Regulation of gene expression at low temperature: role of cold-inducible promoters

Singh, Ashish Kumar; Sad, Kirti; Singh, Shailendra Kumar; Shivaji, Sisinthy

doi:10.1099/mic.0.077594-0

Cited by 18 publications

(14 citation statements)

References 39 publications

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“…Microbial low-temperature adaptation requires a vast array of metabolic and structural adjustments at nearly all organization levels of the cell (Table 1 ). Considerable progress in our knowledge of molecular cold adaptation has been achieved by genomic, metatranscriptomic, and proteomic studies of psychrophiles (Barauna et al 2017 ; Koh et al 2017 ; Raymond-Bouchard et al 2018a ; Singh et al 2014 ). Generally up-regulated functions for growth at low temperatures target the cell barrier (cell envelope biogenesis, membrane biogenesis, membrane-transport proteins, maintenance of membrane fluidity) metabolism (specific metabolic pathways, nutrient transport, energy metabolism), cell protection (production and uptake of cryoprotective compounds, antioxidant activities), protein synthesis, and folding (transcription, translation, RNA helicases, chaperones; cold shock, cold acclimation and heat shock proteins; adaptation of protein structures to ensure increased flexibility at low temperatures).…”

Section: Psychrophilic Lifestyle: Molecular Cold Adaptationmentioning

confidence: 99%

Microbial ecology of the cryosphere (glacial and permafrost habitats): current knowledge

Margesin

Collins

2019

Appl Microbiol Biotechnol

123

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Microorganisms in cold ecosystems play a key ecological role in their natural habitats. Since these ecosystems are especially sensitive to climate changes, as indicated by the worldwide retreat of glaciers and ice sheets as well as permafrost thawing, an understanding of the role and potential of microbial life in these habitats has become crucial. Emerging technologies have added significantly to our knowledge of abundance, functional activity, and lifestyles of microbial communities in cold environments. The current knowledge of microbial ecology in glacial habitats and permafrost, the most studied habitats of the cryosphere, is reported in this review.

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Section: Psychrophilic Lifestyle: Molecular Cold Adaptationmentioning

confidence: 99%

Microbial ecology of the cryosphere (glacial and permafrost habitats): current knowledge

Margesin

Collins

2019

Appl Microbiol Biotechnol

123

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“…The ability of cold-tolerant microorganisms to grow and multiply at low temperatures is subjected to the adaptive changes in cellular proteins and lipids. The role of bacterial and archaeal membranes in adapting to environmental extremes has been reviewed in recent years [42,43]. Enzymes produced by the cold-adapted microorganisms are known to have higher activities at lower temperatures in comparison with their mesophilic and thermophilic counterparts [24].…”

Section: Bioprospection Of Psychrotolerant Bacteriamentioning

confidence: 99%

16S rRNA gene sequencing and MALDI-TOF mass spectrometry based comparative assessment and bioprospection of psychrotolerant bacteria isolated from high altitudes under mountain ecosystem

et al. 2019

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The Himalayan Mountains are placed among the globally recognized biodiversity hot spots. While the Indian Himalayan Region (IHR) has been subjected to extensive studies on plant and animal biodiversity, microbial diversity is now being studied for its bioprospection. The present paper deals with the evaluation of bacterial diversity in high-altitude soil samples from IHR following polyphasic approach including comparison between the MALDI-TOF mass spectrometry and 16S rRNA gene sequencing for species-level identification. Initially, a culture collection of large number of bacterial isolates was established in the laboratory. Performing morphological and biochemical screenings, sixty-one representative isolates were selected for mass spectrometry and gene sequencing. Both the methods emerged with bacterial identification showing maximum number of Bacillus followed by Pseudomonas species. The other frequently isolated strains belonged to the genera Alcaligenes, Carnobacterium, Lysinibacillus, Microbacterium, Paenarthrobacter, Rhodococcus, Serratia and Stenotrophomonas. Although the MALDI-TOF technique appeared to be advantageous as less time-consuming in comparison with 16S rRNA-based method, the discrepancies at species level indicated the limited database of MALDI Biotyper and species complexity in the genera. The remarkable characteristics of the bacterial isolates were their tolerance to wide range of pH and temperature. Their potential to produce industrially valuable enzymes indicated their importance in bioprospection. Accessioning of these bacterial isolates in microbial culture collections is a cautious effort for their availability to conduct advanced research on these cold-adapted bacteria in future.

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“…Singh et al. have compiled in their review known cold‐inducible promoters and their control elements in bacteria . The UP element was found in cold‐inducible promoters of Escherichia coli , a transcriptional activator binding site that regulates the transcription activity of cold‐inducible promoters at low temperature.…”

Section: Introductionmentioning

confidence: 99%

Bioinformatic Identification of Chinese Hamster Ovary (CHO) Cold‐Shock Genes and Biological Evidence of their Cold‐Inducible Promoters

Nguyen

Novak

Baumann

et al. 2019

Biotechnology Journal

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Lower cultivation temperature dramatically affects cell growth and cellular productivity in Chinese hamster ovary cells (CHO) and is often used in industrial applications with the aim to enhance productivity. Cold‐inducible proteins whose activity is induced at lower temperature play an important role in understanding the mechanisms of cold‐induced changes in gene expression. One of these mechanisms is increased transcription of specific target genes controlled by sequence elements in cold‐inducible promoters. This study provides a list of cold‐inducible genes and endogenous cold‐inducible promoters of CHO cells. Transcriptome data before and after a temperature shift from 37 to 33 °C are analyzed to identify 94 cold‐inducible genes, which are highly expressed and have a high fold change in expression after the temperature shift. Cold‐inducible promoters are identified from the top ten cold‐inducible genes, showing up to 11‐fold increased luciferase expression at lowered temperature in transient transfections. Additionally, several common transcription factor binding sites are identified in the top cold‐inducible promoter sequences and expression of their corresponding transcription factors over temperature‐shift cultivation is evaluated. These may be responsible for enhanced promoter activity under lower temperature and can be used as engineering targets.

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Regulation of gene expression at low temperature: role of cold-inducible promoters

Cited by 18 publications

References 39 publications

Microbial ecology of the cryosphere (glacial and permafrost habitats): current knowledge

Microbial ecology of the cryosphere (glacial and permafrost habitats): current knowledge

16S rRNA gene sequencing and MALDI-TOF mass spectrometry based comparative assessment and bioprospection of psychrotolerant bacteria isolated from high altitudes under mountain ecosystem

Bioinformatic Identification of Chinese Hamster Ovary (CHO) Cold‐Shock Genes and Biological Evidence of their Cold‐Inducible Promoters

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