Identification and characterization of long non-coding RNA and their response against citrus bark cracking viroid infection in Humulus lupulus

0548578 - BC 2022 RIV US eng J - Journal Article
Nath, Vishnu Sukumari - Mishra, Ajay Kumar - Awasthi, Praveen - Shrestha, Ankita - Matoušek, Jaroslav - Jakše, J. - Kocábek, Tomáš - Khan, Ahamed
Identification and characterization of long non-coding RNA and their response against citrus bark cracking viroid infection in Humulus lupulus.
Genomics. Roč. 113, č. 4 (2021), s. 2350-2364. ISSN 0888-7543. E-ISSN 1089-8646
R&D Projects: GA ČR(CZ) GA19-19629S; GA MŠMT(CZ) EF16_027/0008357; GA ČR(CZ) GC18-10515J
Institutional support: RVO:60077344
Keywords : Citrus bark cracking viroid * Genomics * Humulus lupulus * Long non-coding RNAs * Plant defense * RNA-sequencing
OECD category: Biochemistry and molecular biology
Impact factor: 4.310, year: 2021
Method of publishing: Open access
https://www.sciencedirect.com/science/article/pii/S0888754321002032?via%3Dihub

Long non-coding RNAs (lncRNAs) are a highly heterogeneous class of non-protein-encoding transcripts that play an essential regulatory role in diverse biological processes, including stress responses. The severe stunting disease caused by Citrus bark cracking viroid (CBCVd) poses a major threat to the production of Humulus lupulus (hop) plants. In this study, we systematically investigate the characteristics of the lncRNAs in hop and their role in CBCVd-infection using RNA-sequencing data. Following a stringent filtration criterion, a total of 3598 putative lncRNAs were identified with a high degree of certainty, of which 19% (684) of the lncRNAs were significantly differentially expressed (DE) in CBCVd-infected hop, which were predicted to be mainly involved in plantpathogen interactions, kinase cascades, secondary metabolism and phytohormone signal transduction. Besides, several lncRNAs and CBCVd-responsive lncRNAs were identified as the precursor of microRNAs and predicted as endogenous target mimics (eTMs) for hop microRNAs involved in CBCVd-infection.
Permanent Link: http://hdl.handle.net/11104/0329087