Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc.
Аутори
Vidović, MarijaBattisti, Ilaria
Pantelić, Ana
Milić, Dejana
Arrigoni, Giorgio
Masi, Antonio
Veljović Jovanović, Sonja
Остала ауторства
Morić, IvanaĐorđević, Valentina
Конференцијски прилог (Објављена верзија)
,
© 2023 Institute of Molecular Genetics and Genetic Engineering, University of Belgrade
Метаподаци
Приказ свих података о документуАпстракт
The resurrection plant Ramonda serbica Panc. survives long desiccation periods and fully
recovers metabolic functions within one day upon watering. We aimed to identify key
candidates and pathways involved in desiccation tolerance in R. serbica by employing a
systems biology approach, combining transcriptomics and proteomics.
A total of 68,694 differentially expressed genes (DEGs; p-value<0.005 and abs(log2FC)≥2) were
obtained in R. serbica leaves upon desiccation. Among them, 23,935 and 26,169 genes were
upregulated and downregulated in desiccated leaves (DL) and hydrated leaves (HL), respectively.
By differential TMT-based proteomic analysis 1192 different protein groups were identified
after filtering with at least two unique peptides per protein. In total, 229 protein groups
were more abundant in HL and 179 in DL (p-value<0.05 and abs(FC)≥1.3). The majority
of the DAPs and DEGs involved in photosynthesis, transport, secondary metabolism, and
signaling, were less abundant... in DL. On the other hand, proteins and transcripts associated
with fermentation, N-metabolism, heme, protein synthesis, folding and assembly, C1-
metabolism, and late embryogenesis abundant proteins, were more accumulated in DL.
A poor correlation between proteomic and transcriptomic results was detected for mitochondrial
electron transport and ATP production, gluconeogenesis, glycolysis, tricarboxylic
acid cycle, and enzymatic H2O2 scavengers due to different mRNA half-life, protein turnover,
dynamic posttranscriptional and posttranslational modifications. Finally, desiccation tolerance
in R. serbica is a species-specific process orchestrated by several metabolic pathways
that are temporally and compartmentally regulated at several levels.
Кључне речи:
differentially abundant proteins / differentially expressed genes / drought / resurrection plantsИзвор:
4th Belgrade Bioinformatics Conference, 2023, 4, 65-65Издавач:
- Belgrade : Institute of molecular genetics and genetic engineering
Финансирање / пројекти:
- Министарство науке, технолошког развоја и иновација Републике Србије, институционално финансирање - 200042 (Универзитет у Београду, Институт за молекуларну генетику и генетичко инжењерство) (RS-MESTD-inst-2020-200042)
- LEAPSyn-SCI - Late Embryogenesis Abundant Proteins: Structural Characterisation and Interaction With Α-Synuclein (RS-ScienceFundRS-Promis-6039663)
Напомена:
- Book of abstract: 4th Belgrade Bioinformatics Conference, June 19-23, 2023
Институција/група
Institut za molekularnu genetiku i genetičko inženjerstvoTY - CONF AU - Vidović, Marija AU - Battisti, Ilaria AU - Pantelić, Ana AU - Milić, Dejana AU - Arrigoni, Giorgio AU - Masi, Antonio AU - Veljović Jovanović, Sonja PY - 2023 UR - https://belbi.bg.ac.rs/ UR - https://imagine.imgge.bg.ac.rs/handle/123456789/2005 AB - The resurrection plant Ramonda serbica Panc. survives long desiccation periods and fully recovers metabolic functions within one day upon watering. We aimed to identify key candidates and pathways involved in desiccation tolerance in R. serbica by employing a systems biology approach, combining transcriptomics and proteomics. A total of 68,694 differentially expressed genes (DEGs; p-value<0.005 and abs(log2FC)≥2) were obtained in R. serbica leaves upon desiccation. Among them, 23,935 and 26,169 genes were upregulated and downregulated in desiccated leaves (DL) and hydrated leaves (HL), respectively. By differential TMT-based proteomic analysis 1192 different protein groups were identified after filtering with at least two unique peptides per protein. In total, 229 protein groups were more abundant in HL and 179 in DL (p-value<0.05 and abs(FC)≥1.3). The majority of the DAPs and DEGs involved in photosynthesis, transport, secondary metabolism, and signaling, were less abundant in DL. On the other hand, proteins and transcripts associated with fermentation, N-metabolism, heme, protein synthesis, folding and assembly, C1- metabolism, and late embryogenesis abundant proteins, were more accumulated in DL. A poor correlation between proteomic and transcriptomic results was detected for mitochondrial electron transport and ATP production, gluconeogenesis, glycolysis, tricarboxylic acid cycle, and enzymatic H2O2 scavengers due to different mRNA half-life, protein turnover, dynamic posttranscriptional and posttranslational modifications. Finally, desiccation tolerance in R. serbica is a species-specific process orchestrated by several metabolic pathways that are temporally and compartmentally regulated at several levels. PB - Belgrade : Institute of molecular genetics and genetic engineering C3 - 4th Belgrade Bioinformatics Conference T1 - Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc. EP - 65 SP - 65 VL - 4 UR - https://hdl.handle.net/21.15107/rcub_imagine_2005 ER -
@conference{ author = "Vidović, Marija and Battisti, Ilaria and Pantelić, Ana and Milić, Dejana and Arrigoni, Giorgio and Masi, Antonio and Veljović Jovanović, Sonja", year = "2023", abstract = "The resurrection plant Ramonda serbica Panc. survives long desiccation periods and fully recovers metabolic functions within one day upon watering. We aimed to identify key candidates and pathways involved in desiccation tolerance in R. serbica by employing a systems biology approach, combining transcriptomics and proteomics. A total of 68,694 differentially expressed genes (DEGs; p-value<0.005 and abs(log2FC)≥2) were obtained in R. serbica leaves upon desiccation. Among them, 23,935 and 26,169 genes were upregulated and downregulated in desiccated leaves (DL) and hydrated leaves (HL), respectively. By differential TMT-based proteomic analysis 1192 different protein groups were identified after filtering with at least two unique peptides per protein. In total, 229 protein groups were more abundant in HL and 179 in DL (p-value<0.05 and abs(FC)≥1.3). The majority of the DAPs and DEGs involved in photosynthesis, transport, secondary metabolism, and signaling, were less abundant in DL. On the other hand, proteins and transcripts associated with fermentation, N-metabolism, heme, protein synthesis, folding and assembly, C1- metabolism, and late embryogenesis abundant proteins, were more accumulated in DL. A poor correlation between proteomic and transcriptomic results was detected for mitochondrial electron transport and ATP production, gluconeogenesis, glycolysis, tricarboxylic acid cycle, and enzymatic H2O2 scavengers due to different mRNA half-life, protein turnover, dynamic posttranscriptional and posttranslational modifications. Finally, desiccation tolerance in R. serbica is a species-specific process orchestrated by several metabolic pathways that are temporally and compartmentally regulated at several levels.", publisher = "Belgrade : Institute of molecular genetics and genetic engineering", journal = "4th Belgrade Bioinformatics Conference", title = "Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc.", pages = "65-65", volume = "4", url = "https://hdl.handle.net/21.15107/rcub_imagine_2005" }
Vidović, M., Battisti, I., Pantelić, A., Milić, D., Arrigoni, G., Masi, A.,& Veljović Jovanović, S.. (2023). Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc.. in 4th Belgrade Bioinformatics Conference Belgrade : Institute of molecular genetics and genetic engineering., 4, 65-65. https://hdl.handle.net/21.15107/rcub_imagine_2005
Vidović M, Battisti I, Pantelić A, Milić D, Arrigoni G, Masi A, Veljović Jovanović S. Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc.. in 4th Belgrade Bioinformatics Conference. 2023;4:65-65. https://hdl.handle.net/21.15107/rcub_imagine_2005 .
Vidović, Marija, Battisti, Ilaria, Pantelić, Ana, Milić, Dejana, Arrigoni, Giorgio, Masi, Antonio, Veljović Jovanović, Sonja, "Integration of differential transcriptomic and proteomic data in hydrated and desiccated leaves of Ramonda serbica Panc." in 4th Belgrade Bioinformatics Conference, 4 (2023):65-65, https://hdl.handle.net/21.15107/rcub_imagine_2005 .