A possible contribution of mRNA secondary structure to translation initiation efficiency in<i>Lactococcus lactis</i>

Guchte, Maarten van de; Lende, Ted van der; Venema, Gerard

doi:10.1111/j.1574-6968.1991.tb04746.x

Cited by 10 publications

(3 citation statements)

References 26 publications

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“…Van de Guchte et al . () showed through of in silico analysis that the mRNA secondary structure might contribute to improve the initial efficiency of translation. The characterization of the L. lactis translatome allowed determinate the proportion of mRNA involved in translation, as well as its ribosome occupancy and density (Picard et al ., ).…”

Section: Resultsmentioning

confidence: 99%

Comparative proteomic analysis of four biotechnological strains Lactococcus lactis through label‐free quantitative proteomics

Silva¹,

Sousa²,

Oliveira

et al. 2018

Microbial Biotechnology

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Summary Lactococcus lactis is a bacteria with high biotechnological potential, where is frequently used in the amino acid production and production of fermented dairy products, as well as drug delivery systems and mucosal vaccine vector. The knowledge of a functional core proteome is important extremely for both fundamental understanding of cell functions and for synthetic biology applications. In this study, we characterized the L. lacits proteome from proteomic analysis of four biotechnological strains L. lactis : L. lactis subsp. lactis NCDO 2118, L. lactis subsp. lactis IL 1403, L. lactis subsp. cremoris NZ 9000 and L. lactis subsp. cremoris MG 1363. Our label‐free quantitative proteomic analysis of the whole bacterial lysates from each strains resulted in the characterization of the L. lactis core proteome that was composed by 586 proteins, which might contribute to resistance of this bacterium to different stress conditions as well as involved in the probiotic characteristic of L. lactis . Kegg enrichment analysis shows that ribosome, metabolic pathways, pyruvate metabolism and microbial metabolism in diverse environments were the most enriched. According to our quantitative proteomic analysis, proteins related to translation process were the more abundant in the core proteome, which represent an important step in the synthetic biology. In addition, we identified a subset of conserved proteins that are exclusive of the L. lactis subsp. cremoris or L. lactis subsp. lactis , which some are related to metabolic pathway exclusive. Regarding specific proteome of NCDO 2118, we detected ‘strain‐specific proteins’. Finally, proteogenomics analysis allows the identification of proteins, which were not previously annotated in IL 1403 and MG 1363. The results obtained in this study allowed to increase our knowledge about the biology of L. lactis , which contributes to the implementation of strategies that make it possible to increase the biotechnological potential of this bacterium.

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Section: Resultsmentioning

confidence: 99%

Comparative proteomic analysis of four biotechnological strains Lactococcus lactis through label‐free quantitative proteomics

Silva¹,

Sousa²,

Oliveira

et al. 2018

Microbial Biotechnology

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“…For many RNA molecules, the right secondary structure is a prerequisite for their function. This is well known for secondary structure elements of messenger RNAs, and for the genomes of RNA viruses [38–46]. It means two things.…”

Section: A Different Perspective On Neutralitymentioning

confidence: 99%

Robustness, evolvability, and neutrality

2005

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Biological systems, from macromolecules to whole organisms, are robust if they continue to function, survive, or reproduce when faced with mutations, environmental change, and internal noise. I focus here on biological systems that are robust to mutations and ask whether such systems are more or less evolvable, in the sense that they can acquire novel properties. The more robust a system is, the more mutations in it are neutral, that is, without phenotypic effect. I argue here that such neutral change -and thus robustness -can be a key to future evolutionary innovation, if one accepts that neutrality is not an essential feature of a mutation. That is, a once neutral mutation may cause phenotypic effects in a changed environment or genetic background. I argue that most, if not all, neutral mutations are of this sort, and that the essentialist notion of neutrality should be abandoned. This perspective reconciles two opposing views on the forces dominating organismal evolution, natural selection and random drift: neutral mutations occur and are especially abundant in robust systems, but they do not remain neutral indefinitely, and eventually become visible to natural selection, where some of them lead to evolutionary innovations.

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“…So RBS and start codon should play major role in translation efficiency. In addition, negative effect on translation initiation of secondary structure that sequestered RBS was reported in L. lactis [53].…”

Section: Sequence Determinantsmentioning

confidence: 99%

Examination of post-transcriptional regulations in prokaryotes by integrative biology

Picard

Dressaire²,

Girbal³

et al. 2009

Comptes Rendus. Biologies

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In cells, mRNA and protein levels are fine-regulated to adjust continuously to cellular needs. Recently, several large-scale studies in prokaryotes showed weak correlations between mRNA and protein abundances highlighting the significant importance of posttranscriptional regulations. Post-transcriptional regulations involve dynamic adaptation of mRNA and protein turnover and also modulation of the efficiency of mRNA translation into protein. mRNA and protein stabilities are function of both sequence determinants and decay processes. Translation efficiency is mainly dependent on ribosome synthesis and activity. Conciliation through an integrative biology approach of large-scale data obtained for each level of regulation is now required to better understand global cell response to different environmental growth conditions. In this review, we report mechanisms involved in mRNA and protein stability and translation regulation in prokaryotes, and their dependence on growth phase and environmental growth conditions is particularly highlighted. To cite this article: F.

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A possible contribution of mRNA secondary structure to translation initiation efficiency inLactococcus lactis

Cited by 10 publications

References 26 publications

Comparative proteomic analysis of four biotechnological strains Lactococcus lactis through label‐free quantitative proteomics

Comparative proteomic analysis of four biotechnological strains Lactococcus lactis through label‐free quantitative proteomics

Robustness, evolvability, and neutrality

Examination of post-transcriptional regulations in prokaryotes by integrative biology

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