Browsing by Author "Ginny Antony"
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Item Cocoa(2017) Ramesh, S.V.; Ginny Antony; Tony GraceItem Development and characterization of non‑coding RNA‑derived simple sequence repeat markers in coconut (Cocos nucifera L.)(2022) sabana, A.A.; Ginny Antony; Rajesh, M.K.; Gangaraj K.P.; Niral, V.; Sudha, R.; Jerard, B.A.Item Draft genome sequence, annotation and SSR mining data of Oryctes rhinoceros Linn. (Coleoptera: Scarabaeidae), the coconut rhinoceros beetle(2021) Rajesh, M.K.; Ginny Antony; Kumar Arvind; Jeffrey Godwin; Gangaraj, K.P.; Sujithra, M; Joseph Rajkumar, A.; Tony GraceItem Dynamic changes in the expression pattern of miRNAs and associated target genes during coconut somatic embryogenesis(2020) Abdulla Abdulla Sabana; Muliyar Krishna Rajesh; Ginny AntonyItem Dynamic changes in the expression pattern of miRNAs and associated target genes during coconut somatic embryogenesis(2020) Abdulla Abdulla Sabana; Rajesh, M.K.; Ginny AntonyItem In silico identification of microRNAs and their targets associated with coconut embryogenic calli(2018) Sabana. A.A.; Ginny Antony; Rahul, C.U.; Rajesh, M.K.Item Reference genes for expression studies in different developmental stages of Oryctes rhinoceros, the coconut rhinoceros beetle(2023) Kumar Arvind; Ginny Antony; Rajesh, M.K.; Josephrajkumar, A.; Tony GraceItem Reference genes for expression studies in different developmental stages of Oryctes rhinoceros, the coconut rhinoceros beetle(2023) Kumar Arvind; Ginny Antony; Rajesh, M.K.; Josephrajkumar, A.; Tony GraceOryctes rhinoceros L. (Coleoptera: Scarabaeidae), the coconut rhinoceros beetle (CRB), is a primary pest of coconut in South and Southeast Asia and the Pacific Islands. The beetle has the potential to severely affect the economies of local communities, many of whom are marginal and small farmers who rely on coconut as the main source of livelihood. Reverse transcription-quantitative real-time PCR (qRT-PCR) based targeted gene expression analysis has emerged as a powerful tool due to its sensitivity and reproducibility. However, calculating the relative expression of target genes requires normalization with reference genes across specific experimental conditions. To identify suitable reference gene(s) possessing stability, we selected six prospective genes (viz., NADH, ACTIN, EF1A, RPL3, SDHA, and ARF6) and evaluated them for their potential use as reference gene(s) across different developmental stages of O. rhinoceros. A comprehensive approach based on five statistical models viz., GeNorm, BestKeeper, NormFinder, RefFinder and the ΔCt value, was utilized, and based on the obtained stability values of candidate genes, a consensus ranking was generated. The expression levels of NADH, EF1A and RPL3 were observed to be the most stable across the developmental stages with significant statistical reliability. Further, this study identified NADH/EF1A as the most reliable reference gene combination which could provide robust normalization of RT-qPCR data in gene expression studies in O. rhinoceros. This is the first report identifying the suitable reference genes for normalizing gene expression in O. rhinoceros across different developmental stages, facilitating future elucidation of gene expressions in this species.Item Regulation of coconut somatic embryogenesis: decoding the role of long non‑coding RNAs(2024) Sabana, A.A; Ginny Antony; K. P. Gangaraj; Tony Grace; Rajesh, M.K.Long non-coding RNAs (lncRNAs) are transcripts longer than 200 nucleotides that lack significant protein coding potential and have been shown to regulate various biological processes. This study was designed to identify lncRNAs in coconut and their role in the process of somatic embryogenesis in coconut, a crop with high recalcitrance to in vitro culture. RNA-Seq data of coconut embryogenic calli of the West Coast Tall cultivar was exploited for in silico prediction of lncRNA. From a total of 6328 transcripts, which were annotated as uncharacterised or with no homology hits with the existing database, 5110 putative lncRNAs are identified. We also studied the relationship between lncRNAs, microRNAs (miRNAs) and mRNAs and found that some of the lncRNAs act as miRNA precursors, some as potential miRNA targets and some function as endogenous target mimics (eTMs) for miRNAs. Real-time quantitative PCR confirmed that 10 selected lncRNAs showed significant differences in the expression pattern in different stages of coconut somatic embryogenesis. Our results suggest the existence of diverse lncRNAs in coconut embryogenic calli, some of which are differentially expressed. The information generated in this study could be of great value in understanding the molecular mechanisms governing somatic embryogenesis in coconutItem Viral derived miRNAs in OrNV-Oryctes rhinoceros interaction(2022) Kumar Arvind; Ginny Antony; Rajesh, M.K.; Josephrajkumar, A.; Tony Grace