Classification of a Violacein-Producing Psychrophilic Group of
Isolates Associated with Freshwater in Antarctica and
Description of Rugamonas violacea sp. nov.

J 2021

Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov.

SEDLÁČEK, Ivo, Pavla HOLOCHOVÁ, Roman SOBOTKA, Hans-Jürgen BUSSE, Pavel ŠVEC et. al.

Basic information

Original name

Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov.

Authors

SEDLÁČEK, Ivo (203 Czech Republic, guarantor, belonging to the institution), Pavla HOLOCHOVÁ (203 Czech Republic, belonging to the institution), Roman SOBOTKA, Hans-Jürgen BUSSE, Pavel ŠVEC (203 Czech Republic, belonging to the institution), Stanislava KRÁLOVÁ (703 Slovakia, belonging to the institution), Ondrej ŠEDO (203 Czech Republic, belonging to the institution), Jan PILNÝ, Eva STAŇKOVÁ (203 Czech Republic, belonging to the institution), Vendula KOUBLOVÁ (203 Czech Republic, belonging to the institution) and Karel SEDLÁŘ

Edition

Microbiology Spectrum, American Society for Microbiology, 2021, 2165-0497

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10608 Biochemistry and molecular biology

Country of publisher

United States of America

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 9.043

RIV identification code

RIV/00216224:14310/21:00122085

Organization unit

Faculty of Science

DOI

http://dx.doi.org/10.1128/Spectrum.00452-21

UT WoS

000703076500085

Keywords in English

psychrophiles; Rugamonas; taxonomy; Antarctica; violacein; species description

Abstract

V originále

A group of 11 bacterial strains was isolated from streams and lakes located in a deglaciated northern part of James Ross Island, Antarctica. They were rod-shaped, Gram-stain-negative, motile, and catalase-positive and produced blue-violet-pigmented colonies on R2A agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, automated ribotyping, repetitive element sequence-based PCR (rep-PCR), MALDI-TOF MS, fatty acid profile, chemotaxonomy analyses, and extensive biotyping was applied in order to clarify the taxonomic position of these isolates. Phylogenetic analysis based on the 16S rRNA gene indicated that all the isolates constituted a coherent group belonging to the genus Rugamonas. The closest relatives to the representative isolate P5900T were Rugamonas rubra CCM 3730T, Rugamonas rivuli FT103WT, and Rugamonas aquatica FT29WT, exhibiting 99.2%, 99.1%, and 98.6% 16S rRNA pairwise similarity, respectively. The average nucleotide identity and digital DNA-DNA hybridization values calculated from the whole-genome sequencing data clearly proved that P5900T represents a distinct Rugamonas species. The G+C content of genomic DNAs was 66.1 mol%. The major components in fatty acid profiles were summed feature 3 (C16:1 ω7c/C16:1 ω6c), C 16:0, and C12:0. The cellular quinone content contained exclusively ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. The polyamine pattern was composed of putrescine, 2-hydroxputrescine, and spermidine.

Links

LM2015078, research and development project

Name: Česká polární výzkumná infrastruktura (Acronym: CzechPolar2)

Investor: Ministry of Education, Youth and Sports of the CR

LM2018127, research and development project

Name: Česká infrastruktura pro integrativní strukturní biologii (Acronym: CIISB)

Investor: Ministry of Education, Youth and Sports of the CR

90127, large research infrastructures

Name: CIISB II

Citovat

SEDLÁČEK, Ivo, Pavla HOLOCHOVÁ, Roman SOBOTKA, Hans-Jürgen BUSSE, Pavel ŠVEC, Stanislava KRÁLOVÁ, Ondrej ŠEDO, Jan PILNÝ, Eva STAŇKOVÁ, Vendula KOUBLOVÁ and Karel SEDLÁŘ. Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov. Microbiology Spectrum. American Society for Microbiology, 2021, vol. 9, No 1, p. 1-14. ISSN 2165-0497. Available from: https://dx.doi.org/10.1128/Spectrum.00452-21.

@article{1785960,
   author = {Sedláček, Ivo and Holochová, Pavla and Sobotka, Roman and Busse, HansandJürgen and Švec, Pavel and Králová, Stanislava and Šedo, Ondrej and Pilný, Jan and Staňková, Eva and Koublová, Vendula and Sedlář, Karel},
   article_number = {1},
   doi = {http://dx.doi.org/10.1128/Spectrum.00452-21},
   keywords = {psychrophiles; Rugamonas; taxonomy; Antarctica; violacein; species description},
   language = {eng},
   issn = {2165-0497},
   journal = {Microbiology Spectrum},
   title = {Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov.},
   url = {https://doi.org/10.1128/Spectrum.00452-21},
   volume = {9},
   year = {2021}
}

TY  - JOUR
ID  - 1785960
AU  - Sedláček, Ivo - Holochová, Pavla - Sobotka, Roman - Busse, Hans-Jürgen - Švec, Pavel - Králová, Stanislava - Šedo, Ondrej - Pilný, Jan - Staňková, Eva - Koublová, Vendula - Sedlář, Karel
PY  - 2021
TI  - Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov.
JF  - Microbiology Spectrum
VL  - 9
IS  - 1
SP  - 1-14
EP  - 1-14
PB  - American Society for Microbiology
SN  - 21650497
KW  - psychrophiles
KW  - Rugamonas
KW  - taxonomy
KW  - Antarctica
KW  - violacein
KW  - species description
UR  - https://doi.org/10.1128/Spectrum.00452-21
N2  - A group of 11 bacterial strains was isolated from streams and lakes located in a deglaciated northern part of James Ross Island, Antarctica. They were rod-shaped, Gram-stain-negative, motile, and catalase-positive and produced blue-violet-pigmented colonies on R2A agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, automated ribotyping, repetitive element sequence-based PCR (rep-PCR), MALDI-TOF MS, fatty acid profile, chemotaxonomy analyses, and extensive biotyping was applied in order to clarify the taxonomic position of these isolates. Phylogenetic analysis based on the 16S rRNA gene indicated that all the isolates constituted a coherent group belonging to the genus Rugamonas. The closest relatives to the representative isolate P5900T were Rugamonas rubra CCM 3730T, Rugamonas rivuli FT103WT, and Rugamonas aquatica FT29WT, exhibiting 99.2%, 99.1%, and 98.6% 16S rRNA pairwise similarity, respectively. The average nucleotide identity and digital DNA-DNA hybridization values calculated from the whole-genome sequencing data clearly proved that P5900T represents a distinct Rugamonas species. The G+C content of genomic DNAs was 66.1 mol%. The major components in fatty acid profiles were summed feature 3 (C16:1 ω7c/C16:1 ω6c), C 16:0, and C12:0. The cellular quinone content contained exclusively ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. The polyamine pattern was composed of putrescine, 2-hydroxputrescine, and spermidine.
ER  -

SEDLÁČEK, Ivo, Pavla HOLOCHOVÁ, Roman SOBOTKA, Hans-Jürgen BUSSE, Pavel ŠVEC, Stanislava KRÁLOVÁ, Ondrej ŠEDO, Jan PILNÝ, Eva STAŇKOVÁ, Vendula KOUBLOVÁ and Karel SEDLÁŘ. Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov. \textit{Microbiology Spectrum}. American Society for Microbiology, 2021, vol.~9, No~1, p.~1-14. ISSN~2165-0497. Available from: https://dx.doi.org/10.1128/Spectrum.00452-21.

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