Draft Genome Sequence of
            <i>Kocuria rhizophila</i>
            RF, a Radiation-Resistant Soil Isolate

Mehrabadi, Jalil Fallah; Mirzaie, Amir; Ahangar, Nahid; Rahimi, Arian; Rokni‐Zadeh, Hassan

doi:10.1128/genomea.00095-16

Cited by 7 publications

(3 citation statements)

References 13 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The resistance to a wide range of stressors, particularly the resistance to gamma or UV radiation, has been largely described for the genera identified in the collection. Species within the genera Roseomonas ( Kim et al, 2018 ), Kocuria ( Gholami et al, 2015 ; Mehrabadi et al, 2016 ), or Geodermatophilus ( Montero-Calasanz et al, 2013 ; Hezbri et al, 2016 ), among others, have been described as highly resistant to radiation. Moreover, Sphingomonas species, which represent almost 4% of the collection, have been reported to be one of the main inhabitants of solar panels.…”

Section: Discussionmentioning

confidence: 99%

High Culturable Bacterial Diversity From a European Desert: The Tabernas Desert

et al. 2021

View full text Add to dashboard Cite

One of the most diverse ecological niches for microbial bioprospecting is soil, including that of drylands. Drylands are one of the most abundant biomes on Earth, but extreme cases, such as deserts, are considered very rare in Europe. The so-called Tabernas Desert is one of the few examples of a desert area in continental Europe, and although some microbial studies have been performed on this region, a comprehensive strategy to maximize the isolation of environmental bacteria has not been conducted to date. We report here a culturomics approach to study the bacterial diversity of this dryland by using a simple strategy consisting of combining different media, using serial dilutions of the nutrients, and using extended incubation times. With this strategy, we were able to set a large (254 strains) collection of bacteria, the majority of which (93%) were identified through 16S ribosomal RNA (rRNA) gene amplification and sequencing. A significant fraction of the collection consisted of Actinobacteria and Proteobacteria, as well as Firmicutes strains. Among the 254 isolates, 37 different genera were represented, and a high number of possible new taxa were identified (31%), of which, three new Kineococcus species. Moreover, 5 out of the 13 genera represented by one isolate were also possible new species. Specifically, the sequences of 80 isolates held a percentage of identity below the 98.7% threshold considered for potentially new species. These strains belonged to 20 genera. Our results reveal a clear link between medium dilution and isolation of new species, highlight the unexploited bacterial biodiversity of the Tabernas Desert, and evidence the potential of simple strategies to yield surprisingly large numbers of diverse, previously unreported, bacterial strains and species.

show abstract

Section: Discussionmentioning

confidence: 99%

High Culturable Bacterial Diversity From a European Desert: The Tabernas Desert

et al. 2021

View full text Add to dashboard Cite

show abstract

“…In previous reports, in the genus Planococcus, the strains Planococcus citreus DSM 20549, Planococcus maritimus JCM 11543, and Planococcus dechangensis DSM 25,871 were strongly radiation-resistant bacteria [38,80,81]. In the genus Kocuria, several strains from the species Kocuria rhizophila and Kocuria rosea were reported as radiation-resistant [82][83][84].…”

Section: The Traits Of the Strongly Radiation-resistant Bacteria In T...mentioning

confidence: 91%

High Proportions of Radiation-Resistant Strains in Culturable Bacteria from the Taklimakan Desert

Liu

Chen

et al. 2022

Biology

View full text Add to dashboard Cite

The Taklimakan Desert located in China is the second-largest shifting sand desert in the world and is known for its harsh conditions. Types of γ-rays or UV radiation-resistant bacterial strains have been isolated from this desert. However, there is no information regarding the proportions of the radiation-resistant strains in the total culturable microbes. We isolated 352 bacterial strains from nine sites across the Taklimakan Desert from north to south. They belong to Actinobacteria, Firmicutes, Proteobacteria, and Bacteroidetes. The phylum Actinobacteria was the most predominant in abundance and Firmicutes had the highest species richness. Bacteroidetes had the lowest abundance and was found in four sites only, while the other three phyla were found in every site but with different distribution profiles. After irradiating with 1000 J/m2 and 6000 J/m2 UV-C, the strains with survival rates higher than 10% occupied 72.3% and 36.9% of all culturable bacteria, respectively. The members from Proteobacteria had the highest proportions, with survival rates higher than 10%. After radiation with 10 kGy γ-rays, Kocuria sp. TKL1057 and Planococcus sp. TKL1152 showed higher radiation-resistant capabilities than Deinococcus radiodurans R1. Besides obtaining several radiation-resistant extremophiles, this study measured the proportions of the radiation-resistant strains in the total culturable microbes for the first time. This study may help to better understand the origin of radioresistance, especially by quantitatively comparing proportions of radiation-resistant extremophiles from different environments in the future.

show abstract

“…Kocuria spp. are Gram-positive and coccoid bacteria isolated from numerous environments: skin of mammals, marine sediments, soil and food [ 49 , 50 , 51 , 52 , 53 ]. Specifically, K. rhizophila causes a variety of lesions in fish and is responsible for a 50% mortality rate: exophthalmia, skin petechiae, increased skin melanization, liver congestion, inflammation of the intestine and hemorrhages [ 42 ].…”

Section: Discussionmentioning

confidence: 99%

Bacterial Diversity and Antibiotic Susceptibility of Sparus aurata from Aquaculture

et al. 2020

View full text Add to dashboard Cite

In a world where the population continues to increase and the volume of fishing catches stagnates or even falls, the aquaculture sector has great growth potential. This study aimed to contribute to the depth of knowledge of the diversity of bacterial species found in Sparus aurata collected from a fish farm and to understand which profiles of diminished susceptibility to antibiotics would be found in these bacteria that might be disseminated in the environment. One hundred thirty-six bacterial strains were recovered from the S. aurata samples. These strains belonged to Bacillaceae, Bacillales Family XII. Incertae Sedis, Comamonadaceae, Enterobacteriaceae, Enterococcaceae, Erwiniaceae, Micrococcaceae, Pseudomonadaceae and Staphylococcaceae families. Enterobacter sp. was more frequently found in gills, intestine and skin groups than in muscle groups (p ≤ 0.01). Antibiotic susceptibility tests found that non-susceptibility to phenicols was significantly higher in gills, intestine and skin samples (45%) than in muscle samples (24%) (p ≤ 0.01) and was the most frequently found non-susceptibility in both groups of samples. The group of Enterobacteriaceae from muscles presented less decreased susceptibility to florfenicol (44%) than in the group of gills, intestine and skin samples (76%). We found decreased susceptibilities to β-lactams and glycopeptides in the Bacillaceae family, to quinolones and mupirocin in the Staphylococcaceae family, and mostly to β-lactams, phenicols and quinolones in the Enterobacteriaceae and Pseudomonadaceae families. Seven Enterobacter spp. and five Pseudomonas spp. strains showed non-susceptibility to ertapenem and meropenem, respectively, which is of concern because they are antibiotics used as a last resort in serious clinical infections. To our knowledge, this is the first description of species Exiguobacterium acetylicum, Klebsiella michiganensis, Lelliottia sp. and Pantoea vagans associated with S. aurata (excluding cases where these bacteria are used as probiotics) and of plasmid-mediated quinolone resistance qnrB19-producing Leclercia adecarboxylata strain. The non-synonymous G385T and C402A mutations at parC gene (within quinolone resistance-determining regions) were also identified in a Klebsiella pneumoniae, revealing decreased susceptibility to ciprofloxacin. In this study, we found not only bacteria from the natural microbiota of fish but also pathogenic bacteria associated with fish and humans. Several antibiotics for which decreased susceptibility was found here are integrated into the World Health Organization list of “critically important antimicrobials” and “highly important antimicrobials” for human medicine.

show abstract

Draft Genome Sequence of Kocuria rhizophila RF, a Radiation-Resistant Soil Isolate

Cited by 7 publications

References 13 publications

High Culturable Bacterial Diversity From a European Desert: The Tabernas Desert

High Culturable Bacterial Diversity From a European Desert: The Tabernas Desert

High Proportions of Radiation-Resistant Strains in Culturable Bacteria from the Taklimakan Desert

Bacterial Diversity and Antibiotic Susceptibility of Sparus aurata from Aquaculture

Contact Info

Product

Resources

About