Identification of Insertion Sequence from a γ-Hexachlorocyclohexane Degrading Bacterium,<i>Sphingomonas paucimobilis</i>UT26

Miyauchi, Keisuke; Fukuda, Masao; Tsuda, Masashi; Takagi, Masamichi; Nagata, Yasunobu

doi:10.1271/bbb.69.216

Cited by 3 publications

(3 citation statements)

References 16 publications

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“…The PCR was based on the ISsp1 (accession number AB021963.1) and IS6100 (accession number X53635) sequences previously described for the lindane-degrading S. japonicum UT26 and S. indicum B90A (Dogra et al, 2004;Miyauchi et al, 2005), respectively. The PCR was based on the ISsp1 (accession number AB021963.1) and IS6100 (accession number X53635) sequences previously described for the lindane-degrading S. japonicum UT26 and S. indicum B90A (Dogra et al, 2004;Miyauchi et al, 2005), respectively.…”

Section: Resultsmentioning

confidence: 99%

“…To determine if ISs were involved in the linA and linX gene deletion in Sp1À and Sp2À , IS detection by PCR and IS entrapment were performed. The PCR was based on the ISsp1 (accession number AB021963.1) and IS6100 (accession number X53635) sequences previously described for the lindane-degrading S. japonicum UT26 and S. indicum B90A (Dogra et al, 2004;Miyauchi et al, 2005), respectively. Although ISsp1 was not detected using the primers ISsp1R/ ISsp1F, IS6100 was detected by PCR in Sp1.…”

Section: Resultsmentioning

confidence: 99%

“…The objectives of our study were (1) to locate the genes encoding for the degradation of lindane in the genome S. francense strain Sp1, (2) to compare the gene locations with that of two different nonlindane-degrading mutants S. francense strains Sp1À and Sp2À , (3) to look for novel ISs in addition to the ISs previously identified (IS6100 and ISsp1) in other hexachlorocyclohexane-degradative isolates (Dogra et al, 2004;Miyauchi et al, 2005) and (4) localize those ISs in relation to lin genes and particularly to the first lin gene, linA.…”

Section: Introductionmentioning

confidence: 99%

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Plasmid-encoded Î³-hexachlorocyclohexane degradation genes and insertion sequences inSphingobium francense(ex-Sphingomonas paucimobilisSp+)

Cérémonie¹,

Boubakri

Mavingui

et al. 2006

FEMS Microbiology Letters

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The lin genes encode the gamma-hexachlorocyclohexane (gamma-HCH or lindane) catabolic pathway in lindane-degrading strains. The location and stability of these genes have been explored in the lindane-degrading Sphingobium francense strain Sp+, and in two non-lindane-degrading mutants (Sp1- and Sp2-). The lin genes, linA, linB, linE and linX were localized by hybridization on three of the six plasmids of the S. francense strain Sp+ showing dispersal within the genome. The linC gene was detected by PCR, but was not detected by hybridization on any of the plasmids. The hybridization of the linA and linX genes was negative with the two non-lindane-degrading mutants S. francense strains, Sp1- and Sp2-. The dynamic of this genome associated with gene loss and acquisition, and plasmid rearrangement was explored by a search for associated insertion sequences. A new insertion sequence, ISSppa4, belonging to the IS21 family was detected and compared with IS6100 and ISsp1. Insertion sequence localization was explored on different hybridization patterns (plasmid, total genome) with the lindane-degrading Sp+ strain and the two non-degrading derivatives (Sp1-, Sp2-). Insertion sequence movement and plasmid rearrangement could explain the emergence of the non-lindane-degrading mutants.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Plasmid-encoded Î³-hexachlorocyclohexane degradation genes and insertion sequences inSphingobium francense(ex-Sphingomonas paucimobilisSp+)

Cérémonie¹,

Boubakri

Mavingui

et al. 2006

FEMS Microbiology Letters

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Aerobic degradation of lindane (γ-hexachlorocyclohexane) in bacteria and its biochemical and molecular basis

Nagata

Endo

Ito

et al. 2007

Appl Microbiol Biotechnol

189

149

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gamma-Hexachlorocyclohexane (gamma-HCH, also called gamma-BHC and lindane) is a halogenated organic insecticide that causes serious environmental problems. The aerobic degradation pathway of gamma-HCH was extensively revealed in bacterial strain Sphingobium japonicum (formerly Sphingomonas paucimobilis) UT26. gamma-HCH is transformed to 2,5-dichlorohydroquinone through sequential reactions catalyzed by LinA, LinB, and LinC, and then 2,5-dichlorohydroquinone is further metabolized by LinD, LinE, LinF, LinGH, and LinJ to succinyl-CoA and acetyl-CoA, which are metabolized in the citrate/tricarboxylic acid cycle. In addition to these catalytic enzymes, a putative ABC-type transporter system encoded by linKLMN is also essential for the gamma-HCH utilization in UT26. Preliminary examination of the complete genome sequence of UT26 clearly demonstrated that lin genes for the gamma-HCH utilization are dispersed on three large circular replicons with sizes of 3.5 Mb, 682 kb, and 191 kb. Nearly identical lin genes were also found in other HCH-degrading bacterial strains, and it has been suggested that the distribution of lin genes is mainly mediated by insertion sequence IS6100 and plasmids. Recently, it was revealed that two dehalogenases, LinA and LinB, have variants with small number of amino acid differences, and they showed dramatic functional differences for the degradation of HCH isomers, indicating these enzymes are still evolving at high speed.

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Genomic organization and genomic structural rearrangements of Sphingobium japonicum UT26, an archetypal γ-hexachlorocyclohexane-degrading bacterium

Nagata

Natsui

Endo

et al. 2011

Enzyme and Microbial Technology

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Identification of Insertion Sequence from a γ-Hexachlorocyclohexane Degrading Bacterium,Sphingomonas paucimobilisUT26

Cited by 3 publications

References 16 publications

Plasmid-encoded Î³-hexachlorocyclohexane degradation genes and insertion sequences inSphingobium francense(ex-Sphingomonas paucimobilisSp+)

Plasmid-encoded Î³-hexachlorocyclohexane degradation genes and insertion sequences inSphingobium francense(ex-Sphingomonas paucimobilisSp+)

Aerobic degradation of lindane (γ-hexachlorocyclohexane) in bacteria and its biochemical and molecular basis

Genomic organization and genomic structural rearrangements of Sphingobium japonicum UT26, an archetypal γ-hexachlorocyclohexane-degrading bacterium

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