{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,21]],"date-time":"2026-04-21T19:42:01Z","timestamp":1776800521813,"version":"3.51.2"},"reference-count":65,"publisher":"MDPI AG","issue":"6","license":[{"start":{"date-parts":[[2020,3,11]],"date-time":"2020-03-11T00:00:00Z","timestamp":1583884800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001352","name":"National University of Singapore","doi-asserted-by":"publisher","award":["R-180-000-016-733; NRF-CRP7-2010-02"],"award-info":[{"award-number":["R-180-000-016-733; NRF-CRP7-2010-02"]}],"id":[{"id":"10.13039\/501100001352","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003397","name":"Huazhong University of Science and Technology","doi-asserted-by":"publisher","award":["513-3004513113"],"award-info":[{"award-number":["513-3004513113"]}],"id":[{"id":"10.13039\/501100003397","id-type":"DOI","asserted-by":"publisher"}]},{"name":"the Chinese Academy of Sciences","award":["KJZD-EW-G20-01"],"award-info":[{"award-number":["KJZD-EW-G20-01"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IJMS"],"abstract":"<jats:p>Dwarfism and semi-dwarfism are among the most valuable agronomic traits in crop breeding, which were adopted by the \u201cGreen Revolution\u201d. Previously, we reported a novel semi-dwarf rice mutant (oscyp96b4) derived from the insertion of a single copy of Dissociator (Ds) transposon into the gene OsCYP96B4. However, the systems metabolic effect of the mutation is not well understood, which is important for understanding the gene function and developing new semi-dwarf mutants. Here, the metabolic phenotypes in the semi-dwarf mutant (M) and ectopic expression (ECE) rice line were compared to the wild-type (WT) rice, by using nuclear magnetic resonance (NMR) metabolomics and quantitative real-time polymerase chain reaction (qRT-PCR). Compared with WT, ECE of the OsCYP96B4 gene resulted in significant increase of \u03b3-aminobutyrate (GABA), glutamine, and alanine, but significant decrease of glutamate, aromatic and branched-chain amino acids, and some other amino acids. The ECE caused significant increase of monosaccharides (glucose, fructose), but significant decrease of disaccharide (sucrose); induced significant changes of metabolites involved in choline metabolism (phosphocholine, ethanolamine) and nucleotide metabolism (adenosine, adenosine monophosphate, uridine). These metabolic profile alterations were accompanied with changes in the gene expression levels of some related enzymes, involved in GABA shunt, glutamate and glutamine metabolism, choline metabolism, sucrose metabolism, glycolysis\/gluconeogenesis pathway, tricarboxylic acid (TCA) cycle, nucleotide metabolism, and shikimate-mediated secondary metabolism. The semi-dwarf mutant showed corresponding but less pronounced changes, especially in the gene expression levels. It indicates that OsCYP96B4 gene mutation in rice causes significant alteration in amino acid metabolism, carbohydrate metabolism, nucleotide metabolism, and shikimate-mediated secondary metabolism. The present study will provide essential information for the OsCYP96B4 gene function analysis and may serve as valuable reference data for the development of new semi-dwarf mutants.<\/jats:p>","DOI":"10.3390\/ijms21061924","type":"journal-article","created":{"date-parts":[[2020,3,12]],"date-time":"2020-03-12T04:13:57Z","timestamp":1583986437000},"page":"1924","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":14,"title":["Systems Metabolic Alteration in a Semi-Dwarf Rice Mutant Induced by OsCYP96B4 Gene Mutation"],"prefix":"10.3390","volume":"21","author":[{"given":"Limiao","family":"Jiang","sequence":"first","affiliation":[{"name":"Department of Epidemiology and Biostatistics, MOE Key Lab of Environment and Health, School of Public Health, Tongji Medical College, Huazhong University of Science and Technology, 13 Hangkong Road, Wuhan 430030, China"},{"name":"Department of Diagnostic Radiology, Yong Loo Lin School of Medicine, National University of Singapore, 5 Lower Kent Ridge Road, Singapore 119074, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rengasamy","family":"Ramamoorthy","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Faculty of Science, National University of Singapore, Singapore 117543, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Srinivasan","family":"Ramachandran","sequence":"additional","affiliation":[{"name":"Temasek Life Sciences Laboratory, 1 Research Link National University of Singapore, Singapore 117604, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Prakash P.","family":"Kumar","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Faculty of Science, National University of Singapore, Singapore 117543, Singapore"},{"name":"NUS Environmental Research Institute (NERI), 5A Engineering Drive 1, Singapore 117411, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2020,3,11]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1126\/science.1068037","article-title":"A draft sequence of the rice genome (Oryza sativa L. ssp indica)","volume":"296","author":"Yu","year":"2002","journal-title":"Science"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"646","DOI":"10.1139\/g99-044","article-title":"Green revolution: Preparing for the 21st century","volume":"42","author":"Khush","year":"1999","journal-title":"Genome"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"924","DOI":"10.1104\/pp.106.077081","article-title":"Morphological alteration caused by brassinosteroid insensitivity increases the biomass and grain production of rice","volume":"141","author":"Morinaka","year":"2006","journal-title":"Plant Physiol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1016\/S0065-2113(04)84005-7","article-title":"Understanding and reducing lodging in cereals","volume":"84","author":"Berry","year":"2004","journal-title":"Adv. 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