Biodrop lite

Manufactured by Harvard Bioscience

Sourced in United Kingdom

The BioDrop µLITE is a compact, single-channel micro-volume spectrophotometer designed for accurate quantification of nucleic acids and proteins. It features a touch screen interface and accommodates sample volumes as low as 0.5 µL.

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Lab products found in correlation

Genejet rna purification kit total rna purification protocol, by Thermo Fisher Scientific (2 mentions) Magattract hmw dna kit, by Qiagen (2 mentions) Qubit fluorometer v3, by Thermo Fisher Scientific (2 mentions) Trizol reagent, by Thermo Fisher Scientific (2 mentions) Novaseq 6000, by Illumina (2 mentions) Lightcycler 480 sybr green 1 master mix, by Roche (2 mentions) Lightcycler 480 2 real time pcr system, by Roche (2 mentions) Primescript 1st strand cdna synthesis kit, by Takara Bio (2 mentions) Rnase solution, by Bio Basic (2 mentions) Dneasy powersoil kit, by Qiagen (1 mentions) Sybr safe, by Thermo Fisher Scientific (1 mentions) Wizard genomic dna purification kit, by Promega (1 mentions) Dneasy plant mini kit, by Qiagen (1 mentions) Mastercycler nexus gradient thermocycler, by Eppendorf (1 mentions) Iscript cdna synthesis kit, by Bio-Rad (1 mentions) Rnalater, by Thermo Fisher Scientific (1 mentions) Qiasymphony dsp dna midi kit, by Qiagen (1 mentions) Elution buffer ate, by Qiagen (1 mentions) Qiasymphony sp platform, by Qiagen (1 mentions) Genomic dna clean concentrator 10 kit, by Zymo Research (1 mentions)

Spelling variants of this product

BioDrop (19 citations) BioDrop µLITE spectrophotometer (4 citations)

20 protocols using biodrop lite

Soil DNA Extraction Using DNeasy® Kit

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DNA extraction from bulk and rhizospheric soil samples was performed using DNeasy® PowerSoil Kit (Qiagen), following the manufacturer’s instructions. The integrity of the extracted DNA was evaluated in 1.0% (w/v) agarose gel electrophoresis with 0.5 X SYBR® Safe (Life Technologies) observed under UV light. DNA concentration was estimated by the spectrophotometer BioDrop µLITE (BioDrop, Cambridge, UK).

Ferrarezi J.A., Defant H., de Souza L.F., Azevedo J.L., Hungria M, & Quecine M.C. (2023). Meta-omics integration approach reveals the effect of soil native microbiome diversity in the performance of inoculant Azospirillum brasilense. Frontiers in Plant Science, 14, 1172839.

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Genomic DNA Extraction from Whole Blood

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Genomic DNA was extracted from whole blood samples using the Wizard^® Genomic DNA Purification Kit (Promega, Madison, Wisconsin, United States). DNA samples were quantified using the BioDrop™ µLITE instrument (BioDrop, Cambridge, United Kingdom).

Kloppers J.F., de Kock A., Cronjé J, & van Marle A.C. (2021). Molecular characterisation of NPM1 and FLT3-ITD mutations in a central South African adult de novo acute myeloid leukaemia cohort. African Journal of Laboratory Medicine, 10(1), 1363.

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DNA Isolation from Dried Samples

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DNA isolation from dried samples and herbal products was performed using 0.1 g of starting material in the form of fine powder by employing the Qiagen DN easy plant mini kit according to manufacturer's instructions. DNA concentration was estimated by standard spectrophotometric methods at 260 nm and 280 nm UV lengths using a BioDrop™ µLITE. DNA integrity was tested by gel electrophoresis in a 0.8% agarose gel. Samples were then diluted to a 20 ng/µL concentration. We used individually isolated triplicate samples. The extracted DNA solution was stored at −20°C until further use.

Osathanunkul M., Suwannapoom C., Khamyong N., Pintakum D., Lamphun S.N., Triwitayakorn K., Osathanunkul K, & Madesis P. (2016). Hybrid analysis (barcode-high resolution melting) for authentication of Thai herbal products, Andrographis paniculata (Burm.f.) Wall.ex Nees. Pharmacognosy Magazine, 12(Suppl 1), S71-S75.

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RNA Extraction and cDNA Synthesis Protocol

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RNA extractions were carried out according to the GeneJET RNA Purification Kit Total RNA Purification Protocol (Thermo Fisher Scientific Inc,, Waltham, MA, USA). RNA quality and quantity was analyzed spectrophotometrically using a BioDrop µLITE (BioDrop, Cambridge, UK, USA). The iScript cDNA Synthesis Kit for reverse transcription PCR (Bio-Rad Laboratories, Hercules, CA, USA) was used according to the manufacturer’s instructions using 360 ng of RNA and carried out in an Eppendorf Mastercycler Nexus Gradient thermocycler (Eppendorf, Hauppauge, NY, USA) according the reaction protocol provided by iScript.

Rousseau M.E., Sant K.E., Borden L.R., Franks D.G., Hahn M.E, & Timme-Laragy A.R. (2015). Regulation of Ahr signaling by Nrf2 during development: Effects of Nrf2a deficiency on PCB126 embryotoxicity in zebrafish (Danio rerio). Aquatic toxicology (Amsterdam, Netherlands), 167, 157-171.

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Measuring Gene Expression Changes in Embryos

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To measure changes in gene expression, whole-embryo RNA was first isolated. Pools of 10–12 embryos were exposed to butylparaben as described above, fixed at 3 dpf (due to the significant pancreatic morphological variants observed at this time point; Figure 1 and 2, Table 1) in 100 µL RNA-Later (Thermo Fisher Scientific), and stored at −80 °C. Prior to RNA extraction, all materials and surfaces were sprayed with RNase Away® (Molecular BioProducts, Thermo Fisher Scientific). RNA extractions were carried out according to the GeneJET RNA Purification Kit Total RNA Purification Protocol (Thermo Fisher Scientific Inc., Waltham, MA). Samples were sonicated for one second at 15 % amplification with a Branson Digital Sonifier® (Danbury, CT) that was sterilized with 75 % ethanol between each sonication. RNA concentration and quality was analyzed using a BioDrop µLITE (BioDrop, Cambridge, UK). Reverse transcription to cDNA was carried out according to the manufacturer’s protocol using the iScript cDNA synthesis kit (Bio-Rad Laboratories, Hercules, CA) with an Eppendorf Mastercycler® nexus gradient thermal cycler (Eppendorf, Hauppague, NY) according to the manufacturer’s protocol. A total of 5 biological replicates per exposure concentration were collected from three independent experiments.

Brown S.E., Sant K.E., Fleischman S.M., Venezia O., Roy M.A., Zhao L, & Timme-Laragy A.R. (2018). Pancreatic beta cells are a sensitive target of embryonic exposure to butylparaben in zebrafish (Danio rerio). Birth defects research, 110(11), 933-948.

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Whole-Blood Genomic DNA Extraction

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We collected whole-blood samples (3 ml) from individuals into K3EDTA tubes (VACUETTE). We centrifuged the samples at 2,000g for 15 min to separate the cell pellet and plasma. The plasma was collected, aliquoted and stored at −80 °C until use. We sent the cell pellets to the Centre for PanorOmic Sciences (Genomics and Bioinformatics Cores, University of Hong Kong) for genomic DNA extraction using the QIAsymphony DSP DNA Midi Kit (Qiagen) on a QIAsymphony SP platform (Qiagen). Genomic DNA was eluted with water or Elution Buffer ATE (Qiagen) and stored at 4 °C. We determined the DNA concentration by BioDrop µLITE+ (BioDrop).

Jiang Y., Zhou X., Wong H.Y., Ouyang L., Ip F.C., Chau V.M., Lau S.F., Wu W., Wong D.Y., Seo H., Fu W.Y., Lai N.C., Chen Y., Chen Y., Tong E.P., Mok V.C., Kwok T.C., Mok K.Y., Shoai M., Lehallier B., Losada P.M., O’Brien E., Porter T., Laws S.M., Hardy J., Wyss-Coray T., Masters C.L., Fu A.K, & Ip N.Y. (2022). An IL1RL1 genetic variant lowers soluble ST2 levels and the risk effects of APOE-ε4 in female patients with Alzheimer’s disease. Nature Aging, 2(7), 616-634.

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Vestimentum DNA Extraction and Sequencing

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The specimens of P. echinospica were dissected in RNAlater before DNA extraction. The vestimentum region was used for DNA extraction and genome sequencing to avoid contamination by endosymbionts. High-molecular weight (HMW) DNA was extracted using the MagAttract HMW DNA Kit (Qiagen, Hilden, Germany) in accordance with the manufacturer’s protocol. The HMW DNA was further purified and concentrated using the Genomic DNA Clean & Concentrator-10 kit (ZYMO Research, CA) following the manufacturer’s instructions. DNA quality was assessed by running 1 μl through a BioDrop µLITE (BioDrop, Holliston, MA), which yielded an OD 260/280 of 1.8 and an OD 260/230 of 2.0–2.2. The concentration of DNA was assessed using a Qubit fluorometer v3.0 (Thermo Fisher Scientific, Singapore).

Sun Y., Sun J., Yang Y., Lan Y., Ip J.C., Wong W.C., Kwan Y.H., Zhang Y., Han Z., Qiu J.W, & Qian P.Y. (2021). Genomic Signatures Supporting the Symbiosis and Formation of Chitinous Tube in the Deep-Sea Tubeworm Paraescarpia echinospica. Molecular Biology and Evolution, 38(10), 4116-4134.

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Chrysanthemum Germplasm DNA Extraction

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The plant material of the Chrysanthemum × morifolium was obtained from the germplasm bank of the FRC SSC RAS (Table S1). Young and healthy leaves of each accession were collected in 2-mL tubes and dried using silica gel. The leaf material was stored at 4 °C until DNA isolation. The dried leaf material was ground and DNA extraction was performed using CTAB protocol [53 ]. DNA quality was checked by agarose-gel electrophoresis using Lonza LE2 agarose (Lonza, Basel, Switzerland) and spectrophotometrically using BioDrop µLite (Biodrop, Cambridge, UK)and all samples were diluted to 20 ng µL⁻¹ and stored at −20 °C.

Samarina L.S., Malyarovskaya V.I., Reim S., Yakushina L.G., Koninskaya N.G., Klemeshova K.V., Shkhalakhova R.M., Matskiv A.O., Shurkina E.S., Gabueva T.Y., Slepchenko N.A, & Ryndin A.V. (2021). Transferability of ISSR, SCoT and SSR Markers for Chrysanthemum × Morifolium Ramat and Genetic Relationships Among Commercial Russian Cultivars. Plants, 10(7), 1302.

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Scaly-foot Snail DNA Extraction

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The foot and mantle of a Kairei field Scaly-foot Snail (specimen code E02B1) were used for DNA extraction. High Molecular Weight (HMW) DNA was extracted using the MagAttract HMW DNA Kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. The HMW DNA was further purified and concentrated using the Genomic DNA Clean & Concentrator (gDCC-10) kit (ZYMO Research, Irvine, CA, USA). DNA quality was assessed by running 1 μl of the sample on a BioDrop µLITE (BioDrop, Holliston, MA, USA) to ensure the purified of DNA with the OD 260/280 of 1.8 and the OD 260/230 of 2.0–2.2. Concentration of DNA was assessed using the dsDNA HS assay on a Qubit fluorometer v3.0 (Thermo Fisher Scientific, Singapore). A total of 1 μg DNA was used to obtain approximate 50 Gb of Illumina Novaseq reads with the paired-end mode and a read length of 150 bp.

Sun J., Chen C., Miyamoto N., Li R., Sigwart J.D., Xu T., Sun Y., Wong W.C., Ip J.C., Zhang W., Lan Y., Bissessur D., Watsuji T.O., Watanabe H.K., Takaki Y., Ikeo K., Fujii N., Yoshitake K., Qiu J.W., Takai K, & Qian P.Y. (2020). The Scaly-foot Snail genome and implications for the origins of biomineralised armour. Nature Communications, 11, 1657.

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Ethnic Diversity Genomic DNA Protocol

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Patients were recruited on behalf of Nalagenetics Pte. Ltd. with written informed consent forms from recruitment sites in Singapore and Indonesia. A total of 251 samples were evaluated from 5 major ethnic groups to ensure the representation of the major ethnic groups residing in both countries -Chinese, Malays, Indians, Caucasians and Indonesians. Participants identifying as one or more of the following ethnicities were categorized as Indonesians: Ambon, Batak, Betawi, Jawa, Lampung, Manado, Minangkabau, Nusa Tenggara Timur, Palembang, Sulawesi, Sunda, Timor Leste, Tolaki and Toraja.
Buccal samples were collected using OraCollect (Cat No. DNA OCR-100 from DNA Genotek) and genomic DNA (gDNA) extracted using the Monarch Genomic DNA Purification Kit (Cat No. T3010 from NEB). The extraction procedure followed manufacturer's instructions with additional dry-spin step at maximum speed for 1 minute after the 2 nd buffer washing step. The quality and concentration of gDNA extracts were quantified by NanoDrop 2000 Spectrophotometer (Singapore) and BioDrop-µLITE (Indonesia). Samples that failed to meet the DNA quality control criteria (n=5) of A260/280 >1.7 and DNA yield >500ng were excluded from the study. The remaining extracted gDNA samples (n=246) were stored at -20 for downstream application.

Kothary A.S., Mahendra C., Tan M., Tan E.J.M., Yi J.P.H., Gabriella, Jocelyn T.X.H., Haruman J., Tan Z., Lee C.K., Lezhava A., Yan B., & Irwanto A. (2021). Validation of a multi-gene qPCR-based pharmacogenomics panel across major ethnic groups in Singapore and Indonesia.

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