Proteomics

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TRNA-Leu(CAG) gene is conserved in most Saccharomycopsis yeast species but is non-essential and does not compete with tRNA-Ser(CAG) in translation Dataset 1B; S. capsularis Y-17639 WT Sporulation condition

ABSTRACT: In the yeast genera Saccharomycopsis and Ascoidea, nuclear genes use a non-standard genetic code in which CUG codons are translated as serine instead of leucine, due to the presence of a tRNA-Ser with the unusual anticodon CAG. However, some species in this ‘CUG-Ser2’ clade also contain an ancestral tRNA-Leu gene with the same anticodon. One of these species, Ascoidea asiatica, has been shown to have a stochastic proteome in which proteins contain approximately 50% Ser and 50% Leu at CUG codon sites, whereas previously examined Saccharomycopsis species translate CUG only as Ser. Here, we investigated the presence, conservation, and possible functionality of the tRNA-Leu(CAG) gene in the genus Saccharomycopsis. We analyzed the genomes of 33 strains, including almost all known species of Saccharomycopsis, and found that most of them contain both tRNA-Ser(CAG) and tRNA-Leu(CAG) genes. The tRNA-Leu(CAG) gene is evolving faster than tRNA-Ser(CAG) and it has been lost in two species, S. microspora and S. synnaedendra. We deleted the single tRNA-Leu(CAG) gene in S. capsularis and found that it is not essential. Bioinformatic analysis suggested that some CUG codon sites in Saccharomycopsis species may be translated as Leu, specifically in genes with functions in meiosis or sporulation, but mass spectrometry of sporulating S. capsularis and S. fermentans cultures showed only CUG-Ser translation. Cloverleaf structures of tRNA-Leu(CAG) from all Saccharomycopsis species contain mutations that are likely to make them non-functional in translation, but the evolutionary conservation of the gene leads us to propose that it has been retained for an unknown non-translational role.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Saccharomycopsis Capsularis

SUBMITTER: Eugene Dillon  

LAB HEAD: Kenneth Henry

PROVIDER: PXD044720 | Pride | 2024-10-17

REPOSITORIES: Pride

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2021_10_27_EoinWolfe_1B.raw Raw
2021_10_27_EoinWolfe_1B_211029220357.raw Raw
allSpectra.HCD.FTMS.iso_0.apl Other
allSpectra.HCD.FTMS.iso_1.apl Other
allSpectra.HCD.FTMS.iso_2.apl Other
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Publications

Evolution of the Genetic Code in the Ascoideales (CUG-Ser2) Yeast Clade: The Ancestral tRNA-Leu(CAG) Gene Is Retained in Most Saccharomycopsis Species but Is Nonessential and Not Used for Translation.

Ó Cinnéide Eoin E   Scaife Caitriona C   Dillon Eugène T ET   Wolfe Kenneth H KH  

Genome biology and evolution 20240801 8

In the yeast genera Saccharomycopsis and Ascoidea, which comprise the taxonomic order Ascoideales, nuclear genes use a nonstandard genetic code in which CUG codons are translated as serine instead of leucine, due to a tRNA-Ser with the unusual anticodon CAG. However, some species in this clade also retain an ancestral tRNA-Leu gene with the same anticodon. One of these species, Ascoidea asiatica, has been shown to have a stochastic proteome in which proteins contain ∼50% Ser and 50% Leu at CUG c  ...[more]

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