Natranaerofaba carboxydovora gen. nov., sp. nov., an extremely haloalkaliphilic CO ‐utilizing acetogen from a hypersaline soda lake representing a novel deep phylogenetic lineage in the class ‘ Natranaerobiia ’

Mid-Jurassic Ammonitina (Cephalopoda, Mollusca) provide good examples of true and apparent "extinctions" (i.e., taxon or clade disappearances) at the local, regional, and global scales. A terminology is presented. Extinction is the termination of a phylogenetic lineage or entire clade (not of local demes or regional populations). Extinction was often preceded by progressive range contraction that resulted in diachronous regional disappearance ("extirpation") and occurred with the elimination of the last refuge. Other range contractions, however, were not terminal, but were followed by renewed expansions, resulting in temporary absence of the lineage over part of its known range only, due to pseudo-extinction. Some lineages, called Lazarus taxa, apparently disappeared entirely for short or extended periods by pseudotermination (causing a "phylogenetic hiatus"). This is an extreme form of pseudo-extinction with unknown refuge due to small size and (or) unsuitable facies and location. Lineage or clade reappearance may be in the form of new species, whose relationship to ancestral taxa has been problematic. Some disappearances can be explained with displacive competition, where the replacement taxon is either of endemic origin or an immigrant. Recent research in previously underexplored field areas has closed some of the gaps of documentation by finding the refuges. Range contractions and expansions, together with their regional disappearances and pseudo-extinctions, including pseudotermination, were often causally related to sea-level changes, especially eustasy. Most true extinctions, however, cannot be identified precisely, because they occurred in small populations and (or) refuges. Extinctions presumably did not coincide with global geoevents.

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High-Quality Draft Single-Cell Genome Sequence Belonging to the Archaeal Candidate Division SA1, Isolated from Nereus Deep in the Red Sea

Genome Announcements ◽

10.1128/genomea.00383-18 ◽

2018 ◽

Vol 6 (19) ◽

pp. e00383-18 ◽

Cited By ~ 4

Author(s):

David K. Ngugi ◽

Ulrich Stingl

Keyword(s):

Single Cell ◽

Lake Sediments ◽

Red Sea ◽

Genome Sequence ◽

Soda Lake ◽

Genome Sequences ◽

High Quality ◽

Candidate Division ◽

Cell Genome ◽

Single Cell Genome

ABSTRACT Candidate division SA1 encompasses a phylogenetically coherent archaeal group ubiquitous in deep hypersaline anoxic brines around the globe. Recently, the genome sequences of two cultivated representatives from hypersaline soda lake sediments were published. Here, we present a single-cell genome sequence from Nereus Deep in the Red Sea that represents a putatively novel family within SA1.

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Halostagnicola bangensis sp. nov., an alkaliphilic haloarchaeon from a soda lake

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.000006 ◽

2015 ◽

Vol 65 (Pt_3) ◽

pp. 754-759 ◽

Cited By ~ 8

Author(s):

Paulina Corral ◽

Angela Corcelli ◽

Antonio Ventosa

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Dna Hybridization ◽

Type Species ◽

Soda Lake ◽

Phenotypic Characterization ◽

Rrna Gene ◽

Polar Lipid Profile ◽

Content Type ◽

Link Type

An extremely haloalkaphilic archaeon, strain T26T, belonging to the genus Halostagnicola , was isolated from sediment of the soda lake Bange in the region of Tibet, China. Phylogenetic analysis based on 16S rRNA gene sequence similarities showed that strain T26T was closely related to Halostagnicola alkaliphila 167-74T (98.4 %), Halostagnicola larsenii XH-48T (97.5 %) and Halostagnicola kamekurae 194-10T (96.8 %). Strain T26T grew optimally in media containing 25 % (w/v) salts, at pH 9.0 and 37 °C in aerobic conditions. Mg2+ was not required for growth. The cells were motile, pleomorphic and Gram-stain-variable. Colonies of this strain were pink pigmented. Hypotonic treatment caused cell lysis. The polar lipids of the isolate consisted of C20C20 and C20C25 derivatives of phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and minor phospholipids components. Glycolipids were not detected, in contrast to the two neutrophilic species of this genus. The genomic DNA G+C content of strain T26T was 60.1 mol% and DNA–DNA hybridization showed a relatedness of 19 and 17 % with Halostagnicola alkaliphila CECT 7631T and Halostagnicola larsenii CECT 7116T, respectively. The comparison of 16S rRNA gene sequences, detailed phenotypic characterization, polar lipid profile and DNA–DNA hybridization studies revealed that strain T26T belongs to the genus Halostagnicola , and represents a novel species for which the name Halostagnicola bangensis sp. nov. is proposed. The type strain is T26T ( = CECT 8219T = IBRC-M 10759T = JCM 18750T).

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Litoribacter ruber gen. nov., sp. nov., an alkaliphilic, halotolerant bacterium isolated from a soda lake sediment

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.021626-0 ◽

2010 ◽

Vol 60 (12) ◽

pp. 2996-3001 ◽

Cited By ~ 24

Author(s):

Shi-Ping Tian ◽

Yong-Xia Wang ◽

Bin Hu ◽

Xiao-Xia Zhang ◽

Wei Xiao ◽

...

Keyword(s):

Sequence Similarity ◽

Soda Lake ◽

Optimal Growth ◽

Growth Conditions ◽

Rrna Gene ◽

Strictly Aerobic ◽

Sequence Comparisons ◽

Respiratory Quinone ◽

Major Respiratory Quinone ◽

Respective Type

A novel alkaliphilic, halotolerant, rod-shaped bacterium, designated strain YIM CH208T, was isolated from a soda lake in Yunnan, south-west China. The taxonomy of strain YIM CH208T was investigated by a polyphasic approach. Strain YIM CH208T was Gram-negative, strictly aerobic and non-motile and formed red colonies. Optimal growth conditions were 28 °C, pH 8.5 and 0.5–2.5 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the isolate formed a distinct line within a clade containing the genus Echinicola in the phylum Bacteroidetes and was related to the species Echinicola pacifica and Rhodonellum psychrophilum, with sequence similarity of 91.7 and 91.6 % to the respective type strains. The DNA G+C content was 45.1 mol%. The major respiratory quinone was menaquinone-7 (MK-7). The predominant cellular fatty acids were iso-C17 : 1 ω9c (19.9 %), C15 : 0 3-OH (12.1 %), iso-C17 : 0 3-OH (11.3 %), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c; 10.7 %) and C17 : 1 ω6c (8.7 %). On the basis of the phenotypic, chemotaxonomic and phylogenetic data, strain YIM CH208T represents a novel species of a new genus, for which the name Litoribacter ruber gen. nov., sp. nov. is proposed. The type strain of Litoribacter ruber is YIM CH208T (=ACCC 05414T =KCTC 22899T).

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SARS-Like Coronaviruses in Horseshoe Bats (Rhinolophus spp.) in Russia, 2020

Viruses ◽

10.3390/v14010113 ◽

2022 ◽

Vol 14 (1) ◽

pp. 113

Author(s):

Sergey Alkhovsky ◽

Sergey Lenshin ◽

Alexey Romashin ◽

Tatyana Vishnevskaya ◽

Oleg Vyshemirsky ◽

...

Keyword(s):

Genetic Diversity ◽

Evolutionary History ◽

Structural Proteins ◽

Rt Pcr ◽

Phylogenetic Lineage ◽

History Of ◽

Horseshoe Bats ◽

Regions Of Russia ◽

Nonstructural Genes

We found and genetically described two novel SARS-like coronaviruses in feces and oral swabs of the greater (R. ferrumequinum) and the lesser (R. hipposideros) horseshoe bats in southern regions of Russia. The viruses, named Khosta-1 and Khosta-2, together with related viruses from Bulgaria and Kenya, form a separate phylogenetic lineage. We found evidence of recombination events in the evolutionary history of Khosta-1, which involved the acquisition of the structural proteins S, E, and M, as well as the nonstructural genes ORF3, ORF6, ORF7a, and ORF7b, from a virus that is related to the Kenyan isolate BtKY72. The examination of bats by RT-PCR revealed that 62.5% of the greater horseshoe bats in one of the caves were positive for Khosta-1 virus, while its overall prevalence was 14%. The prevalence of Khosta-2 was 1.75%. Our results show that SARS-like coronaviruses circulate in horseshoe bats in the region, and we provide new data on their genetic diversity.

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Determination of important enzymes and antimicrobial resistances of gram-positive haloalkaliphilic bacteria isolated from Salda Lake

Ege Journal of Fisheries and Aquatic Sciences ◽

10.12714/egejfas.38.3.14 ◽

2021 ◽

Vol 38 (3) ◽

pp. 375-382

Author(s):

Pınar Çağlayan

Keyword(s):

Bacillus Subtilis ◽

Soda Lakes ◽

Soda Lake ◽

16S Rrna Gene Sequencing ◽

Extreme Environment ◽

Rrna Gene ◽

Sequencing Analysis ◽

Haloalkaliphilic Bacteria ◽

Rrna Gene Sequencing

As an extreme environment, soda lakes harbor various haloalkaliphilic microorganisms. Salda Lake is one of the natural soda lake (pH˃9) in Turkey. Haloalkaliphiles are unique microorganisms in their ability to live in high alkaline and high saline conditions, and play an important role in biodegradation and bioremediation of hydrocarbons. Hence, the aims of this study were to isolate haloalkaliphilic bacteria from water sample of Salda Lake, to identify these isolates by both conventional and molecular methods, to screen their industrially important enzymes, and to investigate their antimicrobial resistance profiles. Six isolates were identified as Bacillus horneckiae, Bacillus subtilis, Bacillus paramycoides, Bacillus pumilus, Staphylococcus epidermidis, Bacillus haynesii according to 16S rRNA gene sequencing analysis. The industrially important enzymes (amylase, cellulase, pullulanase, lipase, urease, protease, caseinase, oxidase, catalase) were produced by haloalkaliphilic isolates. These enzymes maybe used in alkaline and saline industrial processes. Although Bacillus subtilis was susceptible to all antibiotics, other isolates showed resistance to at least one antibiotic. The resistance against antibiotics were found as ampicillin/sulbactam 83%, amoxycillin/clavulanic acid 83%, ampicillin 67%, mupirocin 67%, chloramphenicol 50%, tetracycline 50%, imipenem 50%, meropenem 50%, cefadroxil 17%. These bacteria may have develope resistance to antibiotics that entering their natural environment in different ways.

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