Vidović, Marija

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orcid::0000-0001-5855-7192
  • Vidović, Marija (13)
  • Vidović, Marija S. (1)

Author's Bibliography

Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves

Vidović, Marija; Stevanović, Strahinja; Franchin, Cinzia; Battisti, Ilaria; Arrigoni, Giorgio; Masi, Antonio; Veljovic Jovanovic, Sonja

(International Plant Proteomics Organization, 2021)

TY  - CONF
AU  - Vidović, Marija
AU  - Stevanović, Strahinja
AU  - Franchin, Cinzia
AU  - Battisti, Ilaria
AU  - Arrigoni, Giorgio
AU  - Masi, Antonio
AU  - Veljovic Jovanovic, Sonja
PY  - 2021
UR  - https://inppo.org/inppo2020/
UR  - http://cherry.chem.bg.ac.rs/handle/123456789/4842
AB  - Resurrection plant Ramonda serbica Panc. survives desiccation for a long period and fully recovers metabolic functions already within one day upon watering [1]. Besides osmotic stress, desiccation provokes the accelerated generation of reactive oxygen species. The aim of our study was obtaining more insight into the mechanisms of desiccation tolerance in R. serbica by TMT labelled comparative quantitative proteomics of hydrated (HL) and desiccated leaves (DL). After de novo transcriptome analysis, 189456 transcripts with 189003 unigenes were annotated with seven common databases. Proteomic analysis allowed for the relative quantification of 895 different protein groups, 321 with a statistically significant difference in abundance between FL and DL. Among them, 25% referred to chloroplast and almost the same percentage were associated with desiccation and oxidative stress. Almost all differentially abundant proteins related to photosynthetic processes were down-regulated in DL, while those required for protein translation were more abundant in HL. Within differentially abundant proteins involved in antioxidative defence, the levels of enzymes involved in ascorbate-glutathione cycle, peroxiredoxins, Fe and Mn superoxide dismutase (SOD) were all reduced in DL, while germin-like proteins, three Cu/Zn SOD isoforms and polyphenol oxidases were more abundant in DL compared with HL. The protein family with the highest number of members showing the greatest accumulation upon desiccation comprised twenty different late embryogenesis abundant proteins (LEAPs), similarly as found by differential transcriptomic analysis. Taken together, our results imply a key role of LEAPs and Cu/Zn SOD in protective mechanism against desiccation in R. serbica, that may have significant implications on drought-related studies of crops grown in arid areas. This work was supported by the Science Fund of the Republic of Serbia (PROMIS project LEAPSyn-SCI, grant number 6039663). M.V. wishes to acknowledge the support of COST Action BM1405 for approving STSM in Padua during 2017 and 2018.
PB  - International Plant Proteomics Organization
C3  - The Fourth Conference of the International Plant Proteomics Organization
T1  - Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves
SP  - 43
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4842
ER  - 
@conference{
author = "Vidović, Marija and Stevanović, Strahinja and Franchin, Cinzia and Battisti, Ilaria and Arrigoni, Giorgio and Masi, Antonio and Veljovic Jovanovic, Sonja",
year = "2021",
abstract = "Resurrection plant Ramonda serbica Panc. survives desiccation for a long period and fully recovers metabolic functions already within one day upon watering [1]. Besides osmotic stress, desiccation provokes the accelerated generation of reactive oxygen species. The aim of our study was obtaining more insight into the mechanisms of desiccation tolerance in R. serbica by TMT labelled comparative quantitative proteomics of hydrated (HL) and desiccated leaves (DL). After de novo transcriptome analysis, 189456 transcripts with 189003 unigenes were annotated with seven common databases. Proteomic analysis allowed for the relative quantification of 895 different protein groups, 321 with a statistically significant difference in abundance between FL and DL. Among them, 25% referred to chloroplast and almost the same percentage were associated with desiccation and oxidative stress. Almost all differentially abundant proteins related to photosynthetic processes were down-regulated in DL, while those required for protein translation were more abundant in HL. Within differentially abundant proteins involved in antioxidative defence, the levels of enzymes involved in ascorbate-glutathione cycle, peroxiredoxins, Fe and Mn superoxide dismutase (SOD) were all reduced in DL, while germin-like proteins, three Cu/Zn SOD isoforms and polyphenol oxidases were more abundant in DL compared with HL. The protein family with the highest number of members showing the greatest accumulation upon desiccation comprised twenty different late embryogenesis abundant proteins (LEAPs), similarly as found by differential transcriptomic analysis. Taken together, our results imply a key role of LEAPs and Cu/Zn SOD in protective mechanism against desiccation in R. serbica, that may have significant implications on drought-related studies of crops grown in arid areas. This work was supported by the Science Fund of the Republic of Serbia (PROMIS project LEAPSyn-SCI, grant number 6039663). M.V. wishes to acknowledge the support of COST Action BM1405 for approving STSM in Padua during 2017 and 2018.",
publisher = "International Plant Proteomics Organization",
journal = "The Fourth Conference of the International Plant Proteomics Organization",
title = "Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves",
pages = "43",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4842"
}
Vidović, M., Stevanović, S., Franchin, C., Battisti, I., Arrigoni, G., Masi, A.,& Veljovic Jovanovic, S.. (2021). Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves. in The Fourth Conference of the International Plant Proteomics Organization
International Plant Proteomics Organization., 43.
https://hdl.handle.net/21.15107/rcub_cherry_4842
Vidović M, Stevanović S, Franchin C, Battisti I, Arrigoni G, Masi A, Veljovic Jovanovic S. Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves. in The Fourth Conference of the International Plant Proteomics Organization. 2021;:43.
https://hdl.handle.net/21.15107/rcub_cherry_4842 .
Vidović, Marija, Stevanović, Strahinja, Franchin, Cinzia, Battisti, Ilaria, Arrigoni, Giorgio, Masi, Antonio, Veljovic Jovanovic, Sonja, "Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves" in The Fourth Conference of the International Plant Proteomics Organization (2021):43,
https://hdl.handle.net/21.15107/rcub_cherry_4842 .

Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves

Vidović, Marija; Stevanović, Strahinja; Franchin, Cinzia; Battisti, Ilaria; Arrigoni, Giorgio; Masi, Antonio; Veljovic Jovanovic, Sonja

(International Plant Proteomics Organization, 2021)

TY  - CONF
AU  - Vidović, Marija
AU  - Stevanović, Strahinja
AU  - Franchin, Cinzia
AU  - Battisti, Ilaria
AU  - Arrigoni, Giorgio
AU  - Masi, Antonio
AU  - Veljovic Jovanovic, Sonja
PY  - 2021
UR  - https://inppo.org/inppo2020/
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4424
AB  - Resurrection plant Ramonda serbica Panc. survives desiccation for a long period and fully recovers metabolic functions already within one day upon watering [1]. Besides osmotic stress, desiccation provokes the accelerated generation of reactive oxygen species. The aim of our study was obtaining more insight into the mechanisms of desiccation tolerance in R. serbica by TMT labelled comparative quantitative proteomics of hydrated (HL) and desiccated leaves (DL). After de novo transcriptome analysis, 189456 transcripts with 189003 unigenes were annotated with seven common databases. Proteomic analysis allowed for the relative quantification of 895 different protein groups, 321 with a statistically significant difference in abundance between FL and DL. Among them, 25% referred to chloroplast and almost the same percentage were associated with desiccation and oxidative stress. Almost all differentially abundant proteins related to photosynthetic processes were down-regulated in DL, while those required for protein translation were more abundant in HL. Within differentially abundant proteins involved in antioxidative defence, the levels of enzymes involved in ascorbate-glutathione cycle, peroxiredoxins, Fe and Mn superoxide dismutase (SOD) were all reduced in DL, while germin-like proteins, three Cu/Zn SOD isoforms and polyphenol oxidases were more abundant in DL compared with HL. The protein family with the highest number of members showing the greatest accumulation upon desiccation comprised twenty different late embryogenesis abundant proteins (LEAPs), similarly as found by differential transcriptomic analysis. Taken together, our results imply a key role of LEAPs and Cu/Zn SOD in protective mechanism against desiccation in R. serbica, that may have significant implications on drought-related studies of crops grown in arid areas. This work was supported by the Science Fund of the Republic of Serbia (PROMIS project LEAPSyn-SCI, grant number 6039663). M.V. wishes to acknowledge the support of COST Action BM1405 for approving STSM in Padua during 2017 and 2018.
PB  - International Plant Proteomics Organization
C3  - The Fourth Conference of the International Plant Proteomics Organization
T1  - Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves
SP  - 43
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4424
ER  - 
@conference{
author = "Vidović, Marija and Stevanović, Strahinja and Franchin, Cinzia and Battisti, Ilaria and Arrigoni, Giorgio and Masi, Antonio and Veljovic Jovanovic, Sonja",
year = "2021",
abstract = "Resurrection plant Ramonda serbica Panc. survives desiccation for a long period and fully recovers metabolic functions already within one day upon watering [1]. Besides osmotic stress, desiccation provokes the accelerated generation of reactive oxygen species. The aim of our study was obtaining more insight into the mechanisms of desiccation tolerance in R. serbica by TMT labelled comparative quantitative proteomics of hydrated (HL) and desiccated leaves (DL). After de novo transcriptome analysis, 189456 transcripts with 189003 unigenes were annotated with seven common databases. Proteomic analysis allowed for the relative quantification of 895 different protein groups, 321 with a statistically significant difference in abundance between FL and DL. Among them, 25% referred to chloroplast and almost the same percentage were associated with desiccation and oxidative stress. Almost all differentially abundant proteins related to photosynthetic processes were down-regulated in DL, while those required for protein translation were more abundant in HL. Within differentially abundant proteins involved in antioxidative defence, the levels of enzymes involved in ascorbate-glutathione cycle, peroxiredoxins, Fe and Mn superoxide dismutase (SOD) were all reduced in DL, while germin-like proteins, three Cu/Zn SOD isoforms and polyphenol oxidases were more abundant in DL compared with HL. The protein family with the highest number of members showing the greatest accumulation upon desiccation comprised twenty different late embryogenesis abundant proteins (LEAPs), similarly as found by differential transcriptomic analysis. Taken together, our results imply a key role of LEAPs and Cu/Zn SOD in protective mechanism against desiccation in R. serbica, that may have significant implications on drought-related studies of crops grown in arid areas. This work was supported by the Science Fund of the Republic of Serbia (PROMIS project LEAPSyn-SCI, grant number 6039663). M.V. wishes to acknowledge the support of COST Action BM1405 for approving STSM in Padua during 2017 and 2018.",
publisher = "International Plant Proteomics Organization",
journal = "The Fourth Conference of the International Plant Proteomics Organization",
title = "Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves",
pages = "43",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4424"
}
Vidović, M., Stevanović, S., Franchin, C., Battisti, I., Arrigoni, G., Masi, A.,& Veljovic Jovanovic, S.. (2021). Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves. in The Fourth Conference of the International Plant Proteomics Organization
International Plant Proteomics Organization., 43.
https://hdl.handle.net/21.15107/rcub_cherry_4424
Vidović M, Stevanović S, Franchin C, Battisti I, Arrigoni G, Masi A, Veljovic Jovanovic S. Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves. in The Fourth Conference of the International Plant Proteomics Organization. 2021;:43.
https://hdl.handle.net/21.15107/rcub_cherry_4424 .
Vidović, Marija, Stevanović, Strahinja, Franchin, Cinzia, Battisti, Ilaria, Arrigoni, Giorgio, Masi, Antonio, Veljovic Jovanovic, Sonja, "Twenty different late embryogenesis abundant proteins (LEAPs) accumulate in desiccated Ramonda serbica leaves" in The Fourth Conference of the International Plant Proteomics Organization (2021):43,
https://hdl.handle.net/21.15107/rcub_cherry_4424 .

In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship

Stevanović, Strahinja; Vidović, Marija

(2021)

TY  - CONF
AU  - Stevanović, Strahinja
AU  - Vidović, Marija
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4649
AB  - Desiccation or extreme water loss leads to protein denaturation, aggregation, and degradation and impairs membrane lipid fluidity, resulting in loss of membrane integrity at the cellular level. The induction of late embryogenesis abundant proteins (LEAPs) is considered an essential component of desiccation tolerance strategy in so-called resurrection plants. This heterogeneous group of hydrophilic, non-globular proteins is characterized by a high structural plasticity that allows them to adopt a random conformation in aqueous solutions that transforms into α-helices during dehydration [1]. Therefore, LEAPs can interact with various ligands and partners, including ion sequestration and stabilization of membranes and enzymes during freezing or drying [2]. Our new transcriptome database of an endemic resurrection species Ramonda serbica allowed us to identify 153 members of the LEA gene family. LEAPs of this sample data have an average primary sequence similarity and identity of 10% and 6%, respectively, but with a high variance (141 and 108), which means that the sample proteins can be classified based on domain homology. The averaging is based on multiple sequence alignment and the variance is estimated using pairwise sequence alignment scores. Accordingly, all identified LEAPs were clustered into six groups based on protein families (PFAM). Among these groups, LEAPs differ significantly in their secondary structure, disorder propensity and aggregation potential. Furthermore, we built homology models using Protein Data Bank structure information as templates. For each group, an ensemble of superimposed 3D homology models was analyzed. The information obtained from the representative structural models is key to understanding the function of LEAPs and the regulation of their intrinsic structural disorder-to-order transition during desiccation. This will pave the way for the identification of LEAPs endogenous partners and their targets in the cell and provide further insights into the protective mechanisms of desiccation tolerance.
C3  - Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5
T1  - In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4649
ER  - 
@conference{
author = "Stevanović, Strahinja and Vidović, Marija",
year = "2021",
abstract = "Desiccation or extreme water loss leads to protein denaturation, aggregation, and degradation and impairs membrane lipid fluidity, resulting in loss of membrane integrity at the cellular level. The induction of late embryogenesis abundant proteins (LEAPs) is considered an essential component of desiccation tolerance strategy in so-called resurrection plants. This heterogeneous group of hydrophilic, non-globular proteins is characterized by a high structural plasticity that allows them to adopt a random conformation in aqueous solutions that transforms into α-helices during dehydration [1]. Therefore, LEAPs can interact with various ligands and partners, including ion sequestration and stabilization of membranes and enzymes during freezing or drying [2]. Our new transcriptome database of an endemic resurrection species Ramonda serbica allowed us to identify 153 members of the LEA gene family. LEAPs of this sample data have an average primary sequence similarity and identity of 10% and 6%, respectively, but with a high variance (141 and 108), which means that the sample proteins can be classified based on domain homology. The averaging is based on multiple sequence alignment and the variance is estimated using pairwise sequence alignment scores. Accordingly, all identified LEAPs were clustered into six groups based on protein families (PFAM). Among these groups, LEAPs differ significantly in their secondary structure, disorder propensity and aggregation potential. Furthermore, we built homology models using Protein Data Bank structure information as templates. For each group, an ensemble of superimposed 3D homology models was analyzed. The information obtained from the representative structural models is key to understanding the function of LEAPs and the regulation of their intrinsic structural disorder-to-order transition during desiccation. This will pave the way for the identification of LEAPs endogenous partners and their targets in the cell and provide further insights into the protective mechanisms of desiccation tolerance.",
journal = "Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5",
title = "In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4649"
}
Stevanović, S.,& Vidović, M.. (2021). In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship. in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5.
https://hdl.handle.net/21.15107/rcub_cherry_4649
Stevanović S, Vidović M. In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship. in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5. 2021;.
https://hdl.handle.net/21.15107/rcub_cherry_4649 .
Stevanović, Strahinja, Vidović, Marija, "In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship" in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5 (2021),
https://hdl.handle.net/21.15107/rcub_cherry_4649 .

In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship

Stevanović, Strahinja; Vidović, Marija

(2021)

TY  - CONF
AU  - Stevanović, Strahinja
AU  - Vidović, Marija
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4508
AB  - Desiccation or extreme water loss leads to protein denaturation, aggregation, and degradation and impairs membrane lipid fluidity, resulting in loss of membrane integrity at the cellular level. The induction of late embryogenesis abundant proteins (LEAPs) is considered an essential component of desiccation tolerance strategy in so-called resurrection plants. This heterogeneous group of hydrophilic, non-globular proteins is characterised by a high structural plasticity that allows them to adopt a random conformation in aqueous solutions that transforms into α-helices during dehydration [1]. Therefore, LEAPs can interact with various ligands and partners, including ion sequestration and stabilisation of membranes and enzymes during freezing or drying [2].
Our new transcriptome database of an endemic resurrection species Ramonda serbica allowed us to identify 164 members of the LEA gene family. LEAPs of this sample data have an average primary sequence similarity and identity of 10% and 6%, respectively, but with a high variance (141 and 108), which means that the sample proteins can be classified based on domain homology. The averaging is based on multiple sequence alignment and the variance is estimated using pairwise sequence alignment scores. Accordingly, all identified LEAPs were clustered into six groups based on protein families (PFAM). Among these groups, LEAPs differ significantly in their secondary structure, disorder propensity and aggregation potential. Furthermore, we built homology models using PDB structures as templates. For each group, an ensemble of superimposed 3D homology models was analyzed. 
The information obtained from the representative structural models is key to understanding the function of LEAPs and the regulation of their intrinsic structural disorder-to-order transition during desiccation. This will pave the way for the identification of LEAPs endogenous partners and their targets in the cell and provide further insights into the protective mechanisms of desiccation tolerance.
C3  - Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5
T1  - In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4508
ER  - 
@conference{
author = "Stevanović, Strahinja and Vidović, Marija",
year = "2021",
abstract = "Desiccation or extreme water loss leads to protein denaturation, aggregation, and degradation and impairs membrane lipid fluidity, resulting in loss of membrane integrity at the cellular level. The induction of late embryogenesis abundant proteins (LEAPs) is considered an essential component of desiccation tolerance strategy in so-called resurrection plants. This heterogeneous group of hydrophilic, non-globular proteins is characterised by a high structural plasticity that allows them to adopt a random conformation in aqueous solutions that transforms into α-helices during dehydration [1]. Therefore, LEAPs can interact with various ligands and partners, including ion sequestration and stabilisation of membranes and enzymes during freezing or drying [2].
Our new transcriptome database of an endemic resurrection species Ramonda serbica allowed us to identify 164 members of the LEA gene family. LEAPs of this sample data have an average primary sequence similarity and identity of 10% and 6%, respectively, but with a high variance (141 and 108), which means that the sample proteins can be classified based on domain homology. The averaging is based on multiple sequence alignment and the variance is estimated using pairwise sequence alignment scores. Accordingly, all identified LEAPs were clustered into six groups based on protein families (PFAM). Among these groups, LEAPs differ significantly in their secondary structure, disorder propensity and aggregation potential. Furthermore, we built homology models using PDB structures as templates. For each group, an ensemble of superimposed 3D homology models was analyzed. 
The information obtained from the representative structural models is key to understanding the function of LEAPs and the regulation of their intrinsic structural disorder-to-order transition during desiccation. This will pave the way for the identification of LEAPs endogenous partners and their targets in the cell and provide further insights into the protective mechanisms of desiccation tolerance.",
journal = "Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5",
title = "In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4508"
}
Stevanović, S.,& Vidović, M.. (2021). In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship. in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5.
https://hdl.handle.net/21.15107/rcub_cherry_4508
Stevanović S, Vidović M. In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship. in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5. 2021;.
https://hdl.handle.net/21.15107/rcub_cherry_4508 .
Stevanović, Strahinja, Vidović, Marija, "In silico structural survey of newly identified late embryogenesis abundant proteins (LEAPs) from Ramonda serbica and their structure - function relationship" in Virtual symposium celebrating the 50th anniversary of the Protein Data Bank, May 4–5 (2021),
https://hdl.handle.net/21.15107/rcub_cherry_4508 .

De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance

Vidović, Marija; Stevanović, Strahinja; Pantelić, Ana; Veljović-Jovanović, Sonja

(2021)

TY  - CONF
AU  - Vidović, Marija
AU  - Stevanović, Strahinja
AU  - Pantelić, Ana
AU  - Veljović-Jovanović, Sonja
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4510
AB  - Introduction: Ramonda serbica Panc. is a resurrection plant that can survive a long period of severe dehydrationdesiccation.
Desiccation induces cellular membrane integrity loss, protein aggregation, and denaturation, as well as
accelerated generation of reactive oxygen species. However, R. serbica can fully recover its metabolic functions
already one day upon watering [1].
Aim: to obtain more insight into the mechanisms of desiccation tolerance in R. serbica by differential de novo
transcriptomics of hydrated (HL) and desiccated leaves (DL).
C3  - Belgrade BioInformatics Conference 2021, 21-25 June, Vinča, Serbia
T1  - De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4510
ER  - 
@conference{
author = "Vidović, Marija and Stevanović, Strahinja and Pantelić, Ana and Veljović-Jovanović, Sonja",
year = "2021",
abstract = "Introduction: Ramonda serbica Panc. is a resurrection plant that can survive a long period of severe dehydrationdesiccation.
Desiccation induces cellular membrane integrity loss, protein aggregation, and denaturation, as well as
accelerated generation of reactive oxygen species. However, R. serbica can fully recover its metabolic functions
already one day upon watering [1].
Aim: to obtain more insight into the mechanisms of desiccation tolerance in R. serbica by differential de novo
transcriptomics of hydrated (HL) and desiccated leaves (DL).",
journal = "Belgrade BioInformatics Conference 2021, 21-25 June, Vinča, Serbia",
title = "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4510"
}
Vidović, M., Stevanović, S., Pantelić, A.,& Veljović-Jovanović, S.. (2021). De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance. in Belgrade BioInformatics Conference 2021, 21-25 June, Vinča, Serbia.
https://hdl.handle.net/21.15107/rcub_cherry_4510
Vidović M, Stevanović S, Pantelić A, Veljović-Jovanović S. De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance. in Belgrade BioInformatics Conference 2021, 21-25 June, Vinča, Serbia. 2021;.
https://hdl.handle.net/21.15107/rcub_cherry_4510 .
Vidović, Marija, Stevanović, Strahinja, Pantelić, Ana, Veljović-Jovanović, Sonja, "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance" in Belgrade BioInformatics Conference 2021, 21-25 June, Vinča, Serbia (2021),
https://hdl.handle.net/21.15107/rcub_cherry_4510 .

De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance

Vidović, Marija; Stevanović, Strahinja; Veljović-Jovanović, Sonja

(2021)

TY  - CONF
AU  - Vidović, Marija
AU  - Stevanović, Strahinja
AU  - Veljović-Jovanović, Sonja
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4509
AB  - Ramonda serbica Panc. is a resurrection plant that can survive a long period of severe dehydration-desiccation. Desiccation induces cellular membrane integrity loss, protein aggregation, and denaturation, as well as accelerated generation of reactive oxygen species. However, R. serbica can fully recover its metabolic functions already one day upon watering [1]. The aim of our study was to obtain more insight into the desiccation tolerance mechanisms by differential de novo transcriptomics of hydrated (HL) and desiccated leaves (DL). 
For R. serbica transcriptome construction, the total high-quality RNA from HL and DL was extracted according to our previously optimised protocol [2]. Highly purified cDNA libraries were sequenced on an Illumina Hi-Seq platform. The ambiguous nucleotides, adapter sequences, and low-quality sequences were trimmed, and the quality of the reads was checked before and after the trimming. In total, 39608813 (with Q30=94%) and 37482969 (with Q30=94.1%) clean reads were obtained in HL and DL, respectively, and used to perform transcriptome assembly by Trinity software. After removing the redundancy, 189456 transcripts with 189003 unigenes were obtained (32.6% with the length between 500-1kbp).
Comparative analysis revealed that a large portion of R. serbica sequences (49.1%) was similar to sequences found in the genome of another resurrection plant Boea hygrometrica. Furthermore, among obtained unigenes, 64.6% and 42.3% were annotated by NCBI non-redundant protein and nucleotide sequences database (db), 23% by PFAM db, 22.5% by Clusters of Orthologous Groups of proteins db, 48.02% by Swiss-Prot db, 23 % KEGG db and 13.73 by Gene Ontology db. The majority of annotated genes were associated with translation, ribosomal structure, posttranslational modifications, protein turnover, signalling pathways and cytoskeleton and encoded chaperonins and late embryogenesis abundant (LEA) proteins. 
Aiming to provide a list of candidates involved in the desiccation tolerance in R. serbica we analysed differentially expressed genes in HL and DL. Genes associated with transmembrane transport, reproduction, cell proliferation, and protein folding were up-regulated in HL compared with DL. On the other hand, genes encoding proteins involved in cell wall architecture, LEA proteins and antioxidative defence were up-regulated in DL.
C3  - Biologia Serbica
T1  - De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance
VL  - 43
IS  - 1 (spec. ed.)
SP  - 75
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4509
ER  - 
@conference{
author = "Vidović, Marija and Stevanović, Strahinja and Veljović-Jovanović, Sonja",
year = "2021",
abstract = "Ramonda serbica Panc. is a resurrection plant that can survive a long period of severe dehydration-desiccation. Desiccation induces cellular membrane integrity loss, protein aggregation, and denaturation, as well as accelerated generation of reactive oxygen species. However, R. serbica can fully recover its metabolic functions already one day upon watering [1]. The aim of our study was to obtain more insight into the desiccation tolerance mechanisms by differential de novo transcriptomics of hydrated (HL) and desiccated leaves (DL). 
For R. serbica transcriptome construction, the total high-quality RNA from HL and DL was extracted according to our previously optimised protocol [2]. Highly purified cDNA libraries were sequenced on an Illumina Hi-Seq platform. The ambiguous nucleotides, adapter sequences, and low-quality sequences were trimmed, and the quality of the reads was checked before and after the trimming. In total, 39608813 (with Q30=94%) and 37482969 (with Q30=94.1%) clean reads were obtained in HL and DL, respectively, and used to perform transcriptome assembly by Trinity software. After removing the redundancy, 189456 transcripts with 189003 unigenes were obtained (32.6% with the length between 500-1kbp).
Comparative analysis revealed that a large portion of R. serbica sequences (49.1%) was similar to sequences found in the genome of another resurrection plant Boea hygrometrica. Furthermore, among obtained unigenes, 64.6% and 42.3% were annotated by NCBI non-redundant protein and nucleotide sequences database (db), 23% by PFAM db, 22.5% by Clusters of Orthologous Groups of proteins db, 48.02% by Swiss-Prot db, 23 % KEGG db and 13.73 by Gene Ontology db. The majority of annotated genes were associated with translation, ribosomal structure, posttranslational modifications, protein turnover, signalling pathways and cytoskeleton and encoded chaperonins and late embryogenesis abundant (LEA) proteins. 
Aiming to provide a list of candidates involved in the desiccation tolerance in R. serbica we analysed differentially expressed genes in HL and DL. Genes associated with transmembrane transport, reproduction, cell proliferation, and protein folding were up-regulated in HL compared with DL. On the other hand, genes encoding proteins involved in cell wall architecture, LEA proteins and antioxidative defence were up-regulated in DL.",
journal = "Biologia Serbica",
title = "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance",
volume = "43",
number = "1 (spec. ed.)",
pages = "75",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4509"
}
Vidović, M., Stevanović, S.,& Veljović-Jovanović, S.. (2021). De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance. in Biologia Serbica, 43(1 (spec. ed.)), 75.
https://hdl.handle.net/21.15107/rcub_cherry_4509
Vidović M, Stevanović S, Veljović-Jovanović S. De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance. in Biologia Serbica. 2021;43(1 (spec. ed.)):75.
https://hdl.handle.net/21.15107/rcub_cherry_4509 .
Vidović, Marija, Stevanović, Strahinja, Veljović-Jovanović, Sonja, "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of the Candidate Genes Involved in the Desiccation Tolerance" in Biologia Serbica, 43, no. 1 (spec. ed.) (2021):75,
https://hdl.handle.net/21.15107/rcub_cherry_4509 .

De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins

Pantelić, Ana; Stevanović, Strahinja; Kilibarda, Nataša; Vidović, Marija

(Belgrade BioInformatics, 2021)

TY  - GEN
AU  - Pantelić, Ana
AU  - Stevanović, Strahinja
AU  - Kilibarda, Nataša
AU  - Vidović, Marija
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4506
PB  - Belgrade BioInformatics
T2  - Belgrade BioInformatics Conference 2021
T1  - De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4506
ER  - 
@misc{
author = "Pantelić, Ana and Stevanović, Strahinja and Kilibarda, Nataša and Vidović, Marija",
year = "2021",
publisher = "Belgrade BioInformatics",
journal = "Belgrade BioInformatics Conference 2021",
title = "De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4506"
}
Pantelić, A., Stevanović, S., Kilibarda, N.,& Vidović, M.. (2021). De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins. in Belgrade BioInformatics Conference 2021
Belgrade BioInformatics..
https://hdl.handle.net/21.15107/rcub_cherry_4506
Pantelić A, Stevanović S, Kilibarda N, Vidović M. De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins. in Belgrade BioInformatics Conference 2021. 2021;.
https://hdl.handle.net/21.15107/rcub_cherry_4506 .
Pantelić, Ana, Stevanović, Strahinja, Kilibarda, Nataša, Vidović, Marija, "De Novo Transcriptome Sequencing of Ramonda serbica : Identification of Late Embryogenesis Abundant Proteins" in Belgrade BioInformatics Conference 2021 (2021),
https://hdl.handle.net/21.15107/rcub_cherry_4506 .

De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins

Pantelić, Ana; Stevanović, Strahinja; Kilibarda, Nataša; Vidović, Marija

(Novi Sad : Faculty of Sciences, Department of Biology and Ecology, 2021)

TY  - CONF
AU  - Pantelić, Ana
AU  - Stevanović, Strahinja
AU  - Kilibarda, Nataša
AU  - Vidović, Marija
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4503
UR  - http://ojs.pmf.uns.ac.rs/index.php/dbe_serbica/index
AB  - An extreme loss of cellular water or desiccation (5-10% of relative water content) leads to protein denaturation, aggregation and degradation, and affects the fluidity of membrane lipids resulting in loss of membrane integrity [1]. The essential constituents of vegetative desiccation tolerance in so-called resurrection plants are late embryogenesis abundant proteins (LEAPs). This heterogeneous group of anhydrobiosis-related intrinsically disordered proteins forms mostly random conformation when fully hydrated, turning into compact α-helices during desiccation [2]. Based on in vitro studies, LEAPs can be involved in water binding, ion sequestration, stabilization of both membrane and enzymes during freezing or drying, while by forming intracellular proteinaceous condensates they increase structural integrity and intracellular viscosity of cells during desiccation.
Here, we identify 164 members of LEA gene family in endemic and relict resurrection species Ramonda serbica by integrating previously done de novo transcriptome and homologues protein motifs. Identified LEAPs were classification into six groups according to Protein family (PFAM) database and the most populated group was LEA4 containing 47% of total identified LEAPs. By using four secondary structure predictors, we showed that this group exhibited a high propensity to form amphipathic α-helices (81% of total sequence length is predicted to form α-helical structure). This implies that charged residues might be exposed to the solvent, while hydrophobic amino acids might interact with lipid bilayers or with other target proteins in the cell. In addition, as predicted by several bioinformatic tools, more than 70% of identified LEAPs were found to be highly disordered (~64%). Structural characterization of LEAPs is a key to understand their function and regulation of their intrinsic structural disorder-to-order transition during desiccation. These findings will promote transformative advancements in various fields, such as the development of new strategies in neurodegenerative disorders, cell preservation technology and the improvement of crop drought tolerance.
PB  - Novi Sad : Faculty of Sciences, Department of Biology and Ecology
C3  - Biologia Serbica
T1  - De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins
VL  - 43
IS  - 1 (spec. ed.)
SP  - 65
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4503
ER  - 
@conference{
author = "Pantelić, Ana and Stevanović, Strahinja and Kilibarda, Nataša and Vidović, Marija",
year = "2021",
abstract = "An extreme loss of cellular water or desiccation (5-10% of relative water content) leads to protein denaturation, aggregation and degradation, and affects the fluidity of membrane lipids resulting in loss of membrane integrity [1]. The essential constituents of vegetative desiccation tolerance in so-called resurrection plants are late embryogenesis abundant proteins (LEAPs). This heterogeneous group of anhydrobiosis-related intrinsically disordered proteins forms mostly random conformation when fully hydrated, turning into compact α-helices during desiccation [2]. Based on in vitro studies, LEAPs can be involved in water binding, ion sequestration, stabilization of both membrane and enzymes during freezing or drying, while by forming intracellular proteinaceous condensates they increase structural integrity and intracellular viscosity of cells during desiccation.
Here, we identify 164 members of LEA gene family in endemic and relict resurrection species Ramonda serbica by integrating previously done de novo transcriptome and homologues protein motifs. Identified LEAPs were classification into six groups according to Protein family (PFAM) database and the most populated group was LEA4 containing 47% of total identified LEAPs. By using four secondary structure predictors, we showed that this group exhibited a high propensity to form amphipathic α-helices (81% of total sequence length is predicted to form α-helical structure). This implies that charged residues might be exposed to the solvent, while hydrophobic amino acids might interact with lipid bilayers or with other target proteins in the cell. In addition, as predicted by several bioinformatic tools, more than 70% of identified LEAPs were found to be highly disordered (~64%). Structural characterization of LEAPs is a key to understand their function and regulation of their intrinsic structural disorder-to-order transition during desiccation. These findings will promote transformative advancements in various fields, such as the development of new strategies in neurodegenerative disorders, cell preservation technology and the improvement of crop drought tolerance.",
publisher = "Novi Sad : Faculty of Sciences, Department of Biology and Ecology",
journal = "Biologia Serbica",
title = "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins",
volume = "43",
number = "1 (spec. ed.)",
pages = "65",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4503"
}
Pantelić, A., Stevanović, S., Kilibarda, N.,& Vidović, M.. (2021). De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins. in Biologia Serbica
Novi Sad : Faculty of Sciences, Department of Biology and Ecology., 43(1 (spec. ed.)), 65.
https://hdl.handle.net/21.15107/rcub_cherry_4503
Pantelić A, Stevanović S, Kilibarda N, Vidović M. De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins. in Biologia Serbica. 2021;43(1 (spec. ed.)):65.
https://hdl.handle.net/21.15107/rcub_cherry_4503 .
Pantelić, Ana, Stevanović, Strahinja, Kilibarda, Nataša, Vidović, Marija, "De Novo Transcriptome Sequencing of Ramonda serbica: Identification of Late Embryogenesis Abundant Proteins" in Biologia Serbica, 43, no. 1 (spec. ed.) (2021):65,
https://hdl.handle.net/21.15107/rcub_cherry_4503 .

Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach

Milić Komić, Sonja; Stevanović, Strahinja; Vidović, Marija

(2021)

TY  - CONF
AU  - Milić Komić, Sonja
AU  - Stevanović, Strahinja
AU  - Vidović, Marija
PY  - 2021
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4507
AB  - Ramonda serbica Panc. is a resurrection plant that can survive long desiccation periods (extreme loss of cellular water). The accumulation of late embryogenesis abundant proteins (LEAPs) is a crucial step in desiccation tolerance mechanism. Based on in vitro studies, LEAPs can be involved in antioxidative defense, ion sequestration, structural stabilization of both membranes and enzymes during freezing or drying, while by forming intracellular proteinaceous condensates they increase structural integrity and intracellular viscosity of cells during desiccation. Here we investigated the antioxidative potential of LEAPs identified by de novo transcriptomics of R. serbica, based on their primary and secondary confirmation. In our
previous work [1], we displayed the antioxidative capacity of 20 free proteogenic amino acids
(FAA) through determining their hydroxyl radical (•OH, generated in Fenton reaction) scavenging
rate by using electron paramagnetic resonance. These results served as a basis for generating a model for prediction of •OH scavenging activity for selected proteins. In addition, the model was built based on protein primary sequences, hydrophobicity, 3D structure and predicted solvent accessible area. Manually curated data for peptides and proteins with experimentally determined •OH scavenging rate were used for training and testing. The model was fed into machine learning algorithm and •OH scavenging potential scale was created using IC50 values. By applying our model, we classified 164 LEAPs according to their potential for •OH scavenging. Further work will focus on the experimental evaluation of the obtained model by measuring of the rate of • OH scavenging in the presence of recombinantly produced LEAPs.
C3  - Annual Meeting, SFRR-E 2021 Belgrade, Serbia, 15-18 June
T1  - Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4507
ER  - 
@conference{
author = "Milić Komić, Sonja and Stevanović, Strahinja and Vidović, Marija",
year = "2021",
abstract = "Ramonda serbica Panc. is a resurrection plant that can survive long desiccation periods (extreme loss of cellular water). The accumulation of late embryogenesis abundant proteins (LEAPs) is a crucial step in desiccation tolerance mechanism. Based on in vitro studies, LEAPs can be involved in antioxidative defense, ion sequestration, structural stabilization of both membranes and enzymes during freezing or drying, while by forming intracellular proteinaceous condensates they increase structural integrity and intracellular viscosity of cells during desiccation. Here we investigated the antioxidative potential of LEAPs identified by de novo transcriptomics of R. serbica, based on their primary and secondary confirmation. In our
previous work [1], we displayed the antioxidative capacity of 20 free proteogenic amino acids
(FAA) through determining their hydroxyl radical (•OH, generated in Fenton reaction) scavenging
rate by using electron paramagnetic resonance. These results served as a basis for generating a model for prediction of •OH scavenging activity for selected proteins. In addition, the model was built based on protein primary sequences, hydrophobicity, 3D structure and predicted solvent accessible area. Manually curated data for peptides and proteins with experimentally determined •OH scavenging rate were used for training and testing. The model was fed into machine learning algorithm and •OH scavenging potential scale was created using IC50 values. By applying our model, we classified 164 LEAPs according to their potential for •OH scavenging. Further work will focus on the experimental evaluation of the obtained model by measuring of the rate of • OH scavenging in the presence of recombinantly produced LEAPs.",
journal = "Annual Meeting, SFRR-E 2021 Belgrade, Serbia, 15-18 June",
title = "Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4507"
}
Milić Komić, S., Stevanović, S.,& Vidović, M.. (2021). Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach. in Annual Meeting, SFRR-E 2021 Belgrade, Serbia, 15-18 June.
https://hdl.handle.net/21.15107/rcub_cherry_4507
Milić Komić S, Stevanović S, Vidović M. Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach. in Annual Meeting, SFRR-E 2021 Belgrade, Serbia, 15-18 June. 2021;.
https://hdl.handle.net/21.15107/rcub_cherry_4507 .
Milić Komić, Sonja, Stevanović, Strahinja, Vidović, Marija, "Hydroxyl radical scavenging potential of the late embryogenesis abundant proteins (LEA) proteins from Ramonda serbica – in silico approach" in Annual Meeting, SFRR-E 2021 Belgrade, Serbia, 15-18 June (2021),
https://hdl.handle.net/21.15107/rcub_cherry_4507 .

Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants

Vidović, Marija; Franchin, Cinzia; Morina, Filis; Veljović-Jovanović, Sonja; Masi, Antonio; Arrigoni, Giorgio

(2020)

TY  - JOUR
AU  - Vidović, Marija
AU  - Franchin, Cinzia
AU  - Morina, Filis
AU  - Veljović-Jovanović, Sonja
AU  - Masi, Antonio
AU  - Arrigoni, Giorgio
PY  - 2020
UR  - http://www.ncbi.nlm.nih.gov/pubmed/33037906
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4505
AB  - Resurrection plant Ramonda serbica is a suitable model to investigate vegetative desiccation tolerance. However, the detailed study of these mechanisms at the protein level is hampered by the severe tissue water loss, high amount of phenolics and polysaccharide, and possible protein modifications and aggregations during the extraction and purification steps. When applied to R. serbica leaves, widely used protein extraction protocols containing polyvinylpolypyrrolidone and ascorbate, as well as the phenol/SDS/buffer-based protocol recommended for recalcitrant plant tissues failed to eliminate persistent contamination and ensure high protein quality. Here we compared three protein extraction approaches aiming to establish the optimal one for both hydrated and desiccated R. serbica leaves. To evaluate the efficacy of these protocols by shotgun proteomics, we also created the first R. serbica annotated transcriptome database, available at http://www.biomed.unipd.it/filearrigoni/Trinity_Sample_RT2.fasta . The detergent-free phenol-based extraction combined with dodecyl-β-D-maltoside-assisted extraction enabled high-yield and high-purity protein extracts. The phenol-based protocol improved the protein-band resolution, band number, and intensity upon electrophoresis, and increased the protein yield and the number of identified peptides and protein groups by LC-MS/MS. Additionally, dodecyl-β-D-maltoside enabled solubilisation and identification of more membrane-associated proteins. The presented study paves the way for investigating the desiccation tolerance in R. serbica, and we recommend this protocol for similar recalcitrant plant material.
T2  - Analytical and Bioanalytical Chemistry
T1  - Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants
VL  - 412
IS  - 30
SP  - 8299
EP  - 8312
DO  - 10.1007/s00216-020-02965-2
ER  - 
@article{
author = "Vidović, Marija and Franchin, Cinzia and Morina, Filis and Veljović-Jovanović, Sonja and Masi, Antonio and Arrigoni, Giorgio",
year = "2020",
abstract = "Resurrection plant Ramonda serbica is a suitable model to investigate vegetative desiccation tolerance. However, the detailed study of these mechanisms at the protein level is hampered by the severe tissue water loss, high amount of phenolics and polysaccharide, and possible protein modifications and aggregations during the extraction and purification steps. When applied to R. serbica leaves, widely used protein extraction protocols containing polyvinylpolypyrrolidone and ascorbate, as well as the phenol/SDS/buffer-based protocol recommended for recalcitrant plant tissues failed to eliminate persistent contamination and ensure high protein quality. Here we compared three protein extraction approaches aiming to establish the optimal one for both hydrated and desiccated R. serbica leaves. To evaluate the efficacy of these protocols by shotgun proteomics, we also created the first R. serbica annotated transcriptome database, available at http://www.biomed.unipd.it/filearrigoni/Trinity_Sample_RT2.fasta . The detergent-free phenol-based extraction combined with dodecyl-β-D-maltoside-assisted extraction enabled high-yield and high-purity protein extracts. The phenol-based protocol improved the protein-band resolution, band number, and intensity upon electrophoresis, and increased the protein yield and the number of identified peptides and protein groups by LC-MS/MS. Additionally, dodecyl-β-D-maltoside enabled solubilisation and identification of more membrane-associated proteins. The presented study paves the way for investigating the desiccation tolerance in R. serbica, and we recommend this protocol for similar recalcitrant plant material.",
journal = "Analytical and Bioanalytical Chemistry",
title = "Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants",
volume = "412",
number = "30",
pages = "8299-8312",
doi = "10.1007/s00216-020-02965-2"
}
Vidović, M., Franchin, C., Morina, F., Veljović-Jovanović, S., Masi, A.,& Arrigoni, G.. (2020). Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants. in Analytical and Bioanalytical Chemistry, 412(30), 8299-8312.
https://doi.org/10.1007/s00216-020-02965-2
Vidović M, Franchin C, Morina F, Veljović-Jovanović S, Masi A, Arrigoni G. Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants. in Analytical and Bioanalytical Chemistry. 2020;412(30):8299-8312.
doi:10.1007/s00216-020-02965-2 .
Vidović, Marija, Franchin, Cinzia, Morina, Filis, Veljović-Jovanović, Sonja, Masi, Antonio, Arrigoni, Giorgio, "Efficient protein extraction for shotgun proteomics from hydrated and desiccated leaves of resurrection Ramonda serbica plants" in Analytical and Bioanalytical Chemistry, 412, no. 30 (2020):8299-8312,
https://doi.org/10.1007/s00216-020-02965-2 . .
3
2
1
1

Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2.

Vidović, Marija; Franchin, Cinzia; Morina, Filis; Veljović-Jovanović, Sonja; Masi, Antonio; Arrigoni, Giorgio

(SpringerLink, 2020)

TY  - DATA
AU  - Vidović, Marija
AU  - Franchin, Cinzia
AU  - Morina, Filis
AU  - Veljović-Jovanović, Sonja
AU  - Masi, Antonio
AU  - Arrigoni, Giorgio
PY  - 2020
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4504
PB  - SpringerLink
T2  - Analytical and Bioanalytical Chemistry
T1  - Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2.
UR  - https://hdl.handle.net/21.15107/rcub_cherry_4504
ER  - 
@misc{
author = "Vidović, Marija and Franchin, Cinzia and Morina, Filis and Veljović-Jovanović, Sonja and Masi, Antonio and Arrigoni, Giorgio",
year = "2020",
publisher = "SpringerLink",
journal = "Analytical and Bioanalytical Chemistry",
title = "Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2.",
url = "https://hdl.handle.net/21.15107/rcub_cherry_4504"
}
Vidović, M., Franchin, C., Morina, F., Veljović-Jovanović, S., Masi, A.,& Arrigoni, G.. (2020). Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2.. in Analytical and Bioanalytical Chemistry
SpringerLink..
https://hdl.handle.net/21.15107/rcub_cherry_4504
Vidović M, Franchin C, Morina F, Veljović-Jovanović S, Masi A, Arrigoni G. Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2.. in Analytical and Bioanalytical Chemistry. 2020;.
https://hdl.handle.net/21.15107/rcub_cherry_4504 .
Vidović, Marija, Franchin, Cinzia, Morina, Filis, Veljović-Jovanović, Sonja, Masi, Antonio, Arrigoni, Giorgio, "Supplementary data for the article: Vidović, M.; Franchin, C.; Morina, F.; Veljović-Jovanović, S.; Masi, A.; Arrigoni, G. Efficient Protein Extraction for Shotgun Proteomics from Hydrated and Desiccated Leaves of Resurrection Ramonda Serbica Plants. Anal Bioanal Chem 2020, 412 (30), 8299–8312. https://doi.org/10.1007/s00216-020-02965-2." in Analytical and Bioanalytical Chemistry (2020),
https://hdl.handle.net/21.15107/rcub_cherry_4504 .

Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato

Živanović, Bojana; Milić Komić, Sonja; Tosti, Tomislav; Vidović, Marija; Prokić, Ljiljana; Veljović Jovanović, Sonja

(MDPI, 2020)

TY  - JOUR
AU  - Živanović, Bojana
AU  - Milić Komić, Sonja
AU  - Tosti, Tomislav
AU  - Vidović, Marija
AU  - Prokić, Ljiljana
AU  - Veljović Jovanović, Sonja
PY  - 2020
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/4266
AB  - Water deficit has a global impact on plant growth and crop yield. Climate changes are going to increase the intensity, duration and frequency of severe droughts, particularly in southern and south-eastern Europe, elevating the water scarcity issues. We aimed to assess the contribution of endogenous abscisic acid (ABA) in the protective mechanisms against water deficit, including stomatal conductance, relative water potential and the accumulation of osmoprotectants, as well as on growth parameters. To achieve that, we used a suitable model system, ABA-deficient tomato mutant, flacca and its parental line. Flacca mutant exhibited constitutively higher levels of soluble sugars (e.g., galactose, arabinose, sorbitol) and free amino acids (AAs) compared with the wild type (WT). Water deficit provoked the strong accumulation of proline in both genotypes, and total soluble sugars only in flacca. Upon re-watering, these osmolytes returned to the initial levels in both genotypes. Our results indicate that flacca compensated higher stomatal conductance with a higher constitutive level of free sugars and AAs. Additionally, we suggest that the accumulation of AAs, particularly proline and its precursors and specific branched-chain AAs in both, glucose and sucrose in flacca, and sorbitol in WT, could contribute to maintaining growth rate during water deficit and recovery in both tomato genotypes.
PB  - MDPI
T2  - Plants
T1  - Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato
VL  - 9
IS  - 9
SP  - 1147
DO  - 10.3390/plants9091147
ER  - 
@article{
author = "Živanović, Bojana and Milić Komić, Sonja and Tosti, Tomislav and Vidović, Marija and Prokić, Ljiljana and Veljović Jovanović, Sonja",
year = "2020",
abstract = "Water deficit has a global impact on plant growth and crop yield. Climate changes are going to increase the intensity, duration and frequency of severe droughts, particularly in southern and south-eastern Europe, elevating the water scarcity issues. We aimed to assess the contribution of endogenous abscisic acid (ABA) in the protective mechanisms against water deficit, including stomatal conductance, relative water potential and the accumulation of osmoprotectants, as well as on growth parameters. To achieve that, we used a suitable model system, ABA-deficient tomato mutant, flacca and its parental line. Flacca mutant exhibited constitutively higher levels of soluble sugars (e.g., galactose, arabinose, sorbitol) and free amino acids (AAs) compared with the wild type (WT). Water deficit provoked the strong accumulation of proline in both genotypes, and total soluble sugars only in flacca. Upon re-watering, these osmolytes returned to the initial levels in both genotypes. Our results indicate that flacca compensated higher stomatal conductance with a higher constitutive level of free sugars and AAs. Additionally, we suggest that the accumulation of AAs, particularly proline and its precursors and specific branched-chain AAs in both, glucose and sucrose in flacca, and sorbitol in WT, could contribute to maintaining growth rate during water deficit and recovery in both tomato genotypes.",
publisher = "MDPI",
journal = "Plants",
title = "Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato",
volume = "9",
number = "9",
pages = "1147",
doi = "10.3390/plants9091147"
}
Živanović, B., Milić Komić, S., Tosti, T., Vidović, M., Prokić, L.,& Veljović Jovanović, S.. (2020). Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato. in Plants
MDPI., 9(9), 1147.
https://doi.org/10.3390/plants9091147
Živanović B, Milić Komić S, Tosti T, Vidović M, Prokić L, Veljović Jovanović S. Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato. in Plants. 2020;9(9):1147.
doi:10.3390/plants9091147 .
Živanović, Bojana, Milić Komić, Sonja, Tosti, Tomislav, Vidović, Marija, Prokić, Ljiljana, Veljović Jovanović, Sonja, "Leaf Soluble Sugars and Free Amino Acids as Important Components of Abscisic Acid—Mediated Drought Response in Tomato" in Plants, 9, no. 9 (2020):1147,
https://doi.org/10.3390/plants9091147 . .
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Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity

Vidović, Marija; Morina, Filis; Milic, Sonja; Albert, Andreas; Zechmann, Bernd; Tosti, Tomislav; Winkler, Jana Barbro; Veljović-Jovanović, Sonja

(Elsevier France-Editions Scientifiques Medicales Elsevier, Paris, 2015)

TY  - JOUR
AU  - Vidović, Marija
AU  - Morina, Filis
AU  - Milic, Sonja
AU  - Albert, Andreas
AU  - Zechmann, Bernd
AU  - Tosti, Tomislav
AU  - Winkler, Jana Barbro
AU  - Veljović-Jovanović, Sonja
PY  - 2015
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/1727
AB  - We studied the specific effects of high photosynthetically active radiation (PAR, 400-700 nm) and ecologically relevant UV-B radiation (0.90 W m(-2)) on antioxidative and phenolic metabolism by exploiting the green-white leaf variegation of Pelargonium zonale plants. This is a suitable model system for examining "source-sink" interactions within the same leaf. High PAR intensity (1350 mu mol m(-2) s(-1)) and UV-B radiation induced different responses in green and white leaf sectors. High PAR intensity had a greater influence on green tissue, triggering the accumulation of phenylpropanoids and flavonoids with strong antioxidative function. Induced phenolics, together with ascorbate, ascorbate peroxidase (APX, EC 1.11.1.11) and catalase (CAT, EC 1.11.1.6) provided efficient defense against potential oxidative pressure. UV-B-induced up-regulation of non-phenolic H2O2 scavengers in green leaf sectors was greater than high PAR-induced changes, indicating a UV-B role in antioxidative defense under light excess; on the contrary, minimal effects were observed in white tissue. However, UV-B radiation had greater influence on phenolics in white leaf sections compared to green ones, inducing accumulation of phenolic glycosides whose function was UV-B screening rather than antioxidative. By stimulation of starch and sucrose breakdown and carbon allocation in the form of soluble sugars from "source" (green) tissue to "sink" (white) tissue, UV-B radiation compensated the absence of photosynthetic activity and phenylpropanoid and flavonoid biosynthesis in white sectors. (C) 2015 Elsevier Masson SAS. All rights reserved.
PB  - Elsevier France-Editions Scientifiques Medicales Elsevier, Paris
T2  - Plant Physiology and Biochemistry
T1  - Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity
VL  - 93
SP  - 44
EP  - 55
DO  - 10.1016/j.plaphy.2015.01.008
UR  - Kon_2873
ER  - 
@article{
author = "Vidović, Marija and Morina, Filis and Milic, Sonja and Albert, Andreas and Zechmann, Bernd and Tosti, Tomislav and Winkler, Jana Barbro and Veljović-Jovanović, Sonja",
year = "2015",
abstract = "We studied the specific effects of high photosynthetically active radiation (PAR, 400-700 nm) and ecologically relevant UV-B radiation (0.90 W m(-2)) on antioxidative and phenolic metabolism by exploiting the green-white leaf variegation of Pelargonium zonale plants. This is a suitable model system for examining "source-sink" interactions within the same leaf. High PAR intensity (1350 mu mol m(-2) s(-1)) and UV-B radiation induced different responses in green and white leaf sectors. High PAR intensity had a greater influence on green tissue, triggering the accumulation of phenylpropanoids and flavonoids with strong antioxidative function. Induced phenolics, together with ascorbate, ascorbate peroxidase (APX, EC 1.11.1.11) and catalase (CAT, EC 1.11.1.6) provided efficient defense against potential oxidative pressure. UV-B-induced up-regulation of non-phenolic H2O2 scavengers in green leaf sectors was greater than high PAR-induced changes, indicating a UV-B role in antioxidative defense under light excess; on the contrary, minimal effects were observed in white tissue. However, UV-B radiation had greater influence on phenolics in white leaf sections compared to green ones, inducing accumulation of phenolic glycosides whose function was UV-B screening rather than antioxidative. By stimulation of starch and sucrose breakdown and carbon allocation in the form of soluble sugars from "source" (green) tissue to "sink" (white) tissue, UV-B radiation compensated the absence of photosynthetic activity and phenylpropanoid and flavonoid biosynthesis in white sectors. (C) 2015 Elsevier Masson SAS. All rights reserved.",
publisher = "Elsevier France-Editions Scientifiques Medicales Elsevier, Paris",
journal = "Plant Physiology and Biochemistry",
title = "Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity",
volume = "93",
pages = "44-55",
doi = "10.1016/j.plaphy.2015.01.008",
url = "Kon_2873"
}
Vidović, M., Morina, F., Milic, S., Albert, A., Zechmann, B., Tosti, T., Winkler, J. B.,& Veljović-Jovanović, S.. (2015). Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity. in Plant Physiology and Biochemistry
Elsevier France-Editions Scientifiques Medicales Elsevier, Paris., 93, 44-55.
https://doi.org/10.1016/j.plaphy.2015.01.008
Kon_2873
Vidović M, Morina F, Milic S, Albert A, Zechmann B, Tosti T, Winkler JB, Veljović-Jovanović S. Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity. in Plant Physiology and Biochemistry. 2015;93:44-55.
doi:10.1016/j.plaphy.2015.01.008
Kon_2873 .
Vidović, Marija, Morina, Filis, Milic, Sonja, Albert, Andreas, Zechmann, Bernd, Tosti, Tomislav, Winkler, Jana Barbro, Veljović-Jovanović, Sonja, "Carbon allocation from source to sink leaf tissue in relation to flavonoid biosynthesis in variegated Pelargonium zonale under UV-B radiation and high PAR intensity" in Plant Physiology and Biochemistry, 93 (2015):44-55,
https://doi.org/10.1016/j.plaphy.2015.01.008 .,
Kon_2873 .
20
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Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti

Vidović, Marija S.

(Универзитет у Београду, Хемијски факултет, 2015)

TY  - THES
AU  - Vidović, Marija S.
PY  - 2015
UR  - http://eteze.bg.ac.rs/application/showtheses?thesesId=3209
UR  - https://fedorabg.bg.ac.rs/fedora/get/o:11577/bdef:Content/download
UR  - http://vbs.rs/scripts/cobiss?command=DISPLAY&base=70036&RID=47649295
UR  - http://nardus.mpn.gov.rs/123456789/5897
UR  - https://cherry.chem.bg.ac.rs/handle/123456789/2682
AB  - Biljke izabrane kao eksperimentalni modeli za ovu disertaciju bile su panaširanemuškatle (Pelargonium zonale) i tamjanike (Plectranthus coleoides). Zeleno-belopanaširano lišće predstavljalo je odličan sistem za proučavanje uticaja fotosinteze naantioksidativni i fenolni metabolizam, kao i za istraživanje metaboličkih interakcijaizmeđu autotrofnog, „izvor“, tkiva, i heterotrofnog, „uvir“, tkiva unutar istog lista.U svom prirodnom staništu biljke su izložene visokom intenzitetu vidljive svetlostii UV-B zračenju (280-315 nm). Visok intenzitet fotosintetski aktivnog zračenja (PAR,400-700 nm) može da nadjača kapacitet fotosintetske potrošnje i procese energetskograsipanja i da prouzrokuje inhibiciju fotosinteze, CO2 asimilacije i pojačanu akumulacijureaktivnih kiseoničnih vrsta (eng. reactive oxygen species, ROS). Stoga su biljke razvilebrojne mehanizme zaštite, koji uključuju i postojanje specijalizovanih enzimskih ineenzimskih antioksidanata.Cilj istraživanja ove teze bio je određivanje konstitutivnih komponenataantioksidativnog sistema i njihove distribucije u fotosintetski aktivnom i fotosintetskineaktivnom tkivu listova panaširanih vrsta. Pri optimalnim svetlosnim uslovima za rast,aktivnosti enzima askorbat-glutationskog (Asc-GSH) ciklusa, kao i Cu/Zn i Mnsuperoksid-dismutaze su bile veće u belom tkivu, dok su aktivnosti katalaze (CAT) itilakoidne askorbat-peroksidaze (APX) bile veće u zelenom tkivu listova biljaka P. zonale.Biohemijskim i imunocitohemijskim analizama, pomoću transmisione elektronskemikroskopije, pokazano je da je Asc dvostruko više zastupljen u mezofilnim ćelijamazelenog tkiva (u peroksizomima, mitohondrijama i jedru), a GSH u mezofilnim ćelijamabelog tkiva (u mitohondrijama, jedru i citosolu). S obzirom na doprinos fotosinteze ustvaranju reaktivnih kiseoničnih vrsta (eng. reactive oxygen species, ROS), praćen jeodgovor enzimskih komponenata Asc-GSH ciklusa, CAT i peroksidaza III klase u belom izelenom tkivu listova u uslovima stimulisane Melerove reakcije tokom izlaganja biljaka P.zonale visokom intenzitetu PAR-a i tretmanu parakvatom. Ovakav tretman je izazvaoizraženiji odgovor enzimskih komponenti Asc-GSH ciklusa belog tkiva, u odnosu nazeleno, što je ukazalo da je belo tkivo dobro adaptirano protiv oksidativnog stresa.  iiiU drugom delu ove disertacije ispitivani su i specifični uticaji ambijentalnog UV-Bzračenja (0.90 W m–2) i visokog intenziteta PAR-a (1350 µmol m–2s–1) na fotosintetskuaktivnost i parametre izmene gasova (CO2 i H2O), kao i na antioksidativni i fenolnimetabolizam panaširanih listova P. coleoides i P. zonale biljaka. Kako bi se izbeglimogući štetni efekti usled neprilagođenog UV-B/UV-A/PAR odnosa, kao i od nerealnihintenziteta i spektralnih karakteristika svih komponenti zračenja, eksperimenti su izvođeniu simulatorima sunčevog zračenja. Pokazano je da je efekat UV-B zračenja bio zavisan odbiljne vrste, ali i od intenziteta pozadinskog PAR-a. U biljkama P. coleoides UV-Bzračenje je stimulisalo brzinu asimilacije CO2 i provodljivost stoma, dok u biljkama P.zonale, UV-B zračenje nije uticalo na fotosintezu, već je preko trehaloznog signalnog putadovelo do degradacije skroba i saharoze, i stimulisalo transport ugljenih hidrata iz zelenogu belo tkivo. Kako je u obe ispitivane biljne vrste UV-B zračenje dovelo do pojačaneakumulacije glikozida hidroksicinamičnih kiselina i flavonoida (sa antocijanima),uglavnom u belom tkivu listova, predložena su dva mehanizma koji kompenzujunedostatak fotosinteze i pojačane anaboličke zahteve u ovom tkivu.Visok intenzitet PAR-a je imao veći efekat na listove P. zonale u odnosu na listoveP. coleoides biljaka. U biljkama P. zonale je stimulisao biosintezu fenilpropanoida iflavonoida sa orto-dihidroksi-supstituisanim B prstenom, a u sinergiji sa UV-B zračenjem,izazvao je porast aktivnosti APX, CAT i sadržaja Asc isključivo u zelenom tkivu listovabiljaka P. zonale. Dobijeni rezultati ukazuju na postojanje različitih aklimatizacionihodgovora na UV-B zračenje u zelenom i belom tkivu biljaka P. zonale.
AB  - In this thesis, variegated geranium (Pelargonium zonale) and Swedish ivy(Plectranthus coleoides) were used as model plants. Green-white variegated leaves are anexcellent model system for investigating the effects of photosynthesis on antioxidative andphenolic metabolism, and “source”-“sink” interactions within the same leaf.In their natural habitat, plants are exposed to high light intensity and to UV-Bradiation (280-315 nm). High levels of photosynthetically active radiation (PAR) however,might exceed the the photosynthetic assimilation capacity and energy dissipation processesand provoke inhibition of photosynthesis and enhanced accumulation of reactive oxygenspecies (ROS). Therefore, plants have developed numerous protection mechanisms,including specialized enzymatic and non-enzymatic antioxidants.The aim of this study was to determine constitutive components of antioxidativesystem and their distribution in photosynthetically active and non-active tissues ofvariegated plants. Under optimal light conditions, activities of ascorbate-glutathione (AscGSH)cycle enzymes, Cu/Zn and Mn superoxide dismutases were higher within white leaftissue of P. zonale, while thylakoid ascorbate peroxidase (APX) and catalase (CAT)activities were higher in green leaf tissue. Biochemical and immunocytochemical analysisusing transmission electron microscopy revealed two-fold higher Asc content in mesophyllcells of green leaf tissue (in peroxisomes, mitochondria, nucleus), while GSH was moreabundant in mesophyll cells of white leaf tissue (in mitochondria, nucleus, cytosol). Sincephotosynthesis is the main source of ROS in the leaves, the second aim in this thesis wasto analyze the response of Asc-GSH cycle components, CAT and class III peroxidases ingreen and white leaf tissues, under the conditions of stimulated Mehler reaction during theexposure of P. zonale to high PAR and paraquat. These treatments induced greaterresponse of Asc-GSH cycle enzymes in white leaf tissue, compared with green one,indicative of the development of adaptive mechanisms to avoid oxidative stress. In the second half of this thesis, the specific effects of high PAR (1350 µmol m–2s–1) and ambient UV-B irradiances (0.90 W m–2) on photosynthetic activity and gas  vexchange parameters (CO2 and H2O), as well as on antioxidative and phenolic metabolismof variegated P. coleoides and P. zonale plants were studied. In order to avoid possibledetrimental effects caused by unrealistic UV-B/UV-A/PAR ratios, quantity and spectralquality of radiation, the experiments were conducted in unique sun simulators.The results showed that ecologically relevant UV-B radiation-induced responsesare species-specific and dependent on background light. Two mechanisms to compensatethe absence of photosynthetic activity and increased anabolic demands in white, “sink”tissue were proposed. UV-B radiation stimulated CO2 assimilation rate and stomatalconductance in P. coleoides plants. On the other hand, in P. zonale, UV-B radiation,provoked starch and sucrose degradation via the trehalose signalling pathway, andsubsequent sugar transport from green to white tissue, without affecting photosynthesis.UV-B radiation induced enhanced accumulation of hydroxycinnamic acid and flavonoidglycosides, in both variegated species, mostly in white leaf tissue.High PAR had stronger effects on the leaves of P. zonale plants, compared with P.coleoides plants. Additionally, high PAR stimulated specific accumulation ofphenylpropanoids and flavonoids with ortho-dihydroxy B-ring substitution pattern, andsynergistically with UV-B radiation, increased APX and CAT activities and Asc content,exclusively in green leaf tissue of P. zonale plants. Overall, these results show differentialacclimatisation responses to UV-B radiation in green and in white tissue of P. zonaleleaves
PB  - Универзитет у Београду, Хемијски факултет
T2  - Универзитет у Београду
T1  - Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti
T1  - Antioxidative metabolism in white and green leaf tissues of variegated Pelargonium zonale and Plectranthus coleoides plants - visible light and uv-b radiation effects
UR  - https://hdl.handle.net/21.15107/rcub_nardus_5897
ER  - 
@phdthesis{
author = "Vidović, Marija S.",
year = "2015",
abstract = "Biljke izabrane kao eksperimentalni modeli za ovu disertaciju bile su panaširanemuškatle (Pelargonium zonale) i tamjanike (Plectranthus coleoides). Zeleno-belopanaširano lišće predstavljalo je odličan sistem za proučavanje uticaja fotosinteze naantioksidativni i fenolni metabolizam, kao i za istraživanje metaboličkih interakcijaizmeđu autotrofnog, „izvor“, tkiva, i heterotrofnog, „uvir“, tkiva unutar istog lista.U svom prirodnom staništu biljke su izložene visokom intenzitetu vidljive svetlostii UV-B zračenju (280-315 nm). Visok intenzitet fotosintetski aktivnog zračenja (PAR,400-700 nm) može da nadjača kapacitet fotosintetske potrošnje i procese energetskograsipanja i da prouzrokuje inhibiciju fotosinteze, CO2 asimilacije i pojačanu akumulacijureaktivnih kiseoničnih vrsta (eng. reactive oxygen species, ROS). Stoga su biljke razvilebrojne mehanizme zaštite, koji uključuju i postojanje specijalizovanih enzimskih ineenzimskih antioksidanata.Cilj istraživanja ove teze bio je određivanje konstitutivnih komponenataantioksidativnog sistema i njihove distribucije u fotosintetski aktivnom i fotosintetskineaktivnom tkivu listova panaširanih vrsta. Pri optimalnim svetlosnim uslovima za rast,aktivnosti enzima askorbat-glutationskog (Asc-GSH) ciklusa, kao i Cu/Zn i Mnsuperoksid-dismutaze su bile veće u belom tkivu, dok su aktivnosti katalaze (CAT) itilakoidne askorbat-peroksidaze (APX) bile veće u zelenom tkivu listova biljaka P. zonale.Biohemijskim i imunocitohemijskim analizama, pomoću transmisione elektronskemikroskopije, pokazano je da je Asc dvostruko više zastupljen u mezofilnim ćelijamazelenog tkiva (u peroksizomima, mitohondrijama i jedru), a GSH u mezofilnim ćelijamabelog tkiva (u mitohondrijama, jedru i citosolu). S obzirom na doprinos fotosinteze ustvaranju reaktivnih kiseoničnih vrsta (eng. reactive oxygen species, ROS), praćen jeodgovor enzimskih komponenata Asc-GSH ciklusa, CAT i peroksidaza III klase u belom izelenom tkivu listova u uslovima stimulisane Melerove reakcije tokom izlaganja biljaka P.zonale visokom intenzitetu PAR-a i tretmanu parakvatom. Ovakav tretman je izazvaoizraženiji odgovor enzimskih komponenti Asc-GSH ciklusa belog tkiva, u odnosu nazeleno, što je ukazalo da je belo tkivo dobro adaptirano protiv oksidativnog stresa.  iiiU drugom delu ove disertacije ispitivani su i specifični uticaji ambijentalnog UV-Bzračenja (0.90 W m–2) i visokog intenziteta PAR-a (1350 µmol m–2s–1) na fotosintetskuaktivnost i parametre izmene gasova (CO2 i H2O), kao i na antioksidativni i fenolnimetabolizam panaširanih listova P. coleoides i P. zonale biljaka. Kako bi se izbeglimogući štetni efekti usled neprilagođenog UV-B/UV-A/PAR odnosa, kao i od nerealnihintenziteta i spektralnih karakteristika svih komponenti zračenja, eksperimenti su izvođeniu simulatorima sunčevog zračenja. Pokazano je da je efekat UV-B zračenja bio zavisan odbiljne vrste, ali i od intenziteta pozadinskog PAR-a. U biljkama P. coleoides UV-Bzračenje je stimulisalo brzinu asimilacije CO2 i provodljivost stoma, dok u biljkama P.zonale, UV-B zračenje nije uticalo na fotosintezu, već je preko trehaloznog signalnog putadovelo do degradacije skroba i saharoze, i stimulisalo transport ugljenih hidrata iz zelenogu belo tkivo. Kako je u obe ispitivane biljne vrste UV-B zračenje dovelo do pojačaneakumulacije glikozida hidroksicinamičnih kiselina i flavonoida (sa antocijanima),uglavnom u belom tkivu listova, predložena su dva mehanizma koji kompenzujunedostatak fotosinteze i pojačane anaboličke zahteve u ovom tkivu.Visok intenzitet PAR-a je imao veći efekat na listove P. zonale u odnosu na listoveP. coleoides biljaka. U biljkama P. zonale je stimulisao biosintezu fenilpropanoida iflavonoida sa orto-dihidroksi-supstituisanim B prstenom, a u sinergiji sa UV-B zračenjem,izazvao je porast aktivnosti APX, CAT i sadržaja Asc isključivo u zelenom tkivu listovabiljaka P. zonale. Dobijeni rezultati ukazuju na postojanje različitih aklimatizacionihodgovora na UV-B zračenje u zelenom i belom tkivu biljaka P. zonale., In this thesis, variegated geranium (Pelargonium zonale) and Swedish ivy(Plectranthus coleoides) were used as model plants. Green-white variegated leaves are anexcellent model system for investigating the effects of photosynthesis on antioxidative andphenolic metabolism, and “source”-“sink” interactions within the same leaf.In their natural habitat, plants are exposed to high light intensity and to UV-Bradiation (280-315 nm). High levels of photosynthetically active radiation (PAR) however,might exceed the the photosynthetic assimilation capacity and energy dissipation processesand provoke inhibition of photosynthesis and enhanced accumulation of reactive oxygenspecies (ROS). Therefore, plants have developed numerous protection mechanisms,including specialized enzymatic and non-enzymatic antioxidants.The aim of this study was to determine constitutive components of antioxidativesystem and their distribution in photosynthetically active and non-active tissues ofvariegated plants. Under optimal light conditions, activities of ascorbate-glutathione (AscGSH)cycle enzymes, Cu/Zn and Mn superoxide dismutases were higher within white leaftissue of P. zonale, while thylakoid ascorbate peroxidase (APX) and catalase (CAT)activities were higher in green leaf tissue. Biochemical and immunocytochemical analysisusing transmission electron microscopy revealed two-fold higher Asc content in mesophyllcells of green leaf tissue (in peroxisomes, mitochondria, nucleus), while GSH was moreabundant in mesophyll cells of white leaf tissue (in mitochondria, nucleus, cytosol). Sincephotosynthesis is the main source of ROS in the leaves, the second aim in this thesis wasto analyze the response of Asc-GSH cycle components, CAT and class III peroxidases ingreen and white leaf tissues, under the conditions of stimulated Mehler reaction during theexposure of P. zonale to high PAR and paraquat. These treatments induced greaterresponse of Asc-GSH cycle enzymes in white leaf tissue, compared with green one,indicative of the development of adaptive mechanisms to avoid oxidative stress. In the second half of this thesis, the specific effects of high PAR (1350 µmol m–2s–1) and ambient UV-B irradiances (0.90 W m–2) on photosynthetic activity and gas  vexchange parameters (CO2 and H2O), as well as on antioxidative and phenolic metabolismof variegated P. coleoides and P. zonale plants were studied. In order to avoid possibledetrimental effects caused by unrealistic UV-B/UV-A/PAR ratios, quantity and spectralquality of radiation, the experiments were conducted in unique sun simulators.The results showed that ecologically relevant UV-B radiation-induced responsesare species-specific and dependent on background light. Two mechanisms to compensatethe absence of photosynthetic activity and increased anabolic demands in white, “sink”tissue were proposed. UV-B radiation stimulated CO2 assimilation rate and stomatalconductance in P. coleoides plants. On the other hand, in P. zonale, UV-B radiation,provoked starch and sucrose degradation via the trehalose signalling pathway, andsubsequent sugar transport from green to white tissue, without affecting photosynthesis.UV-B radiation induced enhanced accumulation of hydroxycinnamic acid and flavonoidglycosides, in both variegated species, mostly in white leaf tissue.High PAR had stronger effects on the leaves of P. zonale plants, compared with P.coleoides plants. Additionally, high PAR stimulated specific accumulation ofphenylpropanoids and flavonoids with ortho-dihydroxy B-ring substitution pattern, andsynergistically with UV-B radiation, increased APX and CAT activities and Asc content,exclusively in green leaf tissue of P. zonale plants. Overall, these results show differentialacclimatisation responses to UV-B radiation in green and in white tissue of P. zonaleleaves",
publisher = "Универзитет у Београду, Хемијски факултет",
journal = "Универзитет у Београду",
title = "Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti, Antioxidative metabolism in white and green leaf tissues of variegated Pelargonium zonale and Plectranthus coleoides plants - visible light and uv-b radiation effects",
url = "https://hdl.handle.net/21.15107/rcub_nardus_5897"
}
Vidović, M. S.. (2015). Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti. in Универзитет у Београду
Универзитет у Београду, Хемијски факултет..
https://hdl.handle.net/21.15107/rcub_nardus_5897
Vidović MS. Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti. in Универзитет у Београду. 2015;.
https://hdl.handle.net/21.15107/rcub_nardus_5897 .
Vidović, Marija S., "Antioksidativni metabolizam belog i zelenog tkiva listova panaširane muškatle (Pelargonium zonale) i tamjanike (Plectronthus coleoides) - uticaj zračenja iz veidljive i UV-B oblasti" in Универзитет у Београду (2015),
https://hdl.handle.net/21.15107/rcub_nardus_5897 .