Extremophiles最新文献_第10页

Bacterial diversity and community structure in the rhizosphere of the halophyte Halocnemum strobilaceum in an Algerian arid saline soil 阿尔及利亚干旱盐碱地盐生植物盐芽草根际细菌多样性和群落结构

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-06-02 DOI: 10.1007/s00792-022-01268-x

Sabrina Behairi, N. Baha, M. Barakat, Philippe Ortet, W. Achouak, T. Heulin, Y. Kaci

引用次数: 2

Simple sequence repeat insertion induced stability and potential ‘gain of function’ in the proteins of extremophilic bacteria 简单序列重复插入诱导极端微生物蛋白质的稳定性和潜在的“功能获得”

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-05-05 DOI: 10.1007/s00792-022-01265-0

S. Mahfooz, G. Shankar, Jitendra Narayan, Pallavi Singh, Y. Akhter

引用次数: 2

Fungal diversity in a sediment core from climate change impacted Boeckella Lake, Hope Bay, north-eastern Antarctic Peninsula assessed using metabarcoding 南极半岛东北部霍普湾受气候变化影响的Boeckella湖沉积物核心中的真菌多样性使用代谢条形码进行评估

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-05-02 DOI: 10.1007/s00792-022-01264-1

L. Rosa, M. B. Ogaki, J. Lirio, R. Vieira, S. Coria, O. Pinto, Micheline Carvalho-Silva, P. Convey, C. Rosa, P. Câmara

引用次数: 13

Desulfovulcanus ferrireducens gen. nov., sp. nov., a thermophilic autotrophic iron and sulfate-reducing bacterium from subseafloor basalt that grows on akaganéite and lepidocrocite minerals. Desulfovulcanus ferrireducens gen.

IF 2.6 3区生物学

Extremophiles Pub Date : 2022-02-21 DOI: 10.1007/s00792-022-01263-2

Srishti Kashyap, Masroque Musa, Kaylee A Neat, Deborah A Leopo, James F Holden

{"title":"Desulfovulcanus ferrireducens gen. nov., sp. nov., a thermophilic autotrophic iron and sulfate-reducing bacterium from subseafloor basalt that grows on akaganéite and lepidocrocite minerals.","authors":"Srishti Kashyap, Masroque Musa, Kaylee A Neat, Deborah A Leopo, James F Holden","doi":"10.1007/s00792-022-01263-2","DOIUrl":"10.1007/s00792-022-01263-2","url":null,"abstract":"A deep-sea thermophilic bacterium, strain Ax17T, was isolated from 25 °C hydrothermal fluid at Axial Seamount. It was obligately anaerobic and autotrophic, oxidized molecular hydrogen and formate, and reduced synthetic nanophase Fe(III) (oxyhydr)oxide minerals, sulfate, sulfite, thiosulfate, and elemental sulfur for growth. It produced up to 20 mM Fe2+ when grown on ferrihydrite but < 5 mM Fe2+ when grown on akaganéite, lepidocrocite, hematite, and goethite. It was a straight to curved rod that grew at temperatures ranging from 35 to 70 °C (optimum 65 °C) and a minimum doubling time of 7.1 h, in the presence of 1.5-6% NaCl (optimum 3%) and pH 5-9 (optimum 8.0). Phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain was 90-92% identical to other genera of the family Desulfonauticaceae in the phylum Pseudomonadota. The genome of Ax17T was sequenced, which yielded 2,585,834 bp and contained 2407 protein-coding sequences. Based on overall genome relatedness index analyses and its unique phenotypic characteristics, strain Ax17T is suggested to represent a novel genus and species, for which the name Desulfovulcanus ferrireducens is proposed. The type strain is Ax17T (= DSM 111878T = ATCC TSD-233T).","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"13"},"PeriodicalIF":2.6,"publicationDate":"2022-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8860800/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39942910","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Anion-type modulates the effect of salt stress on saline lake bacteria. 阴离子型调节盐胁迫对盐湖细菌的影响。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-02-09 DOI: 10.1007/s00792-022-01260-5

Bianka Csitári, Anna Bedics, Tamás Felföldi, Emil Boros, Hajnalka Nagy, István Máthé, Anna J Székely

{"title":"Anion-type modulates the effect of salt stress on saline lake bacteria.","authors":"Bianka Csitári, Anna Bedics, Tamás Felföldi, Emil Boros, Hajnalka Nagy, István Máthé, Anna J Székely","doi":"10.1007/s00792-022-01260-5","DOIUrl":"https://doi.org/10.1007/s00792-022-01260-5","url":null,"abstract":"Beside sodium chloride, inland saline aquatic systems often contain other anions than chloride such as hydrogen carbonate and sulfate. Our understanding of the biological effects of salt composition diversity is limited; therefore, the aim of this study was to examine the effect of different anions on the growth of halophilic bacteria. Accordingly, the salt composition and concentration preference of 172 strains isolated from saline and soda lakes that differed in ionic composition was tested using media containing either carbonate, chloride or sulfate as anion in concentration values ranging from 0 to 0.40 mol/L. Differences in salt-type preference among bacterial strains were observed in relationship to the salt composition of the natural habitat they were isolated from indicating specific salt-type adaptation. Sodium carbonate represented the strongest selective force, while majority of strains was well-adapted to growth even at high concentrations of sodium sulfate. Salt preference was to some extent associated with taxonomy, although variations even within the same bacterial species were also identified. Our results suggest that the extent of the effect of dissolved salts in saline lakes is not limited to their concentration but the type of anion also substantially impacts the growth and survival of individual microorganisms.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"12"},"PeriodicalIF":2.9,"publicationDate":"2022-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8825391/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39598892","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

tRNA modification profiles in obligate and moderate thermophilic bacilli. 专性和中度嗜热杆菌的tRNA修饰谱。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-02-05 DOI: 10.1007/s00792-022-01258-z

Hovik Panosyan, Franziska R Traube, Caterina Brandmayr, Mirko Wagner, Thomas Carell

{"title":"tRNA modification profiles in obligate and moderate thermophilic bacilli.","authors":"Hovik Panosyan, Franziska R Traube, Caterina Brandmayr, Mirko Wagner, Thomas Carell","doi":"10.1007/s00792-022-01258-z","DOIUrl":"https://doi.org/10.1007/s00792-022-01258-z","url":null,"abstract":"Transfer RNAs (tRNAs) are the most ancient RNA molecules in the cell, modification pattern of which is linked to phylogeny. The aim of this study was to determine the tRNA modification profiles of obligate (Anoxybacillus, Geobacillus, Paragebacillus) and moderate (Bacillus, Brevibacillus, Ureibacillus, Paenibacillus) thermophilic aerobic bacilli strains to find out its linkage to phylogenetic variations between species. LC-MS was applied for the quantification of modified nucleosides using both natural and isotopically labeled standards. The presence of m2A and m7G modifications at high levels was determined in all species. Relatively high level of i6A and m5C modification was observed for Paenibacillus and Ureibacillus, respectively. The lowest level of Cm modification was found in Bacillus. The modification ms2i6A and m1G were absent in Brevibacillus and Ureibacillus, respectively, while modifications Am and m22G were observed only for Ureibacillus. While both obligate and moderate thermophilic species contain Gm, m1G and ms2i6A modifications, large quantities of them (especially Gm and ms2i6A modification) were detected in obligate thermophilic ones (Geobacillus, Paragebacillus and Anoxybacillus). The collective set of modified tRNA bases is genus-specific and linked to the phylogeny of bacilli. In addition, the dataset could be applied to distinguish obligate thermophilic bacilli from moderate ones.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"11"},"PeriodicalIF":2.9,"publicationDate":"2022-02-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8818000/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39891057","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Microorganisms harbor keys to a circular bioeconomy making them useful tools in fighting plastic pollution and rising CO₂ levels. 微生物是循环生物经济的关键，是对抗塑料污染和二氧化碳水平上升的有用工具。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-02-03 DOI: 10.1007/s00792-022-01261-4

Garabed Antranikian, Wolfgang R Streit

引用次数: 3

Biome-specific distribution of Ni-containing carbon monoxide dehydrogenases. 含镍一氧化碳脱氢酶的生物群系特异性分布。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-01-20 DOI: 10.1007/s00792-022-01259-y

Masao Inoue, Kimiho Omae, Issei Nakamoto, Ryoma Kamikawa, Takashi Yoshida, Yoshihiko Sako

{"title":"Biome-specific distribution of Ni-containing carbon monoxide dehydrogenases.","authors":"Masao Inoue, Kimiho Omae, Issei Nakamoto, Ryoma Kamikawa, Takashi Yoshida, Yoshihiko Sako","doi":"10.1007/s00792-022-01259-y","DOIUrl":"https://doi.org/10.1007/s00792-022-01259-y","url":null,"abstract":"Ni-containing carbon monoxide dehydrogenase (Ni-CODH) plays an important role in the CO/CO2-based carbon and energy metabolism of microbiomes. Ni-CODH is classified into distinct phylogenetic clades, A-G, with possibly distinct cellular roles. However, the types of Ni-CODH clade used by organisms in different microbiomes are unknown. Here, we conducted a metagenomic survey of a protein database to determine the relationship between the phylogeny and biome distribution of Ni-CODHs. Clustering and phylogenetic analyses showed that the metagenome assembly-derived Ni-CODH sequences were distributed in ~ 60% Ni-CODH clusters and in all Ni-CODH clades. We also identified a novel Ni-CODH clade, clade H. Biome mapping on the Ni-CODH phylogenetic tree revealed that Ni-CODHs of almost all the clades were found in natural aquatic environmental and engineered samples, whereas those of specific subclades were found only in host-associated samples. These results are comparable with our finding that the diversity in the phylum-level taxonomy of host-associated Ni-CODH owners is statistically different from those of the other biomes. Our findings suggest that while Ni-CODH is a ubiquitous enzyme produced across diverse microbiomes, its distribution in each clade is biased and mainly affected by the distinct composition of microbiomes.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"9"},"PeriodicalIF":2.9,"publicationDate":"2022-01-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8776680/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39846346","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Prokaryotic diversity across a pH gradient in the "El Chichón" crater-lake: a naturally thermo-acidic environment. “El Chichón”火山口湖中pH梯度上的原核生物多样性:自然热酸性环境。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-01-20 DOI: 10.1007/s00792-022-01257-0

Irving Oswaldo Velázquez-Ríos, Reiner Rincón-Rosales, Federico Antonio Gutiérrez-Miceli, Rocio J Alcántara-Hernández, Víctor Manuel Ruíz-Valdiviezo

{"title":"Prokaryotic diversity across a pH gradient in the \"El Chichón\" crater-lake: a naturally thermo-acidic environment.","authors":"Irving Oswaldo Velázquez-Ríos, Reiner Rincón-Rosales, Federico Antonio Gutiérrez-Miceli, Rocio J Alcántara-Hernández, Víctor Manuel Ruíz-Valdiviezo","doi":"10.1007/s00792-022-01257-0","DOIUrl":"https://doi.org/10.1007/s00792-022-01257-0","url":null,"abstract":"The \"El Chichón\" crater-lake in Mexico is a thermo-acidic environment whose microorganisms have been scarcely studied. In this study, we surveyed the prokaryotic communities by amplicon sequencing of the 16S rRNA gene considering samples of sediment and water collected within a pH/temperature gradient (pH 1.9-5.1, 38-89 °C). Further, we interpreted these results within a physicochemical context. The composition of the microbial assemblage differed significantly between the sediments and water. Sediment communities were different in the site with the highest temperature and lower pH value compared to the other ones sampled, while those in the water were relatively similar at all points. Most of the genera found were related to Alicyclobacillus, Acinetobacter, Bacillus, Mesoaciditoga, Methanothermobacter, Desulfitobacterium, Therminicanus, Kyrpidia, Paenibacillus, Thermoanaerobacterium, and Gelria. Some of these genera are known by their thermo-acidic tolerant capacities with flexible metabolisms to use diverse electron donor/acceptors (S or Fe), while others are thermo(acid)philes that mainly occur in the most extreme sites of the lake. These results show the presence of a microbial community adapted to the changing conditions of a very dynamic crater-lake, that include chemoorganotrophs and chemolithotrophs.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"8"},"PeriodicalIF":2.9,"publicationDate":"2022-01-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39846344","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: 2

The smallest space miners: principles of space biomining. 最小的太空矿工:太空生物采矿原理。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-01-06 DOI: 10.1007/s00792-021-01253-w

Rosa Santomartino, Luis Zea, Charles S Cockell

{"title":"The smallest space miners: principles of space biomining.","authors":"Rosa Santomartino, Luis Zea, Charles S Cockell","doi":"10.1007/s00792-021-01253-w","DOIUrl":"https://doi.org/10.1007/s00792-021-01253-w","url":null,"abstract":"As we aim to expand human presence in space, we need to find viable approaches to achieve independence from terrestrial resources. Space biomining of the Moon, Mars and asteroids has been indicated as one of the promising approaches to achieve in-situ resource utilization by the main space agencies. Structural and expensive metals, essential mineral nutrients, water, oxygen and volatiles could be potentially extracted from extraterrestrial regolith and rocks using microbial-based biotechnologies. The use of bioleaching microorganisms could also be applied to space bioremediation, recycling of waste and to reinforce regenerative life support systems. However, the science around space biomining is still young. Relevant differences between terrestrial and extraterrestrial conditions exist, including the rock types and ores available for mining, and a direct application of established terrestrial biomining techniques may not be a possibility. It is, therefore, necessary to invest in terrestrial and space-based research of specific methods for space applications to learn the effects of space conditions on biomining and bioremediation, expand our knowledge on organotrophic and community-based bioleaching mechanisms, as well as on anaerobic biomining, and investigate the use of synthetic biology to overcome limitations posed by the space environments.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 1","pages":"7"},"PeriodicalIF":2.9,"publicationDate":"2022-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8739323/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39905420","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 16