Arabidopsis thaliana NudiXes have RNA-decapping activity

0569480 - ÚOCHB 2024 RIV GB eng J - Journal Article
Mititelu, Maria Bianca - Hudeček, Oldřich - Gozdek, A. - Benoni, Roberto - Nešuta, Ondřej - Krasnodebski, S. - Kufel, J. - Cahová, Hana
Arabidopsis thaliana NudiXes have RNA-decapping activity.
RSC Chemical Biology. Roč. 4, č. 3 (2023), s. 223-228. ISSN 2633-0679. E-ISSN 2633-0679
R&D Projects: GA MŠMT(CZ) LL1603
EU Projects: European Commission(XE) 101041374 - StressRNaction
Institutional support: RVO:61388963
Keywords : hydrolases * enzymes * family
OECD category: Biochemistry and molecular biology
Impact factor: 4.1, year: 2022
Method of publishing: Open access
https://doi.org/10.1039/D2CB00213B

Recent discoveries of various noncanonical RNA caps, such as dinucleoside polyphosphates (NpnN), coenzyme A (CoA), and nicotinamide adenine dinucleotide (NAD) in all domains of life have led to a revision of views on RNA cap function and metabolism. Enzymes from the NudiX family capable of hydrolyzing a polyphosphate backbone attached to a nucleoside are the strongest candidates for degradation of noncanonically capped RNA. The model plant organism Arabidopsis thaliana encodes as many as 28 NudiX enzymes. For most of them, only in vitro substrates in the form of small molecules are known. In our study, we focused on four A. thaliana NudiX enzymes (AtNUDT6, AtNUDT7, AtNUDT19 and AtNUDT27), and we studied whether these enzymes can cleave RNA capped with Np(n)Ns (Ap(2-5)A, Gp(3-4)G, Ap(3-5)G, m(7)Gp(3)G, m(7)Gp(3)A), CoA, ADP-ribose, or NAD(H). While AtNUDT19 preferred NADH-RNA over other types of capped RNA, AtNUDT6 and AtNUDT7 preferentially cleaved Ap(4)A-RNA. The most powerful decapping enzyme was AtNUDT27, which cleaved almost all types of capped RNA at a tenfold lower concentration than the other enzymes. We also compared cleavage efficiency of each enzyme on free small molecules with RNA capped with corresponding molecules. We found that AtNUDT6 prefers free Ap(4)A, while AtNUDT7 preferentially cleaved Ap(4)A-RNA. These findings show that NudiX enzymes may act as RNA-decapping enzymes in A. thaliana and that other noncanonical RNA caps such as Ap(4)A and NADH should be searched for in plant RNA.
Permanent Link: https://hdl.handle.net/11104/0340817