Limits...
Comparative proteomic analyses of Asian cotton ovules with attached fibers in the early stages of fiber elongation process

View Article: PubMed Central - PubMed

ABSTRACT

Background: Plenty of proteomic studies were performed to characterize the allotetraploid upland cotton fiber elongation process, whereas little is known about the elongating diploid cotton fiber proteome.

Methods: In this study, we used a two-dimensional electrophoresis-based comparative proteomic approach to profile dynamic proteomes of diploid Asian cotton ovules with attached fibers in the early stages of fiber elongation process. One-way ANOVA and Student-Newman-Keuls test were used to find the differentially displayed protein (DDP) spots.

Results: A total of 55 protein spots were found having different abundance ranging from 1 to 9 days post-anthesis (DPA) in a two-day interval. These 55 DDP spots were all successfully identified using high-resolution mass spectrometric analyses. Gene ontology analyses revealed that proteoforms involved in energy/carbohydrate metabolism, redox homeostasis, and protein metabolism are the most abundant. In addition, orthologues of the 13 DDP spots were also found in differential proteome of allotetraploid elongating cotton fibers, suggesting their possible essential roles in fiber elongation process.

Conclusions: Our results not only revealed the dynamic proteome change of diploid Asian cotton fiber and ovule during early stages of fiber elongation process but also provided valuable resource for future studies on the molecular mechanism how the polyploidization improves the trait of fiber length.

Electronic supplementary material: The online version of this article (doi:10.1186/s12953-016-0101-1) contains supplementary material, which is available to authorized users.

No MeSH data available.


Related in: MedlinePlus

Protein abundance variance analysis of the 55 differentially displayed protein spots. Complete linkage hierarchical cluster analysis of the 55 DDPs at five time points was performed by comparing the average fold change of the DDPs. Protein names are indicated at the right. Type A and B stands for the proteins preferentially expressed in initiation and elongation process, respectively
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
getmorefigures.php?uid=PMC5015342&req=5

Fig2: Protein abundance variance analysis of the 55 differentially displayed protein spots. Complete linkage hierarchical cluster analysis of the 55 DDPs at five time points was performed by comparing the average fold change of the DDPs. Protein names are indicated at the right. Type A and B stands for the proteins preferentially expressed in initiation and elongation process, respectively

Mentions: The 55 DDP spots were clustered to two types according to their expression patterns (Fig. 2). The type A class contains 16 DDP spots, all of which have a higher protein abundance at 1 and 3 DPA, whereas the remaining 39 DDP spots were all grouped in the type B class having a higher protein abundance between 5 and 9 DPA. Two proteins, chloroplast Cu/Zn superoxide dismutase and heat shock protein 70, belongs to type A and type B class, respectively. Western blot analysis indicated that expression of chloroplast Cu/Zn superoxide dismutase is gradually decreasing during 1–9 DPA, whereas protein abundance of the two isoforms of heat shock protein 70 are both gradually increasing during the same period (Fig. 3a). These results are in full agreement with the protein abundance variance revealed by 2-DE and mass spectrometry identification (Fig. 3b), confirming the correctness of our analyses. Interesting, initiation of cotton fiber from the ovule epidermis occurs from -3 DPA to 3 DPA, whereas the fast fiber elongation process generally starts at 5 DPA and ends at 25 DPA [2–4]. Thus, the two types of DDP spots correspond exactly to proteins preferentially expressed in the fiber initiation and elongation process, respectively.Fig. 2


Comparative proteomic analyses of Asian cotton ovules with attached fibers in the early stages of fiber elongation process
Protein abundance variance analysis of the 55 differentially displayed protein spots. Complete linkage hierarchical cluster analysis of the 55 DDPs at five time points was performed by comparing the average fold change of the DDPs. Protein names are indicated at the right. Type A and B stands for the proteins preferentially expressed in initiation and elongation process, respectively
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC5015342&req=5

Fig2: Protein abundance variance analysis of the 55 differentially displayed protein spots. Complete linkage hierarchical cluster analysis of the 55 DDPs at five time points was performed by comparing the average fold change of the DDPs. Protein names are indicated at the right. Type A and B stands for the proteins preferentially expressed in initiation and elongation process, respectively
Mentions: The 55 DDP spots were clustered to two types according to their expression patterns (Fig. 2). The type A class contains 16 DDP spots, all of which have a higher protein abundance at 1 and 3 DPA, whereas the remaining 39 DDP spots were all grouped in the type B class having a higher protein abundance between 5 and 9 DPA. Two proteins, chloroplast Cu/Zn superoxide dismutase and heat shock protein 70, belongs to type A and type B class, respectively. Western blot analysis indicated that expression of chloroplast Cu/Zn superoxide dismutase is gradually decreasing during 1–9 DPA, whereas protein abundance of the two isoforms of heat shock protein 70 are both gradually increasing during the same period (Fig. 3a). These results are in full agreement with the protein abundance variance revealed by 2-DE and mass spectrometry identification (Fig. 3b), confirming the correctness of our analyses. Interesting, initiation of cotton fiber from the ovule epidermis occurs from -3 DPA to 3 DPA, whereas the fast fiber elongation process generally starts at 5 DPA and ends at 25 DPA [2–4]. Thus, the two types of DDP spots correspond exactly to proteins preferentially expressed in the fiber initiation and elongation process, respectively.Fig. 2

View Article: PubMed Central - PubMed

ABSTRACT

Background: Plenty of proteomic studies were performed to characterize the allotetraploid upland cotton fiber elongation process, whereas little is known about the elongating diploid cotton fiber proteome.

Methods: In this study, we used a two-dimensional electrophoresis-based comparative proteomic approach to profile dynamic proteomes of diploid Asian cotton ovules with attached fibers in the early stages of fiber elongation process. One-way ANOVA and Student-Newman-Keuls test were used to find the differentially displayed protein (DDP) spots.

Results: A total of 55 protein spots were found having different abundance ranging from 1 to 9 days post-anthesis (DPA) in a two-day interval. These 55 DDP spots were all successfully identified using high-resolution mass spectrometric analyses. Gene ontology analyses revealed that proteoforms involved in energy/carbohydrate metabolism, redox homeostasis, and protein metabolism are the most abundant. In addition, orthologues of the 13 DDP spots were also found in differential proteome of allotetraploid elongating cotton fibers, suggesting their possible essential roles in fiber elongation process.

Conclusions: Our results not only revealed the dynamic proteome change of diploid Asian cotton fiber and ovule during early stages of fiber elongation process but also provided valuable resource for future studies on the molecular mechanism how the polyploidization improves the trait of fiber length.

Electronic supplementary material: The online version of this article (doi:10.1186/s12953-016-0101-1) contains supplementary material, which is available to authorized users.

No MeSH data available.


Related in: MedlinePlus