Draft Genome Sequence of Caprolactam-Degrading Pseudomonas putida Strain SJ3

Hong, Sung-Jun; Park, Gun-Seok; Khan, Abdur Rahim; Jung, Byung Kown; Park, Yeong-Jun; Yoo, Na-Kyung; Lee, Changhee; Park, Choi Kyu; Shin, Jae‐Ho

doi:10.1128/genomea.00810-15

Cited by 2 publications

(1 citation statement)

References 13 publications

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“…HB4184 and H8234 were found to be placed within a different clade, together with the fresh water isolate GB-1; protein identities of these strains were at least >80%. H8234 has a close relative in the water strain SJ3 [ 43 , 53 ] ( S1 Fig ), this fact could indicate that GB-1, SJ3 and H8234 in clade II could have the same origin.…”

Section: Resultsmentioning

confidence: 99%

Specific Gene Loci of Clinical Pseudomonas putida Isolates

et al. 2016

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Pseudomonas putida are ubiquitous inhabitants of soils and clinical isolates of this species have been seldom described. Clinical isolates show significant variability in their ability to cause damage to hosts because some of them are able to modulate the host’s immune response. In the current study, comparisons between the genomes of different clinical and environmental strains of P. putida were done to identify genetic clusters shared by clinical isolates that are not present in environmental isolates. We show that in clinical strains specific genes are mostly present on transposons, and that this set of genes exhibit high identity with genes found in pathogens and opportunistic pathogens. The set of genes prevalent in P. putida clinical isolates, and absent in environmental isolates, are related with survival under oxidative stress conditions, resistance against biocides, amino acid metabolism and toxin/antitoxin (TA) systems. This set of functions have influence in colonization and survival within human tissues, since they avoid host immune response or enhance stress resistance. An in depth bioinformatic analysis was also carried out to identify genetic clusters that are exclusive to each of the clinical isolates and that correlate with phenotypical differences between them, a secretion system type III-like was found in one of these clinical strains, a determinant of pathogenicity in Gram-negative bacteria.

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Section: Resultsmentioning

confidence: 99%

Specific Gene Loci of Clinical Pseudomonas putida Isolates

et al. 2016

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Iron Uptake Analysis in a Set of Clinical Isolates of Pseudomonas putida

et al. 2016

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Pseudomonas putida strains are frequent inhabitants of soil and aquatic niches and they are occasionally isolated from hospital environments. As the available iron sources in human tissues, edaphic, and aquatic niches are different, we have analyzed iron-uptake related genes in different P. putida strains that were isolated from all these environments. We found that these isolates can be grouped into different clades according to the genetics of siderophore biosynthesis and recycling. The pyoverdine locus of the six P. putida clinical isolates that have so far been completely sequenced, are not closely related; three strains (P. putida HB13667, HB3267, and NBRC14164T) are grouped in Clade I and the other three in Clade II, suggesting possible different origins and evolution. In one clinical strain, P. putida HB4184, the production of siderophores is induced under high osmolarity conditions. The pyoverdine locus in this strain is closely related to that of strain P. putida HB001 which was isolated from sandy shore soil of the Yellow Sea in Korean marine sand, suggesting their possible origin, and evolution. The acquisition of two unique TonB-dependent transporters for xenosiderophore acquisition, similar to those existing in the opportunistic pathogen P. aeruginosa PAO, is an interesting adaptation trait of the clinical strain P. putida H8234 that may confer adaptive advantages under low iron availability conditions.

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Draft Genome Sequence of Caprolactam-Degrading Pseudomonas putida Strain SJ3

Cited by 2 publications

References 13 publications

Specific Gene Loci of Clinical Pseudomonas putida Isolates

Specific Gene Loci of Clinical Pseudomonas putida Isolates

Iron Uptake Analysis in a Set of Clinical Isolates of Pseudomonas putida

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