Computational Identification of miRNAs and Temperature Responsive lncRNAs from Mango (Mangifera indica, L.)

Abstract

Background Mango is a major tropical fruit in the world and is known as the king of fruits because of its flavour, aroma, taste, and nutritional values. Moreover, various parts of mango trees have been used for medical purposes. Although various regulatory roles of miRNAs and lncRNAs have been investigated in many plants, there is yet an absence of study in mango. This is the first study to provide information on ncRNAs of mango with the aim of identifying miRNAs and lncRNAs of mango and discovering of their potential functions by the interaction prediction of the miRNAs, lncRNAs and their target genes. Results In this analysis, 104 miRNAs and 7,610 temperature responsive lncRNAs were identified and the target genes of these ncRNAs were characterized. By analysing the interaction of miRNAs and their target genes, it was observed that miRNAs are mainly involved in growth, development, and stress responses of mango. For the lncRNAs, cold responsive lncRNAs bound to low temperature responsive proteins expressed at low temperature stress. GO enrichment analysis of heat and cold responsive lncRNAs revealed that they involved in all three basic processes; biological process, cellular component, and molecular function. Moreover, mango lncRNAs can target miRNAs to reduce the stability of lncRNAs and can function as molecular decoys or sponges of miRNAs. Conclusion This paper would provide the new information about miRNAs and lncRNAs of mango and would help for the further investigation of mango ncRNAs.

Global identification of long non-coding RNAs involved in the induction of spinach flowering

“…According to the expression profile, 186 known lncRNAs, and 89 novel lncRNAs were found associated with pistil development in Prunus mume , which could provide new indications to elucidate how lncRNAs and their targets play role in pistil differentiation and flower development [ 36 ], highlighting the potential contributions of lncRNA in the flowering process. Although, for a better understanding of the functions lncRNAs and their target genes, several research works are carried out to identify abiotic stress responsive lncRNAs (In direct connection with flowering) under different conditions in many plants including Camellia sinensis [ 37 , 38 ], Capsicum annuum [ 39 ], Mangifera indica [ 40 ], Arachis hypogaea Linn [ 41 ], Zea mays [ 42 ], a substantial number of databases have been also developed to provide resources and broadly investigate lncRNAs in plants [ 20 , 43 – 45 ].…”

Computational Identification of miRNAs and Temperature-Responsive lncRNAs From Mango (Mangifera indica L.)

“…The authors thank all lab members especially Yong Jing and Cong Feng for their suggestions during this research work. This manuscript has been released as a preprint at Research Square ( https://doi.org/10.21203/rs.3.rs22698/v1 ) ( Moh et al, 2020 ).…”