| Reference title | Date | Citation | Product usage |
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| Simultaneous Removal of Ammonium and Manganese in Slow Sand Biofilter (SSB) by Naturally Grown Bacteria from Lake Water and Its Diverse Microbial Community | 2018 | Subari, F., Kamaruzzaman, M.A., Abdullah, S.R.S., Hasan, H.A. and Othman, A.R., 2018. Simultaneous Removal of Ammonium and Manganese in Slow Sand Biofilter (SSB) by Naturally Grown Bacteria from Lake Water and Its Diverse Microbial Community. Journal of Environmental Chemical Engineering. | …DGGE analysis was performed with VS20WAVE-DGGE (VS20WAVE-DGGE, Cleaver Scientific Ltd, United Kingdom). Samples containing approximately equal amounts of PCR amplicons were loaded onto 8% (wt/vol) polyacrylamide gels (37.5:1, acrylamide: bisacrylamide) using a denaturing gradient ranging from 30% to 60% denaturant (100% denaturant contains 7 M urea and 40% (v/v) formamide in 1 x TAE), as depicted … |
| Operation Performance of Up-Flow Anaerobic Sludge Blanket (UASB) Bioreactor for Biohydrogen Production by Self-Granulated Sludge Using Pre-treated Palm oil Mill Effluent (POME) as Carbon Source | 2018 | Mahmod, S.S., Azahar, A.M., Tan, J.P., Jahim, J.M., Abdul, P.M., Masdar, M.S.M., Anuar, N., Yunus, M.F.M., Asis, A.J. and Wu, S.Y., 2018. Operation Performance of Up-Flow Anaerobic Sludge Blanket (UASB) Bioreactor for Biohydrogen Production by Self-Granulated Sludge Using Pre-treated Palm oil Mill Effluent (POME) as Carbon Source. Renewable Energy. | …The PCR products were separated using VS20WAVE -DGGE (Cleaver Scientific, UK) on a vertical gel of 8% (w/v) acrylamide with a denaturant concentration of 30% (top) to 60% (bottom) of the polyacrylamide gel. After loading the samples, electrophoresis was carried out in 1x TAE buffer at 150 V for 4 h at 60 °C. Then, the polyacrylamide gel was stained with SYBRR Green Nucleic Acid Gel Stain for 40 mi… |
| Bacillus subtilis K‐C3 isolated from Thai salted shrimp paste (Kapi): Its extracellular enzymes and use as a starter culture in Kapi production | 2018 | Pongsetkul, J., Benjakul, S., Sumpavapol, P., Vongkamjan, K. and Osako, K., 2018. Bacillus subtilis K‐C3 isolated from Thai salted shrimp paste (Kapi): Its extracellular enzymes and use as a starter culture in Kapi production. Journal of Food Biochemistry, p.e12649. | …. subtilis K‐C3 during production, polymerase chain reaction‐denaturing gradient gel electrophoresis (PCR‐DGGE) analysis was carried out using the Dcode universal mutation detection system apparatus (Cleaver Scientific, Rugby, Warwickshire, UK) as described by Sanchart, Benjakul, Rattanaporn, Haltrich, and Maneerat (2015). Before analysis, DNA was extracted from the B. subtilis K‐C3 strain and Kap… |
| Combined Pollution Of Copper Nanoparticles And Atrazine In Soil: Effects On Dissipation Of The Pesticide And On Microbiological Community Profiles | 2018 | Parada, J., Rubilar, O., Diez, M.C., Cea, M., da Silva, A.S.A., Rodríguez-Rodríguez, C. and Tortella, G.R., 2018. COMBINED POLLUTION OF COPPER NANOPARTICLES AND ATRAZINE IN SOIL: EFFECTS ON DISSIPATION OF THE PESTICIDE AND ON MICROBIOLOGICAL COMMUNITY PROFILES. Journal of Hazardous Materials. | … for 8 min; 35 cycles of 94 °C for 30 s, 58 °C for 30 s and 72 °C for 60 s; and 72 °C for 5 min. PCR products from bacteria, fungi and amoA genes were subject to DGGE analysis using an omniPAGE-DGGE (Cleaver Scientific, Warwickshire, UK). An 8% (w/v) polyacrylamide gel containing a linear denaturing gradient between 40–65% (for bacteria), 30–70% (for fungi) and 30–60% (amoA) of urea and formamide … |
| Biohydrogen production from palm oil mill effluent (POME) by two stage anaerobic sequencing batch reactor (ASBR) system for better utilization of carbon sources in POME | 2018 | Maaroff, R.M., Jahim, J.M., Azahar, A.M., Abdul, P.M., Masdar, M.S., Nordin, D. and Nasir, M.A.A., 2018. Biohydrogen production from palm oil mill effluent (POME) by two stage anaerobic sequencing batch reactor (ASBR) system for better utilization of carbon sources in POME. International Journal of Hydrogen Energy. | …The PCR products were separated using VS20WAVE -DGGE (Cleaver Scientific, UK) on a vertical gel containing 8% (w/v) acrylamide with a concentration of denaturant of 30%–60% from the top to the bottom of the polyacrylamide gel. Electrophoresis was carried out in 1x TAE buffer at 140 V for 5 h at 60 °C. The gel was stained with SYBR Green Nucleic Acid Gel Stain for 40 min then visualized and sliced … |
| Mixed cropping regimes promote the soil fungal community under zero tillage | 2018 | Silvestro, L.B., Biganzoli, F., Stenglein, S.A. et al. Antonie van Leeuwenhoek (2018) 111: 1055. https://doi.org/10.1007/s10482-017-1005-5 | …Denaturing gradient gel electrophoresis analyses were carried out using the VS20 DGGE- mutation detection system (Cleaver Scientific Ltd, Rugby, UK). Polyacrylamide gels (8% Sigma solution) were prepared with a 10% [0.7 M urea—4% (v/v) formamide] to 50% [3.5 M urea—20% (v/v) formamide] vertical gradient using a gradient former and a peristaltic pump with a flow rate of 4 ml min−1 (Multi-Peristalti… |
| Biohydrogen production from palm oil mill effluent (POME) by two stage anaerobic sequencing batch reactor (ASBR) system for better utilization of carbon sources in POME | 2018 | Rizal Muzhafar Maaroff, Jamaliah Md Jahim, Azratul Madihah Azahar, Peer Mohamed Abdul, Muhammad Azri Abd Nasir, International Journal of Hydrogen Energy, In press, corrected proof, Available online 30 June 2018, | …The PCR products were separated using VS20WAVE -DGGE (cleaver scientific, UK) on a vertical gel containing 8% (w/v) acrylamide with a concentration of denaturant of 30%–60% from the top to the bottom of the polyacrylamide gel. Electrophoresis was carried out in 1x TAE buffer at 140 V for 5 h at 60 °C. The gel was stained with SYBR Green Nucleic Acid Gel Stain for 40 min then visualized and sliced … |
| Secretome analysis of alkaliphilic bacterium Bacillus lehensis G1 in response to pH changes | 2018 | How Lie Ling, Zaidah Rahmat, Farah Diba Abu Bakar, Abdul Munir Abdul Murad, Rosli Md. Illias, Microbiological Research, Volume 215, October 2018, Pages 46-54, | …1D isoelectric focusing (IEF) was carried out using an IEF 100 (Hoefer) and 2D sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) was conducted using a VS20 WAVE Maxi (cleaver scientific Ltd). The protocols were carried according to manufacturer recommendations. Aliquots of 400 μg protein samples were used to rehydrate gel strips (Immobiline DryStrip pH 4–7, Bio-Rad) for 12 h. Af… |
| Enhancement of gamma-aminobutyric acid (GABA) levels using an autochthonous Lactobacillus futsaii CS3 as starter culture in Thai fermented shrimp (Kung-Som) | 2017 | Sanchart, C., Rattanaporn, O., Haltrich, D. et al. World J Microbiol Biotechnol (2017) 33: 152. https://doi.org/10.1007/s11274-017-2317-3 | …tion denaturing gradient gel electrophoresis (PCR-DGGE) analysis of Kung-Som supernatant (start and end of fermentation) was carried out using the Dcode universal mutation detection system apparatus (Cleaver Scientific, Rugby, Warwickshire, UK) according to Sanchart et al. (2015). Thirty microliters of PCR product amplified from the V3 region (341 f (GC)-518r primer) were applied to 8% (w/v) polya… |
| Proteome-based identification of signal peptides for improved secretion of recombinant cyclomaltodextrin glucanotransferase in Escherichia coli | 2017 | How Lie Ling, Zaidah Rahmat, Abdul Munir Abdul Murad, Nor Muhammad Mahadi, Rosli Md. Illias, Process Biochemistry, Volume 61, October 2017, Pages 47-55, | …IEF) was carried out using an IEF 100 (Hoefer, United States) and 2D sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE, Bio-Rad, United States) was conducted using a VS20 WAVE Maxi (cleaver scientific Ltd, United Kingdom). The protocols were carried out according to manufacturer recommendations. Protein spots were in-gel digested using a trypsin digestion kit (Thermo Scientific, … |
| Data for proteome analysis of Bacillus lehensis G1 in starch-containing medium | 2017 | How Lie Ling, Zaidah Rahmat, Abdul Munir Abdul Murad, Nor Muhammad Mahadi, Rosli Md. Illias, Data in Brief, Volume 14, October 2017, Pages 35-40, | …ctric focusing was carried out using an IEF 100 (Hoefer, United States) and 2D sodium dodecyl sulfate-polyacrylamide gel electrophoresis (Bio-Rad, United States) was conducted using a VS20 WAVE Maxi (cleaver scientific Ltd, United Kingdom). The protocols were carried out according to manufacturer recommendations. Protein spots were in-gel digested using a trypsin digestion kit (Thermo Scientific, … |
| Prebiotic efficacy and mechanism of inulin combined with inulin-degrading Lactobacillus paracasei I321 in competition with Salmonella | 2017 | Pochanart Kanjan, Tipparat Hongpattarakere, Carbohydrate Polymers, Volume 169, 1 August 2017, Pages 236-244, | …Dewulf et al. (2013). The 16S ribosomal DNA of bifidobacteria and lactobacilli was amplified using nested PCR approach before being subjected to DGGE analysis according to Uraipan et al. (2014) using cleaver scientific DGGE system (York, UK). The gel was stained with SYBR® Gold (Invitrogen, Grand Island, USA) before being viewed under UV transillumination system (Alpha Innotech Corporation, USA).… |
| Histamine development and bacterial diversity in microbially-challenged tonggol (Thunnus tonggol) under temperature abuse during canning manufacture | 2016 | Hongpattarakere, T., Buntin, N. & Nuylert, A. J Food Sci Technol (2016) 53: 245. https://doi.org/10.1007/s13197-015-2042-6 | …(5′- GC-clamp-ATTACCGCGGCTGCTGG-3′) according to Hovda et al. (2007). The 20 μl of PCR products were separated by DGGE operating under the specified condition (Uraipan et al. 2014) using DGGE system (Cleaver Scientific, York, UK). The DNA fragments were stained with SYBR® Gold (Invitrogen, Grand Island, NY, USA) and viewed by using UV transillumination (Alpha innotech corporation, San Leandro, CA,… |
| Community structure of a sulfate-reducing consortium in lead-contaminated wastewater treatment process | 2016 | Nguyen, Y.T., Kieu, H.T., West, S. et al. World J Microbiol Biotechnol (2017) 33: 10. https://doi.org/10.1007/s11274-016-2180-7 | …DGGE was performed according to the manufacturer’s instructions of VS20-DGGE (Cleaver Scientific Ltd, UK). After purification, about 700 ng of PCR products was applied to 8% (w/v) polyacrylamide gels containing denaturant gradients of 40–70% (dissimilatory sulfite reductase (dsrB) gene). Whole denaturing solution contained 7 M urea and 40% formamide. Electrophoresis was run in 1 × TAE buffer (40 m… |
| Antagonistic mechanisms of synbiosis between Lactobacillus plantarum CIF17AN2 and green banana starch in the proximal colon model challenged with Salmonella Typhimurium | 2014 | Supansa Uraipan, Patrizia Brigidi, Tipparat Hongpattarakere, Anaerobe, Volume 28, August 2014, Pages 44-53, | …ectively. The conditions for separation of PCR amplicons were 60 °C for 16 h with electrophoresis at constant voltage of 70 V and 85 V for LAB and bifidobacteria, respectively [32] using DGGE system (cleaver scientific, York, UK). The DNA fragments were stained with SYBR® Gold (Invitrogen, Grand Island, NY, USA) and then viewed under UV transillumination (Alpha innotech corporation, San Leandro, C… |
| Carbendazim dissipation in the biomixture of on-farm biopurification systems and its effect on microbial communities | 2013 | G. R. Tortella, R. A. Mella-Herrera, D. Z. Sousa, O. Rubilar, M. C. Diez, Chemosphere, Volume 93, Issue 6, October 2013, Pages 1084-1093, | …The resulting PCR products from the bacteria, fungi and Actinomycetes were then subjected to DGGE analysis using an omniPAGE-DGGE (cleaver scientific, Warwickshire, UK). Linear denaturing gradients of 8% (w/v) polyacrylamide gel between 40% and 65% (for bacteria), 30% and 70% (for fungi) and 30–60% (for Actinomycetes) (urea and formamide) were prepared using the GM-100 Linear Gradient Maker (CBS S… |
