Draft genome sequence of Kocuria sp. SM24M-10 isolated from coral mucus

Palermo, Bruna Rafaella Zanardi; Castro, Daniel Bedo Assumpção; Pereira, Letícia Bianca; Cauz, Ana Carolina Guimarães; Magalhães, Beatriz L.; Carlos, Camila; Costa, Felipe Osório; Scagion, Guilherme Pereira; Higa, Juliana Suyama; Almeida, Ludimila Dias; Neves, Meiriele da Silva das; Cordeiro, Melina Aparecida; Prado, Paula Favoretti Vital do; Silva, Thiago M. da; Balsalobre, Thiago Willian Almeida; Paulino, Luciana Campos; Vicentini, Renato; Ferraz, Lúcio Fábio Caldas; Ottoboni, Laura Maria Mariscal

doi:10.1016/j.gdata.2015.12.016

Cited by 7 publications

(2 citation statements)

References 28 publications

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“…The genome sequences of K. flava HO-9041 from inland air, Kocuria sp. SM24M-10 from the mucus of the coral Mussismilia hispida ( Palermo et al, 2016 ), K. indica DSM 25126 from a marine sediment sample ( Dastager et al, 2014 ), K. rhizophila P7-4 from the intestine of the fish Siganus doliatus ( Kim et al, 2011 ) and K. rhizophila DC2201 from a soil sample ( Takarada et al, 2008 ) were downloaded from NCBI 3 and served as the reference genomes for subsequent analysis. Genome alignment of K. flava S43 and K. flava HO-9041 was carried out using MAUVE software ( Darling et al, 2010 ).…”

Section: Methodsmentioning

confidence: 99%

Comparative Genomics Provides Insights Into the Marine Adaptation in Sponge-Derived Kocuriaflava S43

et al. 2018

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Sponge-derived actinomycetes represent a significant component of marine actinomycetes. Members of the genus Kocuria are distributed in various habitats such as soil, rhizosphere, clinical specimens, marine sediments, and sponges, however, to date, little is known about the mechanism of their environmental adaptation. Kocuria flava S43 was isolated from a coastal sponge. Phylogenetic analysis revealed that it was closely related to the terrestrial airborne K. flava HO-9041. In this study, to gain insights into the marine adaptation in K. flava S43 we sequenced the draft genome for K. flava S43 by third generation sequencing (TGS) and compared it with those of K. flava HO-9041 and some other Kocuria relatives. Comparative genomics and phylogenetic analyses revealed that K. flava S43 might adapt to the marine environment mainly by increasing the number of the genes linked to potassium homeostasis, resistance to heavy metals and phosphate metabolism, and acquiring the genes associated with electron transport and the genes encoding ATP-binding cassette (ABC) transporter, aquaporin, and thiol/disulfide interchange protein. Notably, gene acquisition was probably a primary mechanism of environmental adaptation in K. flava S43. Furthermore, this study also indicated that the Kocuria isolates from various marine and hyperosmotic environments possessed common genetic basis for environmental adaptation.

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Section: Methodsmentioning

confidence: 99%

Comparative Genomics Provides Insights Into the Marine Adaptation in Sponge-Derived Kocuriaflava S43

et al. 2018

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“…And K. marina was reported as an emerging pathogen in wild rats ( Loong et al, 2016 ). In aquatic animals, we only found that Kocuria genus strains were isolated from sponge ( Palomo et al, 2013 ) and coral mucus ( Palermo et al, 2016 ), and in these studies, they did not accurately identify the strains or indicate that the isolates could cause infection or death. And only one literature showed that K. sediminis was isolated from marine sedimental samples.…”

Section: Discussionmentioning

confidence: 84%

A new pathogenic isolate of Kocuria kristinae identified for the first time in the marine fish Larimichthys crocea

et al. 2023

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In recent years, new emerging pathogenic microorganisms have frequently appeared in animals, including marine fish, possibly due to climate change, anthropogenic activities, and even cross-species transmission of pathogenic microorganisms among animals or between animals and humans, which poses a serious issue for preventive medicine. In this study, a bacterium was clearly characterized among 64 isolates from the gills of diseased large yellow croaker Larimichthys crocea that were raised in marine aquaculture. This strain was identified as K. kristinae by biochemical tests with a VITEK 2.0 analysis system and 16S rRNA sequencing and named K. kristinae_LC. The potential genes that might encode virulence-factors were widely screened through sequence analysis of the whole genome of K. kristinae_LC. Many genes involved in the two-component system and drug-resistance were also annotated. In addition, 104 unique genes in K. kristinae_LC were identified by pan genome analysis with the genomes of this strain from five different origins (woodpecker, medical resource, environment, and marine sponge reef) and the analysis results demonstrated that their predicted functions might be associated with adaptation to living conditions such as higher salinity, complex marine biomes, and low temperature. A significant difference in genomic organization was found among the K. kristinae strains that might be related to their hosts living in different environments. The animal regression test for this new bacterial isolate was carried out using L. crocea, and the results showed that this bacterium could cause the death of L. crocea and that the fish mortality was dose-dependent within 5 days post infection, indicating the pathogenicity of K. kristinae_LC to marine fish. Since K. kristinae has been reported as a pathogen for humans and bovines, in our study, we revealed a new isolate of K. kristinae_LC from marine fish for the first time, suggesting the potentiality of cross-species transmission among animals or from marine animals to humans, from which we would gain insight to help in future public prevention strategies for new emerging pathogens.

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Kocuria

Şahi̇n¹,

Ay²,

Saygin³

2021

Bergey's Manual of Systematics of Archaea and Bacteria

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Ko.cu'ri.a. N.L. fem. n. Kocuria , named after Miroslav Kocur, a Slovakian microbiologist for his pioneering studies on Gram‐stain‐positive cocci. Actinobacteria / Actinomycetia / Micrococcales / Micrococcaceae / Kocuria The genus Kocuria accommodates chemoorganotroph, aerobic, and Gram‐stain‐positive bacteria that can be isolated from various habitats. Cells of these actinobacteria are coccoid or spherical, which develop yellow‐orange or pink‐red colonies. Kocuria species are able to use various carbon sources and produce acids from one or more carbohydrates, which differentiate them from the genus Micrococcus . Most strains of the genus are capable of growing at 20–37°C, while some strains can also grow at 5°C. Salt tolerance among the species is variable, and some strains can tolerate NaCl up to 15%. Members of the genus Kocuria have relatively small genomes ranging between 2.7 and 4.1 Mb. All sequenced genomes of Kocuria have operons responsible for resistance to antibiotics and toxic compounds. In addition, all genomes contain operons for invasion and intracellular resistance exemplified by the presence of Mycobacterium virulence operons involved in protein synthesis and DNA transcription, which provide evidence for their emergence as opportunistic pathogens in humans. The genomes of Kocuria encode genes for enzymes necessary for biosynthesis of aliphatic hydrocarbons. Kocuria species are characterized as psychrotolerant mesophiles and moderate halotolerants with relatively high salt tolerance. The major fatty acid is anteiso‐C 15:0 . Known habitats are soil, seawater, sediment, air, animal tissues, plant rhizosphere, and fermented food. DNA G + C content (mol%) : 60–74 (from genome sequence). Type species : Kocuria rosea Stackebrandt et al. 1995 (basonym: Micrococcus roseus Flügge 1886 AL ).

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Draft genome sequence of Kocuria sp. SM24M-10 isolated from coral mucus

Cited by 7 publications

References 28 publications

Comparative Genomics Provides Insights Into the Marine Adaptation in Sponge-Derived Kocuriaflava S43

Comparative Genomics Provides Insights Into the Marine Adaptation in Sponge-Derived Kocuriaflava S43

A new pathogenic isolate of Kocuria kristinae identified for the first time in the marine fish Larimichthys crocea

Kocuria

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