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  • 1
    Online Resource
    Online Resource
    Identification of Antimycobacterial from Actinobacteria (INACC A758) Secondary Metabolites using Metabolomics Data
    Penerbit Universiti Kebangsaan Malaysia (UKM Press) ; 2022
    In:  Sains Malaysiana Vol. 51, No. 5 ( 2022-05-31), p. 1465-1473
    Details
    In: Sains Malaysiana, Penerbit Universiti Kebangsaan Malaysia (UKM Press), Vol. 51, No. 5 ( 2022-05-31), p. 1465-1473
    Abstract: Actinobacteria produce active secondary metabolite with medicinal properties, such as antibacterial or anticancer. However, there are some reports about the difficulties in discovering novel secondary metabolites. Therefore, the need for a new approach is obvious. Several factors such as types of nutrients in the culture media or different solvents used for extraction have been proven to influence the Actinobacteria secondary metabolite production. In this study, a combination of culture media optimization and metabolites fingerprint analysis were applied to identify antimycobacterial active compounds from Actinobacteria (InaCC A758). Five culture media were used in the secondary metabolite production of the Actinobacteria. The metabolite fingerprinting was carried out by analyzing the secondary metabolite profile extracted from culture media optimization using UPLC-MS. Multivariate analysis, i.e. cluster analysis and principal component analysis (PCA) was applied. The result showed that a unique antimycobacterial compound candidate against Mycobacterium smegmatis was produced by SYP media cultured InaCC A758 (MIC 6.25 µg/mL).
    Type of Medium: Online Resource
    ISSN: 0126-6039 , 2735-0118
    URL: Issue
    URL: Journal
    URL: Article
    DOI: 10.17576/jsm-2022-5105
    DOI: 10.17576/jsm
    DOI: 10.17576/jsm-2022-5105-16
    Language: Unknown
    Publisher: Penerbit Universiti Kebangsaan Malaysia (UKM Press)
    Publication Date: 2022
    detail.hit.zdb_id: 2751030-X
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  • 2
    Online Resource
    Online Resource
    Prognostic factors for the outcomes of COVID-19 patients infected with SARS-CoV-2 Omicron and Delta variants
    Springer Science and Business Media LLC ; 2023
    In:  BMC Medical Genomics Vol. 16, No. 1 ( 2023-08-29)
    Details
    In: BMC Medical Genomics, Springer Science and Business Media LLC, Vol. 16, No. 1 ( 2023-08-29)
    Abstract: The SARS-CoV-2 Omicron variant has replaced the previously dominant Delta variant because of high transmissibility. However, studies on the impact of the Omicron variant on the severity of COVID-19 are still limited in developing countries. Our study aimed to determine the prognostic factors for the outcomes of patients infected with SARS-CoV-2 Omicron and Delta variants, including age, sex, comorbidities, and smoking. Methods In this retrospective cross-sectional study, we involved 352 patients with COVID-19 from Yogyakarta and Central Java provinces, Indonesia, from May 2021 to February 2022, consisting of 164 males and 188 females. We included all patients with the PCR’s Ct value of less than 30 for further whole-genome sequencing. Results Ct value and mean age of COVID-19 patients were not significantly different between both groups ( p  = 0.146 and 0.273, respectively). Patients infected with Omicron (n = 139) and Delta (n = 213) variants showed similar hospitalization ( p  = 0.396) and mortality rates ( p  = 0.565). Multivariate analysis of both groups showed that older age (≥ 65 years) had a higher risk for hospitalization (OR = 3.86 [95% CI = 1.29–11.5]; p  = 0.015) and fatalities (OR = 3.91 [95% CI = 1.35–11.42]; p  = 0.012). In both groups, patients with cardiovascular disease had a higher risk for hospitalization (OR = 5.36 [95% CI = 1.08–26.52]; p  = 0.039), whereas patients with diabetes revealed a higher risk for fatalities (OR = 9.47 [95% CI = 3.23–27.01]; p  =  〈  0.001). Conclusions Our study shows that patients infected with Omicron and Delta variants reveal similar clinical outcomes, including hospitalization and mortality. Our findings further confirm that older age, cardiovascular disease, and diabetes are substantial prognostic factors for the outcomes of COVID-19 patients. Our findings imply that COVID-19 patients with older age, cardiovascular disease, or diabetes should be treated comprehensively and cautiously to prevent further morbidity and mortality. Furthermore, incomplete data on vaccination status hampered us from analyzing further its impact on hospitalization and mortality in our patients.
    Type of Medium: Online Resource
    ISSN: 1755-8794
    URL: Article
    DOI: 10.1186/s12920-023-01637-1
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2023
    detail.hit.zdb_id: 2411865-5
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  • 3
    Online Resource
    Online Resource
    Supplemental Information 2: Presentation of COVID-19 cases from Yogyakarta and Central Java.
    PeerJ ; 2020
    In:  PeerJ Vol. 8 ( 2020-12-21), p. e10575-
    Details
    In: PeerJ, PeerJ, Vol. 8 ( 2020-12-21), p. e10575-
    Abstract: Recently, SARS-CoV-2 virus with the D614G mutation has become a public concern due to rapid dissemination of this variant across many countries. Our study aims were (1) to report full-length genome sequences of SARS-CoV-2 collected from four COVID-19 patients in the Special Region of Yogyakarta and Central Java provinces, Indonesia; (2) to compare the clade distribution of full-length genome sequences from Indonesia ( n = 60) from March to September 2020 and (3) to perform phylogenetic analysis of SARS-CoV-2 complete genomes from different countries, including Indonesia. Methods Whole genome sequencing (WGS) was performed using next-generation sequencing (NGS) applied in the Illumina MiSeq instrument. Full-length virus genomes were annotated using the reference genome of hCoV-19/Wuhan/Hu-1/2019 ( NC_045512.2 ) and then visualized in UGENE v. 1.30. For phylogenetic analysis, a dataset of 88 available SARS-CoV-2 complete genomes from different countries, including Indonesia, was retrieved from GISAID. Results All patients were hospitalized with various severities of COVID-19. Phylogenetic analysis revealed that one and three virus samples belong to clade L and GH. These three clade GH virus samples (EPI_ISL_525492, EPI_ISL_516800 and EPI_ISL_516829) were not only located in a cluster with SARS-CoV-2 genomes from Asia but also those from Europe, whereas the clade L virus sample (EPI_ISL_516806) was located amongst SARS-CoV-2 genomes from Asia. Using full-length sequences available in the GISAID EpiCoV Database, 39 of 60 SARS-CoV-2 (65%) from Indonesia harbor the D614G mutation. Conclusion These findings indicate that SARS-CoV-2 with the D614G mutation appears to become the major circulating virus in Indonesia, concurrent with the COVID-19 situation worldwide.
    Type of Medium: Online Resource
    ISSN: 2167-8359
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.7717/peerj.10575
    DOI: 10.7717/peerj.10575/fig-1
    DOI: 10.7717/peerj.10575/fig-2
    DOI: 10.7717/peerj.10575/table-1
    DOI: 10.7717/peerj.10575/table-2
    DOI: 10.7717/peerj.10575/table-3
    DOI: 10.7717/peerj.10575/supp-1
    DOI: 10.7717/peerj.10575/supp-2
    Language: English
    Publisher: PeerJ
    Publication Date: 2020
    detail.hit.zdb_id: 2703241-3
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  • 4
    Online Resource
    Online Resource
    Understanding Differences on Using SME’s Web Before and After the Training of SME’s Website Operation (A Case Study of Implementing SME’s Website of Banguntapan and Imogiri)
    Research Center and Community Services (PPPM) Hayam Wuruk Perbanas University ; 2018
    In:  Journal of Economics, Business & Accountancy Ventura Vol. 20, No. 3 ( 2018-03-29)
    Details
    In: Journal of Economics, Business & Accountancy Ventura, Research Center and Community Services (PPPM) Hayam Wuruk Perbanas University, Vol. 20, No. 3 ( 2018-03-29)
    Abstract: This research attempts to test the level of understanding of using website as a marketing media for the agents of SME’s by employing 65 SME’s agents. They have been legalized and have joined the training of website operating in 2016 and 2017. The sample consists of 25 agents of SME’S from Banguntapan and 44 agents from Imogiri. The hypothesis is related to the existence of difference on understanding SME’s website after and before conducting the training of website operating. Based on the analysis of Paired Sample Test by comparing the respond of SME’s agents before and after the training of website operating, it shows that t value -9,282 by 0, 000 significance. It reveals that the training to increase the level of understanding of using website was effectively resulted. It comes to the fact that this activity can increase the selling percentage. The item of new website is expected to be beneficial to increase product selling effectively which has been conducted by SME’S agents. 
    Type of Medium: Online Resource
    ISSN: 2088-785X , 2087-3735
    URL: Article
    DOI: 10.14414/jebav.v20i3.1109
    Language: Unknown
    Publisher: Research Center and Community Services (PPPM) Hayam Wuruk Perbanas University
    Publication Date: 2018
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  • 5
    Online Resource
    Online Resource
    Molecular epidemiology of SARS-CoV-2 isolated from COVID-19 family clusters
    Springer Science and Business Media LLC ; 2021
    In:  BMC Medical Genomics Vol. 14, No. 1 ( 2021-12)
    Details
    In: BMC Medical Genomics, Springer Science and Business Media LLC, Vol. 14, No. 1 ( 2021-12)
    Abstract: Transmission within families and multiple spike protein mutations have been associated with the rapid transmission of SARS-CoV-2. We aimed to: (1) describe full genome characterization of SARS-CoV-2 and correlate the sequences with epidemiological data within family clusters, and (2) conduct phylogenetic analysis of all samples from Yogyakarta and Central Java, Indonesia and other countries. Methods The study involved 17 patients with COVID-19, including two family clusters. We determined the full-genome sequences of SARS-CoV-2 using the Illumina MiSeq next-generation sequencer. Phylogenetic analysis was performed using a dataset of 142 full-genomes of SARS-CoV-2 from different regions. Results Ninety-four SNPs were detected throughout the open reading frame (ORF) of SARS-CoV-2 samples with 58% (54/94) of the nucleic acid changes resulting in amino acid mutations. About 94% (16/17) of the virus samples showed D614G on spike protein and 56% of these (9/16) showed other various amino acid mutations on this protein, including L5F, V83L, V213A, W258R, Q677H, and N811I. The virus samples from family cluster-1 (n = 3) belong to the same clade GH, in which two were collected from deceased patients, and the other from the survived patient. All samples from this family cluster revealed a combination of spike protein mutations of D614G and V213A. Virus samples from family cluster-2 (n = 3) also belonged to the clade GH and showed other spike protein mutations of L5F alongside the D614G mutation. Conclusions Our study is the first comprehensive report associating the full-genome sequences of SARS-CoV-2 with the epidemiological data within family clusters. Phylogenetic analysis revealed that the three viruses from family cluster-1 formed a monophyletic group, whereas viruses from family cluster-2 formed a polyphyletic group indicating there is the possibility of different sources of infection. This study highlights how the same spike protein mutations among members of the same family might show different disease outcomes.
    Type of Medium: Online Resource
    ISSN: 1755-8794
    URL: Article
    DOI: 10.1186/s12920-021-00990-3
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2021
    detail.hit.zdb_id: 2411865-5
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  • 6
    Online Resource
    Online Resource
    Association between prognostic factors and the outcomes of patients infected with SARS-CoV-2 harboring multiple spike protein mutations
    Springer Science and Business Media LLC ; 2021
    In:  Scientific Reports Vol. 11, No. 1 ( 2021-11-01)
    Details
    In: Scientific Reports, Springer Science and Business Media LLC, Vol. 11, No. 1 ( 2021-11-01)
    Abstract: The outcome of SARS-CoV-2 infection is determined by multiple factors, including the viral, host genetics, age, and comorbidities. This study investigated the association between prognostic factors and disease outcomes of patients infected by SARS-CoV-2 with multiple S protein mutations. Fifty-one COVID-19 patients were recruited in this study. Whole-genome sequencing of 170 full-genomes of SARS-CoV-2 was conducted with the Illumina MiSeq sequencer. Most patients (47%) had mild symptoms of COVID-19 followed by moderate (19.6%), no symptoms (13.7%), severe (4%), and critical (2%). Mortality was found in 13.7% of the COVID-19 patients. There was a significant difference between the age of hospitalized patients (53.4 ± 18 years) and the age of non-hospitalized patients (34.6 ± 19) ( p  = 0.001). The patients’ hospitalization was strongly associated with hypertension, diabetes, and anticoagulant and were strongly significant with the OR of 17 (95% CI 2–144; p  = 0.001), 4.47 (95% CI 1.07–18.58; p  = 0.039), and 27.97 (95% CI 1.54–507.13; p  = 0.02), respectively; while the patients’ mortality was significantly correlated with patients’ age, anticoagulant, steroid, and diabetes, with OR of 8.44 (95% CI 1.5–47.49; p  = 0.016), 46.8 (95% CI 4.63–472.77; p  = 0.001), 15.75 (95% CI 2–123.86; p  = 0.009), and 8.5 (95% CI 1.43–50.66; p  = 0.019), respectively. This study found the clade: L (2%), GH (84.3%), GR (11.7%), and O (2%). Besides the D614G mutation, we found L5F (18.8%), V213A (18.8%), and S689R (8.3%). No significant association between multiple S protein mutations and the patients’ hospitalization or mortality. Multivariate analysis revealed that hypertension and anticoagulant were the significant factors influencing the hospitalization and mortality of patients with COVID-19 with an OR of 17.06 (95% CI 2.02–144.36; p  = 0.009) and 46.8 (95% CI 4.63–472.77; p  = 0.001), respectively. Moreover, the multiple S protein mutations almost reached a strong association with patients’ hospitalization ( p  = 0.07). We concluded that hypertension and anticoagulant therapy have a significant impact on COVID-19 outcomes. This study also suggests that multiple S protein mutations may impact the COVID-19 outcomes. This further emphasized the significance of monitoring SARS-CoV-2 variants through genomic surveillance, particularly those that may impact the COVID-19 outcomes.
    Type of Medium: Online Resource
    ISSN: 2045-2322
    URL: Article
    DOI: 10.1038/s41598-021-00459-4
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2021
    detail.hit.zdb_id: 2615211-3
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  • 7
    Online Resource
    Online Resource
    Table_2.DOC
    Frontiers Media SA ; 2021
    In:  Frontiers in Medicine Vol. 8 ( 2021-12-9)
    Details
    In: Frontiers in Medicine, Frontiers Media SA, Vol. 8 ( 2021-12-9)
    Abstract: Background: Severe acute respiratory syndrome Coronavirus 2 (SARS-CoV-2) Delta variant (B.1.617.2) has been responsible for the current increase in Coronavirus disease 2019 (COVID-19) infectivity rate worldwide. We compared the impact of the Delta variant and non-Delta variant on the COVID-19 outcomes in patients from Yogyakarta and Central Java provinces, Indonesia. Methods: In this cross-sectional study, we ascertained 161 patients, 69 with the Delta variant and 92 with the non-Delta variant. The Illumina MiSeq next-generation sequencer was used to perform the whole-genome sequences of SARS-CoV-2. Results: The mean age of patients with the Delta variant and the non-Delta variant was 27.3 ± 20.0 and 43.0 ± 20.9 ( p = 3 × 10 −6 ). The patients with Delta variant consisted of 23 males and 46 females, while the patients with the non-Delta variant involved 56 males and 36 females ( p = 0.001). The Ct value of the Delta variant (18.4 ± 2.9) was significantly lower than that of the non-Delta variant (19.5 ± 3.8) ( p = 0.043). There was no significant difference in the hospitalization and mortality of patients with Delta and non-Delta variants ( p = 0.80 and 0.29, respectively). None of the prognostic factors were associated with the hospitalization, except diabetes with an OR of 3.6 (95% CI = 1.02–12.5; p = 0.036). Moreover, the patients with the following factors have been associated with higher mortality rate than the patients without the factors: age ≥65 years, obesity, diabetes, hypertension, and cardiovascular disease with the OR of 11 (95% CI = 3.4–36; p = 8 × 10 −5 ), 27 (95% CI = 6.1–118; p = 1 × 10 −5 ), 15.6 (95% CI = 5.3–46; p = 6 × 10 −7 ), 12 (95% CI = 4–35.3; p = 1.2 × 10 −5 ), and 6.8 (95% CI = 2.1–22.1; p = 0.003), respectively. Multivariate analysis showed that age ≥65 years, obesity, diabetes, and hypertension were the strong prognostic factors for the mortality of COVID-19 patients with the OR of 3.6 (95% CI = 0.58–21.9; p = 0.028), 16.6 (95% CI = 2.5–107.1; p = 0.003), 5.5 (95% CI = 1.3–23.7; p = 0.021), and 5.8 (95% CI = 1.02–32.8; p = 0.047), respectively. Conclusions: We show that the patients infected by the SARS-CoV-2 Delta variant have a lower Ct value than the patients infected by the non-Delta variant, implying that the Delta variant has a higher viral load, which might cause a more transmissible virus among humans. However, the Delta variant does not affect the COVID-19 outcomes in our patients. Our study also confirms that older age and comorbidity increase the mortality rate of patients with COVID-19.
    Type of Medium: Online Resource
    ISSN: 2296-858X
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.3389/fmed.2021.780611
    DOI: 10.3389/fmed.2021.780611.s001
    DOI: 10.3389/fmed.2021.780611.s002
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2021
    detail.hit.zdb_id: 2775999-4
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  • 8
    Online Resource
    Online Resource
    Pengaruh Perbedaan Metode Ekstraksi Metabolit Sekunder Streptomyces sp. GMR22 terhadap Toksisitas pada Sel BHK-21
    Universitas Muhammadiyah Surakarta ; 2019
    In:  Pharmacon: Jurnal Farmasi Indonesia Vol. 16, No. 1 ( 2019-07-15), p. 1-10
    Details
    In: Pharmacon: Jurnal Farmasi Indonesia, Universitas Muhammadiyah Surakarta, Vol. 16, No. 1 ( 2019-07-15), p. 1-10
    Abstract: Streptomyces sp. GMR22 is local isolate from Wanagama 1 Forest in Yogyakarta. They have the potential to be developed to produce active compounds because have PKS and NRPS genes.The active compounds from isolation are strongly influenced by various factors, one of them is extraction techniques. Effect difference of extraction technique will be affected by the quality of secondary metabolites produced.The purpose of this study was to compare the cytotoxicity effects of secondary metabolites of Streptomyces sp. GMR22 which have extracted with different stages from previous studies. The extraction technique was carried out by multilevel separatory funnel extraction methods, which was first extracted using non-polar solvent (n-hexane) and then extracted using semi-polar solvent (ethyl acetate). This research is important because in previous studies (separatory funnel only extracted using ethyl acetate) with the use of the lowest concentration in the dengue virus antiviral test (further test) caused 100% of deaths in BHK-21 cells.This study indicate that multilevel extraction result in lower CC50 value than previous studies. There are 49.160 µl/ml (n-hexane extract) and 284.56 µl/ml (ethyl acetate extract) while water extract is 464,38 µl/ml. FTIR compound analysis show that the three extracts produced have different spectrum patterns, especially in the n-hexane and ethyl acetate extract. Value of CC50 is not too high, it is expected that the secondary metabolites contained in the extracts can be used for further analysis such as antiviral testing because it is safe for normal host cells such as BHK-21 cells
    Type of Medium: Online Resource
    ISSN: 1411-4283
    URL: Article
    DOI: 10.23917/pharmacon.v16i1.8032
    Language: Unknown
    Publisher: Universitas Muhammadiyah Surakarta
    Publication Date: 2019
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  • 9
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    Online Resource
    Improvement to Early Warning System the Transmission of Dengue Fever through Controlling Potential Factor in Public Elementary School At Yogyakarta
    Kesmas: Jurnal Kesehatan Masyarakat Nasional ; 2017
    In:  Kesmas: National Public Health Journal Vol. 11, No. 4 ( 2017-05-24), p. 178-
    Details
    In: Kesmas: National Public Health Journal, Kesmas: Jurnal Kesehatan Masyarakat Nasional, Vol. 11, No. 4 ( 2017-05-24), p. 178-
    Type of Medium: Online Resource
    ISSN: 2460-0601 , 1907-7505
    URL: Issue
    URL: Article
    DOI: 10.21109/kesmas.v11i4
    DOI: 10.21109/kesmas.v11i4.1248
    Language: Unknown
    Publisher: Kesmas: Jurnal Kesehatan Masyarakat Nasional
    Publication Date: 2017
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  • 10
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    Online Resource
    Magnitude of Neglected Tropical Diseases in Indonesia at Postmillennium Development Goals Era
    Hindawi Limited ; 2016
    In:  Journal of Tropical Medicine Vol. 2016 ( 2016), p. 1-9
    Details
    In: Journal of Tropical Medicine, Hindawi Limited, Vol. 2016 ( 2016), p. 1-9
    Abstract: The world will enter the postmillennium development goals 2015 era. The achievements of the millennium development goals (MDGs) as a global development target need to be evaluated. A sustainable new reasonable target is important for neglected tropical diseases (NTD) elimination in Indonesia. This review describes the NTD situation in Indonesia and highlights problems beneath the NTD transmission. Multidisciplinary approach is a promising strategy to help the marginalized people.
    Type of Medium: Online Resource
    ISSN: 1687-9686 , 1687-9694
    URL: Article
    DOI: 10.1155/2016/5716785
    Language: English
    Publisher: Hindawi Limited
    Publication Date: 2016
    detail.hit.zdb_id: 2546526-0
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