Extremophiles最新文献

Microbial adaptations to acidic, nutrient- and metal-rich lakes in Aotearoa New Zealand. 微生物适应酸性，营养和金属丰富的湖泊在新西兰奥特罗阿。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-06-28 DOI: 10.1007/s00792-025-01393-3

Laura Biessy, Jack Sissons, Joseph Kanyi Kihika, Susanna A Wood, John K Pearman

{"title":"Microbial adaptations to acidic, nutrient- and metal-rich lakes in Aotearoa New Zealand.","authors":"Laura Biessy, Jack Sissons, Joseph Kanyi Kihika, Susanna A Wood, John K Pearman","doi":"10.1007/s00792-025-01393-3","DOIUrl":"https://doi.org/10.1007/s00792-025-01393-3","url":null,"abstract":"Four lakes in the same region of Aotearoa New Zealand were investigated to characterize sediment microbial communities and functions under contrasting environmental conditions. Two lakes, an acidic lake (Rototai) and a lake with elevated metals and nutrients (Killarney) were impacted by extreme stressors, while the lowland mesotrophic lake (Kaihoka East) and an alpine lake (Peel) were used as reference lakes. Using metabarcoding and metagenomics analysis, we profiled community composition, functional pathways, and resistance mechanisms in the lake sediments. Rototai contained high abundances of genes involved in sulfur cycling (assimilatory and dissimilatory sulfate reduction, sulfur oxidation) and acid tolerance (kdp potassium-transport system, ClcA antiporters). In contrast, Killarney had elevated abundances of genes involved in methanogenesis, however despite high metal concentrations, no enrichment of metal-resistance genes was detected. Kaihoka East contained the highest prokaryotic diversity and an elevated abundance of genes involved in nitrification. Although community taxonomic differences were modest across lakes, functional analyses revealed distinct metabolic adaptations. These findings highlight the utility of using metagenomic approaches to identify biogeochemical processes and stress-response strategies in lakes. Improved understanding of microbial functional diversity in surface sediments has implications for lake management, particularly in systems impacted by acidification, high nutrient loading, and metal contamination.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 2","pages":"24"},"PeriodicalIF":2.6,"publicationDate":"2025-06-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144527110","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A colorful new reporter system to evaluate gene expression in the archaeon Haloferax volcanii. 一种评估火山盐古菌基因表达的彩色新报告系统。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-06-27 DOI: 10.1007/s00792-025-01391-5

Sofía D Frecha, María I Giménez, Roberto A Paggi, Rosana E De Castro, Micaela Cerletti

{"title":"A colorful new reporter system to evaluate gene expression in the archaeon Haloferax volcanii.","authors":"Sofía D Frecha, María I Giménez, Roberto A Paggi, Rosana E De Castro, Micaela Cerletti","doi":"10.1007/s00792-025-01391-5","DOIUrl":"https://doi.org/10.1007/s00792-025-01391-5","url":null,"abstract":"The identification and characterization of promoters and regulatory elements are commonly assessed using reporter genes. However, very few of these are available for haloarchaea. In this study, we describe the construction and validation of a reporter system for the haloarchaeon Haloferax volcanii based on a modified and stable version of the carotenoid biosynthesis enzyme phytoene synthase (PSY). This tool enables the analysis of a target gene expression through direct visualization of cell pigmentation and/or the extraction and quantification of carotenoid content. The modified crtB gene encoding PSY was cloned into the pTA963 vector under two regulatable promoters previously characterized in H. volcanii: PtnaA and Pxyl, inducible with tryptophan and xylose, respectively. The construct was introduced into and expressed in a non-pigmented H. volcanii strain (ΔcrtB) under varying inducer concentrations. For both promoters, a clear increase in pigmentation was visually observed in cultures and cell pellets with increasing inducer levels. These observations were corroborated by carotenoid extraction and quantification, as well as by Western blot analysis of PSY protein levels. This work presents a robust, easy-to-use, and versatile reporter system for investigating gene expression in H. volcanii, expanding the toolkit for genetic studies in haloarchaea.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 2","pages":"23"},"PeriodicalIF":2.6,"publicationDate":"2025-06-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144505306","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Editorial. 社论。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-06-09 DOI: 10.1007/s00792-025-01388-0

Garo Antranikian

引用次数: 0

Prospecting the biotechnological potential of culturable halophilic bacteria isolated from Provadia salt deposit (Bulgaria) near the oldest salt production and urban complex in Europe. 探索从Provadia盐矿（保加利亚）分离的可培养的嗜盐细菌的生物技术潜力，该盐矿靠近欧洲最古老的盐田和城市综合体。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-04-16 DOI: 10.1007/s00792-025-01387-1

Kaloyan Berberov, Nikolina Atanasova, Gabriela Teodosiu-Beleuţă, Ivanka Boyadzieva

{"title":"Prospecting the biotechnological potential of culturable halophilic bacteria isolated from Provadia salt deposit (Bulgaria) near the oldest salt production and urban complex in Europe.","authors":"Kaloyan Berberov, Nikolina Atanasova, Gabriela Teodosiu-Beleuţă, Ivanka Boyadzieva","doi":"10.1007/s00792-025-01387-1","DOIUrl":"https://doi.org/10.1007/s00792-025-01387-1","url":null,"abstract":"Halophilic bacteria are recognized as a promising source of novel enzymes and biopolymers with various applications in biotechnology and the industry. In comparison with their mesophilic analogues, halophilic metabolites are stable under extreme conditions typically encountered in the industrial processes. In this study, the biotechnological potential of twenty strains of halophilic bacteria isolated from the Provadia salt deposit, Bulgaria was investigated for the first time. The strains were identified based on the sequencing of the 16S rRNA gene and were assigned to 13 different species falling in the Bacillota and Pseudomonadota phyla. The majority (90%) of them showed single or combined hydrolytic enzyme activity. Half of the strains (55%) were able to produce between three and eight extracellular hydrolytic enzymes-arabinase, cellulase, gelatinase, glucanase, L-glutaminase, pectinase, and xylanase. Ten strains were able to synthesise exopolysaccharides (EPS) in concentration between 32 and 227 μg/ml. The optimal EPS production kinetics (1.6 ± 0.15 g/l) by Virgibacillus halodenitrificans PSZ-34 was systematically investigated for the first time. Three strains also exhibited antimicrobial activity. The present study involved culture-dependant isolation of halophilic bacteria from the Provadia salt deposit and shed more light on their capability to synthesise hydrolytic enzymes and EPS with potential industrial exploitation.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 2","pages":"21"},"PeriodicalIF":2.6,"publicationDate":"2025-04-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143980677","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Screening and community succession and functional prediction of high-efficiency degradation microbial communities for rice straw at low-temperature. 水稻秸秆低温高效降解微生物群落筛选、群落演替及功能预测

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-04-11 DOI: 10.1007/s00792-025-01386-2

Qiqi Fan, Yu Zhang, Jie Lian, Dong Liang, Jiang Yu, Xiaofei Liu, Na Zhang

{"title":"Screening and community succession and functional prediction of high-efficiency degradation microbial communities for rice straw at low-temperature.","authors":"Qiqi Fan, Yu Zhang, Jie Lian, Dong Liang, Jiang Yu, Xiaofei Liu, Na Zhang","doi":"10.1007/s00792-025-01386-2","DOIUrl":"https://doi.org/10.1007/s00792-025-01386-2","url":null,"abstract":"Traditional straw return relies on microbial degradation, but cold winters delay it, risking crops. Therefore, a microbial community adapted to rice straw degradation in cold regions was constructed by restrictive consecutively sub-cultured under low-temperature limitations. The capabilities of the microbial community, such as adaptability, stability, and degradation power, were evaluated by analyzing straw degradation features, Characterization experiments and lignocellulose enzyme activities across multiple generations. 16S amplicon sequencing was used to monitor the changes in its structure over generations. Metagenomic sequencing uses CAZy and KEGG to classify gene functions. The results showed that the highest degradation efficiencies and enzyme activities were observed in the E and F generations, dominated by Proteobacteria, Bacteroidetes, and Fungi The stable microbial community was designated as LJ-7. Metagenomic analysis showed that functional genes of LJ-7 were mainly concentrated in glycoside hydrolase (GHs) and glycosyl transferase (GTs) related genes which contained many fiber and lignin-degrading enzyme genes. It is speculated that microbial enzymes degrade straw by breaking down its complex structure into monosaccharides or metabolizing quinone compounds for energy. This experiment successfully screened a microbial community capable of degrading rice straw at low temperatures, thus offering novel research insights and pathways for straw degradation in cold conditions.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 2","pages":"20"},"PeriodicalIF":2.6,"publicationDate":"2025-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144001829","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Energetic investigations of Acidianus ambivalens metabolism during anaerobic sulfur reduction and comparisons to aerobic sulfur oxidation. 厌氧硫还原过程中伏地酸浆菌新陈代谢的能量研究以及与有氧硫氧化过程的比较。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-04-04 DOI: 10.1007/s00792-025-01385-3

Chloé E Hart, Drew Gorman-Lewis

{"title":"Energetic investigations of Acidianus ambivalens metabolism during anaerobic sulfur reduction and comparisons to aerobic sulfur oxidation.","authors":"Chloé E Hart, Drew Gorman-Lewis","doi":"10.1007/s00792-025-01385-3","DOIUrl":"10.1007/s00792-025-01385-3","url":null,"abstract":"Acidianus ambivalens is a metabolically flexible facultative anaerobe that can oxidize and reduce elemental sulfur with O2 and H2, respectively. In this work, the growth energetics of Acidianus ambivalens were determined under anaerobic conditions at 76 °C with H2 oxidation by elemental sulfur serving as the energy-yielding catabolic reaction. The biomass yields (C-mol of biomass per mol of H2 consumed) ranged from approximately 0.004 to 0.01. Growth rates ranged from 0.003 to 0.012 h-1. Gibbs energies of incubation based on macrochemical equations of cell growth ranged from - 881 to - 3349 kJ/C-mol. Enthalpies of incubation determined from calorimetric measurements ranged from - 610 to - 4090 kJ/C-mol. The Gibbs energy consumed by anaerobic cultures was compared to sulfur-oxidizing cultures under aerobic and microaerobic conditions to determine the effects of environmental and substrate redox state on energetics. This comparison revealed that aerobic cultures were inefficient relative to microaerobic and anaerobic conditions. These results suggest that aerobic conditions induce a measurable oxidative stress on cultures. The similarities in growth efficiency and energy budgets under microaerobic and anaerobic conditions may allow Acidianus ambivalens to be competitive in natural environments either by oxidizing or reducing elemental sulfur.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 2","pages":"19"},"PeriodicalIF":2.6,"publicationDate":"2025-04-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143779574","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Adapting to salinity: structural dynamics of the DNA polymerase III beta subunit in Salinibacter ruber. 适应盐度：橡胶盐杆菌DNA聚合酶III β亚基的结构动力学。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-03-25 DOI: 10.1007/s00792-025-01384-4

Aveepsa Sengupta, Dhrubajyoti Das, Anisha Debnath, Yusuf Akhter, Ashutosh Kumar

引用次数: 0

From genes to nanotubes: exploring the UV-resistome in the Andean extremophile Exiguobacterium sp. S17. 从基因到纳米管：探索安第斯极端微生物Exiguobacterium sp. S17的紫外线抵抗组。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-02-18 DOI: 10.1007/s00792-025-01383-5

Fátima Silvina Galván, Daniel Gonzalo Alonso-Reyes, Virginia Helena Albarracín

{"title":"From genes to nanotubes: exploring the UV-resistome in the Andean extremophile Exiguobacterium sp. S17.","authors":"Fátima Silvina Galván, Daniel Gonzalo Alonso-Reyes, Virginia Helena Albarracín","doi":"10.1007/s00792-025-01383-5","DOIUrl":"10.1007/s00792-025-01383-5","url":null,"abstract":"Exiguobacterium sp. S17, a polyextremophile isolated from a High-Altitude Andean Lake, exhibits a multi-resistance profile against toxic arsenic concentrations, high UV radiation, and elevated salinity. Here, we characterize the mechanisms underlying the UV resistance of Exiguobacterium sp. S17 (UV-resistome) through comparative genomics within the Exiguobacterium genus and describe morphological and ultrastructural changes using Scanning (SEM) and Transmission (TEM) Electron Microscopy.UV-resistome in Exiguobacterium species ranges from 112 to 132 genes. While we anticipated Exiguobacterium sp. S17 to lead the non-HAAL UV-resistome, it ranked eleventh with 113 genes. This larger UV-resistome in Exiguobacterium spp. aligns with their known adaptation to extreme environments. With SEM/TEM analyses we observed the formation of nanotubes (NTs), a novel finding in Exiguobacterium spp., which increased with higher UV-B doses. These NTs, confirmed to be membranous structures through sensitivity studies and imaging, suggest a role in cellular communication and environmental sensing. Genomic evidence supports the presence of essential NT biogenesis genes in Exiguobacterium sp. S17, further elucidating its adaptive capabilities.Our study highlights the complex interplay of genetic and phenotypic adaptations enabling Exiguobacterium sp. S17 to thrive in extreme UV environments. The novel discovery of NTs under UV stress presents a new avenue for understanding bacterial survival strategies in harsh conditions.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"17"},"PeriodicalIF":2.6,"publicationDate":"2025-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143440434","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

DNA methylation confers epigenetic changes in cold-adapted microorganisms in response to cold stress. DNA甲基化赋予冷适应微生物对冷胁迫的表观遗传变化。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-02-13 DOI: 10.1007/s00792-025-01381-7

Xuying Bu, Xufeng Dou, Zhe Chen, Lan Liu, Yuxia Mei, Min Ren

{"title":"DNA methylation confers epigenetic changes in cold-adapted microorganisms in response to cold stress.","authors":"Xuying Bu, Xufeng Dou, Zhe Chen, Lan Liu, Yuxia Mei, Min Ren","doi":"10.1007/s00792-025-01381-7","DOIUrl":"10.1007/s00792-025-01381-7","url":null,"abstract":"DNA methylation modification regulates gene expression during temperature stress. The adaptation mechanisms of cold-adapted microorganisms to low temperatures have been explained at the gene and metabolic levels. However, considering the important epigenetic modification in cells, the role of genomic modification in cold-adapted microorganisms remains underexplored. This study aims to discuss the regulatory role of DNA methylation in the cold response of psychrotroph Exiguobacterium undae TRM 85608. Methylome analysis shows that the methylation level of most genes in the bacterium decreases under cold stress. Combined with transcriptome results, the expression of important cold-response genes such as ABC transporter permease and ATP-binding proteins increases, but their methylation levels decrease, which is associated with a reduction of DNA adenine methyltransferase. We believe that the reduction in genomic methylation modification caused by low temperature is a major factor in stabilizing the normal growth of the cell. The bacterium counteracts cold stress by reducing the expression of methylation modification enzymes and weakening the inhibition of cold-response gene modification. These findings provide new insights into how psychrophilic organisms adapt to low temperatures.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"16"},"PeriodicalIF":2.6,"publicationDate":"2025-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143406472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Extremophilic and common fungi in acid brines and their halite. 嗜极真菌和酸性盐水中的普通真菌及其盐岩。

IF 2.6 3区生物学

Extremophiles Pub Date : 2025-02-11 DOI: 10.1007/s00792-025-01382-6

Kathleen C Benison, John E Hallsworth, Polona Zalar, Miha Glavina, Nina Gunde-Cimerman

{"title":"Extremophilic and common fungi in acid brines and their halite.","authors":"Kathleen C Benison, John E Hallsworth, Polona Zalar, Miha Glavina, Nina Gunde-Cimerman","doi":"10.1007/s00792-025-01382-6","DOIUrl":"10.1007/s00792-025-01382-6","url":null,"abstract":"Studies of microorganisms in extreme Mars-analog environments have generally overlooked fungi. Here, we document fungi in lake waters, slime, and halite of the acid-saline Lakes Magic and Gneiss in Western Australia with pH 1.4-3.5 and 7-32% total dissolved solids (TDS). Both extremotolerant fungi, including ascomycete Parengyodontium torokii, and relatively common fungi (mesophilic), including Penicillium breviocompactum and Trametes pubescens, were present. Our discovery of P. torokii in halite is among the first known fungal examples of such preservation, and we propose that it has the biological traits of a generalist species. Nine strains of the dominant P. torokii fungi were tested for growth on diverse salts. The presence of mesophilic fungal saprotrophs in these lakes, along with extremophilic fungi, algae, bacteria, and archaea, suggests transport of the former into indigenous lake populations. This reveals a distinction between habitability and preservation potential; not all biosignatures in lake waters or their halite represent organisms that were active in situ. Our results suggest that searches for biosignatures in extreme waters and salt minerals on Earth and Mars should include the possibility of fungi. Additionally, interpretations of microbial communities in both modern brines and the rock record should consider the likelihood of mixed indigenous and transported taxa.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"29 1","pages":"15"},"PeriodicalIF":2.6,"publicationDate":"2025-02-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143398912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0