Comparative proteomic analysis of fluoride treated rat bone provides new insights into the molecular mechanisms of fluoride toxicity

Water deficit is a serious environmental stress during the soybean growth and production season in Australia. Soybean has evolved complex response mechanisms to cope with drought stress through multiple physiological processes. In this study, the roots of a previously identified drought-tolerant soybean genotype, G21210, and a sensitive genotype, Valder, were subjected to comparative proteomic analysis based on 2-dimensional electrophoresis, under mild or severe drought conditions. The analysis showed that the abundance of 179 protein spots significantly changed under stress. In total, 155 unique proteins were identified from these spots, among which 70 protein spots changed only in G2120 and 89 spots only in Valder, with 20 proteins changed in both soybean genotypes. Bioinformatics analysis revealed that these drought-induced changes in proteins were largely enriched in the biological function categories of defence response, protein synthesis, energy metabolism, amino acid metabolism and carbohydrate metabolism. For the drought-tolerant genotype, the differential abundance was decreased for 24 proteins and increased for 46 proteins. For the drought-sensitive genotype, the abundance was reduced for 46 proteins, increased for 40 proteins and changed differently for three proteins in mild and severe drought. The different patterns of change of these proteins in G2120 and Valder might be attributed to the difference in their drought-tolerance capacity. This study, combined with our previously reported proteomics study in soybean leaves, further clarifies the change in proteins under drought stress in different organs and provides a better understanding of the molecular mechanisms under drought stress in soybean production.

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Comparative Proteomic Analysis Reveals That the Heterosis of Two Maize Hybrids is Related to Enhancement of Stress Response and Photosynthesis Respectively

10.21203/rs.3.rs-29700/v1 ◽

2020 ◽

Author(s):

Daoping Wang ◽

Yongying Mu ◽

Xiaojiao Hu ◽

Bo Ma ◽

Zhibo Wang ◽

...

Keyword(s):

Stress Responses ◽

Proteomic Analysis ◽

Molecular Mechanisms ◽

Agronomic Traits ◽

Enrichment Analysis ◽

Pathway Enrichment Analysis ◽

Label Free ◽

Maize Production ◽

Maize Hybrids ◽

Comparative Proteomic Analysis

Abstract BackgroundMaize is a major crop worldwide and heterotic hybrids play important roles in global maize production. Heterosis refers hybrid progeny of species or varieties exhibiting superior traits compared with those of their parents and much attention has been paid to heterosis associated genes recently. The hybridization between parents can change the expression pattern of some proteins such as non-additive proteins which might lead to heterosis, so that comparative proteomic analysis of maize hybrid and its parents is helpful for understanding the mechanism of heterosis.ResultsSecond seedling leaves of maize hybrids "Zhongdan 808" and "Zhongdan 909" and their parents were collected at three-leaf stage for protein extractions. Over 2,000 protein groups were accurately assessed in the two hybrids and their parents by label-free quantification. Quantitative data analyses of the proteomes revealed that the two hybrids were more similar to their female parents. Additionally, pathway enrichment analysis showed that most non-additive proteins in Zhongdan 808 were mainly enriched in stress-related pathways, while those in Zhongdan 909 were mainly enriched in photosynthesis. ConclusionsIn comparison with their parents, the excellent agronomic traits of hybrid Zhongdan 808 was correlated with the high expression levels of some proteins related to stress responses and and metabolic functions, while those of Zhongdan 909 was correlated with photosynthesis. Our proteomics results supported previous physiological and morphological research. This work may provide useful information for understanding of the molecular mechanisms involved in the heterosis of hybrid maize.

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Integrated transcriptomic and proteomic analysis reveals the complex molecular mechanisms underlying stone cell formation in Korla pear

Scientific Reports ◽

10.1038/s41598-021-87262-3 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Aisajan Mamat ◽

Kuerban Tusong ◽

Juan Xu ◽

Peng Yan ◽

Chuang Mei ◽

...

Keyword(s):

Cell Differentiation ◽

Proteomic Analysis ◽

Molecular Mechanisms ◽

Developmental Stages ◽

Cell Formation ◽

Parenchyma Cell ◽

Lignin Biosynthesis ◽

Cell Content ◽

Stone Cell ◽

Fruit Samples

AbstractKorla pear (Pyrus sinkiangensis Yü) is a landrace selected from a hybrid pear species in the Xinjiang Autonomous Region in China. In recent years, pericarp roughening has been one of the major factors that adversely affects fruit quality. Compared with regular fruits, rough-skin fruits have a greater stone cell content. Stone cells compose sclerenchyma tissue that is formed by secondary thickening of parenchyma cell walls. In this work, we determined the main components of stone cells by isolating them from the pulp of rough-skin fruits at the ripening stage. Stone cell staining and apoptosis detection were then performed on fruit samples that were collected at three different developmental stages (20, 50 and 80 days after flowering (DAF)) representing the prime, late and stationary stages of stone cell differentiation, respectively. The same batches of samples were used for parallel transcriptomic and proteomic analysis to identify candidate genes and proteins that are related to SCW biogenesis in Korla pear fruits. The results showed that stone cells are mainly composed of cellulose (52%), hemicellulose (23%), lignin (20%) and a small amount of polysaccharides (3%). The periods of stone cell differentiation and cell apoptosis were synchronous and primarily occurred from 0 to 50 DAF. The stone cell components increased abundantly at 20 DAF but then decreased gradually. A total of 24,268 differentially expressed genes (DEGs) and 1011 differentially accumulated proteins (DAPs) were identified from the transcriptomic and proteomic data, respectively. We screened the DEGs and DAPs that were enriched in SCW-related pathways, including those associated with lignin biosynthesis (94 DEGs and 31 DAPs), cellulose and xylan biosynthesis (46 DEGs and 18 DAPs), S-adenosylmethionine (SAM) metabolic processes (10 DEGs and 3 DAPs), apoplastic ROS production (16 DEGs and 2 DAPs), and cell death (14 DEGs and 6 DAPs). Among the identified DEGs and DAPs, 63 significantly changed at both the transcript and protein levels during the experimental periods. In addition, the majority of these identified genes and proteins were expressed the most at the prime stage of stone cell differentiation, but their levels gradually decreased at the later stages.

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Comparative proteomic analysis reveals insights into the dynamic responses of maize (Zea mays L.) to Setosphaeria turcica infection

Plant Science ◽

10.1016/j.plantsci.2020.110811 ◽

2021 ◽

pp. 110811

Author(s):

Yuwei Liu ◽

Xiaodong Gong ◽

Qihui Zhou ◽

Yajie Liu ◽

Zhenpan Liu ◽

...

Keyword(s):

Zea Mays ◽

Proteomic Analysis ◽

Zea Mays L ◽

Dynamic Responses ◽

Setosphaeria Turcica ◽

Comparative Proteomic Analysis

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Proteome Profiling of PMJ2-R and Primary Peritoneal Macrophages

International Journal of Molecular Sciences ◽

10.3390/ijms22126323 ◽

2021 ◽

Vol 22 (12) ◽

pp. 6323

Author(s):

Alexander L. Rusanov ◽

Peter M. Kozhin ◽

Olga V. Tikhonova ◽

Victor G. Zgoda ◽

Dmitry S. Loginov ◽

...

Keyword(s):

Proteomic Analysis ◽

Living Organism ◽

Peritoneal Macrophages ◽

In Vitro Models ◽

Individual Characteristics ◽

Essential Proteins ◽

Comparative Proteomic Analysis ◽

Immortalized Cell ◽

The Individual

In vitro models are often used for studying macrophage functions, including the process of phagocytosis. The application of primary macrophages has limitations associated with the individual characteristics of animals, which can lead to insufficient standardization and higher variability of the obtained results. Immortalized cell lines do not have these disadvantages, but their responses to various signals can differ from those of the living organism. In the present study, a comparative proteomic analysis of immortalized PMJ2-R cell line and primary peritoneal macrophages isolated from C57BL/6 mice was performed. A total of 4005 proteins were identified, of which 797 were quantified. Obtained results indicate significant differences in the abundances of many proteins, including essential proteins associated with the process of phagocytosis, such as Elmo1, Gsn, Hspa8, Itgb1, Ncf2, Rac2, Rack1, Sirpa, Sod1, C3, and Msr1. These findings indicate that outcomes of studies utilizing PMJ2-R cells as a model of peritoneal macrophages should be carefully validated. All MS data are deposited in ProteomeXchange with the identifier PXD022133.

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