Recent advances in understanding extremophiles

Coker, James

doi:10.12688/f1000research.20765.1

Cited by 53 publications

(23 citation statements)

References 96 publications

(105 reference statements)

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“…Tolerance to abiotic stress conditions has served as a basis for the classification of micro-organisms. The capacity to grow at a given pH results in differentiating acidophiles, neutrophiles and alkaliphiles, while those organisms able to thrive when alkali cations, such as sodium, are present in high quantities are known as halo-tolerants (recently reviewed in [55]). Of course, tolerance relies on genomes coding for subsets of proteins enabling adaptation to those abiotic stress conditions and also the induction of regulatory mechanisms that coordinate the scheduled expression of those resistance genes [56].…”

Section: Discussionmentioning

confidence: 99%

Defining the transcriptional responses of Aspergillus nidulans to cation/alkaline pH stress and the role of the transcription factor SltA

et al. 2020

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Fungi have developed the ability to overcome extreme growth conditions and thrive in hostile environments. The model fungus Aspergillus nidulans tolerates, for example, ambient alkalinity up to pH 10 or molar concentrations of multiple cations. The ability to grow under alkaline pH or saline stress depends on the effective function of at least three regulatory pathways mediated by the zinc-finger transcription factor PacC, which mediates the ambient pH regulatory pathway, the calcineurin-dependent CrzA and the cation homeostasis responsive factor SltA. Using RNA sequencing, we determined the effect of external pH alkalinization or sodium stress on gene expression. The data show that each condition triggers transcriptional responses with a low degree of overlap. By sequencing the transcriptomes of the null mutant, the role of SltA in the above-mentioned homeostasis mechanisms was also studied. The results show that the transcriptional role of SltA is wider than initially expected and implies, for example, the positive control of the PacC-dependent ambient pH regulatory pathway. Overall, our data strongly suggest that the stress response pathways in fungi include some common but mostly exclusive constituents, and that there is a hierarchical relationship among the main regulators of stress response, with SltA controlling pacC expression, at least in A. nidulans.

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Section: Discussionmentioning

confidence: 99%

Defining the transcriptional responses of Aspergillus nidulans to cation/alkaline pH stress and the role of the transcription factor SltA

et al. 2020

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show abstract

“…Tolerance to abiotic stress conditions has served as a basis for classification of microorganisms. The capacity to grow at a given pH results in differentiating acidophiles, neutrophiles and alkaliphiles, while those organisms able to thrive when alkali cations, such as sodium, are present in high quantities are known as halo-tolerants (recently reviewed in [51]). Of course, tolerance relies on genomes coding for subsets of proteins enabling adaptation to those abiotic stress conditions and also the induction of regulatory mechanisms that coordinate the scheduled expression of those resistance genes [52].…”

Section: Discussionmentioning

confidence: 99%

Defining the transcriptional responses ofAspergillus nidulansto cation/alkaline pH stress and the role of the transcription factor SltA

Picazo

Etxebeste

Requena

et al. 2020

Preprint

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“…The ability of microbes to adapt to these harsh conditions is a key issue with microbiological, ecological, evolutionary, industrial, and biotechnical implications ( Canganella and Wiegel 2011 ; Dumorne et al. 2017 ; Coker 2019 ; Sayed et al. 2020 ).…”

Section: Introductionmentioning

confidence: 99%

The Molecular Determinants of Thermoadaptation:Methanococcalesas a Case Study

Lecocq

Groussin

Gouy

et al. 2020

Molecular Biology and Evolution

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Previous reports have shown that environmental temperature impacts proteome evolution in Bacteria and Archaea. However, it is unknown whether thermoadaptation mainly occurs via the sequential accumulation of substitutions, massive horizontal gene transfers, or both. Measuring the real contribution of amino acid substitution to thermoadaptation is challenging, because of confounding environmental and genetic factors (e.g. pH, salinity, genomic G+C content) that also affect proteome evolution. Here, using Methanococcales, a major archaeal lineage, as a study model, we show that optimal growth temperature is the major factor affecting variations in amino acid frequencies of proteomes. By combining phylogenomic and ancestral sequence reconstruction approaches, we disclose a sequential substitutional scheme in which lysine plays a central role by fine tuning the pool of arginine, serine, threonine, glutamine, and asparagine, whose frequencies are strongly correlated with optimal growth temperature. Finally, we show that colonization to new thermal niches is not associated with high amounts of horizontal gene transfers. Altogether, while the acquisition of a few key proteins through horizontal gene transfer may have favoured thermoadaptation in Methanococcales, our findings support sequential amino acid substitutions as the main factor driving thermoadaptation.

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Recent advances in understanding extremophiles

Cited by 53 publications

References 96 publications

Defining the transcriptional responses of Aspergillus nidulans to cation/alkaline pH stress and the role of the transcription factor SltA

Defining the transcriptional responses of Aspergillus nidulans to cation/alkaline pH stress and the role of the transcription factor SltA

Defining the transcriptional responses ofAspergillus nidulansto cation/alkaline pH stress and the role of the transcription factor SltA

The Molecular Determinants of Thermoadaptation:Methanococcalesas a Case Study

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