Phenotypic and transcriptomics characterization uncovers genes underlying tuber yield traits and gene expression marker development in potato under aeroponics.
Rasna ZintaJagesh Kumar TiwariTanuja BucksethUmesh GoutamRajesh Kumar SinghAjay Kumar ThakurShwetank SinghVinod KumarManoj KumarPublished in: Planta (2024)
fold change). DEGs were characterized by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Collectively, we identified genes participating in sugar metabolism, stress response, transcription factors, phytohormones, kinase proteins, and other genes greatly affecting tuber yield and its related traits. A few selected genes were UDP-glucose glucosyltransferase, glutathion S-transferase, GDSL esterase/lipase, transcription factors (MYB, WRKY, bHLH63, and BURP), phytohormones (auxin-induced protein X10A, and GA20 oxidase), kinase proteins (Kunitz-type tuber invertase inhibitor, BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1) and laccase. Based on the selected 17 peptide sequences representing 13 genes, a phylogeny tree and motifs were analyzed. Real time-quantitative polymerase chain reaction (RT-qPCR) analysis was used to validate the RNA-seq results. RT-qPCR based gene expression markers were developed for the genes such as 101 kDa heat shock protein, catechol oxidase B chloroplastic, cysteine protease inhibitor 1, Kunitz-type tuber invertase inhibitor, and laccase to identify high yielding potato genotypes. Thus, our study paved the path for potential genes associated with tuber yield traits in potato under aeroponics.
Keyphrases
- genome wide
- genome wide identification
- transcription factor
- gene expression
- dna methylation
- heat shock protein
- bioinformatics analysis
- rna seq
- genome wide analysis
- single cell
- mass spectrometry
- skeletal muscle
- tyrosine kinase
- blood glucose
- risk assessment
- heat shock
- copy number
- climate change
- oxidative stress
- human health