Pseudomonas aeruginosa Hex1T was isolated from soils contaminated with used lubricating oil from a garage in Córdoba, Argentina. This strain is capable of utilizing this pollutant as the sole carbon and energy source. Here, we present the 6.9-Mb draft genome sequence of Hex1T, which contains many heavy metalresistance genes.Fil: Lujan, Adela Maria. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Centro de Investigaciones en Química Biológica de Córdoba. Universidad Nacional de Córdoba. Facultad de Ciencias Químicas. Centro de Investigaciones en Química Biológica de Córdoba; ArgentinaFil: Feliziani, Sofía. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Centro de Investigaciones en Química Biológica de Córdoba. Universidad Nacional de Córdoba. Facultad de Ciencias Químicas. Centro de Investigaciones en Química Biológica de Córdoba; ArgentinaFil: Smania, Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba. Centro de Investigaciones en Química Biológica de Córdoba. Universidad Nacional de Córdoba. Facultad de Ciencias Químicas. Centro de Investigaciones en Química Biológica de Córdoba; Argentin

Feliziani, Sofía

Lujan, Adela Maria

Smania, Andrea

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Draft Genome Sequence of Pseudomonasaeruginosa Strain Hex1T Isolated fromSoils Contaminated with UsedLubricating Oil in ArgentinaAdela M. Luján, Sofía Feliziani, Andrea M. SmaniaCIQUIBIC, Departamento de Química Biológica, Facultad de Ciencias Químicas, CONICET, Universidad Nacionalde Córdoba, Córdoba, ArgentinaABSTRACT Pseudomonas aeruginosa Hex1T was isolated from soils contaminatedwith used lubricating oil from a garage in Córdoba, Argentina. This strain is capableof utilizing this pollutant as the sole carbon and energy source. Here, we presentthe 6.9-Mb draft genome sequence of Hex1T, which contains many heavy metal-resistance genes.Pseudomonas aeruginosa is a Gram-negative bacterium thoroughly distributed indifferent environments such as water, soil, and plants. It has an extraordinarygenetic and metabolic versatility that allows it to use distinctive compounds as sourcesof carbon and energy. The genome of P. aeruginosa is one of the biggest in the bacterialworld, which contributes to its high versatility and competitiveness for adapting todifferent environments (1).Among these environments, contaminated sites have received particular interestbecause of the possibility of bioremediation by microorganisms capable of degradingenvironmental pollutants. In particular, P. aeruginosa strain Hex1T, isolated from usedmotor oil-contaminated soils from Córdoba, Argentina (2), is able to grow in thispollutant as its sole carbon and energy source. Used motor oil contains heavy polycyclicaromatic hydrocarbons (PAHs) and high levels of metals (3). Therefore, the genomesequencing of strain Hex1T could give useful information about its biodegradation andtoxic metal-resistance mechanisms.Whole-genome sequencing was performed using a paired-end (PE) 2  100 bplibrary on an Illumina MiSeq (INDEAR Genome Sequencing facility, Argentina). The9,930,896 obtained Illumina reads were processed and assembled using the A5 assem-bly pipeline (version A5-miseq 20,150,522), according to the workflow described by Trittet al. (4). The assembly resulted in 51 contigs (minimum, 376 bp; maximum, 714,006 bp;N50, 301,903 bp). The final assembly contained 6,981,653 bp, with a GC content of66% and a median coverage of 75.The genome annotation was performed by submitting the sequences to the RapidAnnotations using Subsystems Technology (RAST) server (5). A total of 6,605 codingsequences (CDSs) were predicted.According to the proposed PAHs degradation mechanisms (6), several putativePHAs catabolic enzymes were found in the Hex1T genome, such as mono and dioxy-genases, dehydrogenases, and the cytochrome P450. In addition, Hex1T presentednumerous (15) genes involved in bacterial resistance to arsenic (arsenic resistanceprotein ArsH, arsenical-resistance protein [ACR3], arsenical pump-driving ATPase,arsenate reductases, and transcriptional regulator ArsR), lead (lead transportingATPases), mercury (mercury resistance operon regulatory protein, mercury resis-tance protein MerT, periplasmic mercury[2] binding protein, and mercury ionReceived 1 November 2016 Accepted 8November 2016 Published 12 January 2017Citation Luján AM, Feliziani S, Smania AM.2017. Draft genome sequence of Pseudomonasaeruginosa strain Hex1T isolated from soilscontaminated with used lubricating oil inArgentina. Genome Announc 5:e01473-16.https://doi.org/10.1128/genomeA.01473-16.Copyright © 2017 Luján et al. This is an open-access article distributed under the terms ofthe Creative Commons Attribution 4.0International license.Address correspondence to Andrea M. Smania,andream.smania@gmail.com.PROKARYOTEScrossmVolume 5 Issue 2 e01473-16 genomea.asm.org 1reductase), copper (multicopper oxidase, copper resistance protein, CopG protein,copper translocating P-type ATPase, and copper resistance protein CopC) andchrome (superoxidase dismutase SodM-like protein ChrF, rhodanase-like proteinChrE, chromate transport protein ChrA). Notably, these genes are present in only afew strains of P. aeruginosa.Information from whole-genome sequencing here obtained indicates that, inaddition to various catabolic abilities, strain Hex1T could have unique resistance toheavy metals. These results will help to reveal the genes coding for enzymessupporting the capability of P. aeruginosa Hex1T to grow and degrade usedlubricating oil.Accession number(s). This whole-genome shotgun project has been deposited atDDBJ/ENA/GenBank under the accession no. LNIV00000000. The version described inthis paper is version LNIV02000000.ACKNOWLEDGMENTSThis work was supported by the Agencia Nacional de Promoción Científica yTecnológica (ANPCYT) grant PICT-2012–2088 (http://www.agencia.gov.ar), and Secre-taría de Ciencia y Técnica (SECYT-UNC) grant 05/C532 (http://www.secyt.unc.edu.ar).A.M.L. was supported by a Marie Curie International Incoming Fellowship within theEuropean Union Seventh Framework Programme. A.M.L, S.F., and A.M.S. were sup-ported by Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET, Argen-tina).REFERENCES1. Stover CK, Pham XQ, Erwin AL, Mizoguchi SD, Warrener P, Hickey MJ,Brinkman FSL, Hufnagle WO, Kowalik DJ, Lagrou M, Garber RL, Goltry L,Tolentino E, Westbrock-Wadman S, Yuan Y, Brody LL, Coulter SN, FolgerKR, Kas A, Larbig K, Lim R, Smith K, Spencer D, Wong GKS, Wu Z, PaulsenIT, Reizer J, Saier MH, Hancock REW, Lory S, Olson MV. 2000. Completegenome sequence of Pseudomonas aeruginosa PAO1, an opportunisticpathogen. Nature 406:959 –964.2. Smania AM, Segura I, Pezza RJ, Becerra C, Albesa I, Argaraña CE. 2004.Emergence of phenotypic variants upon mismatch repair disruption inPseudomonas aeruginosa. Microbiology 150:1327–1338.3. Keith LH, Telliard Wa. 1979. ES&T special report: priority pollutants: I-a perspectiveview. Environ Sci Technol 13:416–423. https://doi.org/10.1021/es60152a601.4. Tritt A, Eisen JA, Facciotti MT, Darling AE. 2012. An integrated pipeline forde novo assembly of microbial genomes. PLoS One 7:e42304. https://doi.org/10.1371/journal.pone.0042304.5. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K,Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL,Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD,Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O. 2008. TheRAST Server: Rapid Annotations using Subsystems Technology. BMCGenomics 9:75.6. Haritash AK, Kaushik CP. 2009. Biodegradation aspects of polycyclic aro-matic hydrocarbons (PAhs): a review. J Hazard Mater 169:1–15. https://doi.org/10.1016/j.jhazmat.2009.03.137.Luján et al.Volume 5 Issue 2 e01473-16 genomea.asm.org 2

Draft genome sequence of Pseudomonas aeruginosa strain Hex1T isolated from soils contaminated with used lubricating oil in Argentina

ABSTRACT
          
            Pseudomonas aeruginosa
            Hex1T was isolated from soils contaminated with used lubricating oil from a garage in Córdoba, Argentina. This strain is capable of utilizing this pollutant as the sole carbon and energy source. Here, we present the 6.9-Mb draft genome sequence of Hex1T, which contains many heavy metal-resistance genes.
          </jats:p

Adela M. Luján

Sofía Feliziani

Andrea M. Smania

Crossref

Draft Genome Sequence of Pseudomonas aeruginosa Strain Hex1T Isolated from Soils Contaminated with Used Lubricating Oil in Argentina

CONICET Digital

Draft Genome Sequence of Pseudomonasaeruginosa Strain Hex1T Isolated fromSoils Contaminated with UsedLubricating Oil in ArgentinaAdela M. Luján, Sofía Feliziani, Andrea M. SmaniaCIQUIBIC, Departamento de Química Biológica, Facultad de Ciencias Químicas, CONICET, Universidad Nacionalde Córdoba, Córdoba, ArgentinaABSTRACT Pseudomonas aeruginosa Hex1T was isolated from soils contaminatedwith used lubricating oil from a garage in Córdoba, Argentina. This strain is capableof utilizing this pollutant as the sole carbon and energy source. Here, we presentthe 6.9-Mb draft genome sequence of Hex1T, which contains many heavy metal-resistance genes.Pseudomonas aeruginosa is a Gram-negative bacterium thoroughly distributed indifferent environments such as water, soil, and plants. It has an extraordinarygenetic and metabolic versatility that allows it to use distinctive compounds as sourcesof carbon and energy. The genome of P. aeruginosa is one of the biggest in the bacterialworld, which contributes to its high versatility and competitiveness for adapting todifferent environments (1).Among these environments, contaminated sites have received particular interestbecause of the possibility of bioremediation by microorganisms capable of degradingenvironmental pollutants. In particular, P. aeruginosa strain Hex1T, isolated from usedmotor oil-contaminated soils from Córdoba, Argentina (2), is able to grow in thispollutant as its sole carbon and energy source. Used motor oil contains heavy polycyclicaromatic hydrocarbons (PAHs) and high levels of metals (3). Therefore, the genomesequencing of strain Hex1T could give useful information about its biodegradation andtoxic metal-resistance mechanisms.Whole-genome sequencing was performed using a paired-end (PE) 2  100 bplibrary on an Illumina MiSeq (INDEAR Genome Sequencing facility, Argentina). The9,930,896 obtained Illumina reads were processed and assembled using the A5 assem-bly pipeline (version A5-miseq 20,150,522), according to the workﬂow described by Trittet al. (4). The assembly resulted in 51 contigs (minimum, 376 bp; maximum, 714,006 bp;N50, 301,903 bp). The ﬁnal assembly contained 6,981,653 bp, with a GC content of66% and a median coverage of 75.The genome annotation was performed by submitting the sequences to the RapidAnnotations using Subsystems Technology (RAST) server (5). A total of 6,605 codingsequences (CDSs) were predicted.According to the proposed PAHs degradation mechanisms (6), several putativePHAs catabolic enzymes were found in the Hex1T genome, such as mono and dioxy-genases, dehydrogenases, and the cytochrome P450. In addition, Hex1T presentednumerous (15) genes involved in bacterial resistance to arsenic (arsenic resistanceprotein ArsH, arsenical-resistance protein [ACR3], arsenical pump-driving ATPase,arsenate reductases, and transcriptional regulator ArsR), lead (lead transportingATPases), mercury (mercury resistance operon regulatory protein, mercury resis-tance protein MerT, periplasmic mercury[2] binding protein, and mercury ionReceived 1 November 2016 Accepted 8November 2016 Published 12 January 2017Citation Luján AM, Feliziani S, Smania AM.2017. Draft genome sequence of Pseudomonasaeruginosa strain Hex1T isolated from soilscontaminated with used lubricating oil inArgentina. Genome Announc 5:e01473-16.https://doi.org/10.1128/genomeA.01473-16.Copyright © 2017 Luján et al. This is an open-access article distributed under the terms ofthe Creative Commons Attribution 4.0International license.Address correspondence to Andrea M. Smania,andream.smania@gmail.com.PROKARYOTEScrossmVolume 5 Issue 2 e01473-16 genomea.asm.org 1reductase), copper (multicopper oxidase, copper resistance protein, CopG protein,copper translocating P-type ATPase, and copper resistance protein CopC) andchrome (superoxidase dismutase SodM-like protein ChrF, rhodanase-like proteinChrE, chromate transport protein ChrA). Notably, these genes are present in only afew strains of P. aeruginosa.Information from whole-genome sequencing here obtained indicates that, inaddition to various catabolic abilities, strain Hex1T could have unique resistance toheavy metals. These results will help to reveal the genes coding for enzymessupporting the capability of P. aeruginosa Hex1T to grow and degrade usedlubricating oil.Accession number(s). This whole-genome shotgun project has been deposited atDDBJ/ENA/GenBank under the accession no. LNIV00000000. The version described inthis paper is version LNIV02000000.ACKNOWLEDGMENTSThis work was supported by the Agencia Nacional de Promoción Cientíﬁca yTecnológica (ANPCYT) grant PICT-2012–2088 (http://www.agencia.gov.ar), and Secre-taría de Ciencia y Técnica (SECYT-UNC) grant 05/C532 (http://www.secyt.unc.edu.ar).A.M.L. was supported by a Marie Curie International Incoming Fellowship within theEuropean Union Seventh Framework Programme. A.M.L, S.F., and A.M.S. were sup-ported by Consejo Nacional de Investigaciones Cientíﬁcas y Técnicas (CONICET, Argen-tina).REFERENCES1. Stover CK, Pham XQ, Erwin AL, Mizoguchi SD, Warrener P, Hickey MJ,Brinkman FSL, Hufnagle WO, Kowalik DJ, Lagrou M, Garber RL, Goltry L,Tolentino E, Westbrock-Wadman S, Yuan Y, Brody LL, Coulter SN, FolgerKR, Kas A, Larbig K, Lim R, Smith K, Spencer D, Wong GKS, Wu Z, PaulsenIT, Reizer J, Saier MH, Hancock REW, Lory S, Olson MV. 2000. Completegenome sequence of Pseudomonas aeruginosa PAO1, an opportunisticpathogen. Nature 406:959–964.2. Smania AM, Segura I, Pezza RJ, Becerra C, Albesa I, Argaraña CE. 2004.Emergence of phenotypic variants upon mismatch repair disruption inPseudomonas aeruginosa. Microbiology 150:1327–1338.3. Keith LH, TelliardWa. 1979. ES&T special report: priority pollutants: I-a perspectiveview. Environ Sci Technol 13:416–423. https://doi.org/10.1021/es60152a601.4. Tritt A, Eisen JA, Facciotti MT, Darling AE. 2012. An integrated pipeline forde novo assembly of microbial genomes. PLoS One 7:e42304. https://doi.org/10.1371/journal.pone.0042304.5. Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K,Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL,Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD,Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O. 2008. TheRAST Server: Rapid Annotations using Subsystems Technology. BMCGenomics 9:75.6. Haritash AK, Kaushik CP. 2009. Biodegradation aspects of polycyclic aro-matic hydrocarbons (PAhs): a review. J Hazard Mater 169:1–15. https://doi.org/10.1016/j.jhazmat.2009.03.137.Luján et al.Volume 5 Issue 2 e01473-16 genomea.asm.org 2

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Draft genome sequence of Pseudomonas aeruginosa strain Hex1T isolated from soils contaminated with used lubricating oil in Argentina

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