Label‐free quantitative proteomic analysis of tolerance to drought in <i>Pisum sativum</i>

Castillejo, María Ángeles; Iglesias-García, Rebeca; Wienkoop, Stefanie; Rubiales, Diego

doi:10.1002/pmic.201600156

Cited by 13 publications

(10 citation statements)

References 64 publications

(63 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…[55][56][57] Thus, these proteins are also significantly increased in the resistant pea genotype (P665) in response to drought stress. 38 In addition to our proteomic results, histological studies 36 have shown P.…”

Section: Cell Wall Reinforcement and Detoxification To Restrict Pathogen Growthsupporting

confidence: 73%

Quantitative Analysis of Target Peptides Related to Resistance Against Ascochyta Blight (Peyronellaea pinodes) in Pea

et al. 2020

Self Cite

View full text Add to dashboard Cite

Peyronellaea pinodes causes Ascochyta blight, one of the major diseases of pea worldwide. Cultivated pea plants have a low resistance to this disease. Although Quantitative Traits Loci (QTL) involved in the resistance to Ascochyta blight have been identified, the specific genes associated to these QTL remain unknown, which makes marker-assisted selection difficult. Complex traits alter proteins and their abundance.Quantitative estimation of proteins in pea might therefore be useful to select potential markers for breeding. In this work, we developed a strategy using a combination of shotgun proteomics (viz., high performance liquid chromatography-mass spectrometry Data-Dependent Acquisition (DDA)) and Data-Independent Acquisition (DIA) analysis, to identify putative protein markers associated to resistance to Ascochyta blight, and explored its use for breeding selection. For this purpose, an initial list of target peptides based on proteins closely related to resistance to P. pinodes was compiled by using two genotypes with contrasting responses to the disease. Then, targeted data analysis (viz., shotgun proteomics-DIA) was used for constitutive quantification of the target peptides in a representative number of the Recombinant Inbred Line (RIL) population segregating for resistance as derived from a cross between the two genotypes. Finally, a peptide panel of potential markers for resistance to P. pinodes was built. The results thus obtained are discussed and compared with those of previous gene expression studies using the same parental pea genotypes responding to the pathogen. Also, a molecular defense mechanism against Ascochyta blight in pea is proposed. To the authors' knowledge, this is the first time a targeted proteomic approach based on data analysis has been used to identify peptides associated to resistance to this disease.

show abstract

Section: Cell Wall Reinforcement and Detoxification To Restrict Pathogen Growthsupporting

confidence: 73%

Quantitative Analysis of Target Peptides Related to Resistance Against Ascochyta Blight (Peyronellaea pinodes) in Pea

et al. 2020

Self Cite

View full text Add to dashboard Cite

show abstract

“…Finally, transport proteins, such as the water channel protein aquaporins, have been associated with plant tolerance of biotic and abiotic stresses, to which they respond by regulating the movement of water and small molecules through plasma membranes and vacuoles [59]. Based on a proteomics strategy involving the identification of proteotypic peptides, some transport proteins have been proposed as markers of tolerance to drought [60] and resistance to Ascochyta blight [42] in pea. The proteins were assumed to induce signaling and transport processes as mechanisms to maintain homeostatic equilibrium and cope with stress.…”

Section: Discussionmentioning

confidence: 99%

Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex

San-Eufrasio

Bigatton

Guerrero‐Sanchez

et al. 2021

IJMS

View full text Add to dashboard Cite

Drought is one of the main causes of mortality in holm oak (Quercus ilex) seedlings used in reforestation programs. Although this species shows high adaptability to the extreme climate conditions prevailing in Southern Spain, its intrinsic genetic variability may play a role in the differential response of some populations and individuals. The aim of this work was to identify proteins and derived proteotypic peptides potentially useful as putative markers for drought tolerance in holm oak by using a targeted post-acquisition proteomics approach. For this purpose, we used a set of proteins identified by shotgun (LC-MSMS) analysis in a drought experiment on Q. ilex seedlings from four different provenances (viz. the Andalusian provinces Granada, Huelva, Cadiz and Seville). A double strategy involving the quantification of proteins and target peptides by shotgun analysis and post-acquisition data analysis based on proteotypic peptides was used. To this end, an initial list of proteotypic peptides from proteins highly represented under drought conditions was compiled that was used in combination with the raw files from the shotgun experiment to quantify the relative abundance of the fragment’s ion peaks with the software Skyline. The most abundant peptides under drought conditions in at least two populations were selected as putative markers of drought tolerance. A total of 30 proteins and 46 derived peptides belonging to the redox, stress-related, synthesis,-folding and degradation, and primary and secondary metabolism functional groups were thus identified. Two proteins (viz., subtilisin and chaperone GrpE protein) were found at increased levels in three populations, which make them especially interesting for validation drought tolerance markers in subsequent experiments.

show abstract

“…Especially, the tolerant soybean cultivar showed a higher capacity in the reactive oxygen species-scavenging and in maintaining the energy supply as compared to that of the sensitive cultivar. Similarly, when the similar differential and quantitative proteomics approach was adopted to investigate the two contrasting cultivars in drought tolerance from both monocot plants, rice [118], wheat [119], maize [120], dicot plants, potatoes [121], pea [122], Brassica [123], chickpea [124], tobacco [34], and tea plant [125], it was found that these drought-related DAPs in general play a role in regulating carbohydrate, glutathione, amino acids, sucrose and nitrogen metabolism, redox homeostasis and ROS-scavenging, protein synthesis and processing (or upregulation of ClpD1 protease), defense and stress-response processes, photosynthesis, cell wall biogenesis and degradation, cytoskeleton metabolism and energy production. However, in this quantitative phosphoproteomics study, we found that the drought-tolerant cultivar SRPs (significantly regulated phosphoproteins) are mostly related to water transport and deprivation, methionine metabolic process, photosynthesis/light reaction, response to cadmium ion, osmotic stress and ABA (hormone) under drought treatment (Figures 4D and 5).…”

Section: Discussionmentioning

confidence: 99%

Isotopically Dimethyl Labeling-Based Quantitative Proteomic Analysis of Phosphoproteomes of Soybean Cultivars

et al. 2021

View full text Add to dashboard Cite

Isotopically dimethyl labeling was applied in a quantitative post-translational modification (PTM) proteomic study of phosphoproteomic changes in the drought responses of two contrasting soybean cultivars. A total of 9457 phosphopeptides were identified subsequently, corresponding to 4571 phosphoprotein groups and 3889 leading phosphoproteins, which contained nine kinase families consisting of 279 kinases. These phosphoproteins contained a total of 8087 phosphosites, 6106 of which were newly identified and constituted 54% of the current soybean phosphosite repository. These phosphosites were converted into the highly conserved kinase docking sites by bioinformatics analysis, which predicted six kinase families that matched with those newly found nine kinase families. The overly post-translationally modified proteins (OPP) occupies 2.1% of these leading phosphoproteins. Most of these OPPs are photoreceptors, mRNA-, histone-, and phospholipid-binding proteins, as well as protein kinase/phosphatases. The subgroup population distribution of phosphoproteins over the number of phosphosites of phosphoproteins follows the exponential decay law, Y = 4.13e−0.098X − 0.04. Out of 218 significantly regulated unique phosphopeptide groups, 188 phosphoproteins were regulated by the drought-tolerant cultivar under the water loss condition. These significantly regulated phosphoproteins (SRP) are mainly enriched in the biological functions of water transport and deprivation, methionine metabolic processes, photosynthesis/light reaction, and response to cadmium ion, osmotic stress, and ABA response. Seventeen and 15 SRPs are protein kinases/phosphatases and transcription factors, respectively. Bioinformatics analysis again revealed that three members of the calcium dependent protein kinase family (CAMK family), GmSRK2I, GmCIPK25, and GmAKINβ1 kinases, constitute a phosphor-relay-mediated signal transduction network, regulating ion channel activities and many nuclear events in this drought-tolerant cultivar, which presumably contributes to the development of the soybean drought tolerance under water deprivation process.

show abstract

Label‐free quantitative proteomic analysis of tolerance to drought in Pisum sativum

Cited by 13 publications

References 64 publications

Quantitative Analysis of Target Peptides Related to Resistance Against Ascochyta Blight (Peyronellaea pinodes) in Pea

Quantitative Analysis of Target Peptides Related to Resistance Against Ascochyta Blight (Peyronellaea pinodes) in Pea

Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex

Isotopically Dimethyl Labeling-Based Quantitative Proteomic Analysis of Phosphoproteomes of Soybean Cultivars

Contact Info

Product

Resources

About