Extremophiles最新文献_第10页

Assessment of diversity of archaeal communities in Algerian chott. 阿尔及利亚肖特古菌群落多样性评价。

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-12-05 DOI: 10.1007/s00792-022-01287-8

Imene Ikram Hassani, Inès Quadri, Archana Yadav, Sonia Bouchard, Didier Raoult, Hocine Hacène, Christelle Desnues

{"title":"Assessment of diversity of archaeal communities in Algerian chott.","authors":"Imene Ikram Hassani, Inès Quadri, Archana Yadav, Sonia Bouchard, Didier Raoult, Hocine Hacène, Christelle Desnues","doi":"10.1007/s00792-022-01287-8","DOIUrl":"https://doi.org/10.1007/s00792-022-01287-8","url":null,"abstract":"Halophilic archaea are the dominant type of microorganisms in hypersaline environments. The diversity of halophilic archaea in Zehrez-Chergui (Saharian chott) was analyzed and compared by both analysis of a library of PCR amplified 16S rRNA genes and by cultivation approach. This work, represents the first of its type in Algeria. A total cell count was estimated at 3.8 × 103 CFU/g. The morphological, biochemical, and physiological characterizations of 45 distinct strains, suggests that all of them might be members of the class Halobacteria. Among stains, 23 were characterized phylogenetically and are related to 6 genera of halophilic archaea.The dominance of the genus Halopiger, has not been reported yet in other hypersaline environments. The 100 clones obtained by the molecular approach, were sequenced, and analyzed. The ribosomal library of 61 OTUs showed that the archaeal diversity included uncultured haloarcheon, Halomicrobium, Natronomonas, Halomicroarcula, Halapricum, Haloarcula, Halosimplex, Haloterrigena, Halolamina, Halorubellus, Halorussus and Halonotius. The results of rarefaction analysis indicated that the analysis of an increasing number of clones would have revealed additional diversity. Surprisingly, no halophilic archaea were not shared between the two approaches. Combining both types of methods was considered the best approach to acquire better information on the characteristics of soil halophilic archaea.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"27 1","pages":"2"},"PeriodicalIF":2.9,"publicationDate":"2022-12-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9264748","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: 1

Hyper-stimulation of Pyrococcus furiosus CRISPR DNA uptake by a self-transmissible plasmid. 自传播质粒对暴怒火球菌 CRISPR DNA 摄取的过度刺激。

IF 2.6 3区生物学

Extremophiles Pub Date : 2022-11-16 DOI: 10.1007/s00792-022-01281-0

Elizabeth A Watts, Sandra C Garrett, Ryan J Catchpole, Landon M Clark, Brenton R Graveley, Michael P Terns

{"title":"Hyper-stimulation of Pyrococcus furiosus CRISPR DNA uptake by a self-transmissible plasmid.","authors":"Elizabeth A Watts, Sandra C Garrett, Ryan J Catchpole, Landon M Clark, Brenton R Graveley, Michael P Terns","doi":"10.1007/s00792-022-01281-0","DOIUrl":"10.1007/s00792-022-01281-0","url":null,"abstract":"Pyrococcus furiosus is a hyperthermophilic archaeon with three effector CRISPR complexes (types I-A, I-B, and III-B) that each employ crRNAs derived from seven CRISPR arrays. Here, we investigate the CRISPR adaptation response to a newly discovered and self-transmissible plasmid, pT33.3. Transconjugant strains of Pyrococcus furiosus exhibited dramatically elevated levels of new spacer integration at CRISPR loci relative to the strain harboring a commonly employed, laboratory-constructed plasmid. High-throughput sequence analysis demonstrated that the vast majority of the newly acquired spacers were preferentially selected from DNA surrounding a particular region of the pT33.3 plasmid and exhibited a bi-directional pattern of strand bias that is a hallmark of primed adaptation by type I systems. We observed that one of the CRISPR arrays of our Pyrococcus furiosus laboratory strain encodes a spacer that closely matches the region of the conjugative plasmid that is targeted for adaptation. The hyper-adaptation phenotype was found to strictly depend both on the presence of this single matching spacer as well as the I-B effector complex, known to mediate primed adaptation. Our results indicate that Pyrococcus furiosus naturally encountered this conjugative plasmid or a related mobile genetic element in the past and responds to reinfection with robust primed adaptation.","PeriodicalId":12302,"journal":{"name":"Extremophiles","volume":"26 3","pages":"36"},"PeriodicalIF":2.6,"publicationDate":"2022-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9838737/pdf/nihms-1859798.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10583449","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

Evansella halocellulosilytica sp. nov., an alkali-halotolerant and cellulose-dissolving bacterium isolated from bauxite residue 从铝土矿残渣中分离的耐碱、溶纤维素细菌Evansella halocellulosillica sp.nov

IF 2.9 3区生物学

Extremophiles Pub Date : 2022-06-04 DOI: 10.1007/s00792-022-01267-y

Guo-Hong Liu, Manik Prabhu Narsing Rao, Qianqian Chen, Jian-mei Che, Huai Shi, Bo Liu, Wenjun Li

引用次数: 2

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