Cold adaptation and response genes of Antarctic Cryobacterium sp. SO2 from the Fildes Peninsula, King George Island

IF 1.5 4区环境科学与生态学 Q3 BIODIVERSITY CONSERVATION Polar Biology Pub Date : 2023-12-28 DOI:10.1007/s00300-023-03213-w

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Abstract

Cryobacterium spp. are Gram-positive bacteria that inhabit diverse geographical locations, particularly extremely cold environments like the Polar Regions. However, strategies that enable them to survive in harsh Antarctic environments are not fully understood. In this study, we conducted a comparative genomic analysis of the Antarctic Cryobacterium sp. SO2 as well as other members of the Cryobacterium genus. Phylogenetic analysis revealed that strain SO2 formed a distinct cluster with the validly described species: C. adonitolivorans, C. actose, C. soli, C. arcticum, and C. zongtaii. Comparative analysis based on ANI and AAI indicated that strain SO2 is a novel species. Relative Synonymous Codon Usage (RSCU) of Cryobacterium species exhibits a bias towards codon ending with G/C. The genomes of all strains harbored numerous genes associated with environmental-associated stress responses, including oxidative stress response, general stress response, heat-stress response, cold-stress response, cell envelope alteration, and osmotic stress response. Strain SO2 and related strains possess genes involved in breaking down and utilization of both plant and animal carbohydrate-containing materials. KEGG annotation indicated that strain SO2 and related species shared almost the same genes for the metabolism of trehalose (TreS, partial TPS/TPP, and TreY-TreZ pathway) and glycogen (classical and non-classical pathway). The results from this work helped us to better understand the genomic characteristics of Cryobacterium spp. in terms of genomic diversity and adaptation strategies, which may have significant implications for biotechnology and climate change research.

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乔治王岛菲尔德斯半岛南极冰冻杆菌 SO2 的冷适应和响应基因

摘要低温杆菌属是一种革兰氏阳性细菌，栖息在不同的地理位置，尤其是极地等极寒环境中。然而，人们对它们在严酷的南极环境中生存的策略并不完全了解。在本研究中，我们对南极冰冻杆菌 SO2 以及冰冻杆菌属的其他成员进行了基因组比较分析。系统发育分析表明，SO2 菌株与有效描述的物种形成了一个独特的群集：C. adonitolivorans、C. actose、C. soli、C. arcticum 和 C. zongtaii。基于 ANI 和 AAI 的比较分析表明，菌株 SO2 是一个新物种。冷冻杆菌物种的相对同义密码子用法（RSCU）偏向于以 G/C 结尾的密码子。所有菌株的基因组都含有大量与环境相关的应激反应有关的基因，包括氧化应激反应、一般应激反应、热应激反应、冷应激反应、细胞膜改变和渗透应激反应。SO2 菌株和相关菌株拥有参与分解和利用植物和动物含碳水化合物物质的基因。KEGG 注释表明，SO2 菌株和相关菌株在三卤糖代谢（TreS、部分 TPS/TPP 和 TreY-TreZ 途径）和糖原代谢（经典和非经典途径）方面拥有几乎相同的基因。这项工作的结果有助于我们更好地了解冷冻杆菌属在基因组多样性和适应策略方面的基因组特征，这可能对生物技术和气候变化研究具有重要意义。

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来源期刊

Polar Biology 生物-生态学

CiteScore

3.60

自引率

11.80%

发文量

116

审稿时长

3-8 weeks

期刊介绍： Polar Biology publishes Original Papers, Reviews, and Short Notes and is the focal point for biologists working in polar regions. It is also of interest to scientists working in biology in general, ecology and physiology, as well as in oceanography and climatology related to polar life. Polar Biology presents results of studies in plants, animals, and micro-organisms of marine, limnic and terrestrial habitats in polar and subpolar regions of both hemispheres. Taxonomy/ Biogeography Life History Spatio-temporal Patterns in Abundance and Diversity Ecological Interactions Trophic Ecology Ecophysiology/ Biochemistry of Adaptation Biogeochemical Pathways and Cycles Ecological Models Human Impact/ Climate Change/ Conservation