Comparative Transcriptomics Reveals Distinct Adaptation Mechanisms for Degradation of n-Alkane and Branched Alkane in the Salt-Tolerant Bacterium Dietzia sp. CN-3.

IF 4.2 2区 生物学 Q2 MICROBIOLOGY
Weiwei Chen, Jiawei Sun, Xin Zhang, Jiawen Zhang, Yuan Wang, Shiwei Cheng
{"title":"Comparative Transcriptomics Reveals Distinct Adaptation Mechanisms for Degradation of <i>n</i>-Alkane and Branched Alkane in the Salt-Tolerant Bacterium <i>Dietzia</i> sp. CN-3.","authors":"Weiwei Chen, Jiawei Sun, Xin Zhang, Jiawen Zhang, Yuan Wang, Shiwei Cheng","doi":"10.3390/microorganisms13092206","DOIUrl":null,"url":null,"abstract":"<p><p>Although hydrocarbon-degrading bacteria utilize a wide range of alkanes, the global metabolic features and regulatory mechanisms governing their growth on alkanes with different chain lengths remain incompletely elucidated. In this study, we analyzed the comparative transcriptomics of a salt-tolerant bacterium, <i>Dietzia</i> sp. CN-3, to investigate molecular adaptations and metabolic processes when grown on <i>n</i>-hexadecane (C<sub>16</sub>), branched alkane (pristane), and glucose. A total of 1766 differentially expressed genes (DEGs) were identified in the C<sub>16</sub> group compared to the glucose control, with 1024 (58.0%) being upregulated and 742 (42.0%) being downregulated. Notably, the pristane group exhibited 1542 DEGs, of which 488 (31.6%) were upregulated and 1054 (68.4%) were downregulated. Our results demonstrate that C<sub>16</sub> and pristane induced common genes of alkane hydroxylation in the core alkane degradation pathway, while eliciting distinct transcriptional patterns of genes involved in lipid metabolism, energy metabolism, metal ion transportation, cell surface composition biosynthesis, and transcription regulation. The findings reveal that CN-3 employs diverse metabolic strategies to adapt to alkanes with different chain lengths, displaying considerable metabolic plasticity. This study significantly enhances our understanding of molecular adaptation of bacteria to hydrocarbon-containing environments and may provide valuable information for further studies of petroleum hydrocarbon bioremediation.</p>","PeriodicalId":18667,"journal":{"name":"Microorganisms","volume":"13 9","pages":""},"PeriodicalIF":4.2000,"publicationDate":"2025-09-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12472514/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Microorganisms","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.3390/microorganisms13092206","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"MICROBIOLOGY","Score":null,"Total":0}
引用次数: 0

Abstract

Although hydrocarbon-degrading bacteria utilize a wide range of alkanes, the global metabolic features and regulatory mechanisms governing their growth on alkanes with different chain lengths remain incompletely elucidated. In this study, we analyzed the comparative transcriptomics of a salt-tolerant bacterium, Dietzia sp. CN-3, to investigate molecular adaptations and metabolic processes when grown on n-hexadecane (C16), branched alkane (pristane), and glucose. A total of 1766 differentially expressed genes (DEGs) were identified in the C16 group compared to the glucose control, with 1024 (58.0%) being upregulated and 742 (42.0%) being downregulated. Notably, the pristane group exhibited 1542 DEGs, of which 488 (31.6%) were upregulated and 1054 (68.4%) were downregulated. Our results demonstrate that C16 and pristane induced common genes of alkane hydroxylation in the core alkane degradation pathway, while eliciting distinct transcriptional patterns of genes involved in lipid metabolism, energy metabolism, metal ion transportation, cell surface composition biosynthesis, and transcription regulation. The findings reveal that CN-3 employs diverse metabolic strategies to adapt to alkanes with different chain lengths, displaying considerable metabolic plasticity. This study significantly enhances our understanding of molecular adaptation of bacteria to hydrocarbon-containing environments and may provide valuable information for further studies of petroleum hydrocarbon bioremediation.

比较转录组学揭示耐盐细菌Dietzia sp. CN-3降解正构烷烃和支构烷烃的不同适应机制。
尽管烃类降解细菌利用的烷烃种类繁多,但它们在不同链长的烷烃上生长的整体代谢特征和调控机制尚不完全清楚。在这项研究中,我们分析了耐盐细菌Dietzia sp. CN-3的比较转录组学,以研究在正十六烷(C16)、支链烷烃(pristane)和葡萄糖上生长时的分子适应和代谢过程。与葡萄糖对照组相比,C16组共鉴定出1766个差异表达基因(deg),其中1024个(58.0%)表达上调,742个(42.0%)表达下调。值得注意的是,pristane组有1542个deg,其中上调488个(31.6%),下调1054个(68.4%)。我们的研究结果表明,C16和pristane诱导了核心烷烃降解途径中常见的烷烃羟基化基因,同时引发了涉及脂质代谢、能量代谢、金属离子运输、细胞表面成分生物合成和转录调控的不同基因的转录模式。研究结果表明,CN-3采用不同的代谢策略来适应不同链长的烷烃,表现出相当大的代谢可塑性。本研究为我们进一步了解细菌对含烃环境的分子适应提供了重要的理论依据,为进一步研究石油烃生物修复技术提供了有价值的信息。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
Microorganisms
Microorganisms Medicine-Microbiology (medical)
CiteScore
7.40
自引率
6.70%
发文量
2168
审稿时长
20.03 days
期刊介绍: Microorganisms (ISSN 2076-2607) is an international, peer-reviewed open access journal which provides an advanced forum for studies related to prokaryotic and eukaryotic microorganisms, viruses and prions. It publishes reviews, research papers and communications. Our aim is to encourage scientists to publish their experimental and theoretical results in as much detail as possible. There is no restriction on the length of the papers. The full experimental details must be provided so that the results can be reproduced. Electronic files and software regarding the full details of the calculation or experimental procedure, if unable to be published in a normal way, can be deposited as supplementary electronic material.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术官方微信