<p>A nitrile and amide hydrolysing Nesterenkonia sp. was isolated from Antarctic soil and was characterised as a psychrotolerant, halotolerant and alkaliphilic extremophile. Amidases are widely distributed in both prokaryotic and eukaryotic organisms. These enzymes hydrolyze C-N bonds other than peptide bonds and are particularly interesting for their potential industrial application.&nbsp / This study aimed to identify and characterize amidase genes from this novel psychrotolerant microorganism. Using BLAST analysis, two ORFs with conserved amidase sequences were&nbsp / identified from the complete genome sequence of the organism. Two ORFs, AmiF and AmiS, were assigned to two different gene families, the aceta/formamidase family and amidase signature&nbsp / family, respectively. On the genome, the spatial orientation and intergenic distance (1bp overlap) of the ORF‟s suggested that amiF and amiS could possibly be cotranscribed which was confirmed by reverse transcription PCR. A third ORF with a conserved amidase sequence was found &plusmn / 500bps downstream from amiS, suggesting the possible presence of a multi amidase&nbsp / operon. The two genes were cloned and expressed as N-terminal 6x His-Tag fusion proteins. AmiS and Ami F were partially purified using Ni-chelation chromatography. Although both proteins&nbsp / were subjected to activity assay, their activities are yet to be established. Homology modeling of the AmiF and AmiS translated sequences showed that the proteins had the significant similarities&nbsp / to the members of their families. Although the sequence identities between the AmiF and AmiS and their templates were very low (24 % and 25% respectively), the evaluation of the models&nbsp / showed that the quality of the models were good. This study reports the genetic and functional characterisation of amidase genes from the cold adapted microorganisms.</p>

<p>A nitrile and amide hydrolysing Nesterenkonia sp. was isolated from Antarctic soil and was characterised as a psychrotolerant, halotolerant and alkaliphilic extremophile. Amidases are widely distributed in both prokaryotic and eukaryotic organisms. These enzymes hydrolyze C-N bonds other than peptide bonds and are particularly interesting for their potential industrial application.&nbsp / This study aimed to identify and characterize amidase genes from this novel psychrotolerant microorganism. Using BLAST analysis, two ORFs with conserved amidase sequences were&nbsp / identified from the complete genome sequence of the organism. Two ORFs, AmiF and AmiS, were assigned to two different gene families, the aceta/formamidase family and amidase signature&nbsp / family, respectively. On the genome, the spatial orientation and intergenic distance (1bp overlap) of the ORF‟s suggested that amiF and amiS could possibly be cotranscribed which was confirmed by reverse transcription PCR. A third ORF with a conserved amidase sequence was found &plusmn / 500bps downstream from amiS, suggesting the possible presence of a multi amidase&nbsp / operon. The two genes were cloned and expressed as N-terminal 6x His-Tag fusion proteins. AmiS and Ami F were partially purified using Ni-chelation chromatography. Although both proteins&nbsp / were subjected to activity assay, their activities are yet to be established. Homology modeling of the AmiF and AmiS translated sequences showed that the proteins had the significant similarities&nbsp / to the members of their families. Although the sequence identities between the AmiF and AmiS and their templates were very low (24 % and 25% respectively), the evaluation of the models&nbsp / showed that the quality of the models were good. This study reports the genetic and functional characterisation of amidase genes from the cold adapted microorganisms.</p>

Masters of Science / A nitrile and amide hydrolysing Nesterenkonia sp. was isolated from Antarctic soil and was characterised as a psychrotolerant, halotolerant and alkaliphilic extremophile. Amidases are widely distributed in both prokaryotic and eukaryotic organisms. These enzymes hydrolyze C-N bonds other than peptide bonds and are particularly interesting for their potential industrial application. This study aimed to identify and characterize amidase genes from this novel psychrotolerant microorganism. Using BLAST analysis, two ORFs with conserved amidase sequences were identified from the complete genome sequence of the organism. Two ORFs, AmiF and AmiS, were assigned to two different gene families, the aceta/formamidase family and amidase signature family, respectively. On the genome, the spatial orientation and intergenic distance (1bp overlap) of the ORF‟s suggested that amiF and amiS could possibly be cotranscribed which was confirmed by reverse transcription PCR. A third ORF with a conserved amidase sequence was found ±500bps downstream from amiS, suggesting the possible presence of a multi amidase operon. The two genes were cloned and expressed as N-terminal 6x His-Tag fusion proteins. AmiS and Ami F were partially purified using Ni-chelation chromatography. Although both proteins were subjected to activity assay, their activities are yet to be established. Homology modeling of the AmiF and AmiS translated sequences showed that the proteins had the significant similarities to the members of their families. Although the sequence identities between the AmiF and AmiS and their templates were very low (24 % and 25% respectively), the evaluation of the models showed that the quality of the models were good. This study reports the genetic and functional characterisation of amidase genes from the cold adapted microorganisms. / South Africa

京都大学 / 0048 / 新制・課程博士 / 博士(農学) / 甲第19779号 / 農博第2175号 / 新制||農||1041(附属図書館) / 学位論文||H28||N4995(農学部図書室) / 32815 / 京都大学大学院農学研究科応用生命科学専攻 / (主査)教授 小川 順, 教授 阪井 康能, 教授 栗原 達夫 / 学位規則第4条第1項該当 / Doctor of Agricultural Science / Kyoto University / DFAM

The L-asparaginase (ASNase) obtained from yeasts species has been poorly studied and a new yeast ASNase could be an alternative to minimize the side effect in the treatment of lymphoblastic leukemia. The Antarctic ecosystems have a great potential to obtain novel enzymes produced from psychrophilic and psychrotolerant microorganisms. Yeasts isolated from samples collected in the Antarctic Peninsula by the PROANTAR expedition team were tested for the production of ASNase and L-glutaminase (GLNase). From this screening, the strain Leucosporidium scottii L115 presented the highest ASNase activity (6.24 U g-1 of dried cell weight (dcw)) with a combination of low GLNase activity (0.41 U g-1 dcw). The ASNase belonging to L. scottii L115 (LsASNase) was purified 227 fold with a specific activity of 137.01 U mg-1 at 37 ºC, and with 0.93 U mg-1 for GLNase. Moreover, the maximum activity was observed at pH 7.5 at 55 ºC. The enzyme is a multimer presenting a single band of 54.5 kDa of molecular weight in reduced conditions and 462 kDa by size exclusion chromatography. The LsASNase is a glycosylated enzyme that presented a band lower at 25 kDa when was treated with PGNase F. The enzymatic kinetic reveals an allosteric regulation of the enzyme and the kinetic parameters were determined at 37º C, pH 7.0 as K0.5 = 233 &#181;M, kcat = 54.7 s-1 and nH = 1.52 demonstrating a positive cooperativity by the enzyme and the substrate. The ASNase production by L. scottii L115 was improved by applying DoE for the culture medium development. The PB and CDD designs were used to optimize the ASNase production providing the nutrient values of 6.15 g L-1 of proline, 28.34 g L-1 sucrose, and 15.61 g L-1 of glycerol for a maximal production. The synthetic medium containing the optimized quantities was added with the salts: KCl, 0.52 g L-1; MgSO4.7H2O, 0.52 g L-1; CuNO3.3H2O, 0.001 g L-1; ZnSO4.7H2O, 0.001 g L-1; FeSO4.7H2O, 0.001 g L-1.The optimized medium produces a 23.75 ULh-1 of ASNase in shake flask culture. Furthermore, L. scottii is characterized as an oleaginous yeast that accumulates lipids with a suitable fatty acid profile. The production of ASNase and lipids were scaled up in the 1 L bioreactor to evaluate the initial cell concentration, carbon source, and oxygen transfer rate (kLa).The experiments were performed at 15ºC in the bioreactor BIOSTAT®Q plus (Sartorius Stedim, Germany) in batch mode, using 0.5 L of the optimized medium culture in phosphate buffer 50 mM pH 7.0. The initial cell concentration was evaluated at 1%, 3%, and 5% (v/v). Sucrose and glycerol were tested alone to examine if the combination of both is mandatory to produce ASNase. All these assays were carried in duplicate. The kLa was assessed through a CCD design in the range of 1.42 - 123.0 h-1. The performance in bioreactor showed the productivity of 36.95 ULh-1of ASNase under the optimized conditions (growth temperature 15º C, X0: 5 g L-1, pH 7.0, 48 h, kLa 89-92 h-1). The cultivation of L. scottii L115 at 15ºC in sucrose and glycerol as carbon sources generate an interesting lipid profile, where it presents monounsaturated and polyunsaturated lipids. / A L-asparaginase (ASNase) obtida a partir de espécies de leveduras tem sido pouco estudada e uma nova ASNase de levedura pode ser uma alternativa para minimizar os efeitos adversos no tratamento da leucemia linfoblástica. Os ecossistemas Antárticos têm um grande potencial para obter novas enzimas produzidas a partir de microorganismos psicrofílicos e psicotrolerantes. As leveduras isoladas de amostras coletadas na Península Antártica pela equipe de expedição do PROANTAR foram testadas para a produção de ASNase e L-glutaminase (GLNase). A partir desta triagem, a cepa Leucosporidium scottii L115 apresentou a maior atividade de ASNase (6,24 U g-1 dcw) com uma combinação de baixa atividade de GLNase (0,41 U g-1 dcw). A ASNase pertencente a L. scottii L115 (LsASNase) foi purificada 227 vezes com uma atividade específica de 137,01 U mg-1 a 37 ºC e com 0,93 U mg-1 de GLNase. A atividade máxima foi observada a pH 7,5 a 55 ºC. A enzima é um multímero que apresenta uma banda única de 54,5 kDa de peso molecular em condições redutoras e 462 kDa por cromatografia de exclusão molecular. A LsASNase é uma enzima glicosilada que apresentou uma banda menor a 25 kDa quando tratada com PGNase F. A cinética enzimática revela uma regulação alostérica da enzima e os parâmetros cinéticos foram determinados a 37º C, pH 7,0 como K0,5 = 233 &#181;M, kcat = 54,7 s-1 e nH = 1,52 demonstrando uma cooperatividade positiva pela enzima e o substrato. A produção de ASNase por L. scottii L115 foi melhorada aplicando DoE para o desenvolvimento do meio de cultura. Os desenhos experimentais de PB e CDD forma usados para otimizar a produção de ASNase e forneceram os valores de nutrientes de 6,15 gL-1 de prolina, 28,34 gL-1 de sacarose e 15,61 gL-1 de glicerol para uma produção máxima. O meio sintético contendo as quantidades otimizadas foi adicionado com os sais: : KCl, 0.52 g L-1; MgSO4.7H2O, 0.52 g L-1; CuNO3.3H2O, 0.001 g L-1; ZnSO4.7H2O, 0.001 g L-1; FeSO4.7H2O, 0.001 g L-1.O meio otimizado produz 23.75 ULh-1 de ASNase em cultivo em frasco agitado. Além disso, L. scottii é caracterizada como uma levedura oleaginosa que acumula lipídios com um perfil adequado de ácidos graxos. A produção de ASNase e lipídios foi ampliada no biorreator de 1 L para avaliar a concentração celular inicial, fonte de carbono e taxa de transferência de oxigênio (kLa). Os experimentos foram realizados a 15ºC no biorreator BIOSTAT®Q plus (Sartorius Stedim) em modo batelada, utilizando 0,5 L da cultura de meio otimizado em tampão fosfato 50 mM pH 7,0. A concentração celular inicial foi avaliada em 1%, 3% e 5% (v / v). Sacarose e glicerol foram testados isoladamente para examinar se a combinação de ambos é obrigatória para produzir ASNase. Todos esses ensaios foram realizados em duplicado. O kLa foi avaliado através de um planejamento CCD na faixa de 1,42-123,0 h-1. O desempenho no biorreator mostrou a produtividade de 36,95 ULh-1 de ASNase sob condições otimizadas (temperatura de crescimento 15º C, X0: 5 g L-1, pH 7,0, 48 h, kLa 89-92 h-1). O cultivo de L. scottii L115 a 15ºC em sacarose e glicerol como fontes de carbono gera um perfil lipídico interessante, onde apresenta lipídios monoinsaturados e poliinsaturados.

The L-asparaginase (ASNase) obtained from yeasts species has been poorly studied and a new yeast ASNase could be an alternative to minimize the side effect in the treatment of lymphoblastic leukemia. The Antarctic ecosystems have a great potential to obtain novel enzymes produced from psychrophilic and psychrotolerant microorganisms. Yeasts isolated from samples collected in the Antarctic Peninsula by the PROANTAR expedition team were tested for the production of ASNase and L-glutaminase (GLNase). From this screening, the strain Leucosporidium scottii L115 presented the highest ASNase activity (6.24 U g-1 of dried cell weight (dcw)) with a combination of low GLNase activity (0.41 U g-1 dcw). The ASNase belonging to L. scottii L115 (LsASNase) was purified 227 fold with a specific activity of 137.01 U mg-1 at 37 ºC, and with 0.93 U mg-1 for GLNase. Moreover, the maximum activity was observed at pH 7.5 at 55 ºC. The enzyme is a multimer presenting a single band of 54.5 kDa of molecular weight in reduced conditions and 462 kDa by size exclusion chromatography. The LsASNase is a glycosylated enzyme that presented a band lower at 25 kDa when was treated with PGNase F. The enzymatic kinetic reveals an allosteric regulation of the enzyme and the kinetic parameters were determined at 37º C, pH 7.0 as K0.5 = 233 &#181;M, kcat = 54.7 s-1 and nH = 1.52 demonstrating a positive cooperativity by the enzyme and the substrate. The ASNase production by L. scottii L115 was improved by applying DoE for the culture medium development. The PB and CDD designs were used to optimize the ASNase production providing the nutrient values of 6.15 g L-1 of proline, 28.34 g L-1 sucrose, and 15.61 g L-1 of glycerol for a maximal production. The synthetic medium containing the optimized quantities was added with the salts: KCl, 0.52 g L-1; MgSO4.7H2O, 0.52 g L-1; CuNO3.3H2O, 0.001 g L-1; ZnSO4.7H2O, 0.001 g L-1; FeSO4.7H2O, 0.001 g L-1.The optimized medium produces a 23.75 ULh-1 of ASNase in shake flask culture. Furthermore, L. scottii is characterized as an oleaginous yeast that accumulates lipids with a suitable fatty acid profile. The production of ASNase and lipids were scaled up in the 1 L bioreactor to evaluate the initial cell concentration, carbon source, and oxygen transfer rate (kLa).The experiments were performed at 15ºC in the bioreactor BIOSTAT®Q plus (Sartorius Stedim, Germany) in batch mode, using 0.5 L of the optimized medium culture in phosphate buffer 50 mM pH 7.0. The initial cell concentration was evaluated at 1%, 3%, and 5% (v/v). Sucrose and glycerol were tested alone to examine if the combination of both is mandatory to produce ASNase. All these assays were carried in duplicate. The kLa was assessed through a CCD design in the range of 1.42 - 123.0 h-1. The performance in bioreactor showed the productivity of 36.95 ULh-1of ASNase under the optimized conditions (growth temperature 15º C, X0: 5 g L-1, pH 7.0, 48 h, kLa 89-92 h-1). The cultivation of L. scottii L115 at 15ºC in sucrose and glycerol as carbon sources generate an interesting lipid profile, where it presents monounsaturated and polyunsaturated lipids. / A L-asparaginase (ASNase) obtida a partir de espécies de leveduras tem sido pouco estudada e uma nova ASNase de levedura pode ser uma alternativa para minimizar os efeitos adversos no tratamento da leucemia linfoblástica. Os ecossistemas Antárticos têm um grande potencial para obter novas enzimas produzidas a partir de microorganismos psicrofílicos e psicotrolerantes. As leveduras isoladas de amostras coletadas na Península Antártica pela equipe de expedição do PROANTAR foram testadas para a produção de ASNase e L-glutaminase (GLNase). A partir desta triagem, a cepa Leucosporidium scottii L115 apresentou a maior atividade de ASNase (6,24 U g-1 dcw) com uma combinação de baixa atividade de GLNase (0,41 U g-1 dcw). A ASNase pertencente a L. scottii L115 (LsASNase) foi purificada 227 vezes com uma atividade específica de 137,01 U mg-1 a 37 ºC e com 0,93 U mg-1 de GLNase. A atividade máxima foi observada a pH 7,5 a 55 ºC. A enzima é um multímero que apresenta uma banda única de 54,5 kDa de peso molecular em condições redutoras e 462 kDa por cromatografia de exclusão molecular. A LsASNase é uma enzima glicosilada que apresentou uma banda menor a 25 kDa quando tratada com PGNase F. A cinética enzimática revela uma regulação alostérica da enzima e os parâmetros cinéticos foram determinados a 37º C, pH 7,0 como K0,5 = 233 &#181;M, kcat = 54,7 s-1 e nH = 1,52 demonstrando uma cooperatividade positiva pela enzima e o substrato. A produção de ASNase por L. scottii L115 foi melhorada aplicando DoE para o desenvolvimento do meio de cultura. Os desenhos experimentais de PB e CDD forma usados para otimizar a produção de ASNase e forneceram os valores de nutrientes de 6,15 gL-1 de prolina, 28,34 gL-1 de sacarose e 15,61 gL-1 de glicerol para uma produção máxima. O meio sintético contendo as quantidades otimizadas foi adicionado com os sais: : KCl, 0.52 g L-1; MgSO4.7H2O, 0.52 g L-1; CuNO3.3H2O, 0.001 g L-1; ZnSO4.7H2O, 0.001 g L-1; FeSO4.7H2O, 0.001 g L-1.O meio otimizado produz 23.75 ULh-1 de ASNase em cultivo em frasco agitado. Além disso, L. scottii é caracterizada como uma levedura oleaginosa que acumula lipídios com um perfil adequado de ácidos graxos. A produção de ASNase e lipídios foi ampliada no biorreator de 1 L para avaliar a concentração celular inicial, fonte de carbono e taxa de transferência de oxigênio (kLa). Os experimentos foram realizados a 15ºC no biorreator BIOSTAT®Q plus (Sartorius Stedim) em modo batelada, utilizando 0,5 L da cultura de meio otimizado em tampão fosfato 50 mM pH 7,0. A concentração celular inicial foi avaliada em 1%, 3% e 5% (v / v). Sacarose e glicerol foram testados isoladamente para examinar se a combinação de ambos é obrigatória para produzir ASNase. Todos esses ensaios foram realizados em duplicado. O kLa foi avaliado através de um planejamento CCD na faixa de 1,42-123,0 h-1. O desempenho no biorreator mostrou a produtividade de 36,95 ULh-1 de ASNase sob condições otimizadas (temperatura de crescimento 15º C, X0: 5 g L-1, pH 7,0, 48 h, kLa 89-92 h-1). O cultivo de L. scottii L115 a 15ºC em sacarose e glicerol como fontes de carbono gera um perfil lipídico interessante, onde apresenta lipídios monoinsaturados e poliinsaturados.