Bacterial Glycogen as a Durable Energy Reserve Contributing to Persistence: An Updated Bibliography and Mathematical Model

Wang, L; Q, Liu; Tan, Xiaojie; Yang, Ting; Tang, Daoquan; Wang, W; Mj, Wise

doi:10.1101/536110

Cited by 4 publications

(1 citation statement)

References 70 publications

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“…Bacteria have a passive energy saving strategy to adapt to cold environmental conditions such as nutrient deprivation, by using a slow glycogen degradation. Glycogen has the hypothesis of durability energy reserves, which have been reported as a Durable Energy Storage Mechanism (DESM) to account for the long-term survival of some bacteria in cold environments [44]. Metabolism of maltodextrin has been linked with osmoregulation and sensitivity of bacterial endogenous induction to hyperosmolarity, which is related to glycogen metabolism.…”

Section: _235103mentioning

confidence: 99%

Complete genome sequence of Arthrobacter sp. PAMC25564 and comparative genome analysis for elucidating the role of CAZymes in cold adaptation

Han

Kim

Jang

et al. 2020

Preprint

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Background: The Arthrobacter group is a known isolate from cold areas, the species of which are highly likely to play diverse roles in low temperatures. However, their role and survival mechanisms in cold regions such as Antarctica are not yet fully understood. In this study, we compared the genomes of sixteen strains within the Arthrobacter group, including strain PAMC25564, to identify genomic features that adapt and survive life in the cold environment.Results: The genome of Arthrobacter sp. PAMC25564 comprised 4,170,970 bp with 66.74 % GC content, a predicted genomic island, and 3,829 genes. This study provides an insight into the redundancy of CAZymes for potential cold adaptation and suggests that the isolate has glycogen, trehalose, and maltodextrin pathways associated to CAZyme genes. This strain can utilize polysaccharide or carbohydrate degradation as a source of energy. Moreover, this study provides a foundation on which to understand how the Arthrobacter strain produces energy in an extreme environment, and the genetic pattern analysis of CAZymes in cold-adapted bacteria can help to determine how bacteria adapt and survive in such environments.Conclusions: We characterized the Arthrobacter sp. PAMC25564 complete genome and comparative analysis, provided an insight into the redundancy of CAZymes for potential cold adaptation. This provide a foundation to understand how Arthrobacter strain produces energy in an extreme environment, there are reports on the use of CAZymes in cold environments. Therefore, we suppose that this process has allowed Arthrobacter species to establish a symbiotic relationship with other bacteria in cold environments or live independently thanks to their capacity for adapting to environmental changes.

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Section: _235103mentioning

confidence: 99%

Complete genome sequence of Arthrobacter sp. PAMC25564 and comparative genome analysis for elucidating the role of CAZymes in cold adaptation

Han

Kim

Jang

et al. 2020

Preprint

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Complete genome of Nakamurella sp. PAMC28650: genomic insights into its environmental adaptation and biotechnological potential

Paudel

Ghimire

Han

et al. 2022

Funct Integr Genomics

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The mechanisms underlying the survival of bacteria in low temperature and high radiation are not yet fully understood. Nakamurella sp. PAMC28650 was isolated from a glacier of Rwenzori Mountain, Uganda, which species belonged to Nakamurella genus based on 16S rRNA phylogeny, ANI (average nucleotide identity), and BLAST Ring Image Generator (BRIG) analysis among Frankineae suborder. We conducted the whole genome sequencing and comparative genomics of Nakamurella sp. PAMC28650, to understand the genomic features pertaining to survival in cold environment, along with high UV (ultraviolet) radiation. This study highlights the role of polysaccharide in cold adaptation, mining of the UV protection-related secondary metabolites and other related to cold adaptation mechanism through different bioinformatics tools, and providing a brief overview of the genes present in DNA repair systems. Nakamurella sp. PAMC28650 contained glycogen and cellulose metabolism pathways, mycosporine-like amino acids and isorenieratene-synthesizing gene cluster, and a number of DNA repair systems. Also, the genome analysis showed osmoregulation-related genes and cold shock proteins. We infer these genomic features are linked to bacterial survival in cold and UV radiation.

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Complete genome sequence of Arthrobacter sp. PAMC25564 and its comparative genome analysis for elucidating the role of CAZymes in cold adaptation

et al. 2021

View full text Add to dashboard Cite

Background The Arthrobacter group is a known set of bacteria from cold regions, the species of which are highly likely to play diverse roles at low temperatures. However, their survival mechanisms in cold regions such as Antarctica are not yet fully understood. In this study, we compared the genomes of 16 strains within the Arthrobacter group, including strain PAMC25564, to identify genomic features that help it to survive in the cold environment. Results Using 16 S rRNA sequence analysis, we found and identified a species of Arthrobacter isolated from cryoconite. We designated it as strain PAMC25564 and elucidated its complete genome sequence. The genome of PAMC25564 is composed of a circular chromosome of 4,170,970 bp with a GC content of 66.74 % and is predicted to include 3,829 genes of which 3,613 are protein coding, 147 are pseudogenes, 15 are rRNA coding, and 51 are tRNA coding. In addition, we provide insight into the redundancy of the genes using comparative genomics and suggest that PAMC25564 has glycogen and trehalose metabolism pathways (biosynthesis and degradation) associated with carbohydrate active enzyme (CAZymes). We also explain how the PAMC26654 produces energy in an extreme environment, wherein it utilizes polysaccharide or carbohydrate degradation as a source of energy. The genetic pattern analysis of CAZymes in cold-adapted bacteria can help to determine how they adapt and survive in such environments. Conclusions We have characterized the complete Arthrobacter sp. PAMC25564 genome and used comparative analysis to provide insight into the redundancy of its CAZymes for potential cold adaptation. This provides a foundation to understanding how the Arthrobacter strain produces energy in an extreme environment, which is by way of CAZymes, consistent with reports on the use of these specialized enzymes in cold environments. Knowledge of glycogen metabolism and cold adaptation mechanisms in Arthrobacter species may promote in-depth research and subsequent application in low-temperature biotechnology.

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Bacterial Glycogen as a Durable Energy Reserve Contributing to Persistence: An Updated Bibliography and Mathematical Model

Cited by 4 publications

References 70 publications

Complete genome sequence of Arthrobacter sp. PAMC25564 and comparative genome analysis for elucidating the role of CAZymes in cold adaptation

Complete genome sequence of Arthrobacter sp. PAMC25564 and comparative genome analysis for elucidating the role of CAZymes in cold adaptation

Complete genome of Nakamurella sp. PAMC28650: genomic insights into its environmental adaptation and biotechnological potential

Complete genome sequence of Arthrobacter sp. PAMC25564 and its comparative genome analysis for elucidating the role of CAZymes in cold adaptation

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