Evidence map›Paper›PMID 39538083›Full record

ArticlePlant molecular biology2024

Multi-omics analysis reveals the positive impact of differential chloroplast activity during in vitro regeneration of barley.

Parul Sirohi, Chanderkant Chaudhary, Mayank Sharma, Ravi Bodampalli Anjanappa, Suchi Baliyan, Ritika Vishnoi, Sumit Kumar Mishra, Reeku Chaudhary, Bhairavnath Waghmode, Anuj Kumar Poonia and 3 more

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Article in Plant molecular biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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1 · What the graph read from it

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

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3 · Its place in the literature

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4 · The record

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5 · Who and what money

Authors and funding

13 authors.

Parul SirohiDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Chanderkant ChaudharyDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Mayank SharmaInstitute of Molecular Plant Biology, ETH Zurich, Zurich, Switzerland.
Ravi Bodampalli AnjanappaInstitute of Molecular Plant Biology, ETH Zurich, Zurich, Switzerland.
Suchi BaliyanDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Ritika VishnoiDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Sumit Kumar MishraDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Reeku ChaudharyDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Bhairavnath WaghmodeDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Anuj Kumar PooniaDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Hugo GermainDepartment of Chemistry, Biochemistry and Physics, University of Quebec Trois Rivieres, Trois Rivieres, QC, Canada.
Debabrata SircarDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India.
Harsh ChauhanDepartment of Biosciences and Bioengineering, Indian Institute of Technology Roorkee, Roorkee, India. harsh.chauhan@bt.iitr.ac.in.ORCID http://orcid.org/0000-0002-1396-5464

Funding

Indian Institute of Technology Roorkee FIG-100677
6 · The paper itself

Abstract

Existence of potent in vitro regeneration system is a prerequisite for efficient genetic transformation and functional genomics of crop plants. In this study, two contrasting cultivars differencing in their in vitro regeneration efficiency were identified. Tissue culture friendly cultivar Golden Promise (GP) and tissue culture resistant DWRB91(D91) were selected as contrasting cultivars to investigate the molecular basis of regeneration efficiency through multiomics analysis. Transcriptomics analysis revealed 1487 differentially expressed genes (DEGs), in which 795 DEGs were upregulated and 692 DEGs were downregulated in the GP-D91 transcriptome. Genes encoding proteins localized in chloroplast and involved in ROS generation were upregulated in the embryogenic calli of GP. Moreover, proteome analysis by LC-MS/MS revealed 3062 protein groups and 16,989 peptide groups, out of these 1586 protein groups were differentially expressed proteins (DEPs). Eventually, GC-MS based metabolomics analysis revealed the higher activity of plastids and alterations in key metabolic processes such as sugar metabolism, fatty acid biosynthesis, and secondary metabolism. TEM analysis also revealed differential plastid development. Higher accumulation of sugars, amino acids and metabolites corresponding to lignin biosynthesis were observed in GP as compared to D91. A comprehensive examination of gene expression, protein profiling and metabolite patterns unveiled a significant increase in the genes encompassing various functions, such as ion homeostasis, chlorophyll metabolic process, ROS regulation, and the secondary metabolic pathway.

Indexed as

ChloroplastsGene Expression Regulation, PlantHordeumRegenerationGene Expression ProfilingMetabolomicsMultiomicsPlant ProteinsProteomeProteomicsTandem Mass SpectrometryTranscriptomePlant ProteinsProteomeChloroplastGenetic transformationIn vitro regenerationMetabolomicsProteomicsTranscriptomics

Identifiers

PMID39538083

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.