Identification and Characterization of Uptake Systems for Glucose and Fructose in &lt;i&gt;Rhodococcus jostii&lt;/i&gt; RHA1

Araki, Naoto; Suzuki, Toru; Miyauchi, Keisuke; Kasai, Daisuke; Masai, Eiji; Fukuda, Masao

doi:10.1159/000324330

Cited by 12 publications

(5 citation statements)

References 71 publications

(38 reference statements)

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“…Actinoplanes sp. strain OR16 and its mutant derivatives were routinely grown at 30 °C in PYM medium (0.5% Bactopeptone, 0.3% yeast extract, and 0.1% MgSO 4 •7H 2 O; pH 7.0) or W minimal salt medium (Araki et al 2011 ) containing 10 mM sodium succinate. Growth on NR or IR was examined using rubber overlay agar plates.…”

Section: Methodsmentioning

confidence: 99%

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Characterization of the genes responsible for rubber degradation in Actinoplanes sp. strain OR16

Gibu

Arata

Kuboki

et al. 2020

Appl Microbiol Biotechnol

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A Gram-positive rubber-degrading bacterium, Actinoplanes sp. strain OR16 (strain NBRC 114529), is able to grow on agar plates containing natural and synthetic rubber as the sole sources of carbon and energy. When this strain was grown on natural rubber latex overlay agar plates, translucent halos around the cells were observed. To identify the natural rubber degradation genes and other features of its metabolism, its complete genome sequence was determined. The genome of OR16 consists of 9,293,892 bp and comprises one circular chromosome (GenBank accession number AP019371.1) with a G + C content of 70.3%. The genome contains 8238 protein-coding and 18 rRNA genes. A homology search of the genome sequence revealed that three genes ( lcp1 , lcp2 , and lcp3 ) are homologous to an extracellular latex-clearing protein (Lcp) of Streptomyces sp. K30. RT-PCR analysis revealed that lcp1 and lcp2 seem to constitute an operon. Purified lcp gene products have oxygen consumption activity toward natural rubber latex, suggesting that all these genes encode rubber-degrading enzymes in OR16. Quantitative reverse transcription-PCR analysis indicated that the transcription of these genes is induced during the growth of OR16 on natural rubber. The genes located adjacent to lcp1 and lcp3 , which code for a TetR/AcrR-type transcriptional regulator, can bind to the promoter regions of these lcp genes. It is suggested that the putative regulators play a role in regulating the transcription of the lcp genes. These results strongly suggested that three lcp genes are required for the utilization of natural rubber in strain OR16. Key Points • The complete genome sequence of Actinoplanes sp. strain OR16 was determined. • Three lcp genes which are involved in the natural rubber degradation in OR16 were identified. • Transcription of these lcp genes is induced during utilization of rubber in OR16. • Two regulators, which bind to the promoter regions of lcp, were determined. Electronic supplementary material The online version of this article (10.1007/s00253-020-10700-1) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

“…3 % y e a s t e x t r a c t , a n d 0 . 1 % MgSO 4 •7H 2 O; pH 7.0) or W minimal salt medium (Araki et al 2011) containing 10 mM sodium succinate. Growth on NR or IR was examined using rubber overlay agar plates.…”

Section: Bacterial Strains Plasmids and Culture Conditionsmentioning

confidence: 99%

Characterization of the genes responsible for rubber degradation in Actinoplanes sp. strain OR16

Gibu

Arata

Kuboki

et al. 2020

Appl Microbiol Biotechnol

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“…Pseudomonas sp. strain PTH10 and its mutant derivatives were routinely grown at 30 °C in Luria-Bertani (LB), 1/5 LB, or W minimal salt medium 44 containing 10 mM OPA or 10 mM succinate. Escherichia coli strains were grown in LB medium at 30 °C or 37 °C.…”

Section: Methodsmentioning

confidence: 99%

2,3-Dihydroxybenzoate meta-Cleavage Pathway is Involved in o-Phthalate Utilization in Pseudomonas sp. strain PTH10

Kasai

Iwasaki²,

Nagai

et al. 2019

Sci Rep

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Pseudomonas sp. strain PTH10 can utilize o-phthalate which is a key intermediate in the bacterial degradation of some polycyclic aromatic hydrocarbons. In this strain, o-phthalate is degraded to 2,3-dihydroxybenzoate and further metabolized via the 2,3-dihydroxybenzoate meta-cleavage pathway. Here, the opa genes which are involved in the o-phthalate catabolism were identified. Based on the enzymatic activity of the opa gene products, opaAaAbAcAd, opaB, opaC, and opaD were found to code for o-phthalate 2,3-dioxygenase, dihydrodiol dehydrogenase, 2,3-dihydroxybenzoate 3,4-dioxygenase, and 3-carboxy-2-hydroxymuconate-6-semialdehyde decarboxylase, respectively. Collectively, these enzymes are thought to catalyze the conversion of o-phthalate to 2-hydroxymuconate-6-semialdehyde. Deletion mutants of the above opa genes indicated that their products were required for the utilization of o-phthalate. Transcriptional analysis showed that the opa genes were organized in the same transcriptional unit. Quantitative analysis of opaAa, opaB, opaC, opaD, opaE, and opaN revealed that, except for opaB and opaC, all other genes were transcriptionally induced during growth on o-phthalate. The constitutive expression of opaB and opaC, and the transcriptional induction of opaD located downstream of opaB, suggest several possible internal promoters are existence in the opa cluster. Together, these results strongly suggest that the opa genes are involved in a novel o-phthalate catabolic pathway in strain PTH10.

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“…Clostridial protein sequences Cac XylT ( Cac 1345), Cac 1339, Cac 1530, Cac 3422 and Cac 3451 of C. acetobutylicum and Cbe XylT ( Cbe 0109) and Cbe 4545 of C. beijerinckii were obtained from the C. acetobutylicum ( http://www.ncbi.nlm.nih.gov/nuccore/15893298 ) and C. beijerinckii ( http://www.ncbi.nlm.nih.gov/nuccore/150014892?report=genbank ) genome websites. Other sequences included in the analysis are as follows: Blo GlcP, Bifidobacterium longum GlcP WP_011068757.1 (Parche et al 2006 ); Bsu AraE, Bacillus subtilis AraE WP_003243899.1 (Krispin and Allmansberger 1998 ); Bsu GlcP, B. subtilis GlcP WP_003245772.1 (Paulsen et al 1998 ); Cgl AraE, Corynebacterium glutamicum AraE BAH60837.1 (Sasaki et al 2009 ); Eco AraE, Escherichia coli AraE WP_000256438.1 (Daruwalla et al 1981 ; Hasona et al 2004 ); Eco FucP, E. coli FucP WP_000528603.1 (Bradley et al 1987 ); Eco GalP, E. coli GalP WP_001112301.1 (Henderson et al 1977 ; Hernández-Montalvo et al 2001 ); Eco XylE, E. coli XylE WP_001097274.1 (Lam et al 1980 ; Sun et al 2012 ); Lbr XylT, Lactobacillus brevis XylT O52733.1 (Chaillou et al 1998 ); Msm GlcP, Mycobacterium smegmatis GlcP WP_011729622.1 (Pimentel-Schmitt et al 2009 ); Pan FucP, Pantoea asanatis FucP WP_013024528.1 (Andreeva et al, 2013 ); Pan GalP, P. asanatis GalP WP_014594508.1 (Andreeva et al 2013 ); Pan XylE, P. asanatis XylE WP_014593545.1 (Andreeva et al 2013 ); Rjo GluP, Rhodococcus jostii GluP WP_009475028.1 (Araki et al 2011 ); Sco GlcP, Streptomyces coelicolor GlcP WP_003971990.1 (van Wezel et al 2005 ); Syn GlcP, Synechocystis sp. PCC6803 GlcP WP_010873345.1 (Zhang et al 1989 ); Zmo Glf, Zymomonas mobilis Glf WP_011240287.1 (Weisser et al 1995 ).…”

Section: Sugar Uptake By Non-phosphotransferase Mechanismsmentioning

confidence: 99%

Sugar uptake by the solventogenic clostridia

Mitchell

2016

World J Microbiol Biotechnol

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The acetone–butanol–ethanol fermentation of solventogenic clostridia was operated as a successful, worldwide industrial process during the first half of the twentieth century, but went into decline for economic reasons. The recent resurgence in interest in the fermentation has been due principally to the recognised potential of butanol as a biofuel, and development of reliable molecular tools has encouraged realistic prospects of bacterial strains being engineered to optimise fermentation performance. In order to minimise costs, emphasis is being placed on waste feedstock streams containing a range of fermentable carbohydrates. It is therefore important to develop a detailed understanding of the mechanisms of carbohydrate uptake so that effective engineering strategies can be identified. This review surveys present knowledge of sugar uptake and its control in solventogenic clostridia. The major mechanism of sugar uptake is the PEP-dependent phosphotransferase system (PTS), which both transports and phosphorylates its sugar substrates and plays a central role in metabolic regulation. Clostridial genome sequences have indicated the presence of numerous phosphotransferase systems for uptake of hexose sugars, hexose derivatives and disaccharides. On the other hand, uptake of sugars such as pentoses occurs via non-PTS mechanisms. Progress in characterization of clostridial sugar transporters and manipulation of control mechanisms to optimise sugar fermentation is described.

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Identification and Characterization of Uptake Systems for Glucose and Fructose in <i>Rhodococcus jostii</i> RHA1

Cited by 12 publications

References 71 publications

Characterization of the genes responsible for rubber degradation in Actinoplanes sp. strain OR16

Characterization of the genes responsible for rubber degradation in Actinoplanes sp. strain OR16

2,3-Dihydroxybenzoate meta-Cleavage Pathway is Involved in o-Phthalate Utilization in Pseudomonas sp. strain PTH10

Sugar uptake by the solventogenic clostridia

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