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Determining novel functions of Arabidopsis 14-3-3 proteins in central metabolic processes

Celine Diaz, Miyako Kusano, Ronan Sulpice, Mitsutaka Araki, Henning Redestig, Kazuki Saito, Mark Stitt, Ryoung Shin
2011 BMC Systems Biology  
Results: In this study, extensive novel roles of 14-3-3 proteins in plant metabolism were determined through combining the parallel analyses of metabolites and enzyme activities in 14-3-3 overexpression  ...  In plants, 14-3-3 proteins have major roles as regulators of nitrogen and carbon metabolism, conclusions based on the studies of a few specific 14-3-3 targets.  ...  In this study, we provide a novel functional link between 14-3-3 proteins and TCA cycle.  ... 
doi:10.1186/1752-0509-5-192 pmid:22104211 pmcid:PMC3253775 fatcat:ozvzkt3bprecrc36ewgpevuq3y

Novel links in the plant TOR kinase signaling network

Yan Xiong, Jen Sheen
2015 Current opinion in plant biology  
The target of rapamycin (TOR) protein kinase is modulated by diverse nutrient, energy, hormone and stress inputs and plays a central role in regulating cell proliferation, growth, metabolism and stress  ...  This review discusses the applications of new chemical tools to probe plant TOR functions and highlights recent findings and predictions on TOR-mediate biological processes.  ...  Y.X. is supported by Chinese Academy of Sciences.  ... 
doi:10.1016/j.pbi.2015.09.006 pmid:26476687 pmcid:PMC4612364 fatcat:qpmvu4g6izetxodhd7mkm3wv5u

A large-scale protein phosphorylation analysis reveals novel phosphorylation motifs and phosphoregulatory networks in Arabidopsis

Xu Wang, Yangyang Bian, Kai Cheng, Li-Fei Gu, Mingliang Ye, Hanfa Zou, Samuel Sai-Ming Sun, Jun-Xian He
2013 Journal of Proteomics  
Gene ontology and pathway analyses revealed that many of the new identified phosphoproteins are important regulatory proteins that are involved in diverse biological processes, particularly in central  ...  Taken together, our results provided not only new insights into the complex phosphoregulatory network in plants but also important resources for future functional studies of protein phosphorylation in  ...  by 14-3-3 proteins.  ... 
doi:10.1016/j.jprot.2012.10.018 pmid:23111157 fatcat:xiwpojsxbjdlxinjvh5ewjmm2e

Auxin Induces Widespread Proteome Remodeling in Arabidopsis Seedlings

Natalie M. Clark, Zhouxin Shen, Steven P. Briggs, Justin W. Walley, Dior R. Kelley
2019 Proteomics  
Additionally, functional categorization of these auxin responsive proteins indicates that rapid and complex metabolic changes occur in seedlings in response to auxin, including lipid metabolism.  ...  Approximately 25% of the detected proteins (1045 out of 4257 proteins) are auxin responsive, which is in line with the central role of auxin in the regulation of plant growth and development.  ...  These datasets provide a rich resource for mining novel protein function.  ... 
doi:10.1002/pmic.201900199 pmid:31381813 fatcat:ekxwun5byfd53jxqzcb5zvxizm

Experimental Analysis of the Arabidopsis Mitochondrial Proteome Highlights Signaling and Regulatory Components, Provides Assessment of Targeting Prediction Programs, and Indicates Plant-Specific Mitochondrial Proteins

J. L. Heazlewood
2004 The Plant Cell  
These show a clear set of putative cross-species orthologs in the core metabolic functions of mitochondria, whereas considerable diversity exists in many signaling and regulatory functions.  ...  Nearly 20% of the experimentally identified proteins are of unknown function, suggesting a wealth of undiscovered mitochondrial functions in plants.  ...  processing 2 2 7 9 9 (2%) Transcription 1 0 7 7 8 (2%) RNA processing 3 3 11 14 14 (3%) Protein synthesis 4 3 11 14 15 (4%) Defense, stress, detoxification 8 6 8 14 16 (4%  ... 
doi:10.1105/tpc.016055 pmid:14671022 pmcid:PMC301408 fatcat:6aihjhc7k5hy5keq7psi5xd5wy

Identification of AUXIN RESPONSE FACTOR gene family from Prunus sibirica and its expression analysis during mesocarp and kernel development

Jun Niu, Quanxin Bi, Shuya Deng, Huiping Chen, Haiyan Yu, Libing Wang, Shanzhi Lin
2018 BMC Plant Biology  
To our knowledge, the comprehensive and systematic characterization of ARF genes has never been reported in Prunus sibirica, a novel woody biodiesel feedstock in China.  ...  Auxin response factors (ARFs) in auxin signaling pathway are an important component that can regulate the transcription of auxin-responsive genes involved in almost all aspects of plant growth and development  ...  These funding agencies had no role in the design of the study and collection, analysis, and interpretation of data and in writing the manuscript.  ... 
doi:10.1186/s12870-017-1220-2 pmid:29368590 pmcid:PMC5784662 fatcat:e7wqxycprbcd7jsbiksma34mmi

Dynamic and diverse sugar signaling

Lei Li, Jen Sheen
2016 Current opinion in plant biology  
Comparative transcriptome analyses highlight the primary and dynamic sugar responses and reveal the convergent and specific regulators of key biological processes in the sugar-signaling network.  ...  Direct sensing and signaling is triggered via sugar-binding sensors with a broad range of affinity and specificity, whereas sugar-derived bioenergetic molecules and metabolites modulate signaling proteins  ...  Acknowledgements We thank Matthew McCormack for guidance in transcriptom analyses.  ... 
doi:10.1016/j.pbi.2016.06.018 pmid:27423125 pmcid:PMC5050104 fatcat:xqk6lykt2vca3oqn4knxvxka7y

Expression-based network biology identifies immune-related functional modules involved in plant defense

Joel P Tully, Aubrey E Hill, Hadia MR Ahmed, Ryan Whitley, Anthony Skjellum, M Mukhtar
2014 BMC Genomics  
Gene Ontology (GO) enrichment analyses provided insight into the key biological processes involved in determining finely tuned immune responses.  ...  We also developed novel software called OCCEAN (One Click Cis-regulatory Elements ANalysis) to discover statistically enriched promoter elements in the upstream regulatory regions of Arabidopsis at a whole  ...  Jessica Lopez for critical reading of the manuscript and valuable suggestions.  ... 
doi:10.1186/1471-2164-15-421 pmid:24888606 pmcid:PMC4070563 fatcat:iobt6d2cy5gffinu7isv6c3ele

14-3-3 Proteins, red light, and photoperiodic flowering

Anna-Lisa Paul, Kevin M. Folta, Robert J. Ferl
2008 Plant Signalling & Behavior  
confounding issues in the functional dissection of this family of signaling proteins.  ...  This review presents an overview of photoperiodic flowering signaling and direct 14-3-3 participation in the process, coupled with a discussion of the overlapping and specific roles of 14-3-3s which present  ...  Examination of a larger set of 14-3-3 isoforms may better define the roles of 14-3-3 isofoms in this process.  ... 
doi:10.4161/psb.3.8.5717 pmid:19513242 pmcid:PMC2634483 fatcat:45ka4ji7wjbs7agfufq4ufwxb4

A Proteomic Analysis of Seed Development in Brassica campestri L

Wenlan Li, Yi Gao, Hong Xu, Yu Zhang, Jianbo Wang, Ive De Smet
2012 PLoS ONE  
Our results revealed novel characters of protein dynamics in seed development in Brassica campestri L. and provided valuable information about the complex process of seed development in plants.  ...  Besides, the high amount of proteins involved in protein processing and destination indicated importance of protein renewal during seed development.  ...  Therefore, identification of AKT2/3 suggested its novel role in seed development.  ... 
doi:10.1371/journal.pone.0050290 pmid:23189193 pmcid:PMC3506616 fatcat:7f7tuaf6bnch3b5g4ylxhyfqo4

D-Amino Acids in Plants: New Insights and Aspects, but also More Open Questions [chapter]

Üner Kolukisaoglu, Juan Suarez
2017 Amino Acid - New Insights and Roles in Plant and Animal  
Investigations of plant D-amino acid metabolism as well as other studies revealed a central function of D-Ala in plants, which await further elucidation.  ...  for a variety of yet poorly understood or even undiscovered functions in plants.  ...  Studies of Juan Suarez on the effects of D-AAs on Arabidopsis were supported by the DeutscherAkademischerAustauschdienst (DAAD 91567028).  ... 
doi:10.5772/intechopen.68539 fatcat:dpce6ofxlfbsjhlwha65fpvwzm

The Sugar-Signaling Hub: Overview of Regulators and Interaction with the Hormonal and Metabolic Network

Soulaiman Sakr, Ming Wang, Fabienne Dédaldéchamp, Maria-Dolores Perez-Garcia, Laurent Ogé, Latifa Hamama, Rossitza Atanassova
2018 International Journal of Molecular Sciences  
acting in the interplay of the sugar-hormone and sugar-nitrogen networks.  ...  Their optimization requires the integration of signals conveying the plant metabolic status, its hormonal balance, and its developmental stage.  ...  Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/ijms19092506 pmid:30149541 fatcat:fhrtxliwgrfvdg7q5ngeaun364

RNA-seq-based digital gene expression analysis reveals modification of host defense responses by rice stripe virus during disease symptom development in Arabidopsis

Feng Sun, Peng Fang, Juan Li, Linlin Du, Ying Lan, Tong Zhou, Yongjian Fan, Wenbiao Shen, Yijun Zhou
2016 Virology Journal  
Functional annotation indicated that these DEGs were related to multiple biological functions, including defense response, secondary metabolism, protein amino acid phosphorylation and response to abiotic  ...  However, our knowledge of the response of Arabidopsis plants to RSV infection is limited, and it requires further investigation to determine the similarities (or differences) in virus-host interactions  ...  Western blotting To determine RSV CP protein accumulation in Arabidopsis plants, RSV-infected Arabidopsis total proteins were extracted from 0.1 g of ground plant material in 200 μl of 2 × SDS-loading  ... 
doi:10.1186/s12985-016-0663-7 pmid:27912765 pmcid:PMC5134058 fatcat:3k7js3bqmfewbjnxzdemziiv64

Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots

Elena A Vidal, Tomás C Moyano, Gabriel Krouk, Manpreet S Katari, Milos Tanurdzic, W McCombie, Gloria M Coruzzi, Rodrigo A Gutiérrez
2013 BMC Genomics  
Results: In this work, we employed the Illumina high throughput sequencing technology to perform an integrated analysis of the poly-A + enriched and the small RNA fractions of the Arabidopsis thaliana  ...  miRNA/TARGET module consisting of a novel microRNA, miR5640 and its target, AtPPC3.  ...  Although there has been an extensive biochemical characterization of the AtPPCs enzymes in Arabidopsis, there are no reports of their function in N metabolism.  ... 
doi:10.1186/1471-2164-14-701 pmid:24119003 pmcid:PMC3906980 fatcat:3k24xl6tdvgmnaigrpwxutps2a

Posttranscriptional control of plant development

Yulan Cheng, Xuemei Chen
2004 Current opinion in plant biology  
Although some of these proteins belong to core RNA metabolic machineries, others may have more specialized cellular functions.  ...  Genetic studies have provided increasing evidence that proteins involved in all aspects of RNA metabolism, such as RNA processing, transport, stability, and translation, are required for plant development  ...  Mol Cell. 1999; 3:349-360. [PubMed: 10198637] 30. Chen X, Liu J, Cheng Y, Jia D. HEN1 functions pleiotropically in Arabidopsis development and acts in C function in the flower.  ... 
doi:10.1016/j.pbi.2003.11.005 pmid:14732437 pmcid:PMC5125221 fatcat:fsojv2lqrzgavd2a53fmee7a5y
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