Hymenobacter nivis sp. nov., isolated from red snow in Antarctica

Kojima, Hisaya; Watanabe, Miho; Tokizawa, Riho; Shinohara, Arisa; Fukui, Manabu

doi:10.1099/ijsem.0.001435

Cited by 31 publications

(15 citation statements)

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“…2017), this result indicates that the amoebae have adapted to a narrow temperature range, around 15°C, which corresponds to the highest temperature reached in the Antarctic summer (Peck et al 2006). Although it is not a protist, the growth of the rod-shape bacterium Hymenobacter nivism, also isolated from Antarctica, has also been observed only at 15 °C (Kojima et al 2016), supporting our data. Meanwhile, the average temperature, measured at the Showa station near the Soya coast, is -19.4 °C (August) to -0.7 °C (January) according to the Japan Meteorological Agency (http://www.jma.go.jp/jma/index.html).…”

Section: Resultssupporting

confidence: 89%

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

et al. 2018

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A free-living amoeba, Naegleria is ubiquitously distributed in various natural environments. Since some Naegleria spp. are exclusively distributed in the Arctic and sub-Antarctic regions, we hypothesized that the amoeba may be useful to determine long-term survival of Naegleria in laboratory conditions at 4 °C. The main objective of the study is to determine that a species of an environmental amoebal isolated can live at low temperatures after a long time. Here, we therefore show long-term survival of an amoeba, Naegleria polaris isolated from a sediment sample, which was collected from Antarctica 10 years ago, and since stored at 4 °C. The sample was put on non-nutrient agar plates with heat-killed Escherichia coli, and then the plate was incubated at 4, 15, or 30 °C. Motile amoebae were seen only when the plate was incubated at 15 °C. The sequencing of ribosomal DNA including internal transcribed spacers (ITS) 1, 5.8S rDNA, and ITS2 region revealed the amoebae to be N. polaris, which is exclusively distributed in the Arctic and sub-Antarctic regions. Scanning electron microscopic observation showed that no typical sucker-like structure was seen on the surface of N. polaris, but the cysts were similar to those of Naegleria fowleri. Thus, our result shows, for the first time, that N. polaris can survive after 10 years of storage at 4 °C. This finding may help us understand the still undescribed effects of environmental samples on viability of amoebae.

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Section: Resultssupporting

confidence: 89%

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

et al. 2018

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“…Species of this genus have recently been isolated from many cold environments, e.g. sediment in the permafrost [5, 7], Antarctic rocks [8], Antarctic soils [1, 9] and snow [10, 11]. At the time of writing, there were 82 species of the genus Hymenobacter recorded on the LPSN (https://lpsn.dsmz.de/genus/hymenobacter, accessed March 2020).…”

Section: Full-textmentioning

confidence: 99%

Hymenobacter artigasi sp. nov., isolated from air sampling in maritime Antarctica

Roldán

Kyrpides

Woyke

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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A rod-shaped and Gram-stain-negative bacterial strain, 1BT, was isolated from an air sample collected at King George Island, maritime Antarctica. Strain 1BT is strictly aerobic, psychrophilic, catalase-positive, oxidase-positive and non-motile. Growth of strain 1BT is observed at 0–20 °C (optimum, 10 °C), pH 6.0–8.0 (optimum, pH 8.0) and in the presence of 0–1.0% NaCl (optimum, 0.5 % NaCl). Phylogenetic analysis based on 16S rRNA gene sequences places strain 1BT within the genus Hymenobacter and shows the highest similarity to Hymenobacter antarcticus VUG-A42aaT (97.5 %). The predominant menaquinone of strain 1BT is MK-7 and the major fatty acids (>10 %) comprise summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c; 32.5 %), iso-C15 : 0 (17.6 %) and anteiso C15 : 0 (12.3 %). The polar lipid profile consists of the major compounds phosphatidylethanolamine, phosphatidylserine, two unidentified aminolipids and one unidentified phospholipid. The DNA G+C content based on the draft genome sequence is 61.2 mol%. Based on the data from the current polyphasic study, 1BT represents a novel species of the genus Hymenobacter , for which the name Hymenobacter artigasi sp. nov. is suggested. The type strain is 1BT (=CCM 8970T=CGMCC 1.16843T).

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“…Hymenobacter nivis P3 T (=DSM 101755 T ; =NBRC 111535 T ) was isolated from algae‐rich red snow in Antarctica during the summer season (Kojima et al ., ). H. nivis was found to be by far the most dominating bacterium co‐existing with algae on the snow surface, suggesting that this strain is well‐adapted to flourish in the coloured snow environment of Antarctica (Fujii et al ., ; Kojima et al ., ). In order to further understand the adaptive strategy behind the success of H. nivis in low temperature and light‐exposed environments, this study takes a closer look at H. nivis P3 T through genome and proteome analyses as well as growth tests.…”

Section: Introductionmentioning

confidence: 97%

“…Heterotrophic bacteria belonging to the genus Hymenobacter , which is a member of the Bacteroidetes phylum, have been isolated from polar environments with high irradiance such as ice, snow, rocks and soil, from the Arctic and Antarctica (Klassen and Foght, ; Koo et al ., ; Ahn et al ., ; Kojima et al ., ; Oh et al ., ; Ordenes‐Aenishanslins et al ., ; Sedlacek et al ., ; Jiang et al ., ). Interestingly, Hymenobacter species have been isolated from algae‐rich environments such as lichen and red‐coloured snow, suggesting that these bacteria are able to withstand environments with high light exposure although they are not photosynthetic (Fujii et al ., ; Ahn et al ., ; Kojima et al ., ; Oh et al ., ; Sedlacek et al ., ). Genome sequencing of several species belonging to Hymenobacter genus have revealed the presence of several nucleotide excision repair pathways, which could contribute to survival in environments with high irradiation (Collins et al ., ; Zhang et al ., ; Dai et al ., ; Oh et al ., ).…”

Section: Introductionmentioning

confidence: 97%

Antarctic heterotrophic bacterium Hymenobacter nivis P3^T displays light‐enhanced growth and expresses putative photoactive proteins

Terashima

Ohashi

Takasuka

et al. 2018

Environ Microbiol Rep

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Summary Hymenobacter nivis P3T is a heterotrophic bacterium isolated from Antarctic red snow generated by algal blooms. Despite being non‐photosynthetic, H. nivis was dominantly found in the red snow environment that is exposed to high light and UV irradiation, suggesting that this species can flourish under such harsh conditions. In order to further understand the adaptive strategies on the snow surface environment of Antarctica, the genome of H. nivis P3T was sequenced and analyzed, which identified genes putatively encoding for light‐reactive proteins such as proteorhodopsin, phytochrome, photolyase and several copies of cryptochromes. Culture‐based experiments revealed that H. nivis P3T growth was significantly enhanced under light conditions, while dark conditions had increased extracellular polymeric substances. Furthermore, the expression of several putative light‐reactive proteins was determined by proteomic analysis. These results indicate that H. nivis P3T is able to potentially utilize light, which may explain its dominance on the red snow surface environment of Antarctica. Originality‐significance statement The role of proteorhodopsin in heterotrophic bacteria is not well‐characterized, as only a handful of proteorhodopsin‐harbouring isolates were shown to have a light‐enhanced phenotype through culture‐based experiments to date. This is the first study that demonstrates light‐stimulated growth and protein expression evidence of photoactive proteins for a non‐marine psychrophile and for a member of the genus Hymenobacter. It is also the first study that provides comprehensive proteome information for this genus. This study presents significant results in understanding the adaptive mechanism of a heterotrophic non‐photosynthetic bacterium thriving on the snow surface environment of Antarctica as well as demonstrating the role of light‐utilization in promoting growth, possibly through proteorhodopsin.

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Hymenobacter nivis sp. nov., isolated from red snow in Antarctica

Cited by 31 publications

References 9 publications

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

Hymenobacter artigasi sp. nov., isolated from air sampling in maritime Antarctica

Antarctic heterotrophic bacterium Hymenobacter nivis P3^T displays light‐enhanced growth and expresses putative photoactive proteins

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Hymenobacter nivis sp. nov., isolated from red snow in Antarctica

Cited by 31 publications

References 9 publications

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

Long-term survival of Naegleria polaris from Antarctica after 10 years of storage at 4 °C

Hymenobacter artigasi sp. nov., isolated from air sampling in maritime Antarctica

Antarctic heterotrophic bacterium Hymenobacter nivis P3T displays light‐enhanced growth and expresses putative photoactive proteins

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Antarctic heterotrophic bacterium Hymenobacter nivis P3^T displays light‐enhanced growth and expresses putative photoactive proteins