Plant Protein Analysis

Malcevschi, Alessio; Marmiroli, Nelson

doi:10.5772/30785

Cited by 4 publications

(5 citation statements)

References 128 publications

(92 reference statements)

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“…Most of the proteome researchers are using certain state‐of‐art approaches like DIGE , Shotgun LC‐MS/MS , and 2DE for protein analysis. DIGE has the ability to co‐resolve multiple samples in the same gel that minimizes the variability, and also helps in better visualization and quantification of proteome with the use of dyes.…”

Section: Resultsmentioning

confidence: 99%

“…It still has certain disadvantages, however, such as the proteins that do not contain lysine and cysteine can not be labeled with the dyes used. Low abundance proteins also cannot be resolved with this approach . It is possible to achieve vastly deeper proteome coverage including low abundance proteins with a high accuracy by using shotgun LC‐MS/MS—a higher end analytical approach .…”

Section: Resultsmentioning

confidence: 99%

“…This problem may be exacerbated by the under sampling inherent in shotgun proteomics . 2DE has an excellent resolving power to visualize a number of proteins containing different molecular forms of the same protein on a single gel . This method of protein separation also has its own merits and demerits, such as being unable to resolve hydrophobic membrane and cytoskeletal proteins, and failing to resolve the proteins with same isoelectric points at either extreme of the pH scale.…”

Section: Resultsmentioning

confidence: 99%

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In vitro flowering associated protein changes inDendrocalamus hamiltonii

et al. 2015

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In Dendrocalamus hamiltonii, conversion of vegetative meristem to a floral meristem was successfully achieved on flower induction medium. A total of 128 differentially expressed proteins were evidenced by 2DE in floral meristem protein profiles. Analysis of 103 proteins through PMF revealed change in abundance in the content of 79 proteins, disappearance and new appearance in the content of 7 and 17 proteins, respectively. MS/MS and subsequent homology search identified 65 proteins that were involved in metabolism (22 proteins), regulatory (11 proteins), signaling and transportation (12 proteins), stress (6 proteins), flowering (8 proteins), and unknown functions (6 proteins). The data suggested that change in metabolism related proteins might be providing nutrient resources for floral initiation in D. hamiltonii. Further, interactive effects of various proteins like bHLH145, B-4c transcription factors (heat stress transcription factor), maturase K, MADS box, zinc finger proteins, and scarecrow-like protein 21 (flowering related), a key enzyme of ethylene biosynthesis SAMS (S-adenosylmethionine synthase) and aminocyclopropane-1-carboxylate synthase, improved calcium signaling related proteins (CML36), and change in phytohormone related proteins such as phosphatase proteins (2c3 and 2c55), which are the positive regulators of gibberellic acid and phytochrome regulation related proteins (DASH, LWD1) might be the possible major regulators of floral transition in this bamboo.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

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In vitro flowering associated protein changes inDendrocalamus hamiltonii

et al. 2015

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“…Another concern is poor resolution of integral membrane proteins (Wu et al 2003;Westermeier and Marouga 2005) and possibility of identifying multiple proteins in a single protein spot from a gel (Campostrini et al 2005). Additionally, sensitivity issues with coomassie brilliant blue (CBB)/silver gel-staining procedures, labour-intensive protein processing for MALDI-TOF/MS based identification and insufficient data for thorough statistical analysis make accurate interpretation of comparative ingel experiments all the more challenging (Campostrini et al 2005;Malcevschi and Marmiroli 2012).…”

Section: Introductionmentioning

confidence: 99%

“…Therefore, gel-free approaches in plant proteomics are increasingly being adopted (Abdallah et al 2012;Malcevschi and Marmiroli 2012). In these approaches, complex peptide fractions, generated after proteolytic/tryptic digestion are resolved using fractionation strategies, which offer highthroughput analyses of the proteome providing a snapshot of the major protein constituents.…”

Section: Introductionmentioning

confidence: 99%

Method for Label-Free Quantitative Proteomics for Sorghum bicolor L. Moench

Sharan

Nikam

Jaleel

et al. 2018

Tropical Plant Biol.

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Sorghum (Sorghum bicolor L. Moench) is a rapidly emerging high biomass feedstock for bioethanol and lignocellulosic biomass production. The robust varietal germplasm of sorghum and its completed genome sequence provide the necessary genetic and molecular tools to study and engineer the biotic/abiotic stress tolerance. Traditional proteomics approaches for outlining the sorghum proteome have many limitations like, demand for high protein amounts, reproducibility and identification of only few differential proteins. In this study, we report a gel-free, quantitative proteomic method for in-depth coverage of the sorghum proteome. This novel method combining phenol extraction and methanol chloroform precipitation gives high total protein yields for both mature sorghum root and leaf tissues. We demonstrate successful application of this method in comparing proteomes of contrasting cultivars of sorghum, at two different phenological stages. Protein identification and relative quantification analyses were performed by a label-free liquid chromatography tandem mass spectrometry (LC/MS-MS) analyses. Several unique proteins were identified respectively from sorghum tissues, specifically 271 from leaf and 774 from root tissues, with 193 proteins common in both tissues. Using gene ontology analysis, the differential proteins identified were finely corroborated with their leaf/root tissue specific functions. This method of protein extraction and analysis would contribute substantially to generate in-depth differential protein data in sorghum as well as related species. It would also increase the repertoire of methods uniquely suited for gel-free plant proteomics that are increasingly being developed for studying abiotic and biotic stress responses.

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The proteomics of heavy metal hyperaccumulation by plants

Visioli

Marmiroli

2013

Journal of Proteomics

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Plant Protein Analysis

Cited by 4 publications

References 128 publications

In vitro flowering associated protein changes inDendrocalamus hamiltonii

In vitro flowering associated protein changes inDendrocalamus hamiltonii

Method for Label-Free Quantitative Proteomics for Sorghum bicolor L. Moench

The proteomics of heavy metal hyperaccumulation by plants

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