Plant Proteomics in Crop Improvement

Cramer, Rainer; Bindschedler, Laurence V.; Agrawal, Ganesh

doi:10.1002/pmic.201370104

Cited by 6 publications

(6 citation statements)

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“…The plant proteomics topic as a whole was reviewed in 2001, 2006, and 2007 by Jorrín, Job, and other co‐authors . The other published reviews dealt with crops , with a number on rice , fruit‐tree , and nonmodel species ; growth and developmental processes ; response to environmental conditions and stresses ; organ or subcellular proteomes description; PTMs ; translational proteomics ; methodological aspects ; and initiatives revolving around plant proteomics such as INPPO .…”

Section: Plant Proteomics As Reflected In Proteomicsmentioning

confidence: 99%

“…Plant biology research in which not only proteomics but also any other approach is used belong to two main processes related to each other and that ultimately determine plant productivity and yield, in terms of food production; environmental, industrial, or commercial value; development and growth; and responses to stresses. The final goal is the characterization of the processes, mechanisms, genes, and gene products that determine growth and development as well as resistance or tolerance to adverse environmental conditions, complementing other morphological, physiological, biochemical, and molecular studies, thus contributing to the development of more productive plants through classical breeding, biotechnological approaches or sustainable management practices . These two topics, development and stresses, have been extensively reviewed along the revised period (2001–2014) .…”

Section: Biological Processes: Growth Development and Responses To mentioning

confidence: 99%

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Fourteen years of plant proteomics reflected in Proteomics: Moving from model species and 2DE‐based approaches to orphan species and gel‐free platforms

et al. 2015

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In this article, the topic of plant proteomics is reviewed based on related papers published in the journal Proteomics since publication of the first issue in 2001. In total, around 300 original papers and 41 reviews published in Proteomics between 2000 and 2014 have been surveyed. Our main objective for this review is to help bridge the gap between plant biologists and proteomics technologists, two often very separate groups. Over the past years a number of reviews on plant proteomics have been published . To avoid repetition we have focused on more recent literature published after 2010, and have chosen to rather make continuous reference to older publications. The use of the latest proteomics techniques and their integration with other approaches in the "systems biology" direction are discussed more in detail. Finally we comment on the recent history, state of the art, and future directions of plant proteomics, using publications in Proteomics to illustrate the progress in the field. The review is organized into two major blocks, the first devoted to provide an overview of experimental systems (plants, plant organs, biological processes) and the second one to the methodology.

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Section: Plant Proteomics As Reflected In Proteomicsmentioning

confidence: 99%

Section: Biological Processes: Growth Development and Responses To mentioning

confidence: 99%

Fourteen years of plant proteomics reflected in Proteomics: Moving from model species and 2DE‐based approaches to orphan species and gel‐free platforms

et al. 2015

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“…About two years later this issue has been cited more than 170 times according to Web of Science, testifying the wide interest and visibility of our discipline. The second special issue of plant proteomics, with a focus on crop improvement, has also been successfully completed in June 2013 (see contents at -http://onlinelibrary.wiley.com/doi/10.1002/pmic.v13.12-13/ issuetoc) [3]. The continuous support and collaboration of the PROTEOMICS journal with INPPO is greatly appreciated.…”

Section: Inppo Achievements and Future Work In Promoting Plant Protementioning

confidence: 99%

“…This action resulted in a strong and successful collaboration between INPPO and PROTEOMICS, of which a main result was the kind offer of Wiley to regularly publish INPPO highlights, as the PROTEOMICS journal has been doing for the HUPO (Human Proteome Organization). I am glad to see that a second special issue has been released in this Journal, thanks to the Guest Editors Rainer Cramer, Laurence Bindschedler and Ganesh K. Agrawal [3]. I have also been very impressed by several important actions for promoting INPPO, among which stand out the creation of our website thanks to Raj Agrawal and Abhijit Sarkar, the publication of our superb and well-documented INPPO Newsletters (http://www.inppo.com/newsletter.jsp) thanks to the tremendous and very professional work done by Bongani Ndimba, Georgia Tanou and Abhijit Sarkar, and the strong implication of a group of colleagues in education and training under the leadership of Thomas Kieselbach.…”

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confidence: 99%

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2013

Proteomics

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The International Plant Proteomics Organization (INPPO) is a non-profit organization whose members are scientists involved or interested in plant proteomics. Since the publication of the first INPPO highlights in 2012, continued progress on many of the organization's mandates/goals has been achieved. Two major events are emphasized in this second INPPO highlights. First, the change of guard at the top, passing of the baton from Dominique Job, INPPO founding President to Ganesh Kumar Agrawal as the incoming President. Ganesh K. Agrawal, along with Dominique Job and Randeep Rakwal initiated the INPPO. Second, the most recent INPPO achievements and future targets, mainly the organization of first the INPPO World Congress in 2014, tentatively planned for Hamburg (Germany), are mentioned.

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“…Secondly, novel methods are being employed to greatly increase the number of traits that can be captured in any experiment. These may come from specialised phenotypic platforms in controlled environments, field based systems derived from methods of precision agriculture, gene expression experiments, and high throughput analytical platforms such as metabolomics and proteomics [2-4]. …”

Section: Introductionmentioning

confidence: 99%

Differentially penalized regression to predict agronomic traits from metabolites and markers in wheat

et al. 2015

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BackgroundGenomic prediction of agronomic traits as targets for selection in plant breeding programmes is increasingly common. The methods employed can also be applied to predict traits from other sources of covariates, such as metabolomics. However, prediction combining sets of covariates can be less accurate than using the best of the individual sets.ResultsWe describe a method, termed Differentially Penalized Regression (DiPR), which uses standard ridge regression software to combine sets of covariates while applying independent penalties to each. In a dataset of wheat varieties, field traits are better predicted, on average, by seed metabolites than by genetic markers, but DiPR using both sets of predictors is best.ConclusionDiPR is a simple and accessible method of using existing software to combine multiple sets of covariates in trait prediction when there are more predictors than observations and the contribution to accuracy from each set differs.

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Plant Proteomics in Crop Improvement

Cited by 6 publications

References 0 publications

Fourteen years of plant proteomics reflected in Proteomics: Moving from model species and 2DE‐based approaches to orphan species and gel‐free platforms

Fourteen years of plant proteomics reflected in Proteomics: Moving from model species and 2DE‐based approaches to orphan species and gel‐free platforms

10 Standard abbreviations

Differentially penalized regression to predict agronomic traits from metabolites and markers in wheat

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