A year (2014–2015) of plants in <i>Proteomics</i> journal. Progress in wet and dry methodologies, moving from protein catalogs, and the view of classic plant biochemists

Sánchez-Lucas, Rosa; Mehta, Ângela; Valledor, Luís; Cabello‐Hurtado, Francisco; Romero-Rodríguez, M. Cristina; Simova‐Stoilova, Lyudmila; Demir, S.; Rodriguez‐de‐Francisco, Luis E.; Maldonado‐Alconada, Ana M.; Jorrin‐Prieto, Ana L.; Jorrín‐Novo, Jesús V.

doi:10.1002/pmic.201500351

Cited by 10 publications

(10 citation statements)

References 121 publications

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“…One advantage of label‐based methods is that two (or more) differently labeled samples can be mixed and run in single LC‐MS/MS analyses . However, these techniques are limited by expensive isotope labels and limitations in the number of samples analyzed in a single experiment; thus, compared with label‐free methods, label‐based methods are less universally applicable to all types of samples …”

Section: Evolution Of the Plant Proteomic Platformmentioning

confidence: 99%

Insights from Proteomic Studies into Plant Somatic Embryogenesis

2018

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Somatic embryogenesis is a biotechnological approach mainly used for the clonal propagation of different plants worldwide. In somatic embryogenesis, embryos arise from somatic cells under appropriate culture conditions. This plasticity in plants is a demonstration of true cellular totipotency and is the best approach among the genetic transformation protocols used for plant regeneration. Despite the importance of somatic embryogenesis, knowledge regarding the control of the somatic embryogenesis process is limited. Therefore, the elucidation of both the biochemical and molecular processes is important for understanding the mechanisms by which a single somatic cell becomes a whole plant. Modern proteomic techniques rely on an alternative method for the identification and quantification of proteins with different abundances in embryogenic cell cultures or somatic embryos and enable the identification of specific proteins related to somatic embryogenesis development. This review focuses on somatic embryogenesis studies that use gel-free shotgun proteomic analyses to categorize proteins that could enhance our understanding of particular aspects of the somatic embryogenesis process and identify possible targets for future studies.

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Section: Evolution Of the Plant Proteomic Platformmentioning

confidence: 99%

Insights from Proteomic Studies into Plant Somatic Embryogenesis

2018

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“…[19,20] Utilizing appropriate proteomics approaches and analysis tools, the variation in protein expression induced by changing environmental conditions, different developmental stages, or tissue types can be examined. [21][22][23][24] Some software programs has been used to analyze the proteome, which included but are not limited to proteome profiling, protein quantification, protein modification, and protein-protein interaction. [25] To find the meaningful biological changes and advancing biological discoveries in A. auricula, the further development and application of proteomic methodologies are necessary.…”

Section: Introductionmentioning

confidence: 99%

Effective protein extraction from mycelium and fruiting body of Auricularia auricula for proteomics studies

Luo

Yue-xin

Yan

et al. 2018

International Journal of Food Properties

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Auricularia auricula is one of the most popular edible mushrooms in China. Limited information is available regarding genes and proteins related to A. auricula development from mycelium to mature fruiting body and response to environmental stimuli. With the development of proteomics, this technology platform for addressing this problem is available. A critical step of a good proteome is protein extraction which can gives the best quality and a wide coverage of total proteins. To establish an effective protein extraction protocol suitable for proteomics analysis in mycelium and fruiting body of A. auricula, four previously reported protein extraction protocols including direct extraction, trichloroacetic acid (TCA) precipitation, TCA/acetone precipitation and phenol-based extraction, were compared based on the protein yield and 2-DE patterns. The efficiency of the four methods was evaluated by comparing protein yield and 2-DE patterns. Of the four methods, both TCA precipitation and phenol-based extraction method for A. auricula mycelia protein extraction yielded the good protein separation pattern and higher number of protein spots in 2-DE analysis. Furthermore, phenol-based extraction is superior to the other tested methods for A. auricula fruiting body proteome analysis .

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“…They are based on numerous studies which have a decisive participation of analytical techniques, contributing to the research and elucidation of various aspects of important metabolic processes of biological systems, among others. 9,10 In this context, the proteins stand out for its participation in several events in the biological system, where the analysis of possible changes in their expressions has been the main focus of the studies involving proteomics of plants, since they provide valuable information about the status of the biological system as can be observed in the literature. [11][12][13] Therefore, the choice of the sample preparation procedure becomes a fundamental stage of the analytical process and the proper optimization of this step is crucial to the results obtained, since they demonstrate the biological variation and not the presence of systematic errors in the analysis.…”

Section: Introductionmentioning

confidence: 99%

Sample Preparation Applied to Analysis of Proteins in Cowpea Seeds (Vigna unguiculata (L.) Walp.)

Nascimento

Coelho

Júnior

et al. 2018

J. Braz. Chem. Soc.

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In this study, 20 different protocols for protein extraction of cowpea seeds in natura were evaluated taking into account four parameters: cell disruption method, time, temperature and solvent. Factorial design experiments were executed to determine the effects on the total protein content of extracts. The total protein content was determined and the results were in the range of 8.75 ± 1.3 and 86.6 ± 6.9 mg g-1. The richest protein extracts were obtained using Tris-HCl buffer at 50 °C for 20 min for each assessed cell disruption method. However, the results using water were similar to buffer according to t-test at the 95% confidence level. Six protocols demonstrated higher extraction efficiency. Comparative proteomic study using size exclusion chromatography coupled to diode array detector (SEC-DAD) revealed that the one protocol extracted simultaneously high and low molecular mass biomolecules. In fact, the effect of microwave radiation promoted an increased solubility of biomolecules in water. The analysis of chromatographic profiles for principal component analysis (PCA) highlights the greater efficiency of extraction with the application of this protocol. Therefore, our study showed that the optimum condition for extraction of cowpea seed protein consists of water assisted by microwave radiation at 50 °C for 20 min.

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A year (2014–2015) of plants in Proteomics journal. Progress in wet and dry methodologies, moving from protein catalogs, and the view of classic plant biochemists

Cited by 10 publications

References 121 publications

Insights from Proteomic Studies into Plant Somatic Embryogenesis

Insights from Proteomic Studies into Plant Somatic Embryogenesis

Effective protein extraction from mycelium and fruiting body of Auricularia auricula for proteomics studies

Sample Preparation Applied to Analysis of Proteins in Cowpea Seeds (Vigna unguiculata (L.) Walp.)

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