Genome Sequence of Photobacterium halotolerans MELD1, with Mercury Reductase (
            <i>merA</i>
            ), Isolated from
            <i>Phragmites australis</i>

Mathew, Dony Chacko; Mathew, Gincy Marina; Gicana, Ronnie G.; Huang, Chieh-Chen

doi:10.1128/genomea.00530-15

Cited by 3 publications

(2 citation statements)

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“…Secondary metabolites such as non-ribosomal peptides and polyketides are known to have antagonistic properties, which may constitute an advantage in several ecological niches. Although Photobacterium strains have mostly been studied due to their association with marine animals, their potential in drug discovery and other applications has recently been reported (Wietz et al, 2010b ; Machado et al, 2014 , 2015a , b ; Nielsen et al, 2014 ; Mathew et al, 2015a , b ).…”

Section: Resultsmentioning

confidence: 99%

“…The majority of Photobacterium strains have been isolated from marine environments, although isolation of a P. halotolerans from the rhizosphere of a terrestrial weed has recently been reported (Mathew et al, 2015a , b ). All species of this genus were originally thought to be luminescent, but it has become clear that a large number of species are not luminescent (Lucena et al, 2011 ; Urbanczyk et al, 2011 ).…”

Section: Introductionmentioning

confidence: 99%

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Comparative Genomics Reveals High Genomic Diversity in the Genus Photobacterium

Machado

Gram

2017

Front. Microbiol.

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Vibrionaceae is a large marine bacterial family, which can constitute up to 50% of the prokaryotic population in marine waters. Photobacterium is the second largest genus in the family and we used comparative genomics on 35 strains representing 16 of the 28 species described so far, to understand the genomic diversity present in the Photobacterium genus. Such understanding is important for ecophysiology studies of the genus. We used whole genome sequences to evaluate phylogenetic relationships using several analyses (16S rRNA, MLSA, fur, amino-acid usage, ANI), which allowed us to identify two misidentified strains. Genome analyses also revealed occurrence of higher and lower GC content clades, correlating with phylogenetic clusters. Pan- and core-genome analysis revealed the conservation of 25% of the genome throughout the genus, with a large and open pan-genome. The major source of genomic diversity could be traced to the smaller chromosome and plasmids. Several of the physiological traits studied in the genus did not correlate with phylogenetic data. Since horizontal gene transfer (HGT) is often suggested as a source of genetic diversity and a potential driver of genomic evolution in bacterial species, we looked into evidence of such in Photobacterium genomes. Genomic islands were the source of genomic differences between strains of the same species. Also, we found transposase genes and CRISPR arrays that suggest multiple encounters with foreign DNA. Presence of genomic exchange traits was widespread and abundant in the genus, suggesting a role in genomic evolution. The high genetic variability and indications of genetic exchange make it difficult to elucidate genome evolutionary paths and raise the awareness of the roles of foreign DNA in the genomic evolution of environmental organisms.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Comparative Genomics Reveals High Genomic Diversity in the Genus Photobacterium

Machado

Gram

2017

Front. Microbiol.

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The biology and the importance of Photobacterium species

Moi

Roslan

Leow

et al. 2017

Appl Microbiol Biotechnol

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Photobacterium species are Gram-negative coccobacilli which are distributed in marine habitats worldwide. Some species are unique because of their capability to produce luminescence. Taxonomically, about 23 species and 2 subspecies are validated to date. Genomes from a few Photobacterium spp. have been sequenced and studied. They are considered a special group of bacteria because some species are capable of producing essential polyunsaturated fatty acids, antibacterial compounds, lipases, esterases and asparaginases. They are also used as biosensors in food and environmental monitoring and detectors of drown victim, as well as an important symbiont.

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Genomic sequence analysis of a plant-associated Photobacterium halotolerans MELD1: from marine to terrestrial environment?

Mathew

Mathew³

et al. 2016

Stand in Genomic Sci

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Mercury impacts the function and development of the central nervous system in both humans and wildlife by being a potent neurotoxin. Microbial bioremediation is an important means of remediation of mercury-contaminated soil. The rhizospheric Photobacterium halotolerans strain MELD1 was isolated from mercury and dioxin contaminated site from Tainan, Taiwan. It has been shown to reduce Hg2+ to Hg0. The 4,758,027 bp genome of P. halotolerans MELD1 has a G + C content of 50.88 % and contains 4198 protein-coding and 106 RNA genes. Genomic analysis revealed the presence of a number of interesting gene cluster that maybe involved in heavy metal resistance, rhizosphere competence and colonization of the host plant.Electronic supplementary materialThe online version of this article (doi:10.1186/s40793-016-0177-3) contains supplementary material, which is available to authorized users.

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Genome Sequence of Photobacterium halotolerans MELD1, with Mercury Reductase ( merA ), Isolated from Phragmites australis

Cited by 3 publications

References 8 publications

Comparative Genomics Reveals High Genomic Diversity in the Genus Photobacterium

Comparative Genomics Reveals High Genomic Diversity in the Genus Photobacterium

The biology and the importance of Photobacterium species

Genomic sequence analysis of a plant-associated Photobacterium halotolerans MELD1: from marine to terrestrial environment?

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