In silico prediction of the metabolism of Blastocrithidia nonstop, a trypanosomatid with non-canonical genetic code.
Blastocrithidia
In silico
Metabolic predictions
Non-canonical genetic code
Trypanosomatid
Journal
BMC genomics
ISSN: 1471-2164
Titre abrégé: BMC Genomics
Pays: England
ID NLM: 100965258
Informations de publication
Date de publication:
16 Feb 2024
16 Feb 2024
Historique:
received:
03
09
2023
accepted:
06
02
2024
medline:
17
2
2024
pubmed:
17
2
2024
entrez:
16
2
2024
Statut:
epublish
Résumé
Almost all extant organisms use the same, so-called canonical, genetic code with departures from it being very rare. Even more exceptional are the instances when a eukaryote with non-canonical code can be easily cultivated and has its whole genome and transcriptome sequenced. This is the case of Blastocrithidia nonstop, a trypanosomatid flagellate that reassigned all three stop codons to encode amino acids. We in silico predicted the metabolism of B. nonstop and compared it with that of the well-studied human parasites Trypanosoma brucei and Leishmania major. The mapped mitochondrial, glycosomal and cytosolic metabolism contains all typical features of these diverse and important parasites. We also provided experimental validation for some of the predicted observations, concerning, specifically presence of glycosomes, cellular respiration, and assembly of the respiratory complexes. In an unusual comparison of metabolism between a parasitic protist with a massively altered genetic code and its close relatives that rely on a canonical code we showed that the dramatic differences on the level of nucleic acids do not seem to be reflected in the metabolisms. Moreover, although the genome of B. nonstop is extremely AT-rich, we could not find any alterations of its pyrimidine synthesis pathway when compared to other trypanosomatids. Hence, we conclude that the dramatic alteration of the genetic code of B. nonstop has no significant repercussions on the metabolism of this flagellate.
Sections du résumé
BACKGROUND
BACKGROUND
Almost all extant organisms use the same, so-called canonical, genetic code with departures from it being very rare. Even more exceptional are the instances when a eukaryote with non-canonical code can be easily cultivated and has its whole genome and transcriptome sequenced. This is the case of Blastocrithidia nonstop, a trypanosomatid flagellate that reassigned all three stop codons to encode amino acids.
RESULTS
RESULTS
We in silico predicted the metabolism of B. nonstop and compared it with that of the well-studied human parasites Trypanosoma brucei and Leishmania major. The mapped mitochondrial, glycosomal and cytosolic metabolism contains all typical features of these diverse and important parasites. We also provided experimental validation for some of the predicted observations, concerning, specifically presence of glycosomes, cellular respiration, and assembly of the respiratory complexes.
CONCLUSIONS
CONCLUSIONS
In an unusual comparison of metabolism between a parasitic protist with a massively altered genetic code and its close relatives that rely on a canonical code we showed that the dramatic differences on the level of nucleic acids do not seem to be reflected in the metabolisms. Moreover, although the genome of B. nonstop is extremely AT-rich, we could not find any alterations of its pyrimidine synthesis pathway when compared to other trypanosomatids. Hence, we conclude that the dramatic alteration of the genetic code of B. nonstop has no significant repercussions on the metabolism of this flagellate.
Identifiants
pubmed: 38365628
doi: 10.1186/s12864-024-10094-8
pii: 10.1186/s12864-024-10094-8
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
184Subventions
Organisme : European Regional Development Fund
ID : CZ.02.1.01/16_019/ 0000759
Organisme : European Regional Development Fund
ID : CZ.02.1.01/16_019/ 0000759
Organisme : European Regional Development Fund
ID : CZ.02.1.01/16_019/ 0000759
Organisme : Agentúra na Podporu Výskumu a Vývoja
ID : SK-CZ-RD-21-0038
Organisme : Agentúra na Podporu Výskumu a Vývoja
ID : SK-CZ-RD-21-0038
Organisme : Ostravská Univerzita v Ostravě
ID : SGS/PřF/2023
Organisme : Ostravská Univerzita v Ostravě
ID : SGS/PřF/2023
Organisme : Grantová Agentura České Republiky
ID : 22-14356S
Organisme : Grantová Agentura České Republiky
ID : 22-14356S
Organisme : Grantová Agentura České Republiky
ID : 22-14356S
Organisme : European Union's Operational Program LERCO
ID : CZ.10.03.01/00/22_003/0000003
Organisme : European Union's Operational Program LERCO
ID : CZ.10.03.01/00/22_003/0000003
Organisme : Ministerstvo Školství, Mládeže a Tělovýchovy
ID : e-INFRA CZ 90254
Organisme : Ministerstvo školství, mládeže a tělovýchovy České republiky
ID : LUASK22033
Informations de copyright
© 2024. The Author(s).
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