Comparative proteomics analysis of proteins expressed in the I-1 and I-2 internodes of strawberry stolons

Fang, Xianping; Ma, Huiqin; Lu, Dezhao; Yu, Hong; Lai, Wenguo; Ruan, Songlin

doi:10.1186/1477-5956-9-26

“…Soil plant analysis development (SPAD) values were determined using a chlorophyll meter (SPAD-502, Minolta, Japan). CAT, POD, and SOD activities and malondialdehyde and proline levels were determined as described [15]. …”

Section: Methodsmentioning

confidence: 99%

“…To know better the relatively poor responses of S. splendens to heat, which in turn would facilitate the production of heat-resistant S. splendens varieties, requires an understanding of the underlying physiological responses and molecular mechanisms of this species. Proteomics has emerged as a powerful tool for the study of plant biological processes [15,16]. Therefore, the primary objective of the work reported herein was to characterize the physiological responses and the changes in the leaf proteomes of two S. splendens varieties—the heat-resistant Vista variety and the heat-sensitive King variety—when heat stressed.…”

Section: Introductionmentioning

confidence: 99%

Heat stress-induced response of the proteomes of leaves from Salvia splendens Vista and King

Liu

¹

,

Shen

²

,

Fang

³

et al. 2013

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BackgroundSalvia splendens Ker-Gawl, most commonly used in China to add a splash of brilliant color to the surroundings during the warm season, is subject to heat stress, which can greatly affect its growth and yield.ResultsTo gain a comprehensive understanding of heat-tolerance mechanisms of S. splendens, we assessed the heat-stress responses and characterized the proteomes of leaves from two varieties, Vista (heat resistant) and King (heat sensitive). Denaturing two-dimensional gel electrophoresis (2–DE) and tandem mass spectrometry were used to identify heat-responsive proteins. Heat stress induced the reversible inactivation of photosystem II reaction centers and increased the amounts of antioxidative enzymes, thereby decreasing oxidative damage. Vista leaves had a much greater ability than King leaves to develop light-protective and oxygen-scavenging systems in response to heat stress. More than 1213 leaf proteome spots were reproducibly detected in the gels, with a total of 33 proteins in each leaf type differentially regulated when Salvia splendens were heat stress treated. Of these proteins, 23 and 28 from Vista and King, respectively, were identified.ConclusionsMost of the identified proteins are involved in photosynthesis, metabolism, protein processing, or stress response, indicating that many different processes work together to establish a new cellular homeostasis in response to heat stress.

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“…Recently, with the tremendous acquisition of the plant reference genome data, more and more comparative proteomics approaches have been applied for studying bud heterogeneity in crops [17][18][19][20]. Previous studies compared the proteomes of the first and second nodes of the strawberry stolons to elucidate the internode differences, and found that the DEPs ( [16]. Some of these DEP categories are similar to those determined by us and are mainly involved in photosynthesis and the developmental processes, between the first and the second node in strawberry stolon.…”

Section: Proteomics Analysis Of Different Stolon Budsmentioning

confidence: 99%

“…S9A). Between the groups of RLB and DSB, the GO terms were thylakoid (22), thylakoid part (16), plastid thylakoid (14), chloroplast thylakoid (14), photosynthetic membrane (14), and thylakoid membrane (12) (supplemental Fig. S9B).…”

mentioning

confidence: 99%

Phenotypic Analysis Combined with Tandem Mass Tags (TMT) Labeling Reveal the Heterogeneity of Strawberry Stolon Buds

Guan

¹

,

Zhao²,

Qian

³

et al. 2019

Preprint

0

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Background: Ramet propagation in strawberry (Fragaria × ananassa) is the most effective way in production. However, the lack of systematically phenotypic observations and high-throughput methods limits our ability to analyze the key factors regulating the heterogeneity in strawberry stolon buds. Results: From observation, we found that the axillary bud located in the first node quickly stepped into dormancy (DSB), after several bract and leaf buds were differentiated. The stolon apical meristem (SAM) degenerated as the new ramet leaf buds (RLB), and the new active axillary stolon buds (ASB) differentiated continually after the differentiation of the first leaf. Using the tandem mass tags (TMT) labeling method, a total of 7,271 strawberry proteins were identified. Between ASB and DSB, the spliceosome DEPs, such as Ser/Arg-rich (SR) and heterogeneous nuclear ribonucleoprotein particle (hnRNP), showed the highest enrichment and high PPI connectivity. This indicated that the differences in DEPs (e.g., SF-3A and PK) at the transcriptional level may be causing the differences between the physiological statuses of ASB and DSB. As expected, the photosynthetic pre-form RLB mainly differentiated from ASB and DSB judging by the DEP enrichment of photosynthesis. However, there are still other specialized features of DEPs between RLB and DSB and between ASB and DSB. The DEPs relative to DNA duplication [e.g., minichromosome maintenance protein (MCM 2, 3, 4, 7)], provide a strong hint of functional gene duplication leading the bud heterogeneity between RLB and DSB. In addition, the top fold change DEP of LSH 10-like might be involved in the degeneration of SAM into RLBs, based on its significant function in modulating the plant shoot initiation. As for RLB/ASB, the phenylpropanoid biosynthesis pathway probably regulates the ramet axillary bud specialization, and further promotes the differentiation of xylem when ASB develops into a new stolon [e.g., cinnamyl alcohol dehydrogenase 1 (CAD1) and phenylalanine ammonia-lyase 1 (PAL1)]. Conclusions: By using phenotypic observation combined with proteomic networks with different types of strawberry stolon buds, the definite dormancy phase of DSB was identified, and the biological pathways and gene networks that might be responsible for heterogeneity among different stolon buds in strawberry were also revealed.

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“…S9A). Between the groups of RLB and DSB, the GO terms were thylakoid (22), thylakoid part (16), plastid thylakoid 14, chloroplast thylakoid 14, photosynthetic membrane (14), and thylakoid membrane (12) (supplemental Fig. S9B).…”

Section: Go Functional Annotation and Analysis--thementioning

confidence: 99%

Phenotypic Analysis Combined with Tandem Mass Tags (TMT) Labeling Reveal the Heterogeneity of Strawberry Stolon Buds

Guan

¹

,

Zhao²,

Qian

³

et al. 2019

Preprint

0

View full text Add to dashboard Cite

Background: Ramet propagation in strawberry (Fragaria × ananassa) is the most effective way in production. However, the lack of systematically phenotypic observations and high-throughput methods limits our ability to analyze the key factors regulating the heterogeneity in strawberry stolon buds. Results: From observation, we found that the axillary bud located in the first node quickly stepped into dormancy (DSB), after several bract and leaf buds were differentiated. The stolon apical meristem (SAM) degenerated as the new ramet leaf buds (RLB), and the new active axillary stolon buds (ASB) differentiated continually after the differentiation of the first leaf. Using the tandem mass tags (TMT) labeling method, a total of 7,271 strawberry proteins were identified. Between ASB and DSB, the spliceosome DEPs, such as Ser/Arg-rich (SR) and heterogeneous nuclear ribonucleoprotein particle (hnRNP), showed the highest enrichment and high PPI connectivity. This indicated that the differences in DEPs (e.g., SF-3A and PK) at the transcriptional level may be causing the differences between the physiological statuses of ASB and DSB. As expected, the photosynthetic pre-form RLB mainly differentiated from ASB and DSB judging by the DEP enrichment of photosynthesis. However, there are still other specialized features of DEPs between RLB and DSB and between ASB and DSB. The DEPs relative to DNA duplication [e.g., minichromosome maintenance protein (MCM 2, 3, 4, 7)], provide a strong hint of functional gene duplication leading the bud heterogeneity between RLB and DSB. In addition, the top fold change DEP of LSH 10-like might be involved in the degeneration of SAM into RLBs, based on its significant function in modulating the plant shoot initiation. As for RLB/ASB, the phenylpropanoid biosynthesis pathway probably regulates the ramet axillary bud specialization, and further promotes the differentiation of xylem when ASB develops into a new stolon [e.g., cinnamyl alcohol dehydrogenase 1 (CAD1) and phenylalanine ammonia-lyase 1 (PAL1)]. Conclusions: By using phenotypic observation combined with proteomic networks with different types of strawberry stolon buds, the definite dormancy phase of DSB was identified, and the biological pathways and gene networks that might be responsible for heterogeneity among different stolon buds in strawberry were also revealed.

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Comparative proteomics analysis of proteins expressed in the I-1 and I-2 internodes of strawberry stolons

Cited by 24 publications

References 67 publications

Heat stress-induced response of the proteomes of leaves from Salvia splendens Vista and King

Heat stress-induced response of the proteomes of leaves from Salvia splendens Vista and King

Phenotypic Analysis Combined with Tandem Mass Tags (TMT) Labeling Reveal the Heterogeneity of Strawberry Stolon Buds

Phenotypic Analysis Combined with Tandem Mass Tags (TMT) Labeling Reveal the Heterogeneity of Strawberry Stolon Buds

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