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1

Evaluation of sample extraction methods for proteomic analysis of coniferous seeds

100%
Zhen Y., Shi J.
Acta Physiologiae Plantarum
|
2011
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tom 33
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nr 5
In this study, three methods of protein extraction from the seeds of the Chinese fir were compared by examining the quality (including the number of protein spots observed) in the two-dimensional gel electrophoresis (2-DE), obtained by isoelectric focusing and sodium dodecyl sulfate polyacrylamide gel electrophoresis of the total released protein. Three protein extraction methods were: TCA-acetone precipitation, SDS extraction/acetone precipitation, and phenol extraction methanol/ammonium acetate precipitation. The results showed that TCA-acetone precipitation was the most effective method for protein extraction; it gave the highest yield of total protein (8.9 mg protein per g seed weight) and the greatest number of proteins spots (1,034 spots) on the 2-DE gel. Further, several proteins were identified by liquid chromatography mass spectrometry (LC MS/MS), which are legumin-like storage protein, similar to AMP binding/acetate-CoA ligase, similar to 40S ribosomal protein S20, actin, ascorbate peroxidase, Similar to cysteine synthase, and unknown protein. These data demonstrates that TCA-acetone precipitation followed by 2-DE and LC MS/MS is a suitable method for proteomic analysis of coniferous species, such as Chinese fir and provides a valuable starting point for similar proteomic analysis of other coniferous tree species.
2

Identification and functional classification of differentially expressed proteins and insight into regulatory mechanism about flower color variegation in peach

80%
Yin P., Zhen Y., Li S.
Acta Physiologiae Plantarum
|
2019
|
tom 41
|
nr 06
Genetic mechanism underlying peach flower color variegation has been intensively investigated at transcriptome level, but an elucidation at proteome level is still scarce. In this study, we performed proteome analysis with a peach cultivar bearing white and red flowers simultaneously on the same tree, and identified the differentially expressed proteins (DEPs) in the red and white flowers at different development stages. A total of 149 DEPs were identified. Among which, 99 were from peach flower buds, and 50 were from expanded but unflushed flowers. It is noteworthy that about 70% of the DEPs are upregulated in red flowers, and the enriched pathways in red flowers at protein level mainly include starch and sucrose metabolism, carbon fixation, and glycolysis (AMY1, UGP, PGK3, TPI, PPA, ATP5H, and RuBisCO), which provide more substrate and energy for anthocyanin biosynthesis. In addition, a number of RNA-binding proteins (RBPs) and proteasome which play key roles in the regulation of gene expression at levels of transcription, splicing and mRNA stability are also found to upregulate in red flowers. Among them, eight glycine-rich RBPs (spot A26, A34, A54, A71, A72, A74, B24, and B42) and a branch point-bridging protein (spot B4) are identified as important proteins involving in alternative splicing of mRNA. As a result of alternative splicing, anthocyanidin synthase (ANS) activity is found to express dramatically higher in red flowers. Besides, a GST protein (XP_007200490.2) involving in anthocyanin transportation is found to significantly upregulate in red flower buds. Unlike the previous reports based on transcriptome analysis, no proteins coded by structural genes in anthocyanin biosynthesis were found obviously upregulated in red flowers in this study. Our findings indicated that flower color variegation should be regulated at both transcriptional and post-transcriptional levels, and genes involved in transcripts alternative splicing and anthocyanin transportation were essential for flower color variegation in peach.
3

Proteomics of embryogenic and non-embryogenic calli of a Liriodendron hybrid

71%
Zhen Y., Li C., Chen J., Chen Q., Shi J.
Acta Physiologiae Plantarum
|
2015
|
tom 37
|
nr 10
An increasing interest is focused on somatic embryogenesis induction in plants. This process usually generates both embryogenic calli (EC) and non-embryogenic calli (NEC) from the same explant. To identify specific proteins involved in embryogenesis competence, a comparative proteomics of EC and NEC in Liriodendron hybrid was performed. Proteins of EC and NEC were separated by two-dimensional gel electrophoresis (2-DE) and 14 proteins specific embryogenesis were characterized by matrix-assisted laser desorption ionization time-of-flight/- time-of-flight. Among these identifying proteins, profilin may be indispensable for cell survival and division, and eIF- 5A may play a functional role in embryogenic competence and further embryo development. Regulation of programmed cell death by cathepsin b-like cysteine proteinase and proteasome 20S beta1.1 subunit may have an essential part in maintaining cellular pluripotency and reprogramming for embryogenic mass. Reactive oxygen species (ROS) have a central effect on triggering cell division. However, methionine sulfoxide reductase is probably involved in protecting the cell from damage from excessive reactive oxygen species. Expression of EF-hand family proteins in embryogenic calli may mediate the calcium ion gradient for polarization and organ patterning. These identified embryogenic calli-specific proteins provide clues to understanding low conversion rate from calli cells to embryogenic cells.
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