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An iTRAQ-based proteomics approach to clarify the molecular physiology of somatic embryo development in Prince Rupprecht's larch (Larix principis-rupprechtii Mayr).

Zhao J, Li H, Fu S, Chen B, Sun W, Zhang J, Zhang J - PLoS ONE (2015)

Bottom Line: Prince Rupprecht's larch (Larix principis-rupprechtii Mayr) is a native high-value forest tree species in North China whose clonal propagation through somatic embryogenesis (SE) has the potential to rapidly capture the benefits of breeding or genetic engineering programs and to improve raw material uniformity and quality.Functional analysis showed that proteins involved in primary metabolism, phosphorylation, and oxidation reduction were upregulated during somatic embryo development.This work provides novel insights into the process of larch embryo development in vitro and a basis for further study of the biological process and opportunities for practical application of this knowledge.

View Article: PubMed Central - PubMed

Affiliation: National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of State Forestry Administration, College of Biological Science and Biotechnology, Beijing Forestry University, Beijing 100083, China.

ABSTRACT
Prince Rupprecht's larch (Larix principis-rupprechtii Mayr) is a native high-value forest tree species in North China whose clonal propagation through somatic embryogenesis (SE) has the potential to rapidly capture the benefits of breeding or genetic engineering programs and to improve raw material uniformity and quality. To date, research has focused on clarifying the molecular mechanism of SE, but proteomic studies are still in the early stages. In this study, isobaric tags for relative and absolute quantitation (iTRAQ) analysis was performed on three developmental stages of SE in L. principis-rupprechtii in an attempt to identify a wide range of proteins that are regulated differentially during this process. Proteins were extracted and analyzed from the pro-embryogenic mass (PEM), globular embryo (GE), and cotyledon embryo (CE) stages of embryo development. We detected 503 proteins in total and identified 96 proteins expressed differentially during different developmental stages. The identified proteins were analyzed further to provide information about their expression patterns and functions during SE. Four clusters of proteins based on shared expression profiles were generated. Functional analysis showed that proteins involved in primary metabolism, phosphorylation, and oxidation reduction were upregulated during somatic embryo development. This work provides novel insights into the process of larch embryo development in vitro and a basis for further study of the biological process and opportunities for practical application of this knowledge.

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Cluster profiles of protein functional clusters during somatic embryo development.A heat map of the log 2 relative abundance of proteins during SE in relation to the PEM stage was created with the iTRAQ-derived quantitative data. Proteins were grouped according to their known or putative biological functions. For each protein, accession number and protein description are provided. Yellow indicates upregulation, blue denotes downregulation, and black signifies zero difference. The grading represents the ratios of protein expression levels.
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pone.0119987.g007: Cluster profiles of protein functional clusters during somatic embryo development.A heat map of the log 2 relative abundance of proteins during SE in relation to the PEM stage was created with the iTRAQ-derived quantitative data. Proteins were grouped according to their known or putative biological functions. For each protein, accession number and protein description are provided. Yellow indicates upregulation, blue denotes downregulation, and black signifies zero difference. The grading represents the ratios of protein expression levels.

Mentions: Our earlier study had focused on the beginning of SE in L. principis-rupprechtii, making a proteomic comparison between embryogenic and non-embryogenic tissues [23]. As a continuation, this work was carried out to indicate some important clues not only in the beginning, but also in the whole process of SE. Similarly to previous proteomic study on Picea glauca and Larix × eurolepis [19,21], some important proteins, such as storage proteins and heat shock proteins (HSPs), were found accumulation and may play crucial roles during this process. Below, the most important proteins related to SE are discussed based on their putative biological functions (Fig. 7).


An iTRAQ-based proteomics approach to clarify the molecular physiology of somatic embryo development in Prince Rupprecht's larch (Larix principis-rupprechtii Mayr).

Zhao J, Li H, Fu S, Chen B, Sun W, Zhang J, Zhang J - PLoS ONE (2015)

Cluster profiles of protein functional clusters during somatic embryo development.A heat map of the log 2 relative abundance of proteins during SE in relation to the PEM stage was created with the iTRAQ-derived quantitative data. Proteins were grouped according to their known or putative biological functions. For each protein, accession number and protein description are provided. Yellow indicates upregulation, blue denotes downregulation, and black signifies zero difference. The grading represents the ratios of protein expression levels.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4363690&req=5

pone.0119987.g007: Cluster profiles of protein functional clusters during somatic embryo development.A heat map of the log 2 relative abundance of proteins during SE in relation to the PEM stage was created with the iTRAQ-derived quantitative data. Proteins were grouped according to their known or putative biological functions. For each protein, accession number and protein description are provided. Yellow indicates upregulation, blue denotes downregulation, and black signifies zero difference. The grading represents the ratios of protein expression levels.
Mentions: Our earlier study had focused on the beginning of SE in L. principis-rupprechtii, making a proteomic comparison between embryogenic and non-embryogenic tissues [23]. As a continuation, this work was carried out to indicate some important clues not only in the beginning, but also in the whole process of SE. Similarly to previous proteomic study on Picea glauca and Larix × eurolepis [19,21], some important proteins, such as storage proteins and heat shock proteins (HSPs), were found accumulation and may play crucial roles during this process. Below, the most important proteins related to SE are discussed based on their putative biological functions (Fig. 7).

Bottom Line: Prince Rupprecht's larch (Larix principis-rupprechtii Mayr) is a native high-value forest tree species in North China whose clonal propagation through somatic embryogenesis (SE) has the potential to rapidly capture the benefits of breeding or genetic engineering programs and to improve raw material uniformity and quality.Functional analysis showed that proteins involved in primary metabolism, phosphorylation, and oxidation reduction were upregulated during somatic embryo development.This work provides novel insights into the process of larch embryo development in vitro and a basis for further study of the biological process and opportunities for practical application of this knowledge.

View Article: PubMed Central - PubMed

Affiliation: National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of State Forestry Administration, College of Biological Science and Biotechnology, Beijing Forestry University, Beijing 100083, China.

ABSTRACT
Prince Rupprecht's larch (Larix principis-rupprechtii Mayr) is a native high-value forest tree species in North China whose clonal propagation through somatic embryogenesis (SE) has the potential to rapidly capture the benefits of breeding or genetic engineering programs and to improve raw material uniformity and quality. To date, research has focused on clarifying the molecular mechanism of SE, but proteomic studies are still in the early stages. In this study, isobaric tags for relative and absolute quantitation (iTRAQ) analysis was performed on three developmental stages of SE in L. principis-rupprechtii in an attempt to identify a wide range of proteins that are regulated differentially during this process. Proteins were extracted and analyzed from the pro-embryogenic mass (PEM), globular embryo (GE), and cotyledon embryo (CE) stages of embryo development. We detected 503 proteins in total and identified 96 proteins expressed differentially during different developmental stages. The identified proteins were analyzed further to provide information about their expression patterns and functions during SE. Four clusters of proteins based on shared expression profiles were generated. Functional analysis showed that proteins involved in primary metabolism, phosphorylation, and oxidation reduction were upregulated during somatic embryo development. This work provides novel insights into the process of larch embryo development in vitro and a basis for further study of the biological process and opportunities for practical application of this knowledge.

Show MeSH
Related in: MedlinePlus