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1.
Nucleic Acids Res ; 50(20): 11755-11774, 2022 11 11.
Artigo em Inglês | MEDLINE | ID: mdl-36350636

RESUMO

Mitochondrial translation is of high significance for cellular energy homeostasis. Aminoacyl-tRNA synthetases (aaRSs) are crucial translational components. Mitochondrial aaRS variants cause various human diseases. However, the pathogenesis of the vast majority of these diseases remains unknown. Here, we identified two novel SARS2 (encoding mitochondrial seryl-tRNA synthetase) variants that cause a multisystem disorder. c.654-14T > A mutation induced mRNA mis-splicing, generating a peptide insertion in the active site; c.1519dupC swapped a critical tRNA-binding motif in the C-terminus due to stop codon readthrough. Both mutants exhibited severely diminished tRNA binding and aminoacylation capacities. A marked reduction in mitochondrial tRNASer(AGY) was observed due to RNA degradation in patient-derived induced pluripotent stem cells (iPSCs), causing impaired translation and comprehensive mitochondrial function deficiencies. These impairments were efficiently rescued by wild-type SARS2 overexpression. Either mutation caused early embryonic fatality in mice. Heterozygous mice displayed reduced muscle tissue-specific levels of tRNASers. Our findings elucidated the biochemical and cellular consequences of impaired translation mediated by SARS2, suggesting that reduced abundance of tRNASer(AGY) is a key determinant for development of SARS2-related diseases.


Assuntos
Aminoacil-tRNA Sintetases , COVID-19 , Serina-tRNA Ligase , Humanos , Camundongos , Animais , RNA de Transferência de Serina/genética , Serina-tRNA Ligase/genética , Serina-tRNA Ligase/metabolismo , Aminoacil-tRNA Sintetases/genética , Aminoacilação
2.
Bioengineered ; 13(2): 2087-2098, 2022 02.
Artigo em Inglês | MEDLINE | ID: mdl-35030975

RESUMO

Breast cancer (BC) is a serious threat to female health. tRNA-derived fragments (tRFs) are popular biomarkers for the diagnosis and treatment of cancer. The purpose of this study was to identify tRFs related to BC and to explore the function and regulatory mechanism of crucial tRFs in BC cells. Small RNA database was used to detect the tRF profiles from BC patients and controls. Differentially expressed tRFs were determined by quantitative reverse transcription PCR (RT-qPCR), and a crucial tRF was evaluated through silence and overexpression experiments, and the target gene was investigated by luciferase reporter gene assay, Western blot and rescue experiment. We screened tRF-19-W4PU732S, which was processed from the mature tRNA-Ser-AGA, and significantly highlyexpressed in BC tissues and cells. Inhibition of tRF-19-W4PU732S weakened MDA-MB-231 cell proliferation, migration and invasion, while enhanced apoptosis. On the contrary, overexpression of tRF-19-W4PU732S promoted MCF-7 cell proliferation, migration and invasion, whereasreduced apoptosis. Furthermore, tRF-19-W4PU732S induced BC cell epithelial-to-mesenchymal transition (EMT) and cancer stem-like cells (CSC) phenotypes, such as up-regulation of OCT-4A, SOX2 and Vimentin and down-regulation of E-cadherin. Ribosomal protein-L27A (RPL27A) was a downstream target of tRF-19-W4PU732S, which was lowly expressed in BC cells. The knockdown of RPL27A expression partially restored the promoting effects of tRF-19-W4PU732S on BC cell viability, invasion, migration, EMT and CSC phenotypes, and the suppression of apoptosis. In conclusion, our results manifested that tRF-19-W4PU732S promotes the malignant activity of BC cells by inhibiting RPL27A, which provides a new scientific basis for the treatment of BC.Abbreviations BC: breast cancer; tRNAs: transfer RNAs; tiRNAs: tRNA-derived stressinduced RNAs; tRFs: tRNA-derived fragments; CCK-8: Cell Counting Kit-8; PI: propidium iodide; EMT: epithelial-to-mesenchymal transition; CSC: cancer stem-like cells; RPL27A: ribosomal protein-L27A; RT-qPCR: quantitative reverse transcription PCR.


Assuntos
Neoplasias da Mama/metabolismo , Proteínas de Neoplasias/metabolismo , RNA Neoplásico/metabolismo , RNA de Transferência de Serina/metabolismo , Proteínas Ribossômicas/metabolismo , Neoplasias da Mama/genética , Feminino , Células HEK293 , Humanos , Células MCF-7 , Proteínas de Neoplasias/genética , RNA Neoplásico/genética , RNA de Transferência de Serina/genética , Proteínas Ribossômicas/genética
3.
Nat Commun ; 13(1): 209, 2022 01 11.
Artigo em Inglês | MEDLINE | ID: mdl-35017528

RESUMO

Modified nucleotides in tRNAs are important determinants of folding, structure and function. Here we identify METTL8 as a mitochondrial matrix protein and active RNA methyltransferase responsible for installing m3C32 in the human mitochondrial (mt-)tRNAThr and mt-tRNASer(UCN). METTL8 crosslinks to the anticodon stem loop (ASL) of many mt-tRNAs in cells, raising the question of how methylation target specificity is achieved. Dissection of mt-tRNA recognition elements revealed U34G35 and t6A37/(ms2)i6A37, present concomitantly only in the ASLs of the two substrate mt-tRNAs, as key determinants for METTL8-mediated methylation of C32. Several lines of evidence demonstrate the influence of U34, G35, and the m3C32 and t6A37/(ms2)i6A37 modifications in mt-tRNAThr/Ser(UCN) on the structure of these mt-tRNAs. Although mt-tRNAThr/Ser(UCN) lacking METTL8-mediated m3C32 are efficiently aminoacylated and associate with mitochondrial ribosomes, mitochondrial translation is mildly impaired by lack of METTL8. Together these results define the cellular targets of METTL8 and shed new light on the role of m3C32 within mt-tRNAs.


Assuntos
Anticódon/química , Metiltransferases/genética , Mitocôndrias/genética , RNA Mitocondrial/química , RNA de Transferência de Serina/química , RNA de Transferência de Treonina/química , Anticódon/metabolismo , Pareamento de Bases , Citosina/metabolismo , Regulação da Expressão Gênica , Células HEK293 , Humanos , Metilação , Metiltransferases/metabolismo , Mitocôndrias/metabolismo , Conformação de Ácido Nucleico , Ligação Proteica , Biossíntese de Proteínas , RNA Mitocondrial/genética , RNA Mitocondrial/metabolismo , RNA de Transferência de Serina/genética , RNA de Transferência de Serina/metabolismo , RNA de Transferência de Treonina/genética , RNA de Transferência de Treonina/metabolismo , Transdução de Sinais
4.
Science ; 372(6546): 1057-1062, 2021 06 04.
Artigo em Inglês | MEDLINE | ID: mdl-34083482

RESUMO

It is widely hypothesized that removing cellular transfer RNAs (tRNAs)-making their cognate codons unreadable-might create a genetic firewall to viral infection and enable sense codon reassignment. However, it has been impossible to test these hypotheses. In this work, following synonymous codon compression and laboratory evolution in Escherichia coli, we deleted the tRNAs and release factor 1, which normally decode two sense codons and a stop codon; the resulting cells could not read the canonical genetic code and were completely resistant to a cocktail of viruses. We reassigned these codons to enable the efficient synthesis of proteins containing three distinct noncanonical amino acids. Notably, we demonstrate the facile reprogramming of our cells for the encoded translation of diverse noncanonical heteropolymers and macrocycles.


Assuntos
Códon , Proteínas de Escherichia coli/genética , Escherichia coli/genética , Escherichia coli/virologia , Compostos Macrocíclicos/metabolismo , Polímeros/metabolismo , Biossíntese de Proteínas , Fagos T/crescimento & desenvolvimento , Aminoácidos/metabolismo , Bacteriólise , Uso do Códon , Códon de Terminação , Evolução Molecular Direcionada , Escherichia coli/metabolismo , Proteínas de Escherichia coli/biossíntese , Deleção de Genes , Código Genético , Genoma Bacteriano , Compostos Macrocíclicos/química , Mutagênese , Fatores de Terminação de Peptídeos/genética , Polímeros/química , RNA Bacteriano/genética , RNA de Transferência/genética , RNA de Transferência de Serina/genética , Ubiquitina/biossíntese , Ubiquitina/genética
5.
Mitochondrion ; 57: 1-8, 2021 03.
Artigo em Inglês | MEDLINE | ID: mdl-33279600

RESUMO

BACKGROUND: Mitochondrial disorders are a group of heterogeneous diseases characterized by biochemical disturbances in oxidative phosphorylation (OXPHOS). Mutations in mitochondrial transfer RNA (mt-tRNA) genes are the most frequently in mitochondrial disease. However, few studies have detailed the molecular mechanisms behind these mutations. METHODS: We performed clinical evaluation, genetic analysis, muscle histochemistry, and molecular and biochemical investigations in muscle tissue and proband-derived cybrid cell lines. RESULTS: We found a mitochondrial tRNASer(UCN) mutation (m.7453G>A) in a 15-year-old patient with severe mitochondrial myopathy. We demonstrated that this mutation caused impairment of mitochondrial translation, respiratory deficiency, overproduction of reactive oxygen species (ROS), and decreased mitochondrial membrane potential (MMP), which ultimately led to severe mitochondrial myopathy. CONCLUSION: Our findings offer valuable new insights into the tRNASer(UCN) m.7453G>A mutation for both the pathogenic mechanism and functional consequences.


Assuntos
Miopatias Mitocondriais/genética , Polimorfismo de Nucleotídeo Único , RNA de Transferência de Serina/genética , Análise de Sequência de DNA/métodos , Adolescente , Linhagem Celular , Feminino , Genoma Mitocondrial , Sequenciamento de Nucleotídeos em Larga Escala , Humanos , Potencial da Membrana Mitocondrial , Miopatias Mitocondriais/metabolismo , Modelos Moleculares , Conformação de Ácido Nucleico , Biossíntese de Proteínas , RNA de Transferência de Serina/química , Espécies Reativas de Oxigênio/metabolismo
6.
Elife ; 92020 10 30.
Artigo em Inglês | MEDLINE | ID: mdl-33124983

RESUMO

Organisms differ in the types and numbers of tRNA genes that they carry. While the evolutionary mechanisms behind tRNA gene set evolution have been investigated theoretically and computationally, direct observations of tRNA gene set evolution remain rare. Here, we report the evolution of a tRNA gene set in laboratory populations of the bacterium Pseudomonas fluorescens SBW25. The growth defect caused by deleting the single-copy tRNA gene, serCGA, is rapidly compensated by large-scale (45-290 kb) duplications in the chromosome. Each duplication encompasses a second, compensatory tRNA gene (serTGA) and is associated with a rise in tRNA-Ser(UGA) in the mature tRNA pool. We postulate that tRNA-Ser(CGA) elimination increases the translational demand for tRNA-Ser(UGA), a pressure relieved by increasing serTGA copy number. This work demonstrates that tRNA gene sets can evolve through duplication of existing tRNA genes, a phenomenon that may contribute to the presence of multiple, identical tRNA gene copies within genomes.


Assuntos
DNA Bacteriano/genética , Duplicação Gênica , Pseudomonas fluorescens/genética , RNA de Transferência de Serina/genética , Cromossomos Bacterianos/genética , Cromossomos Bacterianos/metabolismo , DNA Bacteriano/metabolismo , Evolução Molecular , Pseudomonas fluorescens/metabolismo , RNA de Transferência de Serina/metabolismo
7.
Mol Med Rep ; 22(1): 77-86, 2020 07.
Artigo em Inglês | MEDLINE | ID: mdl-32377700

RESUMO

Mutations in mitochondrial DNA (mtDNA), especially in mitochondrial 12S rRNA and transfer RNA(tRNA)Ser(UCN) genes, are important causes of non­syndromic hearing loss. However, the molecular mechanism underlying mt­tRNA mutations in clinical hearing impairment are not fully understood. The present study assessed the molecular characterization of two Chinese families with non­syndromic hearing loss, who both exhibited very low penetrance of deafness (9.1 and 12.5% for Family 1 and 2, respectively). Mutational analysis of the complete mtDNA genes identified the presence of cytochrome c oxidase 1/tRNASer(UCN) G7444A and tRNASer(UCN) C7492T mutations, together with polymorphisms belonging to human mitochondrial haplogroup D4 and G2b, respectively. Moreover, the G7444A and C7492T mutations occurred at highly conserved tRNASer(UCN) nucleotides and may cause tRNA metabolism failure, which is involved in mitochondrial translation defects. Therefore, the G7444A and C7492T mutations may lead to the mitochondrial dysfunction that responsible for deafness. However, the absence of any functional variants in Gap junction ß­2, Solute Carrier Family 26 Member 4 and TRNA 5­methylaminomethyl­2­thiouridylate methyltransferase suggested that nuclear genes may not play active roles in the occurrence of deafness. In the present study, the observed incomplete penetrance of hearing loss and mild mitochondrial dysfunction indicated that mtDNA G7444A and C7492T mutations are insufficient to produce the deafness phenotype. Therefore, other risk factors such as environmental factors and epigenetic regulation may be involved in the pathogenesis of hearing loss in the families recruited in the present study.


Assuntos
Perda Auditiva/genética , RNA Mitocondrial/genética , RNA de Transferência de Serina/genética , Adolescente , Adulto , Povo Asiático/genética , Criança , China/epidemiologia , Feminino , Predisposição Genética para Doença , Perda Auditiva/epidemiologia , Humanos , Pessoa de Meia-Idade , Mutação , Linhagem , Penetrância , Adulto Jovem
8.
Ir J Med Sci ; 189(2): 489-496, 2020 May.
Artigo em Inglês | MEDLINE | ID: mdl-31776834

RESUMO

OBJECTIVE: The objective of the study was to investigate the association between mitochondrial DNA (mtDNA) mutations and essential hypertension (EH). METHODS: One Han Chinese pedigree with maternally inherited EH was recruited in the current study. The matrilineal relatives from this family underwent clinical, genetic, and molecular analysis. Moreover, the mtDNA gene mutations were screened by PCR and direct Sanger sequence. Evolutionary conservation was performed and the secondary structure of mt-tRNASer(UCN) with and without the 7471delC was evaluated by the RNA Fold Webserver program. Moreover, the pathogenicity scoring system was used to assess the 7471delC. RESULTS: This Chinese pedigree exhibited a relative high penetrance and expressivity of EH. Of 13 matrilineal relatives, 5 of them suffered from high blood pressure (BP). Genetic analysis of the complete mtDNA genes showed the presence of a novel tRNASer(UCN) 7471delC, together with a set of polymorphisms belonging to the human mitochondrial haplogroup G2a1. In fact, the 7471delC occurred within the T-stem and extra arm of tRNASer(UCN), which was very conserved from bacteria to human mitochondria. Interestingly, the 7472insC which was located at the same position had been regarded as a pathogenic mutation associated with non-syndromic hearing loss. In addition, bioinformatics analysis revealed that the 7471delC affected the secondary structure of tRNASer(UCN). The pathogenicity scoring system showed that the 7471delC may be "possibly pathogenic" associated with EH. CONCLUSION: We believed that the 7471delC may impair the mitochondrial functional and played an active role in the pathogenesis of EH in this pedigree. The 7471delC may be a novel risk factor for maternally transmitted EH.


Assuntos
DNA Mitocondrial/genética , Hipertensão/genética , RNA de Transferência de Serina/genética , Feminino , Humanos , Masculino , Mutação , Polimorfismo Genético
9.
mBio ; 10(6)2019 12 17.
Artigo em Inglês | MEDLINE | ID: mdl-31848288

RESUMO

Mechanisms have evolved to prevent errors in replication, transcription, and translation of genetic material, with translational errors occurring most frequently. Errors in protein synthesis can occur at two steps, during tRNA aminoacylation and ribosome decoding. Recent advances in protein mass spectrometry have indicated that previous reports of translational errors have potentially underestimated the frequency of these events, but also that the majority of translational errors occur during ribosomal decoding, suggesting that aminoacylation errors are evolutionarily less tolerated. Despite that interpretation, there is evidence that some aminoacylation errors may be regulated, and thus provide a benefit to the cell, while others are clearly detrimental. Here, we show that while it has been suggested that regulated Thr-to-Ser substitutions may be beneficial, there is a threshold beyond which these errors are detrimental. In contrast, we show that errors mediated by alanyl-tRNA synthetase (AlaRS) are not well tolerated and induce a global stress response that leads to gross perturbation of the Escherichia coli proteome, with potentially catastrophic effects on fitness and viability. Tolerance for Ala mistranslation appears to be much lower than with other translational errors, consistent with previous reports of multiple proofreading mechanisms targeting mischarged tRNAAla These results demonstrate the essential role of aminoacyl-tRNA proofreading in optimizing cellular fitness and suggest that any potentially beneficial effects of mistranslation may be confined to specific amino acid substitutions.IMPORTANCE Errors in protein synthesis have historically been assumed to be detrimental to the cell. While there are many reports that translational errors are consequential, there is a growing body of evidence that some mistranslation events may be tolerated or even beneficial. Using two models of mistranslation, we compare the direct phenotypic effects of these events in Escherichia coli This work provides insight into the threshold for tolerance of specific mistranslation events that were previously predicted to be broadly neutral to proteome integrity. Furthermore, these data reveal the effects of mistranslation beyond the general unfolded stress response, leading to global translational reprogramming.


Assuntos
Aminoacil-tRNA Sintetases/metabolismo , Infecções por Escherichia coli/microbiologia , Escherichia coli/genética , Escherichia coli/metabolismo , Proteoma , Proteômica , Membrana Celular/metabolismo , Biossíntese de Proteínas , Proteômica/métodos , RNA de Transferência de Serina/química , RNA de Transferência de Serina/genética , Especificidade por Substrato , Aminoacilação de RNA de Transferência
10.
Biomolecules ; 9(11)2019 11 18.
Artigo em Inglês | MEDLINE | ID: mdl-31752208

RESUMO

In-frame decoding in the ribosome occurs through canonical or wobble Watson-Crick pairing of three mRNA codon bases (a triplet) with a triplet of anticodon bases in tRNA. Departures from the triplet-triplet interaction can result in frameshifting, meaning downstream mRNA codons are then read in a different register. There are many mechanisms to induce frameshifting, and most are insufficiently understood. One previously proposed mechanism is doublet decoding, in which only codon bases 1 and 2 are read by anticodon bases 34 and 35, which would lead to -1 frameshifting. In E. coli, tRNASer3GCU can induce -1 frameshifting at alanine (GCA) codons. The logic of the doublet decoding model is that the Ala codon's GC could pair with the tRNASer3's GC, leaving the third anticodon residue U36 making no interactions with mRNA. Under that model, a U36C mutation would still induce -1 frameshifting, but experiments refute this. We perform all-atom simulations of wild-type tRNASer3, as well as a U36C mutant. Our simulations revealed a hydrogen bond between U36 of the anticodon and G1 of the codon. The U36C mutant cannot make this interaction, as it lacks the hydrogen-bond-donating H3. The simulation thus suggests a novel, non-doublet decoding mechanism for -1 frameshifting by tRNASer3 at Ala codons.


Assuntos
Códon/química , Escherichia coli/química , Mudança da Fase de Leitura do Gene Ribossômico , Simulação de Dinâmica Molecular , RNA Bacteriano/química , RNA de Transferência de Serina/química , Códon/genética , Escherichia coli/genética , Mutação Puntual , RNA Bacteriano/genética , RNA de Transferência de Serina/genética
11.
J Biol Chem ; 294(50): 19292-19305, 2019 12 13.
Artigo em Inglês | MEDLINE | ID: mdl-31685661

RESUMO

Nuclear modifier genes have been proposed to modify the phenotypic expression of mitochondrial DNA mutations. Using a targeted exome-sequencing approach, here we found that the p.191Gly>Val mutation in mitochondrial tyrosyl-tRNA synthetase 2 (YARS2) interacts with the tRNASer(UCN) 7511A>G mutation in causing deafness. Strikingly, members of a Chinese family bearing both the YARS2 p.191Gly>Val and m.7511A>G mutations displayed much higher penetrance of deafness than those pedigrees carrying only the m.7511A>G mutation. The m.7511A>G mutation changed the A4:U69 base-pairing to G4:U69 pairing at the aminoacyl acceptor stem of tRNASer(UCN) and perturbed tRNASer(UCN) structure and function, including an increased melting temperature, altered conformation, instability, and aberrant aminoacylation of mutant tRNA. Using lymphoblastoid cell lines derived from symptomatic and asymptomatic members of these Chinese families and control subjects, we show that cell lines harboring only the m.7511A>G or p.191Gly>Val mutation revealed relatively mild defects in tRNASer(UCN) or tRNATyr metabolism, respectively. However, cell lines harboring both m.7511A>G and p.191Gly>Val mutations displayed more severe defective aminoacylations and lower tRNASer(UCN) and tRNATyr levels, aberrant aminoacylation, and lower levels of other tRNAs, including tRNAThr, tRNALys, tRNALeu(UUR), and tRNASer(AGY), than those in the cell lines carrying only the m.7511A>G or p.191Gly>Val mutation. Furthermore, mutant cell lines harboring both m.7511A>G and p.191Gly>Val mutations exhibited greater decreases in the levels of mitochondrial translation, respiration, and mitochondrial ATP and membrane potentials, along with increased production of reactive oxygen species. Our findings provide molecular-level insights into the pathophysiology of maternally transmitted deafness arising from the synergy between tRNASer(UCN) and mitochondrial YARS mutations.


Assuntos
Mitocôndrias/enzimologia , Mutação , RNA de Transferência de Serina/genética , Tirosina-tRNA Ligase/genética , Povo Asiático , Células Cultivadas , DNA Mitocondrial/genética , DNA Mitocondrial/metabolismo , Feminino , Humanos , Masculino , Linhagem , Fenótipo , Tirosina-tRNA Ligase/metabolismo
12.
Genetics ; 213(3): 849-863, 2019 11.
Artigo em Inglês | MEDLINE | ID: mdl-31484688

RESUMO

Transfer RNAs (tRNAs) read the genetic code, translating nucleic acid sequence into protein. For tRNASer the anticodon does not specify its aminoacylation. For this reason, mutations in the tRNASer anticodon can result in amino acid substitutions, a process called mistranslation. Previously, we found that tRNASer with a proline anticodon was lethal to cells. However, by incorporating secondary mutations into the tRNA, mistranslation was dampened to a nonlethal level. The goal of this work was to identify second-site substitutions in tRNASer that modulate mistranslation to different levels. Targeted changes to putative identity elements led to total loss of tRNA function or significantly impaired cell growth. However, through genetic selection, we identified 22 substitutions that allow nontoxic mistranslation. These secondary mutations are primarily in single-stranded regions or substitute G:U base pairs for Watson-Crick pairs. Many of the variants are more toxic at low temperature and upon impairing the rapid tRNA decay pathway. We suggest that the majority of the secondary mutations affect the stability of the tRNA in cells. The temperature sensitivity of the tRNAs allows conditional mistranslation. Proteomic analysis demonstrated that tRNASer variants mistranslate to different extents with diminished growth correlating with increased mistranslation. When combined with a secondary mutation, other anticodon substitutions allow serine mistranslation at additional nonserine codons. These mistranslating tRNAs have applications in synthetic biology, by creating "statistical proteins," which may display a wider range of activities or substrate specificities than the homogenous form.


Assuntos
Mutação com Perda de Função , RNA de Transferência de Serina/genética , Pareamento de Bases , Biossíntese de Proteínas , Processamento Pós-Transcricional do RNA , Estabilidade de RNA , RNA de Transferência de Serina/metabolismo , Saccharomyces cerevisiae
13.
RNA ; 25(5): 645-655, 2019 05.
Artigo em Inglês | MEDLINE | ID: mdl-30803999

RESUMO

External guide sequences (EGSs) signify the short RNAs that induce ribonuclease P (RNase P), an enzyme responsible for processing the 5' termini of tRNA, to specifically cleave a target mRNA by forming a precursor tRNA-like complex. Hence, the EGS technology may serve as a potential strategy for gene-targeting therapy. Our previous studies have revealed that engineered EGS variants induced RNase P to efficiently hydrolyze target mRNAs. In the present research, an EGS variant was designed to be complementary to the mRNA coding for human cytomegalovirus (HCMV) major capsid protein (MCP), which is vital to form the viral capsid. In vitro, the EGS variant was about 80-fold more efficient in inducing human RNase P-mediated cleavage of the target mRNA than a natural tRNA-derived EGS. Moreover, the expressed variant and natural tRNA-originated EGSs led to a decrease of MCP expression by 98% and 73%-74% and a decrease of viral growth by about 10,000- and 200-fold in cells infected with HCMV, respectively. These results reveal direct evidence that the engineered EGS variant has higher efficiency in blocking the expression of HCMV genes and viral growth than the natural tRNA-originated EGS. Therefore, our findings imply that the EGS variant can be a potent candidate agent for the treatment of infections caused by HCMV.


Assuntos
Proteínas do Capsídeo/genética , Citomegalovirus/genética , RNA Guia de Cinetoplastídeos/genética , RNA Mensageiro/genética , RNA de Transferência de Serina/genética , RNA Viral/genética , Ribonuclease P/metabolismo , Pareamento de Bases , Proteínas do Capsídeo/biossíntese , Linhagem Celular Transformada , Linhagem Celular Tumoral , Citomegalovirus/metabolismo , Fibroblastos/metabolismo , Fibroblastos/virologia , Regulação Viral da Expressão Gênica , Marcação de Genes/métodos , Engenharia Genética/métodos , Interações Hospedeiro-Patógeno/genética , Humanos , Terapia de Alvo Molecular , Neuroglia/metabolismo , Neuroglia/virologia , Conformação de Ácido Nucleico , Cultura Primária de Células , Clivagem do RNA , RNA Guia de Cinetoplastídeos/química , RNA Guia de Cinetoplastídeos/metabolismo , RNA Mensageiro/química , RNA Mensageiro/metabolismo , RNA de Transferência de Serina/química , RNA de Transferência de Serina/metabolismo , RNA Viral/química , RNA Viral/metabolismo , Ribonuclease P/química , Ribonuclease P/genética , Replicação Viral/fisiologia
14.
Mitochondrion ; 46: 370-379, 2019 05.
Artigo em Inglês | MEDLINE | ID: mdl-30336267

RESUMO

Mutations in mitochondrial DNA (mtDNA) have been associated with deafness and their pathophysiology remains poorly understood. In this study, we investigated the pathogenic mechanism of deafness-associated 7505A > G variant in the mitochondrial tRNASer(UCN). The m.7505A > G variant affected the highly conserved adenine at position 11 (A11), disrupted the highly conserved A11-U24 base-pairing of DHU stem of tRNASer(UCN) and introduced a tertiary base pairing (G11-C56) with the C56 in the TΨC loop. We therefore hypothesized that the m.7505A > G variant altered both structure and function of tRNASer(UCN). We demonstrated that the m.7505A > G variant perturbed the conformation and stability of tRNASer(UCN), as indicated by an increased melting temperature and electrophoretic mobility of the mutated tRNA compared with the wild type molecule. Using the cybrids constructed by transferring mitochondria from the Chinese family into mitochondrial DNA (mtDNA)-less cells, we demonstrated the m.7505A > G variant led to significantly decreased steady-state levels of tRNASer(UCN) in the mutant cybrids, as compared with those of control cybrids. The aberrant tRNASer(UCN) metabolism resulted in the variable decreases in mtDNA-encoded polypeptides in the mutant cybrids. Furthermore, we demonstrated that the m.7505A > G variant decreased the activities of mitochondrial respiratory complexes I, III and IV, markedly diminished mitochondrial ATP levels and membrane potential, and increased the production of reactive oxygen species in the mutant cybrids. These results demonstrated that the m.7505A > G variant affected both structure and function of tRNASer(UCN) and consequently altered mitochondrial function. Our findings highlighted critical insights into the pathophysiology of maternally inherited deafness, which is manifested by the aberrant tRNA metabolism.


Assuntos
DNA Mitocondrial/genética , Surdez/genética , Surdez/patologia , Mitocôndrias/metabolismo , Mutação , RNA de Transferência de Serina/genética , Adolescente , Criança , Pré-Escolar , Ensaio de Desvio de Mobilidade Eletroforética , Feminino , Humanos , Masculino , Estabilidade de RNA , RNA de Transferência de Serina/química , Temperatura de Transição , Adulto Jovem
15.
FEBS Lett ; 592(22): 3759-3768, 2018 11.
Artigo em Inglês | MEDLINE | ID: mdl-30317559

RESUMO

Selenocysteine (Sec) lacks a cognate aminoacyl-tRNA synthetase. Instead, seryl-tRNA synthetase (SerRS) produces Ser-tRNASec , which is subsequently converted by selenocysteine synthase to Sec-tRNASec . Escherichia coli SerRS serylates tRNASec poorly; this may hinder efficient production of designer selenoproteins in vivo. Guided by structural modelling and selection for chloramphenicol acetyltransferase activity, we evolved three SerRS variants capable of improved Ser-tRNASec synthesis. They display 10-, 8-, and 4-fold increased kcat /KM values compared to wild-type SerRS using synthetic tRNASec species as substrates. The enzyme variants also facilitate in vivo read-through of a UAG codon in the position of the critical serine146 of chloramphenicol acetyltransferase. These results indicate that the naturally evolved SerRS is capable of further evolution for increased recognition of a specific tRNA isoacceptor.


Assuntos
Proteínas de Escherichia coli/genética , Escherichia coli/genética , RNA de Transferência Aminoácido-Específico/genética , RNA de Transferência de Serina/genética , Serina-tRNA Ligase/genética , Sequência de Bases , Códon de Terminação/genética , Escherichia coli/metabolismo , Proteínas de Escherichia coli/química , Proteínas de Escherichia coli/metabolismo , Cinética , Modelos Moleculares , Mutação , Conformação de Ácido Nucleico , Domínios Proteicos , RNA de Transferência Aminoácido-Específico/química , RNA de Transferência Aminoácido-Específico/metabolismo , RNA de Transferência de Serina/química , RNA de Transferência de Serina/metabolismo , Selenoproteínas/genética , Selenoproteínas/metabolismo , Serina/genética , Serina/metabolismo , Serina-tRNA Ligase/química , Serina-tRNA Ligase/metabolismo , Especificidade por Substrato
16.
Nucleic Acids Res ; 46(15): 7831-7843, 2018 09 06.
Artigo em Inglês | MEDLINE | ID: mdl-30007351

RESUMO

To develop a system for conditional amino acid misincorporation, we engineered tRNAs in the yeast Saccharomyces cerevisiae to be substrates of the rapid tRNA decay (RTD) pathway, such that they accumulate when RTD is turned off. We used this system to test the effects on growth of a library of tRNASer variants with all possible anticodons, and show that many are lethal when RTD is inhibited and the tRNA accumulates. Using mass spectrometry, we measured serine misincorporation in yeast containing each of six tRNA variants, and for five of them identified hundreds of peptides with serine substitutions at the targeted amino acid sites. Unexpectedly, we found that there is not a simple correlation between toxicity and the level of serine misincorporation; in particular, high levels of serine misincorporation can occur at cysteine residues without obvious growth defects. We also showed that toxic tRNAs can be used as a tool to identify sequence variants that reduce tRNA function. Finally, we generalized this method to another tRNA species, and generated conditionally toxic tRNATyr variants in a similar manner. This method should facilitate the study of tRNA biology and provide a tool to probe the effects of amino acid misincorporation on cellular physiology.


Assuntos
Substituição de Aminoácidos/genética , Biossíntese de Proteínas/genética , RNA de Transferência de Serina/genética , RNA de Transferência de Tirosina/genética , Saccharomyces cerevisiae/metabolismo , Anticódon/genética , Estabilidade de RNA/genética , Saccharomyces cerevisiae/genética , Serina/metabolismo , Tirosina/metabolismo
17.
Curr Biol ; 28(13): 2046-2057.e5, 2018 07 09.
Artigo em Inglês | MEDLINE | ID: mdl-29910077

RESUMO

Although the "universal" genetic code is now known not to be universal, and stop codons can have multiple meanings, one regularity remains, namely that for a given sense codon there is a unique translation. Examining CUG usage in yeasts that have transferred CUG away from leucine, we here report the first example of dual coding: Ascoidea asiatica stochastically encodes CUG as both serine and leucine in approximately equal proportions. This is deleterious, as evidenced by CUG codons being rare, never at conserved serine or leucine residues, and predominantly in lowly expressed genes. Related yeasts solve the problem by loss of function of one of the two tRNAs. This dual coding is consistent with the tRNA-loss-driven codon reassignment hypothesis, and provides a unique example of a proteome that cannot be deterministically predicted. VIDEO ABSTRACT.


Assuntos
Códon de Terminação/metabolismo , RNA de Transferência de Leucina/genética , RNA de Transferência de Serina/genética , Saccharomycetales/genética , RNA de Transferência de Leucina/metabolismo , RNA de Transferência de Serina/metabolismo , Saccharomycetales/metabolismo
18.
Nat Commun ; 9(1): 1887, 2018 05 14.
Artigo em Inglês | MEDLINE | ID: mdl-29760453

RESUMO

The genetic code used in nuclear genes is almost universal, but here we report that it changed three times in parallel during the evolution of budding yeasts. All three changes were reassignments of the codon CUG, which is translated as serine (in 2 yeast clades), alanine (1 clade), or the 'universal' leucine (2 clades). The newly discovered Ser2 clade is in the final stages of a genetic code transition. Most species in this clade have genes for both a novel tRNASer(CAG) and an ancestral tRNALeu(CAG) to read CUG, but only tRNASer(CAG) is used in standard growth conditions. The coexistence of these alloacceptor tRNA genes indicates that the genetic code transition occurred via an ambiguous translation phase. We propose that the three parallel reassignments of CUG were not driven by natural selection in favor of their effects on the proteome, but by selection to eliminate the ancestral tRNALeu(CAG).


Assuntos
Códon , Código Genético , Genoma Fúngico , RNA de Transferência de Alanina/genética , RNA de Transferência de Leucina/genética , RNA de Transferência de Serina/genética , Saccharomycetales/genética , Alanina/genética , Alanina/metabolismo , Evolução Molecular , Leucina/genética , Leucina/metabolismo , Conformação de Ácido Nucleico , Filogenia , Biossíntese de Proteínas , RNA Fúngico/genética , RNA Fúngico/metabolismo , RNA de Transferência de Alanina/metabolismo , RNA de Transferência de Leucina/metabolismo , RNA de Transferência de Serina/metabolismo , Saccharomycetales/classificação , Saccharomycetales/metabolismo , Seleção Genética , Serina/genética , Serina/metabolismo
19.
Mol Med Rep ; 17(1): 1782-1790, 2018 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-29257206

RESUMO

Interruptions in the activity of mitochondria induced by mutations in the mitochondrial genome (mtDNA) can be the source of numerous diseases including hearing loss (HL). One of the mitochondrial variants responsible for HL is the m.7511T>C mutation located in the mitochondrially encoded tRNA serine 1 (UCN) gene. Next­generation sequencing was used to search for the HL mutations in the whole mtDNA of 2 patients with maternal inheritance and real time­polymerase chain reaction was applied for population screening of the m.7511T>C mutation in a group of 1,644 patients with HL. Sequencing of the whole mtDNA in 2 probands revealed a homoplasmic m.7511T>C mutation. Inheritance of the m.7511T>C mutation has been confirmed in examined matrilineal relatives in both families. The mean age of HL onset was 14.1 years old with the mean degree of HL equaling 74.8 dB. A large­scale search for the m.7511T>C mutation among the patients with HL established the frequency of the m.7511T>C mutation at 0.12% among Polish patients with HL. In conclusion, this first report on central European patients harboring the m.7511T>C mutation reveals that the m.7511T>C may be important when diagnosing patients with maternally inherited HL.


Assuntos
DNA Mitocondrial/genética , Perda Auditiva/genética , Mitocôndrias/genética , Mutação Puntual , RNA de Transferência de Serina/genética , Adulto , Idoso , Idoso de 80 Anos ou mais , Feminino , Perda Auditiva/epidemiologia , Sequenciamento de Nucleotídeos em Larga Escala , Humanos , Masculino , Pessoa de Meia-Idade , Linhagem , Polônia/epidemiologia
20.
Biomedica ; 37(0): 143-154, 2017 Mar 29.
Artigo em Espanhol | MEDLINE | ID: mdl-29161486

RESUMO

INTRODUCTION: Mitochondrial DNA has proven its utility for the study of insect evolution. Genes such as cytochrome b (Cytb) and the transfer gene for serine (SertRNA) can be used to compare closely related organisms. OBJECTIVE: The phylogenetic utility of Cytb-SertRNA-IG1-ND1 was tested for polymorphisms, and secondary structure modeling in SertRNA was done to detect possible cryptic species in Anopheles neivai. MATERIALS AND METHODS: Specimens from Colombia, Guatemala, and the type locality in Panamá were collected and sequenced for specimen comparison based on DNA polymorphisms, and secondary structure modeling for the SertRNA gene. RESULTS: Thirty-six sequences for A. neivai and A. pholidotus were obtained. CONCLUSIONS: Polymorphic variants were detected in A. neivai for Cytb-SertRNA-IG1- ND1. Despite this variation in A. neivai, cryptic species could not be detected.


Assuntos
Anopheles/genética , DNA Mitocondrial/genética , Animais , Anopheles/classificação , Colômbia , Citocromos b/genética , DNA/análise , DNA/genética , Genes de Insetos , Guatemala , Proteínas de Insetos/genética , Conformação de Ácido Nucleico , Panamá , Filogenia , Polimorfismo Genético , RNA de Transferência de Serina/genética , Especificidade da Espécie
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