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Zhao Y, Wang T, Wan S, Tong Y, Wei Y, Li P, Hu N, Liu Y, Chen H, Pan X, Zhang B, Peng R, Hu S. Genome-wide identification and functional analysis of the SiCIN gene family in foxtail millet (Setaria italica L.). Gene 2024; 921:148499. [PMID: 38718970 DOI: 10.1016/j.gene.2024.148499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2024] [Revised: 04/18/2024] [Accepted: 04/22/2024] [Indexed: 05/13/2024]
Abstract
Cell wall invertase (CIN) is a vital member of plant invertase (INV) and plays a key role in the breakdown of sucrose. This enzyme facilitates the hydrolysis of sucrose into glucose and fructose, which is crucial for various aspects of plant growth and development. However, the function of CIN genes in foxtail millet (Setaria italica) is less studied. In this research, we used the blast-p of NCBI and TBtools for bidirectional comparison, and a total of 13 CIN genes (named SiCINs) were identified from foxtail millet by using Arabidopsis and rice CIN sequences as reference sequences. The phylogenetic tree analysis revealed that the CIN genes can be categorized into three subfamilies: group 1, group 2, and group 3. Furthermore, upon conducting chromosomal localization analysis, it was observed that the 13 SiCINs were distributed unevenly across five chromosomes. Cis-acting elements of SiCIN genes can be classified into three categories: plant growth and development, stress response, and hormone response. The largest number of cis-acting elements were those related to light response (G-box) and the cis-acting elements related to seed-specific regulation (RY-element). qRT-PCR analysis further confirmed that the expression of SiCIN7 and SiCIN8 in the grain was higher than that in any other tissues. The overexpression of SiCIN7 in Arabidopsis improved the grain size and thousand-grain weight, suggesting that SiCIN7 could positively regulate grain development. Our findings will help to further understand the grain-filling mechanism of SiCIN and elucidate the biological mechanism underlying the grain development of SiCIN.
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Affiliation(s)
- Yongqing Zhao
- College of Agricultural, Tarim University, Alar 843300, Xinjiang, China; College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China; Key Laboratory of Genetic Improvement and Efficient Production for Specialty Crops in Arid Southern Xinjiang of Xinjiang Corp, China
| | - Tao Wang
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Sumei Wan
- College of Agricultural, Tarim University, Alar 843300, Xinjiang, China; Key Laboratory of Genetic Improvement and Efficient Production for Specialty Crops in Arid Southern Xinjiang of Xinjiang Corp, China
| | - Yan Tong
- Anyang Academy of Agriculture Sciences, Anyang 455000, Henan, China
| | - Yangyang Wei
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Pengtao Li
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Nan Hu
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Yuling Liu
- College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China
| | - Hongqi Chen
- Anyang Academy of Agriculture Sciences, Anyang 455000, Henan, China
| | - Xiaoping Pan
- Department of Biology, East Carolina University, Greenville, NC 27858, United States
| | - Baohong Zhang
- Department of Biology, East Carolina University, Greenville, NC 27858, United States.
| | - Renhai Peng
- College of Agricultural, Tarim University, Alar 843300, Xinjiang, China; College of Biology and Food Engineering, Anyang Institute of Technology, Anyang 455000, Henan, China; Key Laboratory of Genetic Improvement and Efficient Production for Specialty Crops in Arid Southern Xinjiang of Xinjiang Corp, China.
| | - Shoulin Hu
- College of Agricultural, Tarim University, Alar 843300, Xinjiang, China; Key Laboratory of Genetic Improvement and Efficient Production for Specialty Crops in Arid Southern Xinjiang of Xinjiang Corp, China.
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Liu H, Wang Z, Xu W, Zeng J, Li L, Li S, Gao Z. Bacillus pumilus LZP02 Promotes Rice Root Growth by Improving Carbohydrate Metabolism and Phenylpropanoid Biosynthesis. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2020; 33:1222-1231. [PMID: 32597697 DOI: 10.1094/mpmi-04-20-0106-r] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Elucidation of the underlying mechanisms of plant growth promotion of rhizobacteria is very important. This study explored the mechanism by which Bacillus pumilus LZP02 promotes growth in rice roots through proteomic, transcriptomic, and metabolomic techniques. The results showed that B. pumilus LZP02 promoted the absorption of phosphorous, calcium, and magnesium ions by colonization of rice roots and enhanced peroxidase, catalase, superoxide dismutase, and Ca2+Mg2+ adenosine triphosphatase activities and chlorophyll contents in rice. The proteomic results showed that most of the differentially expressed proteins were involved in carbohydrate metabolism and that the biosynthesis of other secondary metabolites was also increased. According to RNA-seq and reverse transcription-quantitative PCR analyses, expression of some genes involved in carbohydrate metabolism and phenylpropanoid biosynthesis was upregulated in rice roots. Regarding metabolomics, phenylpropanoid biosynthesis, starch and sucrose metabolism, the pentose phosphate pathway, and glyoxylate and dicarboxylate metabolism were increased. The results indicated that B. pumilus LZP02 promoted the growth of rice roots by enhancing carbohydrate metabolism and phenylpropanoid biosynthesis.
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Affiliation(s)
- Hong Liu
- College of Life Science and Agroforestry, Qiqihar University, Qiqihar 161006, China
- Heilongjiang Provincial Technology Innovation center of Agromicrobial Preparation Industrialization, Qiqihar 161006, China
| | - Zhigang Wang
- College of Life Science and Agroforestry, Qiqihar University, Qiqihar 161006, China
- Heilongjiang Provincial Technology Innovation center of Agromicrobial Preparation Industrialization, Qiqihar 161006, China
| | - Weihui Xu
- College of Life Science and Agroforestry, Qiqihar University, Qiqihar 161006, China
- Heilongjiang Provincial Technology Innovation center of Agromicrobial Preparation Industrialization, Qiqihar 161006, China
| | - Jin Zeng
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210000, China
| | - Lixin Li
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, Harbin 150040, China
| | - Shenglin Li
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, Harbin 150040, China
| | - Zheng Gao
- College of Life Sciences, Shandong Agricultural University, Ta'an 271000, China
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A gas chromatography-mass spectrometry based study on urine metabolomics in rats chronically poisoned with hydrogen sulfide. BIOMED RESEARCH INTERNATIONAL 2015; 2015:295241. [PMID: 25954748 PMCID: PMC4411453 DOI: 10.1155/2015/295241] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/22/2014] [Revised: 08/21/2014] [Accepted: 08/23/2014] [Indexed: 11/18/2022]
Abstract
Gas chromatography-mass spectrometry (GS-MS) in combination with multivariate statistical analysis was applied to explore the metabolic variability in urine of chronically hydrogen sulfide- (H2S-) poisoned rats relative to control ones. The changes in endogenous metabolites were studied by partial least squares-discriminate analysis (PLS-DA) and independent-samples t-test. The metabolic patterns of H2S-poisoned group are separated from the control, suggesting that the metabolic profiles of H2S-poisoned rats were markedly different from the controls. Moreover, compared to the control group, the level of alanine, d-ribose, tetradecanoic acid, L-aspartic acid, pentanedioic acid, cholesterol, acetate, and oleic acid in rat urine of the poisoning group decreased, while the level of glycine, d-mannose, arabinofuranose, and propanoic acid increased. These metabolites are related to amino acid metabolism as well as energy and lipid metabolism in vivo. Studying metabolomics using GC-MS allows for a comprehensive overview of the metabolism of the living body. This technique can be employed to decipher the mechanism of chronic H2S poisoning, thus promoting the use of metabolomics in clinical toxicology.
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Behnke K, Kaiser A, Zimmer I, Brüggemann N, Janz D, Polle A, Hampp R, Hänsch R, Popko J, Schmitt-Kopplin P, Ehlting B, Rennenberg H, Barta C, Loreto F, Schnitzler JP. RNAi-mediated suppression of isoprene emission in poplar transiently impacts phenolic metabolism under high temperature and high light intensities: a transcriptomic and metabolomic analysis. PLANT MOLECULAR BIOLOGY 2010; 74:61-75. [PMID: 20526857 PMCID: PMC3128716 DOI: 10.1007/s11103-010-9654-z] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2009] [Accepted: 05/21/2010] [Indexed: 05/04/2023]
Abstract
In plants, isoprene plays a dual role: (a) as thermo-protective agent proposed to prevent degradation of enzymes/membrane structures involved in photosynthesis, and (b) as reactive molecule reducing abiotic oxidative stress. The present work addresses the question whether suppression of isoprene emission interferes with genome wide transcription rates and metabolite fluxes in grey poplar (Populus x canescens) throughout the growing season. Gene expression and metabolite profiles of isoprene emitting wild type plants and RNAi-mediated non-isoprene emitting poplars were compared by using poplar Affymetrix microarrays and non-targeted FT-ICR-MS (Fourier transform ion cyclotron resonance mass spectrometry). We observed a transcriptional down-regulation of genes encoding enzymes of phenylpropanoid regulatory and biosynthetic pathways, as well as distinct metabolic down-regulation of condensed tannins and anthocyanins, in non-isoprene emitting genotypes during July, when high temperature and light intensities possibly caused transient drought stress, as indicated by stomatal closure. Under these conditions leaves of non-isoprene emitting plants accumulated hydrogen peroxide (H(2)O(2)), a signaling molecule in stress response and negative regulator of anthocyanin biosynthesis. The absence of isoprene emission under high temperature and light stress resulted transiently in a new chemo(pheno)type with suppressed production of phenolic compounds. This may compromise inducible defenses and may render non-isoprene emitting poplars more susceptible to environmental stress.
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Affiliation(s)
- Katja Behnke
- Institute for Meteorology and Climate Research (IMK-IFU), Karlsruhe Institute of Technology (KIT), Kreuzeckbahnstr. 19, 82467 Garmisch-Partenkirchen, Germany
| | - Andreas Kaiser
- Institute for Meteorology and Climate Research (IMK-IFU), Karlsruhe Institute of Technology (KIT), Kreuzeckbahnstr. 19, 82467 Garmisch-Partenkirchen, Germany
| | - Ina Zimmer
- Institute for Meteorology and Climate Research (IMK-IFU), Karlsruhe Institute of Technology (KIT), Kreuzeckbahnstr. 19, 82467 Garmisch-Partenkirchen, Germany
| | - Nicolas Brüggemann
- Institute for Meteorology and Climate Research (IMK-IFU), Karlsruhe Institute of Technology (KIT), Kreuzeckbahnstr. 19, 82467 Garmisch-Partenkirchen, Germany
| | - Dennis Janz
- Forest Botany and Tree Physiology, Büsgen-Institute, Georg-August-University Göttingen, Büsgenweg 2, 37077 Göttingen, Germany
| | - Andrea Polle
- Forest Botany and Tree Physiology, Büsgen-Institute, Georg-August-University Göttingen, Büsgenweg 2, 37077 Göttingen, Germany
| | - Rüdiger Hampp
- Physiological Ecology of Plants, Botanical Institute, Eberhard-Karls-University Tübingen, Auf der Morgenstelle 1, 72076 Tübingen, Germany
| | - Robert Hänsch
- Institute for Plant Biology, Technical University of Braunschweig, Humboldtstrasse 1, 38206 Braunschweig, Germany
| | - Jennifer Popko
- Institute for Plant Biology, Technical University of Braunschweig, Humboldtstrasse 1, 38206 Braunschweig, Germany
| | - Philippe Schmitt-Kopplin
- Institute for Ecological Chemistry, Helmholtz Center Munich, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany
| | - Barbara Ehlting
- Institute for Forest Botany and Tree Physiology, Albert-Ludwigs-University Freiburg, Georges-Koehler-Allee 053/054, 79110 Freiburg, Germany
- Department of Biology, University of Victoria, 3800 Finnerty Rd, Victoria, BC V8P 5C2 Canada
| | - Heinz Rennenberg
- Institute for Forest Botany and Tree Physiology, Albert-Ludwigs-University Freiburg, Georges-Koehler-Allee 053/054, 79110 Freiburg, Germany
| | - Csengele Barta
- Istituto di Biologia Agroambientale e Forestale (IBAF)—Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015, Monterotondo, Roma, Italy
| | - Francesco Loreto
- Istituto per la Protezione delle Piante (IPP), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca del CNR di Firenze, Via Madonna del Piano 10, 50019 Sesto Fiorentino Firenze, Italy
| | - Jörg-Peter Schnitzler
- Institute for Meteorology and Climate Research (IMK-IFU), Karlsruhe Institute of Technology (KIT), Kreuzeckbahnstr. 19, 82467 Garmisch-Partenkirchen, Germany
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