Pub Date : 2018-06-30DOI: 10.32889/actabioina.v1i1.2
Syazili Mustofa, W. Bahagia, E. Kurniawaty, K. A. Audah
Background: Cigarette smoke is free radical that causing some pathological conditions such as inflammation, proteolysis, and oxidative stress. In previous studies, mangrove (Rhizophora apiculata) bark extract showed the potential effect as an antioxidant. Mangrove and mangrove associates are abundant plants that grow throughout Indonesian shorelines that have high pharmaceutical and food values. Objective: The purpose of this study is to explore the potential of Rhizophora apiculata bark extract in protecting pancreas of male white rat (Rattus novergicus) Sprague Dawley strain exposed to cigarette smoke. Methods: This research was an experimental study using a posttest-only control group design. Mangrove bark was extracted by using the maceration method. Cigarette smoke exposure was performed using an electric cigarette. Liver inflammation is assessed histopathologically. Results: Significant results (p <0.05) were found between the control and cigarette groups as well as the cigarette and bark extract + control groups. The results were not significant (p> 0.05) between the control and the bark extract + cigarette. Conclusion : The administration of mangrove bark extract has a potential to protect the damage of pancreatic male white rats (Rattus norvegicus) Sprague Dawley strains exposed to cigarette smoke
{"title":"The effect of mangrove (Rhizophora apiculata) bark extract ethanol on histopathology pancreas of male white rats Sprague Dawley strain exposed to cigarette smoke","authors":"Syazili Mustofa, W. Bahagia, E. Kurniawaty, K. A. Audah","doi":"10.32889/actabioina.v1i1.2","DOIUrl":"https://doi.org/10.32889/actabioina.v1i1.2","url":null,"abstract":"Background: Cigarette smoke is free radical that causing some pathological conditions such as inflammation, proteolysis, and oxidative stress. In previous studies, mangrove (Rhizophora apiculata) bark extract showed the potential effect as an antioxidant. Mangrove and mangrove associates are abundant plants that grow throughout Indonesian shorelines that have high pharmaceutical and food values. \u0000Objective: The purpose of this study is to explore the potential of Rhizophora apiculata bark extract in protecting pancreas of male white rat (Rattus novergicus) Sprague Dawley strain exposed to cigarette smoke. \u0000Methods: This research was an experimental study using a posttest-only control group design. Mangrove bark was extracted by using the maceration method. Cigarette smoke exposure was performed using an electric cigarette. Liver inflammation is assessed histopathologically. \u0000Results: Significant results (p <0.05) were found between the control and cigarette groups as well as the cigarette and bark extract + control groups. The results were not significant (p> 0.05) between the control and the bark extract + cigarette. \u0000Conclusion : The administration of mangrove bark extract has a potential to protect the damage of pancreatic male white rats (Rattus norvegicus) Sprague Dawley strains exposed to cigarette smoke","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"8 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124839776","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-06-30DOI: 10.32889/actabioina.v1i1.4
D. Limanan, N. Christian, E. Efrany, E. Yulianti, F. Ferdinal
Background: Aging is a process that every living creature will pass through and involves various factors. Increased inflammatory factors can be caused by hypoxia which forms Reactive Oxygen Species (ROS) and damages macromolecules and causes the acceleration of the aging process. Maja plants, empirically have long been used as medicinal plants, research on Maja leaves shows anti-inflammatory and antioxidant potential. Objective: The purpose of this study was to find out and understand the potential of Maja fruit in the presence of inflammatory markers of IL-6 and TNF-α which are involved in the aging process. Methods: This research was in vivo experimental, using male experimental animals Sprague Dawley rats divided into 8 groups (n = 4), and divided into 2 groups (fed with Maja ethanol extract (400 mg/ kg/day, 14 days) and not force-fed). Each group was divided into 4 subgroups (normoxia, hypoxia (O2 8%, N2 92%) for 3, 7 and 14 days). At the end of the trial period, animal blood was examined for IL-6 and TNF-α concentrations using the ELISA method. Results: The results showed an increase in levels of IL-6 and TNF-α both in the group fed and not fed in line with the duration of hypoxia when compared with controls. However, groups that are not force-fed show a higher pattern compared to those who are force-fed. Conclusion : The ethanol extract of Maja fruit can help slow down the aging process.
{"title":"The effect of maja fruit (Aegle marmelos (L) correa) on inflammation markers involved in the aging process","authors":"D. Limanan, N. Christian, E. Efrany, E. Yulianti, F. Ferdinal","doi":"10.32889/actabioina.v1i1.4","DOIUrl":"https://doi.org/10.32889/actabioina.v1i1.4","url":null,"abstract":"Background: Aging is a process that every living creature will pass through and involves various factors. Increased inflammatory factors can be caused by hypoxia which forms Reactive Oxygen Species (ROS) and damages macromolecules and causes the acceleration of the aging process. Maja plants, empirically have long been used as medicinal plants, research on Maja leaves shows anti-inflammatory and antioxidant potential. \u0000Objective: The purpose of this study was to find out and understand the potential of Maja fruit in the presence of inflammatory markers of IL-6 and TNF-α which are involved in the aging process. \u0000Methods: This research was in vivo experimental, using male experimental animals Sprague Dawley rats divided into 8 groups (n = 4), and divided into 2 groups (fed with Maja ethanol extract (400 mg/ kg/day, 14 days) and not force-fed). Each group was divided into 4 subgroups (normoxia, hypoxia (O2 8%, N2 92%) for 3, 7 and 14 days). At the end of the trial period, animal blood was examined for IL-6 and TNF-α concentrations using the ELISA method. \u0000Results: The results showed an increase in levels of IL-6 and TNF-α both in the group fed and not fed in line with the duration of hypoxia when compared with controls. However, groups that are not force-fed show a higher pattern compared to those who are force-fed. \u0000Conclusion : The ethanol extract of Maja fruit can help slow down the aging process.","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"24 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134352930","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-06-30DOI: 10.32889/actabioina.v1i1.1
R. Ridwan, F. C. Iswanti, M. Sadikin
Background: Carbonic anhydrases (CAs) are metalloenzymes which catalyze the reversible hydration/dehydration reaction of CO2, in order to maintain the cell homeostasis. These enzymes are found in various tissues and involve in a number of different physiological processes, including ion transport, acid-base balance, bone formation, and gluconeogenesis. Objective: To examine the specific activity of CA and to observe the liver tissue respond to oxidative stress by measured the malondialdehyde (MDA) concentration, in rat liver tissue induced by chronic systemic hypoxia for 1, 3, 5, 7, and 14 days of hypoxia. Results: The study showed that the activity of CA induced by chronic systemic hypoxia significantly increasing at early exposure to the hypoxic condition, at day 1 and days 3 of hypoxia (0.281 and 0.262 nmol/mg protein/minute compared to control 0.155 nmol/mg protein/minute) (p<0.05). No statistical difference at treatments of hypoxia 5, 7, and 14 days. The concentration of MDA also increased significantly on day 3 of liver tissue hypoxia (0.013 nmol/mg compared to control 0.009 nmol/mg liver tissue) (p<0.05), and no statistical differences at day 1, 5, 7, and 14 days of hypoxia. Conclusion: There was damage of membrane cells affected by oxidative stress in the liver tissue of rats induced by chronic systemic hypoxia.
{"title":"The increased of carbonic anhydrase in liver tissue of rat induced by chronic systemic hypoxia","authors":"R. Ridwan, F. C. Iswanti, M. Sadikin","doi":"10.32889/actabioina.v1i1.1","DOIUrl":"https://doi.org/10.32889/actabioina.v1i1.1","url":null,"abstract":"Background: Carbonic anhydrases (CAs) are metalloenzymes which catalyze the reversible hydration/dehydration reaction of CO2, in order to maintain the cell homeostasis. These enzymes are found in various tissues and involve in a number of different physiological processes, including ion transport, acid-base balance, bone formation, and gluconeogenesis. \u0000Objective: To examine the specific activity of CA and to observe the liver tissue respond to oxidative stress by measured the malondialdehyde (MDA) concentration, in rat liver tissue induced by chronic systemic hypoxia for 1, 3, 5, 7, and 14 days of hypoxia. \u0000Results: The study showed that the activity of CA induced by chronic systemic hypoxia significantly increasing at early exposure to the hypoxic condition, at day 1 and days 3 of hypoxia (0.281 and 0.262 nmol/mg protein/minute compared to control 0.155 nmol/mg protein/minute) (p<0.05). No statistical difference at treatments of hypoxia 5, 7, and 14 days. The concentration of MDA also increased significantly on day 3 of liver tissue hypoxia (0.013 nmol/mg compared to control 0.009 nmol/mg liver tissue) (p<0.05), and no statistical differences at day 1, 5, 7, and 14 days of hypoxia. \u0000Conclusion: There was damage of membrane cells affected by oxidative stress in the liver tissue of rats induced by chronic systemic hypoxia.","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"144 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130378842","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-06-30DOI: 10.32889/actabioina.v1i1.5
A. Prijanti, Aa Hawali
Background: Clove is known as antioxidant spice that used in cigarettes, spice for food or soup, and traditional medicine. It is believed that cloves could protect smokers from cigarette-free radicals. Otherwise, the study on clove as an antioxidant was still confused. Objective: To reveal that clove can overcome carbon tetrachloride (CCl4) and its free-radical derives Method: This study was experimental research, using 20 Wistar rats that were divided into 4 groups, Group 1 (CCl4 + cloves 3), group 2 (CCl4 + cloves 1), group 3 (normal control, without being offered treatment), group 4 (positive control, induced by CCl4 and followed by 100 mg alpha-tocopherol), and group 5 (negative control, only induced by CCl4). Rat livers were homogenized and followed with CAT activity measurement using the spectrophotometry method of Mates. Results: There was a significant difference in mean between the groups (p= 0,001). Further test, the Post Hoc showed that there is a significance different between group 1 and 4 (p=0.008), 1 and 5 (p=0.001), 2 and 5 (p=0.001), 3 and 5 (p=0.001), and 4 and 5 (p=0.007). Group 1 (CCl4+Clove3) has the highest catalase activity. Conclusion: Syzygium aromaticum (clove) oral administration with the dose of 200 mg/kg rat body weight against 0.55 mg/kg BW CCl4 show an increase of catalase activity but did not overcome the oxidative stress.
{"title":"Syzygium aromaticum (clove) effect on catalase activity due to carbon tetrachloride-induced oxidative stress in rat liver","authors":"A. Prijanti, Aa Hawali","doi":"10.32889/actabioina.v1i1.5","DOIUrl":"https://doi.org/10.32889/actabioina.v1i1.5","url":null,"abstract":"Background: Clove is known as antioxidant spice that used in cigarettes, spice for food or soup, and traditional medicine. It is believed that cloves could protect smokers from cigarette-free radicals. Otherwise, the study on clove as an antioxidant was still confused. \u0000Objective: To reveal that clove can overcome carbon tetrachloride (CCl4) and its free-radical derives \u0000Method: This study was experimental research, using 20 Wistar rats that were divided into 4 groups, Group 1 (CCl4 + cloves 3), group 2 (CCl4 + cloves 1), group 3 (normal control, without being offered treatment), group 4 (positive control, induced by CCl4 and followed by 100 mg alpha-tocopherol), and group 5 (negative control, only induced by CCl4). Rat livers were homogenized and followed with CAT activity measurement using the spectrophotometry method of Mates. \u0000Results: There was a significant difference in mean between the groups (p= 0,001). Further test, the Post Hoc showed that there is a significance different between group 1 and 4 (p=0.008), 1 and 5 (p=0.001), 2 and 5 (p=0.001), 3 and 5 (p=0.001), and 4 and 5 (p=0.007). Group 1 (CCl4+Clove3) has the highest catalase activity. \u0000Conclusion: Syzygium aromaticum (clove) oral administration with the dose of 200 mg/kg rat body weight against 0.55 mg/kg BW CCl4 show an increase of catalase activity but did not overcome the oxidative stress.","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"119 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115608575","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-06-30DOI: 10.32889/actabioina.v1i1.3
L. G. Haritsyah, M. Sadikin, S. A. Jusman
Background: There is now increasing evidence that HIF-1 is also responsive to a variety of non-hypoxic stimuli. However, the mechanisms by which these non-hypoxic stimuli induce HIF-1α are not completely known, yet, although some evidence points to a role of ROS as messengers regulating HIF activity. Objective: To determine the expression of HIF-1α in liver rat tissue induced by carbon tetrachloride under normoxic conditions, with or without N-acetylcysteine protection. Methods: Twenty-five male Sprague-Dawley rats were divided into 5 groups: normal control rats, normal rats orally administered with coconut oil (1 mL/200 g body weight) for 1 day, rats orally administered with CCl4 (0.55 mg/g body weight) for 1 day, rats injected i.v. with NAC (0.15 mg/g body weight) for 8 days and then orally administered with CCl4 (0.55 mg/g body weight) for 1 day, rats orally administered with CCl4 (0.55 mg/g body weight) for 1 day and then injected i.v. with NAC (0.15 mg/g body weight) for 2 days. The expression of HIF-1α mRNA was measured by real-time RT-PCR using the Livak method. The expression of HIF-1α protein was measured by ELISA assay. Results: The highest HIF-1α mRNA and protein expression found in the group treated by CCl4 and then was gradually lowered in the pre-NAC group, post-NAC group, control group, and last, in the oil group. Conclusion: Our study shows the effect of CCl4-treated rats under normoxic conditions increased the mRNA and protein HIF-1α. NAC post-treatment provide a better protective effect compared with NAC pre-treatment
{"title":"Carbon tetrachloride administration induces the expression of hypoxia inducible factor-1alpha in rat liver","authors":"L. G. Haritsyah, M. Sadikin, S. A. Jusman","doi":"10.32889/actabioina.v1i1.3","DOIUrl":"https://doi.org/10.32889/actabioina.v1i1.3","url":null,"abstract":"Background: There is now increasing evidence that HIF-1 is also responsive to a variety of non-hypoxic stimuli. However, the mechanisms by which these non-hypoxic stimuli induce HIF-1α are not completely known, yet, although some evidence points to a role of ROS as messengers regulating HIF activity. \u0000Objective: To determine the expression of HIF-1α in liver rat tissue induced by carbon tetrachloride under normoxic conditions, with or without N-acetylcysteine protection. \u0000Methods: Twenty-five male Sprague-Dawley rats were divided into 5 groups: normal control rats, normal rats orally administered with coconut oil (1 mL/200 g body weight) for 1 day, rats orally administered with CCl4 (0.55 mg/g body weight) for 1 day, rats injected i.v. with NAC (0.15 mg/g body weight) for 8 days and then orally administered with CCl4 (0.55 mg/g body weight) for 1 day, rats orally administered with CCl4 (0.55 mg/g body weight) for 1 day and then injected i.v. with NAC (0.15 mg/g body weight) for 2 days. The expression of HIF-1α mRNA was measured by real-time RT-PCR using the Livak method. The expression of HIF-1α protein was measured by ELISA assay. \u0000Results: The highest HIF-1α mRNA and protein expression found in the group treated by CCl4 and then was gradually lowered in the pre-NAC group, post-NAC group, control group, and last, in the oil group. \u0000Conclusion: Our study shows the effect of CCl4-treated rats under normoxic conditions increased the mRNA and protein HIF-1α. NAC post-treatment provide a better protective effect compared with NAC pre-treatment","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"50 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123050201","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
H. Wicaksono, Prasetyastuti Prasetyastuti, P. Hastuti, A. Sadewa
Background: Diabetes is a result of oxidative stress which causes the impaired function of pancreatic beta-cells. Fermented tempeh aerobic anaerobic (FETAA) containing gamma-aminobutyric acid and isoflavones can reduce oxidative stress in diabetes. Objective: The aim of this study is to evaluate FETAA in improving pancreatic β-cell function in diabetic mice. Methods: Twenty streptozotocin-induced diabetic mice, divided into four groups (n = 5 each group): DM, DM + FETAA 10 mg/100 g BW, DM + FETAA 20 mg/100 g BW, DM + FETAA 40 mg/100 g BW as well as normal group (n = 5). DM mice were treated with FETAA for 21 days. Fasting glucose was determined using the GOD-PAP method, while insulin level was determined by ELISA. The homeostasis model assessment of β-cell function (HOMA-β) was calculated using the HOMA2 calculator, and the Pdx1 mRNA level was determined by Real Time-PCR. Results: The DM mice group treated with FETAA had lower glucose levels than the DM mice group. FETAA dosage of 40 mg/100 g BW was able to reduce the highest blood glucose levels (p<0.05). DM mice group treated with FETAA had higher levels of insulin and HOMA-β than the DM mice group (p <0.05). Treatment of FETAA 10 mg/100 g BW produced the highest insulin content of 57.44 ± 8.132 pmol/L, while treatment of FETAA 40 mg/100 g BW had a HOMA-β value of 72.86 ± 21.85%. Pdx1 mRNA expression in group FETAA-treated DM mice was higher than the DM mice group, although it was not statistically significant (p> 0.05). Conclusion: FETAA could improve HOMA-β, blood glucose levels, but did not affect Pdx1 mRNA expression.
背景:糖尿病是氧化应激导致胰腺β细胞功能受损的结果。含有γ -氨基丁酸和异黄酮的发酵豆豉可降低糖尿病患者的氧化应激。目的:探讨FETAA对糖尿病小鼠胰腺β细胞功能的改善作用。方法:将20只链脲霉素诱导的糖尿病小鼠分为DM组、DM + FETAA 10 mg/100 g BW组、DM + FETAA 20 mg/100 g BW组、DM + FETAA 40 mg/100 g BW组和正常组(n = 5)，给予FETAA治疗21 d。采用GOD-PAP法测定空腹血糖，ELISA法测定胰岛素水平。采用HOMA2计算器计算稳态模型评估β-细胞功能(HOMA-β)， Real Time-PCR检测Pdx1 mRNA水平。结果:经FETAA处理的DM小鼠血糖水平明显低于DM小鼠组。FETAA用量为40 mg/100 g BW时，可降低最高血糖水平(p < 0.05)。结论:FETAA可改善HOMA-β、血糖水平，但不影响Pdx1 mRNA的表达。
{"title":"The effect of fermented tempeh aerobic anaerobic (FETAA) on pancreatic duodenal homeobox 1 (Pdx1) gene expression and HOMA-beta index in diabetic mice","authors":"H. Wicaksono, Prasetyastuti Prasetyastuti, P. Hastuti, A. Sadewa","doi":"10.32889/actabioina.11","DOIUrl":"https://doi.org/10.32889/actabioina.11","url":null,"abstract":"Background: Diabetes is a result of oxidative stress which causes the impaired function of pancreatic beta-cells. Fermented tempeh aerobic anaerobic (FETAA) containing gamma-aminobutyric acid and isoflavones can reduce oxidative stress in diabetes. \u0000Objective: The aim of this study is to evaluate FETAA in improving pancreatic β-cell function in diabetic mice. \u0000Methods: Twenty streptozotocin-induced diabetic mice, divided into four groups (n = 5 each group): DM, DM + FETAA 10 mg/100 g BW, DM + FETAA 20 mg/100 g BW, DM + FETAA 40 mg/100 g BW as well as normal group (n = 5). DM mice were treated with FETAA for 21 days. Fasting glucose was determined using the GOD-PAP method, while insulin level was determined by ELISA. The homeostasis model assessment of β-cell function (HOMA-β) was calculated using the HOMA2 calculator, and the Pdx1 mRNA level was determined by Real Time-PCR. \u0000Results: The DM mice group treated with FETAA had lower glucose levels than the DM mice group. FETAA dosage of 40 mg/100 g BW was able to reduce the highest blood glucose levels (p<0.05). DM mice group treated with FETAA had higher levels of insulin and HOMA-β than the DM mice group (p <0.05). Treatment of FETAA 10 mg/100 g BW produced the highest insulin content of 57.44 ± 8.132 pmol/L, while treatment of FETAA 40 mg/100 g BW had a HOMA-β value of 72.86 ± 21.85%. Pdx1 mRNA expression in group FETAA-treated DM mice was higher than the DM mice group, although it was not statistically significant (p> 0.05). \u0000Conclusion: FETAA could improve HOMA-β, blood glucose levels, but did not affect Pdx1 mRNA expression.","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"6 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127266322","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Muhammad Ilham Fahri, R. M. Alatiffa, Sania Isma Yanti, Indira Prakoso, Alysha Naomi Mashitah
Background: Ethidium bromide is a common reagent that is used in nucleic acid staining. However, ethidium bromide has toxic and carcinogenic properties that are harmful to the environment. Phenanthrene dioxygenase (encoded by phdA, phdB, phdC, and phdD genes) in Nocardioides sp. KP7 can oxidize the phenanthridine structure aim to eliminate carcinogenic properties. Objective: This study aims to visualize and predict the structure, active site, and characteristics of the phenanthrene dioxygenase using bioinformatics tools. Methods: Plasmid design were prepared by inserting genes of interest phdA, phdB, phdC, and phdD from the NCBI database. Furthermore, several protein analysis tools were used for structure visualization, active site enzyme improvement, and protein characteristic of phenanthrene dioxygenase. Results: The prediction results found that phenanthrene dioxygenase reacts with the ethidium bromide substrate through the interaction of Fe3+ ions with water. The solubility level of phenanthrene dioxygenase protein is 0.404, suggesting that the protein has low solubility. The protein isoelectric point (pI) is between 5.17 to 5.36, and the protein molecular weight is 121.143 kDa. Conclusion: In silico analysis has supported that recombinant plasmid met characteristics for the construct which consists of gene interest and protein library.
{"title":"In silico recombinant plasmid design of pHA171 with phdABCD insertion for ethidium bromide degradation","authors":"Muhammad Ilham Fahri, R. M. Alatiffa, Sania Isma Yanti, Indira Prakoso, Alysha Naomi Mashitah","doi":"10.32889/actabioina.7","DOIUrl":"https://doi.org/10.32889/actabioina.7","url":null,"abstract":"Background: Ethidium bromide is a common reagent that is used in nucleic acid staining. However, ethidium bromide has toxic and carcinogenic properties that are harmful to the environment. Phenanthrene dioxygenase (encoded by phdA, phdB, phdC, and phdD genes) in Nocardioides sp. KP7 can oxidize the phenanthridine structure aim to eliminate carcinogenic properties. \u0000Objective: This study aims to visualize and predict the structure, active site, and characteristics of the phenanthrene dioxygenase using bioinformatics tools. \u0000Methods: Plasmid design were prepared by inserting genes of interest phdA, phdB, phdC, and phdD from the NCBI database. Furthermore, several protein analysis tools were used for structure visualization, active site enzyme improvement, and protein characteristic of phenanthrene dioxygenase. \u0000Results: The prediction results found that phenanthrene dioxygenase reacts with the ethidium bromide substrate through the interaction of Fe3+ ions with water. The solubility level of phenanthrene dioxygenase protein is 0.404, suggesting that the protein has low solubility. The protein isoelectric point (pI) is between 5.17 to 5.36, and the protein molecular weight is 121.143 kDa. \u0000Conclusion: In silico analysis has supported that recombinant plasmid met characteristics for the construct which consists of gene interest and protein library.","PeriodicalId":145722,"journal":{"name":"Acta Biochimica Indonesiana","volume":"52 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133605127","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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