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  1. AU="Daisuke Kasai"
  2. AU="Bernadette L. Jenner"
  3. AU=Zhang Jing
  4. AU="Stoica, Maria"
  5. AU="Romina Valentini"
  6. AU="Bagó, György Attila"
  7. AU="Bahrar, Harsh"
  8. AU="Judd, Dallin"

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  1. Artikel ; Online: Characterization and Transcriptional Regulation of n -Alkane Hydroxylase Gene Cluster of Rhodococcus jostii RHA1

    Namiko Gibu / Daisuke Kasai / Takumi Ikawa / Emiko Akiyama / Masao Fukuda

    Microorganisms, Vol 7, Iss 11, p

    2019  Band 479

    Abstract: Gram-positive actinomycete Rhodococcus jostii RHA1 is able to grow on C10 to C19 n -alkanes as a sole source of carbon and energy. To clarify, the n -alkane utilization pathway—a cluster of 5 genes ( alkBrubA1A2BalkU ) which appeared to be involved in n - ...

    Abstract Gram-positive actinomycete Rhodococcus jostii RHA1 is able to grow on C10 to C19 n -alkanes as a sole source of carbon and energy. To clarify, the n -alkane utilization pathway—a cluster of 5 genes ( alkBrubA1A2BalkU ) which appeared to be involved in n -alkane degradation—was identified and the transcriptional regulation of these genes was characterized. Reverse transcription-PCR analyses revealed that these genes constituted an operon and were transcribed in the presence of n -alkane. Inactivation of alkB led to the absence of the ability to utilize n -undecane. The alkB mutation resulted in reduction of growth rates on C10 and C12 n -alkanes; however, growths on C13 to C19 n -alkanes were not affected by this mutation. These results suggested that alkB was essential for the utilization of C10 to C12 n -alkanes. Inactivation of alkU showed the constitutive expression of alkB . Purified AlkU is able to bind to the putative promoter region of alkB , suggesting that AlkU played a role in repression of the transcription of alk operon. The results of this study indicated that alkB was involved in the medium-chain n -alkanes degradation of strain RHA1 and the transcription of alk operon was negatively regulated by alkU -encoded regulator. This report is important to understand the n -alkane degradation pathway of R. jostii , including the transcriptional regulation of alk gene cluster.
    Schlagwörter n -alkane ; n -alkane hydroxylase ; rhodococcus ; tetr-type transcriptional regulator ; Biology (General) ; QH301-705.5
    Thema/Rubrik (Code) 570
    Sprache Englisch
    Erscheinungsdatum 2019-10-01T00:00:00Z
    Verlag MDPI AG
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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

    Daisuke Kasai / Takumi Iwasaki / Kazuki Nagai / Naoto Araki / Tatsunari Nishi / Masao Fukuda

    Scientific Reports, Vol 9, Iss 1, Pp 1-

    2019  Band 11

    Abstract: Abstract 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 ... ...

    Abstract Abstract 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.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 570
    Sprache Englisch
    Erscheinungsdatum 2019-02-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  3. Artikel ; Online: Common origin of methylenedioxy ring degradation and demethylation in bacteria

    Hisashi Takeda / Kazuki Ishikawa / Hinaka Yoshida / Daisuke Kasai / Daigo Wakana / Masao Fukuda / Fumihiko Sato / Tomoo Hosoe

    Scientific Reports, Vol 7, Iss 1, Pp 1-

    2017  Band 8

    Abstract: Abstract Plants produce many specific secondary metabolites as a response to environmental stress, especially biological stress. These compounds show strong biological activities and high stability against degradation by microbes and animals. Berberine, ... ...

    Abstract Abstract Plants produce many specific secondary metabolites as a response to environmental stress, especially biological stress. These compounds show strong biological activities and high stability against degradation by microbes and animals. Berberine, a benzylisoquinoline alkaloid, is found in many plant species and has strong antimicrobial activity, and is often included in traditional herbal medicines. We previously investigated how berberine is degraded in nature and we isolated two berberine-utilizing bacteria. In this study, we characterized the gene encoding the enzyme that degrades the 2,3-methylenedioxy ring of berberine; this ring is important for its activity and stability. Further characterization of several other berberine-utilizing bacteria and the genes encoding key demethylenation enzymes revealed that these enzymes are tetrahydrofolate dependent and similar to demethylation enzymes such as GcvT. Because the degradation of O-methyl groups or the methylenedioxy ring in phenolic compounds such as lignin, lignan and many other natural products, including berberine, is the key step for the catabolism of these compounds, our discovery reveals the common origin of the catabolism of these stable chemicals in bacteria.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 540
    Sprache Englisch
    Erscheinungsdatum 2017-08-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  4. Artikel ; Online: Molecular mechanism of strict substrate specificity of an extradiol dioxygenase, DesB, derived from Sphingobium sp. SYK-6.

    Keisuke Sugimoto / Miki Senda / Daisuke Kasai / Masao Fukuda / Eiji Masai / Toshiya Senda

    PLoS ONE, Vol 9, Iss 3, p e

    2014  Band 92249

    Abstract: DesB, which is derived from Sphingobium sp. SYK-6, is a type II extradiol dioxygenase that catalyzes a ring opening reaction of gallate. While typical extradiol dioxygenases show broad substrate specificity, DesB has strict substrate specificity for ... ...

    Abstract DesB, which is derived from Sphingobium sp. SYK-6, is a type II extradiol dioxygenase that catalyzes a ring opening reaction of gallate. While typical extradiol dioxygenases show broad substrate specificity, DesB has strict substrate specificity for gallate. The substrate specificity of DesB seems to be required for the efficient growth of S. sp. SYK-6 using lignin-derived aromatic compounds. Since direct coordination of hydroxyl groups of the substrate to the non-heme iron in the active site is a critical step for the catalytic reaction of the extradiol dioxygenases, the mechanism of the substrate recognition and coordination of DesB was analyzed by biochemical and crystallographic methods. Our study demonstrated that the direct coordination between the non-heme iron and hydroxyl groups of the substrate requires a large shift of the Fe (II) ion in the active site. Mutational analysis revealed that His124 and His192 in the active site are essential to the catalytic reaction of DesB. His124, which interacts with OH (4) of the bound gallate, seems to contribute to proper positioning of the substrate in the active site. His192, which is located close to OH (3) of the gallate, is likely to serve as the catalytic base. Glu377' interacts with OH (5) of the gallate and seems to play a critical role in the substrate specificity. Our biochemical and structural study showed the substrate recognition and catalytic mechanisms of DesB.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 540
    Sprache Englisch
    Erscheinungsdatum 2014-01-01T00:00:00Z
    Verlag Public Library of Science (PLoS)
    Dokumenttyp Artikel ; Online
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  5. Artikel ; Online: Regulation of vanillate and syringate catabolism by a MarR-type transcriptional regulator DesR in Sphingobium sp. SYK-6

    Takuma Araki / Shusuke Umeda / Naofumi Kamimura / Daisuke Kasai / Shuta Kumano / Tomokuni Abe / Chika Kawazu / Yuichiro Otsuka / Masaya Nakamura / Yoshihiro Katayama / Masao Fukuda / Eiji Masai

    Scientific Reports, Vol 9, Iss 1, Pp 1-

    2019  Band 15

    Abstract: Abstract Vanillate and syringate are major intermediate metabolites generated during the microbial degradation of lignin. In Sphingobium sp. SYK-6, vanillate is O demethylated to protocatechuate by LigM; protocatechuate is then catabolized via the ... ...

    Abstract Abstract Vanillate and syringate are major intermediate metabolites generated during the microbial degradation of lignin. In Sphingobium sp. SYK-6, vanillate is O demethylated to protocatechuate by LigM; protocatechuate is then catabolized via the protocatechuate 4,5-cleavage pathway. Syringate is O demethylated to gallate by consecutive reactions catalyzed by DesA and LigM, and then gallate is subjected to ring cleavage by DesB. Here, we investigated the transcriptional regulation of desA, ligM, and desB involved in vanillate and syringate catabolism. Quantitative reverse transcription-PCR analyses indicated that the transcription of these genes was induced 5.8–37-fold in the presence of vanillate and syringate. A MarR-type transcriptional regulator, SLG_12870 (desR), was identified as the gene whose product bound to the desB promoter region. Analysis of a desR mutant indicated that the transcription of desB, ligM, and desR is negatively regulated by DesR. Purified DesR bound to the upstream regions of desB, ligM, and desR, and the inverted repeat sequences similar to each other in these regions were suggested to be essential for DNA binding of DesR. Vanillate and syringate inhibited DNA binding of DesR, indicating that these compounds are effector molecules of DesR. The transcription of desA was found to be regulated by an as-yet unidentified regulator.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 570
    Sprache Englisch
    Erscheinungsdatum 2019-12-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  6. Artikel: Differentiation of industrial sake yeast strains by a loop-mediated isothermal amplification method that targets the PHO3 gene

    Kuribayashi, Takashi / Daisuke Kasai / Keigo Sato / Ken-ichi Watanabe / Masao Fukuda / Mitsuoki Kaneoke

    The Society for Biotechnology, Japan Journal of bioscience and bioengineering. 2014 Dec., v. 118

    2014  

    Abstract: We developed a loop-mediated isothermal amplification method that targets the PHO3 gene for discriminating sake yeast strains. Our data indicate that this assay is simple, rapid, and useful to use for differentiation of specific yeasts in sake mash. ...

    Abstract We developed a loop-mediated isothermal amplification method that targets the PHO3 gene for discriminating sake yeast strains. Our data indicate that this assay is simple, rapid, and useful to use for differentiation of specific yeasts in sake mash.
    Schlagwörter genes ; loop-mediated isothermal amplification ; mash ; sake ; yeasts
    Sprache Englisch
    Erscheinungsverlauf 2014-12
    Umfang p. 661-664.
    Erscheinungsort Elsevier B.V.
    Dokumenttyp Artikel
    ZDB-ID 1465387-4
    ISSN 1347-4421 ; 1389-1723
    ISSN (online) 1347-4421
    ISSN 1389-1723
    DOI 10.1016/j.jbiosc.2014.05.019
    Datenquelle NAL Katalog (AGRICOLA)

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  7. Artikel: Characterization and functional expression of a rubber degradation gene of a Nocardia degrader from a rubber-processing factory

    Linh, Dao Viet / Daisuke Kasai / Masao Fukuda / Michiro Tabata / Nguyen Lan Huong / Shunsuke Imai / Sou Iijima / To Kim Anh

    The Society for Biotechnology, Japan Journal of bioscience and bioengineering. 2017 Apr., v. 123, no. 4

    2017  

    Abstract: A rubber-degrading bacterial consortium named H2DA was obtained from an enrichment culture with natural rubber latex and rubber-processing factory waste in Vietnam. Gel permeation chromatography analysis revealed that only the strain NVL3 degraded ... ...

    Abstract A rubber-degrading bacterial consortium named H2DA was obtained from an enrichment culture with natural rubber latex and rubber-processing factory waste in Vietnam. Gel permeation chromatography analysis revealed that only the strain NVL3 degraded synthetic poly(cis-1,4-isoprene) into low-molecular-weight intermediates among the three strains found in the H2DA. The 16S-rRNA gene sequence of NVL3 showed the highest identity with that of Nocardia farcinica DSM 43665T. NVL3 accumulated aldehyde intermediates from synthetic poly(cis-1,4-isoprene) on a rubber-overlay plate as indicated by Schiff's staining. NVL3 also degraded deproteinized natural rubber into low-molecular-weight aldehyde intermediates. A latex-clearing protein (lcp) gene ortholog was identified within the genome sequence of NVL3, and it showed a moderate amino-acid identity (54–75%) with the lcp genes from previously reported rubber degraders. The heterologous expression of the NVL3 lcp in Escherichia coli BL21(DE3) allowed us to purify the 46.8-kDa His-tagged lcp gene product (His-Lcp). His-Lcp degraded synthetic poly(cis-1,4-isoprene) and accumulated aldehyde intermediates from deproteinized natural rubber suggesting the functional expression of the lcp gene from a Nocardia degrader in E. coli. Quantitative reverse transcription PCR analysis indicated the strong transcriptional induction of the lcp gene in NVL3 in the presence of synthetic poly(cis-1,4-isoprene). These results suggest the involvement of the lcp gene in rubber degradation in NVL3.
    Schlagwörter aldehydes ; enrichment culture ; Escherichia coli ; gel chromatography ; genes ; heterologous gene expression ; latex ; Nocardia farcinica ; nucleotide sequences ; reverse transcriptase polymerase chain reaction ; rubber ; staining ; transcription (genetics) ; wastes ; Vietnam
    Sprache Englisch
    Erscheinungsverlauf 2017-04
    Umfang p. 412-418.
    Erscheinungsort Elsevier B.V.
    Dokumenttyp Artikel
    ZDB-ID 1465387-4
    ISSN 1347-4421 ; 1389-1723
    ISSN (online) 1347-4421
    ISSN 1389-1723
    DOI 10.1016/j.jbiosc.2016.11.012
    Datenquelle NAL Katalog (AGRICOLA)

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  8. Artikel ; Online: Successful Erlotinib Treatment for a Patient with Gefitinib-Related Hepatotoxicity and Lung Adenocarcinoma Refractory to Intermittently Administered Gefitinib

    Yoshihiro Nishimura / Yasuhiro Funada / Daisuke Kasai / Daisuke Tamura / Suya Hori / Kazuyuki Kobayashi / Yukihisa Hatakeyama / Masahiro Katsurada / Yoshikazu Kotani / Tatsuya Nagano

    Case Reports in Pulmonology, Vol

    2011  Band 2011

    Schlagwörter Diseases of the respiratory system ; RC705-779 ; Specialties of internal medicine ; RC581-951 ; Internal medicine ; RC31-1245 ; Medicine ; R ; DOAJ:Internal medicine ; DOAJ:Medicine (General) ; DOAJ:Health Sciences
    Sprache Englisch
    Erscheinungsdatum 2011-01-01T00:00:00Z
    Verlag Hindawi Publishing Corporation
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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