Egicoccus halophilus gen. nov., sp. nov., a halophilic, alkalitolerant actinobacterium and proposal of Egicoccaceae fam. nov. and Egicoccales ord. nov.

Zhang, Yongguang; Chen, Ji-Yue; Wang, Hongfei; Xiao, Min; Yang, Ling–Ling; Guo, Jian-Wei; Zhou, En‐Min; Zhang, Yuanmin; Li, Wenjun

doi:10.1099/ijsem.0.000749

Cited by 27 publications

(16 citation statements)

References 30 publications

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“…S3). Altogether, these results suggest that AS10 T is halotolerant and alkalitolerant like its closely related strains [9, 10] (). Concerning vitamin requirements, AS10 T stopped growing after two transferences in agar medium without vitamins, showing the need for these supplements for growth.…”

Section: Resultsmentioning

confidence: 94%

“…S7). Accordingly, the predominant menaquinone in the closest related strains, Egicoccus halophilus [9], Egibacter rhizosphaerae [10], Euzebya rosea [60], Euzebya tangerina [8] and Euzebya pacifica [61] was also MK-9(H 4 ). Although no previous information about the respiratory quinones of N.…”

Section: Resultsmentioning

confidence: 99%

“…[64], sequence identities lower than 94.5% highlight the occurrence of divergent genus. All other members of the class Nitriliruptoria showed low sequence similarity to AS10 T , namely Egicoccus halophilus [9] with 88.91%, Euzebya rosea [60] with 87.30%, Euzebya pacifica [61] with 87.15%, Egibacter rhizosphaerae [10] with 87.08% and Euzebya tangerina [8] with 86.76%. Strain AS10 T clustered together with N.…”

Section: Resultsmentioning

confidence: 99%

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Salsipaludibacter albus gen. nov., sp. nov., a novel actinobacterial strain isolate from a Portuguese solar saltern and proposal of Salsipaludibacteraceae fam. nov. and Salsipaludibacterales ord. nov.

Almeida

Henriques

Wiegand

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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A novel micro-organism designated AS10T was isolated from dry salt collected from Aveiro saltern in the north of Portugal. Cells were Gram-stain-positive, non-motile, non-endospore-forming, rod-shaped and aerobic. Strain AS10T was characterized by long filaments of rod-shaped cells, presenting also coccoid cellular forms at the end of the filaments, unveiling some pleomorphism. Rod-shaped cells varied from 0.3 to 0.6 µm wide and from 0.6 to 2 µm long. Growth of AS10T occurred at 15–40 °C (optimum, 20–30 °C), 0–10% (w/v) NaCl (optimum, 2%) and pH 4.5–11.0 (optimum, pH 8.0–11.0). The peptidoglycan type was A1ϒ-type with 3-hydroxy-diaminopimelic acid. The major fatty acids were C16:0, iso-C14:0, C17:0 and C14:0. The major respiratory quinone was MK-9(H4). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain AS10T was similar to actinobacterial members of the class Nitriliruptoria , with Nitriliruptor alkaliphilus ANL-iso2T being the closest relative the species with a sequence pairwise similarity of 91.21%. Average nucleotide identity, average amino acid identity and in silico DNA–DNA hybridization values between strain AS10T and N. alkaliphilus ANL-iso2T were 71.34, 53.57 and 18.90%, respectively. The genome DNA G+C content of AS10T was 71.8 mol%. Based on genomic, phylogenetic, phenotypic and chemotaxonomic studies, we describe a new species of a novel genus represented by strain AS10T (=LMG 31937T=CECT 30148T) for which we propose the name Salsipaludibacter albus gen. nov., sp. nov. We also propose that this organism represents a new family named Salsipaludibacteraceae fam. nov. of a novel order named Salsipaludibacterales ord. nov.

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Section: Resultsmentioning

confidence: 94%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

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Salsipaludibacter albus gen. nov., sp. nov., a novel actinobacterial strain isolate from a Portuguese solar saltern and proposal of Salsipaludibacteraceae fam. nov. and Salsipaludibacterales ord. nov.

Almeida

Henriques

Wiegand

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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“…The class Nitriliruptoria belonging to the phylum Actinobacteria was established by Ludwig et al on the basis of the results of 16S rRNA gene sequence analysis and a distinct 16S rRNA gene phyletic lineage [1,2]. At the time of writing, the class Nitriliruptoria comprises four orders, including five species Egibacter rhizosphaerae, Egicoccus halophilus, Euzebya rosea, Euzebya tangerina and Nitriliruptor alkaliphilus [3][4][5][6][7]. Members of the class Nitriliruptoria inhabit diverse environments, including soda lake sediments, plant rhizosphere, saline-alkaline soil, seawater and marine fauna [3][4][5][6][7].…”

Section: Introductionmentioning

confidence: 99%

“…At the time of writing, the class Nitriliruptoria comprises four orders, including five species Egibacter rhizosphaerae , Egicoccus halophilus , Euzebya rosea , Euzebya tangerina and Nitriliruptor alkaliphilus [3–7]. Members of the class Nitriliruptoria inhabit diverse environments, including soda lake sediments, plant rhizosphere, saline–alkaline soil, seawater and marine fauna [3–7].…”

Section: Introductionmentioning

confidence: 99%

Euzebya pacifica sp. nov., a novel member of the class Nitriliruptoria

Jian

Meng

et al. 2021

International Journal of Systematic and Evolutionary Microbiology

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A Gram-stain-positive, aerobic, chemo-organotrophic, rod-shaped, non-spore-forming strain, which produced convex, circular, pink-pigmented colonies, designated as DY32-46T, was isolated from seawater collected from the Pacific Ocean. DY32-46T was found to grow at 20–40 °C (optimum, 30–35 °C), pH 6.0–8.0 (optimum, pH 6.5) and with 0–5 % (w/v) NaCl (optimum, 1–2 %). The results of chemotaxonomic analysis indicated that the respiratory quinone of DY32-46T was MK-9(H4), and major fatty acids (>10 %) were C17 : 1 ω8c, summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), C16 : 0 and C15 : 1 ω6c. The polar lipids included diphosphatidylglycerol, phosphatidylglycerol, one unidentified aminophospholipid, three unidentified glycolipids, three unidentified phospholipids, one unidentified phosphoglycolipid and five unidentified lipids. The DNA G+C content of DY32-46T was 70.6 mol%. The results of phylogenetic analysis based on 16S rRNA gene sequences and genomic data indicated that DY32-46T should be assigned to the genus Euzebya . ANI and in silico DNA–DNA hybridization values between strain DY32-46T and type strains of Euzebya species were 73.1–87.2 % and 20.2–32.4 %, respectively. Different phenotypic properties, together with genetic distinctiveness, demonstrated that strain DY32-46T was clearly distinct from recognized species of the genus Euzebya . Therefore, DY32-46T represents a novel species within the genus Euzebya , for which the name Euzebya pacifica sp. nov is proposed. The type strain is DY32-46T (=MCCC 1K03476T=KCTC 49091T).

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Cultivation strategies for prokaryotes from extreme environments

Yang

Lian

Liu

et al. 2023

iMeta

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The great majority of microorganisms are as‐yet‐uncultivated, mostly found in extreme environments. High‐throughput sequencing provides data‐rich genomes from single‐cell and metagenomic techniques, which has enabled researchers to obtain a glimpse of the unexpected genetic diversity of “microbial dark matter.” However, cultivating microorganisms from extreme environments remains essential for dissecting and utilizing the functions of extremophiles. Here, we provide a straightforward protocol for efficiently isolating prokaryotic microorganisms from different extreme habitats (thermal, xeric, saline, alkaline, acidic, and cryogenic environments), which was established through previous successful work and our long‐term experience in extremophile resource mining. We propose common processes for extremophile isolation at first and then summarize multiple cultivation strategies for recovering prokaryotic microorganisms from extreme environments and meanwhile provide specific isolation tips that are always overlooked but important. Furthermore, we propose the use of multi‐omics‐guided microbial cultivation approaches for culturing these as‐yet‐uncultivated microorganisms and two examples are provided to introduce how these approaches work. In summary, the protocol allows researchers to significantly improve the isolation efficiency of pure cultures and novel taxa, which therefore paves the way for the protection and utilization of microbial resources from extreme environments.

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Egicoccus halophilus gen. nov., sp. nov., a halophilic, alkalitolerant actinobacterium and proposal of Egicoccaceae fam. nov. and Egicoccales ord. nov.

Abstract: Egicoccus halophilus gen. nov., sp. nov., a halophilic, alkalitolerant actinobacterium and proposal of Egicoccaceae fam. nov. and Egicoccales ord. nov.

Cited by 27 publications

References 30 publications

Salsipaludibacter albus gen. nov., sp. nov., a novel actinobacterial strain isolate from a Portuguese solar saltern and proposal of Salsipaludibacteraceae fam. nov. and Salsipaludibacterales ord. nov.

Salsipaludibacter albus gen. nov., sp. nov., a novel actinobacterial strain isolate from a Portuguese solar saltern and proposal of Salsipaludibacteraceae fam. nov. and Salsipaludibacterales ord. nov.

Euzebya pacifica sp. nov., a novel member of the class Nitriliruptoria

Cultivation strategies for prokaryotes from extreme environments

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