing protein 10), as a telomeric variant repeat-binding protein at telomeres that use an alternative method for lengthening telomeres). ZBTB10 specifically interacts with the double-stranded telomeric variant repeat sequence TTGGGG by employing its tandem C2H2 zinc fingers (ZF1-2). Here, we solved the crystal structure of human ZBTB10 ZF1-2 in complex with a double-stranded DNA duplex containing the sequence TTGGGG to assess the molecular details of this interaction. Combined with calorimetric analysis, we identified the vital residues in TTGGGG recognition and determined the specific recognition mechanisms that are different from those of TZAP (telomere zinc finger-associated protein), a recently defined telomeric DNA-binding protein. Following these studies, we further identified a single amino-acid mutant (Arg767Gln) of ZBTB10 ZF1-2 that shows a preference for the telomeric DNA repeat TTAGGG sequence. We solved the cocrystal structure, providing a structural basis for telomeric DNA recognition by C2H2 ZF proteins.
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Cui H, Chen J, Liu M, Zhang H, Zhang S, Liu D, Chen S. Genome-Wide Analysis of C2H2 Zinc Finger Gene Family and Its Response to Cold and Drought Stress in Sorghum [ Sorghum bicolor (L.) Moench]. Int J Mol Sci 2022; 23:ijms23105571. [PMID: 35628380 PMCID: PMC9146226 DOI: 10.3390/ijms23105571] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Revised: 05/04/2022] [Accepted: 05/11/2022] [Indexed: 02/01/2023] Open
Abstract
C2H2 zinc finger protein (C2H2-ZFP) is one of the most important transcription factor families in higher plants. In this study, a total of 145 C2H2-ZFPs was identified in Sorghum bicolor and randomly distributed on 10 chromosomes. Based on the phylogenetic tree, these zinc finger gene family members were divided into 11 clades, and the gene structure and motif composition of SbC2H2-ZFPs in the same clade were similar. SbC2H2-ZFP members located in the same clade contained similar intron/exon and motif patterns. Thirty-three tandem duplicated SbC2H2-ZFPs and 24 pairs of segmental duplicated genes were identified. Moreover, synteny analysis showed that sorghum had more collinear regions with monocotyledonous plants such as maize and rice than did dicotyledons such as soybean and Arabidopsis. Furthermore, we used quantitative RT-PCR (qRT-PCR) to analyze the expression of C2H2-ZFPs in different organs and demonstrated that the genes responded to cold and drought. For example, Sobic.008G088842 might be activated by cold but is inhibited in drought in the stems and leaves. This work not only revealed an important expanded C2H2-ZFP gene family in Sorghum bicolor but also provides a research basis for determining the role of C2H2-ZFPs in sorghum development and abiotic stress resistance.
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Affiliation(s)
- Huiying Cui
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
- Correspondence: (H.C.); (S.C.)
| | - Jiaqi Chen
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
| | - Mengjiao Liu
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
| | - Hongzhi Zhang
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
| | - Shuangxi Zhang
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
| | - Dan Liu
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
| | - Shaolin Chen
- College of Life Sciences, Northwest A&F University, Xianyang 712100, China; (J.C.); (M.L.); (H.Z.); (S.Z.); (D.L.)
- Biomass Energy Center for Arid and Semi-Arid Lands, Northwest A&F University, Xianyang 712100, China
- Correspondence: (H.C.); (S.C.)
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6
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Ekar J, Panjan P, Drev S, Kovač J. ToF-SIMS Depth Profiling of Metal, Metal Oxide, and Alloy Multilayers in Atmospheres of H 2, C 2H 2, CO, and O 2. J Am Soc Mass Spectrom 2022; 33:31-44. [PMID: 34936371 PMCID: PMC8739835 DOI: 10.1021/jasms.1c00218] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 12/08/2021] [Accepted: 12/13/2021] [Indexed: 06/14/2023]
Abstract
The influence of the flooding gas during ToF-SIMS depth profiling was studied to reduce the matrix effect and improve the quality of the depth profiles. The profiles were measured on three multilayered samples prepared by PVD. They were composed of metal, metal oxide, and alloy layers. Dual-beam depth profiling was performed with 1 keV Cs+ and 1 keV O2+ sputter beams and analyzed with a Bi+ primary beam. The novelty of this work was the application of H2, C2H2, CO, and O2 atmospheres during SIMS depth profiling. Negative cluster secondary ions, formed from sputtered metals/metal oxides and the flooding gases, were analyzed. A systematic comparison and evaluation of the ToF-SIMS depth profiles were performed regarding the matrix effect, ionization probability, chemical sensitivity, sputtering rate, and depth resolution. We found that depth profiling in the C2H2, CO, and O2 atmospheres has some advantages over UHV depth profiling, but it still lacks some of the information needed for an unambiguous determination of multilayered structures. The ToF-SIMS depth profiles were significantly improved during H2 flooding in terms of matrix-effect reduction. The structures of all the samples were clearly resolved while measuring the intensity of the MnHm-, MnOm-, MnOmH-, and Mn- cluster secondary ions. A further decrease in the matrix effect was obtained by normalization of the measured signals. The use of H2 is proposed for the depth profiling of metal/metal oxide multilayers and alloys.
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Affiliation(s)
- Jernej Ekar
- Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
- Jožef
Stefan International Postgraduate School, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Peter Panjan
- Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Sandra Drev
- Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
- Center
for Electron Microscopy and Microanalysis, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Janez Kovač
- Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
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7
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Yan Y, Xiang B, Xie Q, Lin Y, Shen G, Hao X, Zhu X. A Putative C 2H 2 Transcription Factor CgTF6, Controlled by CgTF1, Negatively Regulates Chaetoglobosin A Biosynthesis in Chaetomium globosum. Front Fungal Biol 2021; 2:756104. [PMID: 37744158 PMCID: PMC10512409 DOI: 10.3389/ffunb.2021.756104] [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] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 09/22/2021] [Indexed: 09/26/2023]
Abstract
Gα signaling pathway as well as the global regulator LaeA were demonstrated to positively regulate the biosynthesis of chaetoglobosin A (ChA), a promising biotic pesticide produced by Chaetomium globosum. Recently, the regulatory function of Zn2Cys6 binuclear finger transcription factor CgcheR that lies within the ChA biosynthesis gene cluster has been confirmed. However, CgcheR was not merely a pathway specific regulator. In this study, we showed that the homologs gene of CgcheR (designated as Cgtf1) regulate ChA biosynthesis and sporulation in C. globosum NK102. More importantly, RNA-seq profiling demonstrated that 1,388 genes were significant differentially expressed as Cgtf1 deleted. Among them, a putative C2H2 transcription factor, named Cgtf6, showed the highest gene expression variation in zinc-binding proteins encoding genes as Cgtf1 deleted. qRT-PCR analysis confirmed that expression of Cgtf6 was significantly reduced in CgTF1 null mutants. Whereas, deletion of Cgtf6 resulted in the transcriptional activation and consequent increase in the expression of ChA biosynthesis gene cluster and ChA production in C. globosum. These data suggested that CgTF6 probably acted as an end product feedback effector, and interacted with CgTF1 to maintain a tolerable concentration of ChA for cell survival.
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Affiliation(s)
- Yu Yan
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Biyun Xiang
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Qiaohong Xie
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
- Xiamen No. 1 High School of Fujian, Xiamen, China
| | - Yamin Lin
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
- Shenzhen Senior High School Group, Shenzhen, China
| | - Guangya Shen
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Xiaoran Hao
- National Experimental Teaching Demonstrating Center, College of Life Sciences, Beijing Normal University, Beijing, China
| | - Xudong Zhu
- Beijing Key Laboratory of Genetic Engineering Drug and Biotechnology, College of Life Sciences, Beijing Normal University, Beijing, China
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Kowalski TW, Caldas-Garcia GB, Gomes JDA, Fraga LR, Schuler-Faccini L, Recamonde-Mendoza M, Paixão-Côrtes VR, Vianna FSL. Comparative Genomics Identifies Putative Interspecies Mechanisms Underlying Crbn-Sall4-Linked Thalidomide Embryopathy. Front Genet 2021; 12:680217. [PMID: 34249098 PMCID: PMC8262662 DOI: 10.3389/fgene.2021.680217] [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] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Accepted: 05/18/2021] [Indexed: 11/21/2022] Open
Abstract
The identification of thalidomide–Cereblon-induced SALL4 degradation has brought new understanding for thalidomide embryopathy (TE) differences across species. Some questions, however, regarding species variability, still remain. The aim of this study was to detect sequence divergences between species, affected or not by TE, and to evaluate the regulated gene co-expression in a murine model. Here, we performed a comparative analysis of proteins experimentally established as affected by thalidomide exposure, evaluating 14 species. The comparative analysis, regarding synteny, neighborhood, and protein conservation, was performed in 42 selected genes. Differential co-expression analysis was performed, using a publicly available assay, GSE61306, which evaluated mouse embryonic stem cells (mESC) exposed to thalidomide. The comparative analyses evidenced 20 genes in the upstream neighborhood of NOS3, which are different between the species who develop, or not, the classic TE phenotype. Considering protein sequence alignments, RECQL4, SALL4, CDH5, KDR, and NOS2 proteins had the biggest number of variants reported in unaffected species. In co-expression analysis, Crbn was a gene identified as a driver of the co-expression of other genes implicated in genetic, non-teratogenic, limb reduction defects (LRD), such as Tbx5, Esco2, Recql4, and Sall4; Crbn and Sall4 were shown to have a moderate co-expression correlation, which is affected after thalidomide exposure. Hence, even though the classic TE phenotype is not identified in mice, a deregulatory Crbn-induced mechanism is suggested in this animal. Functional studies are necessary, especially evaluating the genes responsible for LRD syndromes and their interaction with thalidomide–Cereblon.
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Affiliation(s)
- Thayne Woycinck Kowalski
- Post-Graduation Program in Genetics and Molecular Biology, PPGBM, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Medical Genetics and Evolution, Genetics Department, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Genomic Medicine, Center of Experimental Research, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,National Institute of Medical Population Genetics, INAGEMP, Porto Alegre, Brazil.,Bioinformatics Core, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,Centro Universitário CESUCA, Cachoeirinha, Brazil
| | - Gabriela Barreto Caldas-Garcia
- Post-Graduation Program in Genetics and Molecular Biology, PPGBM, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Post-Graduation Program in Biodiversity and Evolution, PPGBioEvo Institute of Biology, Universidade Federal da Bahia, UFBA, Salvador, Brazil
| | - Julia do Amaral Gomes
- Post-Graduation Program in Genetics and Molecular Biology, PPGBM, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Medical Genetics and Evolution, Genetics Department, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Genomic Medicine, Center of Experimental Research, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,National Institute of Medical Population Genetics, INAGEMP, Porto Alegre, Brazil
| | - Lucas Rosa Fraga
- Laboratory of Genomic Medicine, Center of Experimental Research, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,National Institute of Medical Population Genetics, INAGEMP, Porto Alegre, Brazil.,Department of Morphological Sciences, Institute of Health Sciences, Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, Brazil.,Post-Graduation Program in Medical Science, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Teratogen Information System, SIAT, Medical Genetics Service, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil
| | - Lavínia Schuler-Faccini
- Post-Graduation Program in Genetics and Molecular Biology, PPGBM, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Medical Genetics and Evolution, Genetics Department, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,National Institute of Medical Population Genetics, INAGEMP, Porto Alegre, Brazil.,Teratogen Information System, SIAT, Medical Genetics Service, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil
| | - Mariana Recamonde-Mendoza
- Bioinformatics Core, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,Institute of Informatics, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil
| | - Vanessa Rodrigues Paixão-Côrtes
- Post-Graduation Program in Biodiversity and Evolution, PPGBioEvo Institute of Biology, Universidade Federal da Bahia, UFBA, Salvador, Brazil
| | - Fernanda Sales Luiz Vianna
- Post-Graduation Program in Genetics and Molecular Biology, PPGBM, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Medical Genetics and Evolution, Genetics Department, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Laboratory of Genomic Medicine, Center of Experimental Research, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil.,National Institute of Medical Population Genetics, INAGEMP, Porto Alegre, Brazil.,Post-Graduation Program in Medical Science, Universidade Federal do Rio Grande do Sul, UFRGS, Porto Alegre, Brazil.,Teratogen Information System, SIAT, Medical Genetics Service, Hospital de Clínicas de Porto Alegre, HCPA, Porto Alegre, Brazil
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9
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Jiao Z, Wang L, Du H, Wang Y, Wang W, Liu J, Huang J, Huang W, Ge L. Genome-wide study of C2H2 zinc finger gene family in Medicago truncatula. BMC Plant Biol 2020; 20:401. [PMID: 32867687 PMCID: PMC7460785 DOI: 10.1186/s12870-020-02619-6] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/24/2019] [Accepted: 08/25/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND C2H2 zinc finger proteins (C2H2 ZFPs) play vital roles in shaping many aspects of plant growth and adaptation to the environment. Plant genomes harbor hundreds of C2H2 ZFPs, which compose one of the most important and largest transcription factor families in higher plants. Although the C2H2 ZFP gene family has been reported in several plant species, it has not been described in the model leguminous species Medicago truncatula. RESULTS In this study, we identified 218 C2H2 type ZFPs with 337 individual C2H2 motifs in M. truncatula. We showed that the high rate of local gene duplication has significantly contributed to the expansion of the C2H2 gene family in M. truncatula. The identified ZFPs exhibit high variation in motif arrangement and expression pattern, suggesting that the short C2H2 zinc finger motif has been adopted as a scaffold by numerous transcription factors with different functions to recognize cis-elements. By analyzing the public expression datasets and quantitative RT-PCR (qRT-PCR), we identified several C2H2 ZFPs that are specifically expressed in certain tissues, such as the nodule, seed, and flower. CONCLUSION Our genome-wide work revealed an expanded C2H2 ZFP gene family in an important legume M. truncatula, and provides new insights into the diversification and expansion of C2H2 ZFPs in higher plants.
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Affiliation(s)
- Zhicheng Jiao
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, South China Agricultural University, Guangzhou, 510642, Guangdong, China
| | - Liping Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- College of Life Sciences, South China Agricultural University, Guangzhou, 510642, Guangdong, China
| | - Huan Du
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, South China Agricultural University, Guangzhou, 510642, Guangdong, China
| | - Ying Wang
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, South China Agricultural University, Guangzhou, 510642, Guangdong, China
| | - Weixu Wang
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
| | - Junjie Liu
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
| | - Jinhang Huang
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China
| | - Wei Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, 510642, Guangdong, China
- College of Life Sciences, South China Agricultural University, Guangzhou, 510642, Guangdong, China
| | - Liangfa Ge
- Department of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, Guangdong, China.
- Guangdong Engineering Research Center for Grassland Science, Tianhe, 483 Wushan Road, Guangzhou, 510642, Guangdong, China.
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, South China Agricultural University, Guangzhou, 510642, Guangdong, China.
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10
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Huang D, Zheng Q, Melchkart T, Bekkaoui Y, Konkin DJF, Kagale S, Martucci M, You FM, Clarke M, Adamski NM, Chinoy C, Steed A, McCartney CA, Cutler AJ, Nicholson P, Feurtado JA. Dominant inhibition of awn development by a putative zinc-finger transcriptional repressor expressed at the B1 locus in wheat. New Phytol 2020; 225:340-355. [PMID: 31469444 PMCID: PMC6916588 DOI: 10.1111/nph.16154] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [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: 05/15/2019] [Accepted: 08/16/2019] [Indexed: 05/22/2023]
Abstract
Awns, bristle-like structures extending from grass lemmas, provide protection against predators, contribute to photosynthesis and aid in grain dispersal. In wheat, selection of awns with minimal extension, termed awnletted, has occurred during domestication by way of loci that dominantly inhibit awn development, such as Tipped1 (B1), Tipped2 (B2), and Hooded (Hd). Here we identify and characterize the B1 gene. B1 was identified using bulked segregant RNA-sequencing of an F2 durum wheat population and through deletion mapping of awned bread wheat mutants. Functional characterization was accomplished by gene overexpression while haplotype analyses assessed B1 polymorphisms and genetic variation. Located on chromosome 5A, B1 is a C2H2 zinc finger encoding gene with ethylene-responsive element binding factor-associated amphiphilic repression (EAR) motifs. Constitutive overexpression of B1 in awned wheat produced an awnletted phenotype with pleiotropic effects on plant height and fertility. Transcriptome analysis of B1 overexpression plants suggests a role as transcriptional repressor, putatively targeting pathways involved in cell proliferation. Haplotype analysis revealed a conserved B1 coding region with proximal polymorphisms and supported the contention that B1 is mainly responsible for awnletted wheats globally. B1, predominantly responsible for awn inhibition in wheat, encodes a C2H2 zinc finger protein with EAR motifs which putatively functions as a transcriptional repressor.
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Affiliation(s)
- Daiqing Huang
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Qian Zheng
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Tancey Melchkart
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Yasmina Bekkaoui
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - David J. F. Konkin
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Sateesh Kagale
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Martial Martucci
- Morden Research and Development CentreAgriculture and Agri‐Food Canada101 Route 100MordenMBR6M 1Y5Canada
| | - Frank M. You
- Ottawa Research and Development CentreAgriculture and Agri‐Food Canada960 Carling AvenueOttawaONK1A 0C6Canada
| | - Martha Clarke
- Department of Crop GeneticsJohn Innes CentreNorwich Research Park, Colney LaneNorwichNR4 7UHUK
| | - Nikolai M. Adamski
- Department of Crop GeneticsJohn Innes CentreNorwich Research Park, Colney LaneNorwichNR4 7UHUK
| | - Catherine Chinoy
- Department of Crop GeneticsJohn Innes CentreNorwich Research Park, Colney LaneNorwichNR4 7UHUK
| | - Andrew Steed
- Department of Crop GeneticsJohn Innes CentreNorwich Research Park, Colney LaneNorwichNR4 7UHUK
| | - Curt A. McCartney
- Morden Research and Development CentreAgriculture and Agri‐Food Canada101 Route 100MordenMBR6M 1Y5Canada
| | - Adrian J. Cutler
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
| | - Paul Nicholson
- Department of Crop GeneticsJohn Innes CentreNorwich Research Park, Colney LaneNorwichNR4 7UHUK
| | - J. Allan Feurtado
- Aquatic and Crop Resource DevelopmentNational Research Council of CanadaSaskatoonSKS7N 0W9Canada
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11
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Jamil W, Wu W, Gong H, Huang JW, Ahmad M, Zhu QG, Jin R, Liu XF, Yin XR. C2H2-Type Zinc Finger Proteins (DkZF1/2) Synergistically Control Persimmon Fruit Deastringency. Int J Mol Sci 2019; 20:ijms20225611. [PMID: 31717553 PMCID: PMC6888379 DOI: 10.3390/ijms20225611] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2019] [Revised: 11/04/2019] [Accepted: 11/06/2019] [Indexed: 01/09/2023] Open
Abstract
Hypoxic environments are generally undesirable for most plants, but for astringent persimmon, high CO2 treatment (CO2 > 90%), also termed artificial high-CO2 atmosphere (AHCA), causes acetaldehyde accumulation and precipitation of soluble tannins and could remove astringency. The multiple transcriptional regulatory linkages involved in persimmon fruit deastringency have been advanced significantly by characterizing the ethylene response factors (ERFs), WRKY and MYB; however, the involvement of zinc finger proteins for deastringency has not been investigated. In this study, five genes encoding C2H2-type zinc finger proteins were isolated and designed as DkZF1-5. Phylogenetic and sequence analyses suggested the five DkZFs could be clustered into two different subgroups. qPCR analysis indicated that transcript abundances of DkZF1/4 were significantly upregulated during AHCA treatment (1% O2 and 95% CO2) at day 1, DkZF2/5 at both day 1 and 2, while DkZF3 at day 2. Dual-luciferase assay indicated DkZF1 and DkZF2 as the activators of deastringency-related structural genes (DkPDC2 and DkADH1) and transcription factors (DkERF9/10). Moreover, combinative effects between various transcription factors were investigated, indicating that DkZF1 and DkZF2 synergistically showed significantly stronger activations on the DkPDC2 promoter. Further, both bimolecular fluorescence complementation (BiFC) and yeast two hybrid (Y2H) assays confirmed that DkZF2 had protein–protein interactions with DkZF1. Thus, these findings illustrate the regulatory mechanisms of zinc finger proteins for persimmon fruit deastringency under AHCA.
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Affiliation(s)
- Wajeeha Jamil
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Wei Wu
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Hui Gong
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Jing-Wen Huang
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Mudassar Ahmad
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Qing-Gang Zhu
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Rong Jin
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
- Agricultural Experiment Station, Zhejiang University, Zijingang Campus, Hangzhou 310058, China
| | - Xiao-Fen Liu
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
| | - Xue-Ren Yin
- Department of Horticulture, Zhejiang University, Hangzhou, Zhejiang 310058, China; (W.J.); (W.W.); (H.G.); (M.A.); (Q.-G.Z.); (R.J.); (X.-F.L.)
- The Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, the Ministry of Agriculture of China, Hangzhou, Zhejiang 310058, China
- Zhejiang Provincial Key Laboratory of Integrative Biology of Horticultural Plants, Hangzhou, Zhejiang 310058, China
- Correspondence: ; Tel.: +86-571-8898-2461
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Xie M, Sun J, Gong D, Kong Y. The Roles of Arabidopsis C1-2i Subclass of C2H2-type Zinc-Finger Transcription Factors. Genes (Basel) 2019; 10:E653. [PMID: 31466344 DOI: 10.3390/genes10090653] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Revised: 08/19/2019] [Accepted: 08/27/2019] [Indexed: 01/07/2023] Open
Abstract
The Cys2His2 (C2H2)-type zinc-finger protein (ZFP) family, which includes 176 members in Arabidopsis thaliana, is one of the largest families of putative transcription factors in plants. Of the Arabidopsis ZFP members, only 33 members are conserved in other eukaryotes, with 143 considered to be plant specific. C2H2-type ZFPs have been extensively studied and have been shown to play important roles in plant development and environmental stress responses by transcriptional regulation. The ethylene-responsive element binding-factor-associated amphiphilic repression (EAR) domain (GCC box) has been found to have a critical role in the tolerance response to abiotic stress. Many of the plant ZFPs containing the EAR domain, such as AZF1/2/3, ZAT7, ZAT10, and ZAT12, have been shown to function as transcriptional repressors. In this review, we mainly focus on the C1-2i subclass of C2H2 ZFPs and summarize the latest research into their roles in various stress responses. The role of C2H2-type ZFPs in response to the abiotic and biotic stress signaling network is not well explained, and amongst them, C1-2i is one of the better-characterized classifications in response to environmental stresses. These studies of the C1-2i subclass ought to furnish the basis for future studies to discover the pathways and receptors concerned in stress defense. Research has implied possible protein-protein interactions between members of C1-2i under various stresses, for which we have proposed a hypothetical model.
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13
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Han YC, Fu CC. Cold-inducible Ma C2H2s are associated with cold stress response of banana fruit via regulating MaICE1. Plant Cell Rep 2019; 38:673-680. [PMID: 30826844 DOI: 10.1007/s00299-019-02399-w] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [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: 12/10/2018] [Accepted: 02/23/2019] [Indexed: 05/21/2023]
Abstract
MaC2H2s are involved in cold stress response of banana fruit via repressing the transcription of MaICE1. Although C2H2 zinc finger proteins have been found to be involved in banana fruit ripening through transcriptional controlling of ethylene biosynthetic genes, their involvement in cold stress of banana remains elusive. In this study, another C2H2-ZFP gene from banana fruit was identified, which was named as MaC2H2-3. Gene expression analysis revealed that MaC2H2-1, MaC2H2-2 and MaC2H2-3 were cold inducible in the peel of banana during low temperature storage. MaC2H2-3 functions as a transcriptional repressor and localizes predominantly in nucleus. Particularly, promoters of MaC2H2-2 and MaC2H2-3 were noticeably activated by cold as well, further indicating the potential roles of C2H2 in cold stress of banana. Moreover, MaC2H2-2 and MaC2H2-3 significantly repressed the transcription of MaICE1, a key component in cold signaling pathway. Overall, these findings suggest that MaC2H2s may take part in controlling cold stress of banana through suppressing the transcription of MaICE1, providing new insight of the regulatory basis of C2H2 in cold stress.
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Affiliation(s)
- Yan-Chao Han
- Institute of Food Science, Zhejiang Academy of Agricultural Science, Key Laboratory of Post-Harvest Handing of Fruits, Ministry of Agriculture, Key Laboratory of Fruits and Vegetables Postharvest and Processing Technology Research of Zhejiang Province, Key Laboratory of China Light Industry, Hangzhou, 310021, People's Republic of China
| | - Chang-Chun Fu
- College of Biology and Environmental Engineering, Zhejiang Shuren University, Hangzhou, 310015, People's Republic of China.
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Jäppinen L, Jalkanen T, Sieber B, Addad A, Heinonen M, Kukk E, Radevici I, Paturi P, Peurla M, Shahbazi MA, Santos HA, Boukherroub R, Santos H, Lastusaari M, Salonen J. Enhanced Photoluminescence in Acetylene-Treated ZnO Nanorods. Nanoscale Res Lett 2016; 11:413. [PMID: 27644239 PMCID: PMC5028353 DOI: 10.1186/s11671-016-1627-y] [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] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/30/2016] [Accepted: 09/09/2016] [Indexed: 06/06/2023]
Abstract
Zinc oxide (ZnO) nanorods were manufactured using the aqueous chemical growth (ACG) method, and the effect of thermal acetylene treatment on their morphology, chemical composition, and optical properties was investigated. Changes in the elemental content of the treated rods were found to be different than in previous reports, possibly due to the different defect concentrations in the samples, highlighting the importance of synthesis method selection for the process. Acetylene treatment resulted in a significant improvement of the ultraviolet photoluminescence of the rods. The greatest increase in emission intensity was recorded on ZnO rods treated at the temperature of 825 °C. The findings imply that the changes brought on by the treatment are limited to the surface of the ZnO rods.
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Affiliation(s)
- Luke Jäppinen
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Tero Jalkanen
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Brigitte Sieber
- Unité Matériaux et Transformations, Université Lille 1, 59655 Villeneuve d’Ascq, France
| | - Ahmed Addad
- Unité Matériaux et Transformations, Université Lille 1, 59655 Villeneuve d’Ascq, France
| | - Markku Heinonen
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Edwin Kukk
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Ivan Radevici
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Petriina Paturi
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
| | - Markus Peurla
- Institute of Biomedicine, University of Turku, FI-20014 Turku, Finland
| | - Mohammad-Ali Shahbazi
- Division of Pharmaceutical Chemistry and Technology, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Hélder A. Santos
- Division of Pharmaceutical Chemistry and Technology, Faculty of Pharmacy, University of Helsinki, FI-00014 Helsinki, Finland
| | - Rabah Boukherroub
- Institut d’Electronique, de Microélectronique et de Nanotechnologie (IEMN), Université Lille 1, 59652 Villeneuve d’Ascq, France
| | - Hellen Santos
- Department of Chemistry, University of Turku, FI-20014 Turku, Finland
| | - Mika Lastusaari
- Department of Chemistry, University of Turku, FI-20014 Turku, Finland
| | - Jarno Salonen
- Department of Physics and Astronomy, University of Turku, FI-20014 Turku, Finland
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15
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Ma J, He X, Bai X, Niu Z, Duan B, Chen N, Shao X, Wan D. Genome-Wide Survey Reveals Transcriptional Differences Underlying the Contrasting Trichome Phenotypes of Two Sister Desert Poplars. Genes (Basel) 2016; 7:genes7120111. [PMID: 27916935 PMCID: PMC5192487 DOI: 10.3390/genes7120111] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2016] [Revised: 11/24/2016] [Accepted: 11/24/2016] [Indexed: 11/16/2022] Open
Abstract
Trichomes, which are widely used as an important diagnostic characteristic in plant species delimitation, play important roles in plant defense and adaptation to adverse environments. In this study, we used two sister poplar species, Populus pruinosa and Populus euphratica—which have, respectively, dense and sparse trichomes—to examine the genetic differences associated with these contrasting phenotypes. The results showed that 42 and 45 genes could be identified as candidate genes related to trichomes in P. pruinosa and P. euphratica, respectively; most of these genes possessed high degrees of diversification in their coding sequences, but they were similar in intron/exon structure in the two species. We also found that most of the candidate trichome genes were expressed at higher levels in P. pruinosa, which has dense trichomes, than in P. euphratica, where there are few trichomes. Based on analyses of transcriptional profiles, a total of 195 genes, including many transcription factors, were found to show distinct differences in expression. The results of gene function annotation suggested that the genes identified as having contrasting levels of expression level are mainly associated with trichome elongation, ATPase activity, and hormone transduction. Changes in the expression of these and other related genes with high sequence diversification may have contributed to the contrast in the pattern of trichome phenotypes between the two species.
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Affiliation(s)
- Jianchao Ma
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Xiaodong He
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Xiaotao Bai
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Zhimin Niu
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Bingbing Duan
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Ningning Chen
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Xuemin Shao
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
| | - Dongshi Wan
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Sciences, Lanzhou University, Lanzhou 730000, China.
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16
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Yan A, Wu M, Zhao Y, Zhang A, Liu B, Schiefelbein J, Gan Y. Involvement of C2H2 zinc finger proteins in the regulation of epidermal cell fate determination in Arabidopsis. J Integr Plant Biol 2014; 56:1112-7. [PMID: 24862531 DOI: 10.1111/jipb.12221] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [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: 04/03/2013] [Accepted: 05/21/2014] [Indexed: 05/20/2023]
Abstract
Cell fate determination is a basic developmental process during the growth of multicellular organisms. Trichomes and root hairs of Arabidopsis are both readily accessible structures originating from the epidermal cells of the aerial tissues and roots respectively, and they serve as excellent models for understanding the molecular mechanisms controlling cell fate determination and cell morphogenesis. The regulation of trichome and root hair formation is a complex program that consists of the integration of hormonal signals with a large number of transcriptional factors, including MYB and bHLH transcriptional factors. Studies during recent years have uncovered an important role of C2H2 type zinc finger proteins in the regulation of epidermal cell fate determination. Here in this minireview we briefly summarize the involvement of C2H2 zinc finger proteins in the control of trichome and root hair formation in Arabidopsis.
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Affiliation(s)
- An Yan
- Department of Agronomy, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, 310058, China
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17
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Tang L, Cai H, Ji W, Luo X, Wang Z, Wu J, Wang X, Cui L, Wang Y, Zhu Y, Bai X. Overexpression of GsZFP1 enhances salt and drought tolerance in transgenic alfalfa (Medicago sativa L.). Plant Physiol Biochem 2013; 71:22-30. [PMID: 23867600 DOI: 10.1016/j.plaphy.2013.06.024] [Citation(s) in RCA: 71] [Impact Index Per Article: 6.5] [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: 05/16/2013] [Accepted: 06/20/2013] [Indexed: 05/20/2023]
Abstract
GsZFP1 encodes a Cys2/His2-type zinc-finger protein. In our previous study, when GsZFP1 was heterologously expressed in Arabidopsis, the transgenic Arabidopsis plants exhibited enhanced drought and cold tolerance. However, it is still unknown whether GsZFP1 is also involved in salt stress. GsZFP1 is from the wild legume Glycine soja. Therefore, the aims of this study were to further elucidate the functions of the GsZFP1 gene under salt and drought stress in the forage legume alfalfa and to investigate its biochemical and physiological functions under these stress conditions. Our data showed that overexpression of GsZFP1 in alfalfa resulted in enhanced salt tolerance. Under high salinity stress, greater relative membrane permeability and malondialdehyde (MDA) content were observed and more free proline and soluble sugars accumulated in transgenic alfalfa than in the wild-type (WT) plants; in addition, the transgenic lines accumulated less Na(+) and more K(+) in both the shoots and roots. Overexpression of GsZFP1 also enhanced the drought tolerance of alfalfa. The fold-inductions of stress-responsive marker gene expression, including MtCOR47, MtRAB18, MtP5CS, and MtRD2, were greater in transgenic alfalfa than those of WT under drought stress conditions. In conclusion, the transgenic alfalfa plants generated in this study could be used for farming in salt-affected as well as arid and semi-arid areas.
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Affiliation(s)
- Lili Tang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China.
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Abstract
Paralog gene trees, which reflect the increase of genomic complexity in the evolution, can be complicated and ambiguous. A simpler complementary approach is analysis of density distribution of paralog pairs. It can reveal general features of genome evolution, which may be hidden in the forest of gene trees. It is known that distribution of human paralog pairs along the axis of protein divergence between pair members forms two main peaks. Here I show that there are three main peaks in the mouse genome. Thus, the multimodality of paralog pair distribution seems to be a fundamental feature of mammalian genomes. Despite the great diversity of domains presented in small amounts or in multidomain architectures with a few predominant domains, both in human and mouse the first peak consists mostly of gene pairs with zinc finger domains or olfactory receptor domain. In the mouse the olfactory receptor predominates, which stipulates the three-peak distribution (since in the olfactory receptors the second peak is closer to the first peak than in other genes). The mammalian-wide zinc finger orthologs are biased towards the second peak. Thus, the marsupial orthologs are nearly absent in the first peak of human and mouse. The gene pairs in the first peak show a lower ratio of nonsynonymous to synonymous substitutions, which suggests that their evolution is more constrained. The plausible explanation is that they are in subfunctionalization state (partition of initial function of ancestral gene), whereas the second peak contains gene pairs that are already in neofunctionalization state (acquiring of novel functions). These data suggest that the adaptive radiation of mammals was accompanied by a burst of duplication of zinc finger genes, which are located in the first (most recent) peak of paralog pairs.
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Abstract
The zinc finger motif was used as a vehicle for the initial discovery of Ikaros in the context of T-cell differentiation and has been central to all subsequent analyses of Ikaros function. The Ikaros gene is alternately spliced to produce several isoforms that confer diversity of function and consequently have complicated analysis of the function of Ikaros in vivo. Key features of Ikaros in vivo function are associated with six C2H2 zinc fingers; four of which are alternately incorporated in the production of the various Ikaros isoforms. Although no complete structures are available for the Ikaros protein or any of its family members, considerable evidence has accumulated about the structure of zinc fingers and the role that this structure plays in the functions of the Ikaros family of proteins. This review summarizes the structural aspects of Ikaros zinc fingers, individually, and in tandem to provide a structural context for Ikaros function and to provide a structural basis to inform the design of future experiments with Ikaros and its family members.
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Affiliation(s)
- Marvin A Payne
- Department of Chemistry and Biochemistry, La Sierra University, 4500 Riverwalk Parkway, Riverside, CA, USA
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