Proteomic Analysis of the Endosperm Ontogeny of Jatropha curcas L. Seeds

Shah, Mohibullah; Soares, Emanoella L.; Carvalho, Paulo C.; Soares, Arlete A.; Domont, Gilberto B.; Nogueira, Fábio César Sousa; Campos, Francisco

doi:10.1021/acs.jproteome.5b00106

Cited by 22 publications

(28 citation statements)

References 72 publications

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“…In the plant, pathways contributing to lipid biosynthesis can be divided into three steps and cell compartments; a) fatty acid biosynthesis in the plastids, b) triacylglycerol (TAG) biosynthesis in the endoplasmic reticulum (ER), and c) oil body formation in the cytoplasm [37]. Altogether, 97 contigs and 55 enzymes distributed among 13 pathways were enriched as being involved in these steps ( Figure S7).…”

Section: Pathway Enrichment In Dess Related To Lipid Metabolismmentioning

confidence: 99%

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

et al. 2020

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Background: Jatropha curcas, a tropical shrub, is a promising biofuel crop, which produces seeds with high content of oil and protein. To better understand the maturation process of J. curcas seeds and to improve its agronomic performance, a two-step approach was performed in six different maturation stages of seeds: 1) generation of the entire transcriptome of J. curcas seeds using 454-Roche sequencing of a cDNA library, 2) comparison of transcriptional expression levels using a custom Agilent 8x60K oligonucleotide microarray. Results: A total of 793,875 high-quality reads were assembled into 19,382 unique full-length contigs, of which 13,507 could be annotated with Gene Ontology (GO) terms. Microarray data analysis identified 9111 probes (out of 57,842 probes), which were differentially expressed between the six maturation stages. The expression results were validated for 75 selected transcripts based on expression levels, predicted function, pathway, and length. Result from cluster analyses showed that transcripts associated with fatty acid, flavonoid, and phenylpropanoid biosynthesis were over-represented in the early stages, while those of lipid storage were over-represented in the late stages. Expression analyses of different maturation stages of J. curcas seed showed that most changes in transcript abundance occurred between the two last stages, suggesting that the timing of metabolic pathways during seed maturation in J. curcas occurs in late stages. The co-expression results showed that the hubs (CB5-D, CDR1, TT8, DFR, HVA22) with the highest number of edges, associated with fatty acid and flavonoid biosynthesis, are showing a decrease in their expression during seed maturation. Furthermore, seed development and hormone pathways are significantly well connected. Conclusion: The obtained results revealed differentially expressed sequences (DESs) regulating important pathways related to seed maturation, which could contribute to the understanding of the complex regulatory network during seed maturation with the focus on lipid, flavonoid and phenylpropanoid biosynthesis. This study provides detailed information on transcriptional changes during J. curcas seed maturation and provides a starting point for a genomic survey of seed quality traits. The results highlighted specific genes and processes relevant to the molecular mechanisms involved in Jatropha seed maturation. These data can also be utilized regarding other Euphorbiaceae species.

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Section: Pathway Enrichment In Dess Related To Lipid Metabolismmentioning

confidence: 99%

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

et al. 2020

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“…used PatternLab’s Isobaric Analyzer module to analyze TMT data from aging soleus and extensor digitorum longus rat muscles, disclosing quantitative data for more than 4000 proteins 67 . Finally, Shah et al used PatternLab’s TrendQuest module to group protein expression profiles of J. curcas seeds during five developmental stages 68 .…”

Section: Anticipated Resultsmentioning

confidence: 99%

Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0

et al. 2015

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PatternLab for proteomics is an integrated computational environment that unifies several previously published modules for analyzing shotgun proteomic data. PatternLab contains modules for formatting sequence databases, performing peptide spectrum matching, statistically filtering and organizing shotgun proteomic data, extracting quantitative information from label-free and chemically labeled data, performing statistics for differential proteomics, displaying results in a variety of graphical formats, performing similarity-driven studies with de novo sequencing data, analyzing time-course experiments, and helping with the understanding of the biological significance of data in the light of the Gene Ontology. Here we describe PatternLab for proteomics 4.0, which closely knits together all of these modules in a self-contained environment, covering the principal aspects of proteomic data analysis as a freely available and easily installable software package. All updates to PatternLab, as well as all new features added to it, have been tested over the years on millions of mass spectra.

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“…The high concentration of proteins in J. curcas compared to J. macrocarpa observed in this work is directly related to the reserve of sugars since there is greater availability of hydrolytic that promote the mobilization and degradation of reserve substances. Proteome analysis of the developing endosperm of J. curcas allowed to identify different proteins; providing an important glimpse into the enzymatic machinery devoted to the production of C and N sources to sustain embryo development [29].…”

Section: Discussionmentioning

confidence: 99%

Potential Technological Use of Reserves of Jatropha curcas and J. macrocarpa Griseb. Seeds

Tavecchio¹,

Dardanelli²,

Reguera³

et al. 2019

AJPS

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J. curcas and J. macrocarpa are useful for restoring degraded areas and their seeds contain oils for biodiesel production. The aim of the work was to determine the reserve substances in the endosperm and the embryo of J. curcas and J. macrocarpa which is important in understanding the germination process, the establishment of these species and its industrial employment. Seeds were imbibed in distilled water for 24 h, to facilitate removal of seed coat with the aim to separate the embryo and nutritive tissues. In both species, the endosperm contained aleurone grains consisting of a crystalloid and globoid, lipids of red color and the starch was not observed. Four major fatty acids were determined in J. curcas seed: oleic, palmitic, stearic, palmitoleic and oleic fatty acid represents about 70% oil content. Oleic acid was the most abundant in J. macrocarpa seeds, while, there was not palmitoleic acid. Seed with predominantly unsaturated fatty acids is ideal for biodiesel industry. The means of the sugar content were: 14.3 µg/mg in endosperm and 104.76 µg/mg in embryo of J. curcas and 6.48 µg/mg in endosperm and 59.20 µg/mg in embryo of J. macrocarpa. The means of the protein content were: 4.2 µg/mg in endosperm and 45.02 µg/mg in embryo of J. curcas and 3.26 µg/mg in endosperm and 31.08 µg/mg in embryo of J. macrocarpa. Sugar and protein contents of Jatropha seeds were significantly higher in embryo in both species

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Proteomic Analysis of the Endosperm Ontogeny of Jatropha curcas L. Seeds

Cited by 22 publications

References 72 publications

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0

Potential Technological Use of Reserves of <i>Jatropha curcas</i> and <i>J. macrocarpa</i> Griseb. Seeds

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Proteomic Analysis of the Endosperm Ontogeny of Jatropha curcas L. Seeds

Cited by 22 publications

References 72 publications

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

Gene expression profiling identifies pathways involved in seed maturation of Jatropha curcas

Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0

Potential Technological Use of Reserves of &lt;i&gt;Jatropha curcas&lt;/i&gt; and &lt;i&gt;J. macrocarpa&lt;/i&gt; Griseb. Seeds

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Potential Technological Use of Reserves of <i>Jatropha curcas</i> and <i>J. macrocarpa</i> Griseb. Seeds