Qiacube

Manufactured by Qiagen

Sourced in Germany, United States, United Kingdom, Spain, Canada, Netherlands, France, Italy, Japan, Denmark, Australia, Switzerland

The QIAcube is an automated sample preparation instrument designed for the purification of nucleic acids from a variety of sample types. It is capable of performing a range of isolation and purification protocols, including DNA, RNA, and viral nucleic acid extraction. The QIAcube is intended to provide a standardized and efficient method for sample preparation, reducing manual handling and improving reproducibility.

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Lab products found in correlation

Rneasy mini kit, by Qiagen (100 mentions) High capacity cdna reverse transcription kit, by Thermo Fisher Scientific (43 mentions) Nanodrop spectrophotometer, by Thermo Fisher Scientific (40 mentions) Qiaamp dna mini kit, by Qiagen (38 mentions) Nanodrop, by Thermo Fisher Scientific (36 mentions) Nanodrop 2000 spectrophotometer, by Thermo Fisher Scientific (33 mentions) Qubit 3.0 fluorometer, by Thermo Fisher Scientific (33 mentions) Dneasy blood and tissue kit, by Qiagen (28 mentions) Rneasy plus mini kit, by Qiagen (27 mentions) Tissuelyser 2, by Qiagen (26 mentions) Nanodrop 2000, by Thermo Fisher Scientific (26 mentions) Qiaamp viral rna mini kit, by Qiagen (25 mentions) Qiaamp dna blood mini kit, by Qiagen (23 mentions) Mirneasy mini kit, by Qiagen (23 mentions) Agilent 2100 bioanalyzer, by Agilent Technologies (21 mentions) Rneasy kit, by Qiagen (20 mentions) Nanodrop nd 1000 spectrophotometer, by Thermo Fisher Scientific (19 mentions) Mirneasy kit, by Qiagen (19 mentions) Qiaamp dna blood mini qiacube kit, by Qiagen (17 mentions) 2100 bioanalyzer, by Agilent Technologies (17 mentions)

Close spelling variants of this product

RNeasy Mini QIAcube Kit (48 citations) QIAamp DNA Blood Mini QIAcube Kit (42 citations) QIAamp 96 Virus QIAcube HT Kit (40 citations) QIAcube robotic workstation (30 citations) Cador Pathogen 96 QIAcube HT Kit (27 citations) QIAcube platform (27 citations) QIAcube automated extractor (9 citations) Pathogen 96 QIAcube HT kit (7 citations) QIAcube extraction robot (7 citations) QIAcube HT kit (6 citations)

844 protocols using qiacube

Nucleic Acid Extraction from Stool, Blood, and Respiratory Samples

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For stool collection, a pea size stool sample (around 33 mg) or 300 µL of liquid stools was taken using an inoculation loop or micropipette. It was then put in a sterile tube containing 1ml of distilled water and mixed by vortexing before storage at −20 °C until use.
After thawing and mixing, approximately 10 µL of each stool sample was transferred with an inoculation loop to a conical Falcon tube containing 2 mL of distilled water and mixed by vortexing. Then 200 µL of this suspension was transferred into a S-Block (Qiagen^®, Venlo, The Netherlands) for nucleic acid extraction with Qiacube (Qiagen^®).
Blood and respiratory samples were collected by clinicians and kept at −80 °C until use. Frozen blood samples were thawed and mixed, and then 100 µL of blood sample was diluted in 100 µL of 0.9% NaCl, and 200 µL of this dilution was transferred into a S-Block (Qiagen^®) for nucleic acid extraction with Qiacube (Qiagen^®). Frozen respiratory samples were thawed and mixed, and then 200 µL of each sample was transferred into a S-Block (Qiagen^®;) for nucleic acid extraction with Qiacube (Qiagen^®).

Simo-Fouda F., Thirion L., Nougairède A., Luciani L., Driouich J.S., Petit P.R., Delaunay P, & Charrel R.N. (2021). Investigation of Bufavirus and Parvovirus 4 in Patients with Gastro-Enteritis from the South-East of France. Pathogens, 10(9), 1151.

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RNA Extraction from Biopsies and PBMCs

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Biopsies were thawed at room temperature. They were transferred with forceps into 600 μL of Buffer RLT (QIAGEN, Hilden, Germany) and homogenized using a Bio-Gen PRO200 homogenizer (PRO Scientific, Oxford, CT, USA) followed by passing 10 times through a needle and syringe. RNA was extracted using the RNeasy fibrous tissue mini kit (QIAGEN) automated on a QIAcube (QIAGEN). PBMC were thawed, washed by centrifugation, counted, and RNA was extracted using the RNeasy mini kit (QIAGEN) on a QIAcube. PAXgene tubes were thawed and held at room temperature for 3 h with occasional mixing, in order to completely lyse red blood cells. RNA was extracted from PAXgene samples using the PAXgene Blood RNA kit (PreAnalytiX) according to the manufacturer’s instructions. RNA was stored at −80°C until use.

Hughes S.M., Levy C.N., Calienes F.L., Stekler J.D., Pandey U., Vojtech L., Berard A.R., Birse K., Noël-Romas L., Richardson B., Golden J.B., Cartwright M., Collier A.C., Stevens C.E., Curlin M.E., Holtz T.H., Mugo N., Irungu E., Katabira E., Muwonge T., Lama J.R., Baeten J.M., Burgener A., Lingappa J.R., McElrath M.J., Mackelprang R., McGowan I., Cranston R.D., Cameron M.J, & Hladik F. (2020). Treatment with Commonly Used Antiretroviral Drugs Induces a Type I/III Interferon Signature in the Gut in the Absence of HIV Infection. Cell Reports Medicine, 1(6), 100096.

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RNA Extraction and RT-qPCR Analysis Protocol

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RNA was extracted from CRC cell lines and xenograft tumor tissues using the mi RNeasy Mini Kit (Qiagen, Germantown, MD) following the manufacturer’s instructions. In brief, 3 mm cube xenograft tumor tissues were homogenized using TissueLyser II (Qiagen) with 5 mm stainless steel beads. RNA was isolated using Qiacube (Qiagen) and eluted in 50 µl of RNase-free water. Organoids were harvested in RLT lysis buffer and RNA was isolated with the RNeasy Mini Kit (Qiagen) using Qiacube and eluted in 50 µl of RNase-free water. Extracted RNA was used as a template for cDNA production using High Capacity cDNA Revers Transcription Kit (Thermo Fisher Scientific) according to manufacturer’s protocol. RT-qPCR was performed using SensiFAST SYBR mix (Bioline, London, UK) on Quant-Studio 7 PCR machine (Applied Biosystems). For specific primer sequences refer to Supplementary Table 1. All RT-qPCR target genes were calculated using ΔΔCt method normalized to β-actin. For miRNA expression analysis, we used the TaqMan real-time PCR assay kit (Applied Biosystems, Foster City, CA) and TaqMan microRNA Reverse Transcription Kit (Applied Biosystems) as described previously^{48 (link)}. For all reactions, TaqMan Universal Master Mix (Applied Biosystems) was used and the analysis was carried out using Quant-Studio 7 (Applied Biosystems). All data were analyzed using ΔΔCt method and normalized to RNU6B.

Toden S., Ravindranathan P., Gu J., Cardenas J., Yuchang M, & Goel A. (2018). Oligomeric proanthocyanidins (OPCs) target cancer stem-like cells and suppress tumor organoid formation in colorectal cancer. Scientific Reports, 8, 3335.

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Genomic DNA Extraction and Sequencing

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Genomic DNA was extracted from sorted cells using the DNeasy Blood & Tissue Kit (Qiagen, 69506) on a QIAcube (Qiagen). >5 μg of genomic DNA was used for PCR and subsequently purified using the QIAquick PCR purification kit (Qiagen, 28106) on a QIAcube. Purified DNA was quantified using the Qubit dsDNA broad range quantification kit (ThermoFisher Scientific, Q32853). 1 μg of DNA was sheared to an average of 200bp on a Covaris sonicator E220 and used for library preparation using NEBNext Ultra DNA Library Prep (New England Biolabs, E7370). Samples were sequenced on an Illumina NextSeq 500 on high-output mode (Supplementary Table 2) with high coverage (Supplementary Fig. 1j).

Ng A.H., Khoshakhlagh P., Arias J.E., Pasquini G., Wang K., Swiersy A., Shipman S.L., Appleton E., Kiaee K., Kohman R.E., Vernet A., Dysart M., Leeper K., Saylor W., Huang J.Y., Graveline A., Taipale J., Hill D.E., Vidal M., Melero-Martin J.M., Busskamp V, & Church G.M. (2020). A comprehensive library of human transcription factors for cell fate engineering. Nature biotechnology, 39(4), 510-519.

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Genomic DNA Extraction and Sequencing

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RNA Extraction Using miRNeasy Kit

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All RNA samples were extracted using miRNeasy kit (cat. 217004, Qiagen) following the instructions provided using a QIAcube (Qiagen). Briefly, samples lysed in QIAzol reagent were incubated for 5 minutes at room temperature (15° C - 25° C). To each sample about 140 microliters of chloroform was added and shaken vigorously and left at room temperature for about 2–3 minutes. Subsequently, samples were centrifuged at 4° C at 12,000 x g for 15 minutes. Upper aqueous phase containing the RNA species were carefully transferred to a 2 ml collection tube (cat. 990381) Qiagen without touching the interphase and placed in the QIAcube for extraction. For every sample a rotor adapter was prepared with a RNeasy mini spin column at position L1 and a 1.5 ml collection tube at position L3 and placed in the QIAcube rotor. All reagents were prepared by adding proper amount of 100% ethanol (44 ml to buffer RPE and 30 ml to buffer RWT) prior to extraction and placed in respective positions in reagent rack in QIAcube (100% ethanol in position 3, Buffer RWT in position 4, buffer RPE in position 5 and RNase-free water in position 6). RNA extraction was carried out by executing recommended protocol (FIW-50–001-J_FW_MB and PLC program version FIW-50–002-G_PLC_MB) available from the QIAcube web portal. RNA samples with RIN value above 7.0 were used for gene expression analysis.

Avey S., Mohanty S., Chawla D.G., Meng H., Bandaranayake T., Ueda I., Zapata H.J., Park K., Blevins T.P., Tsang S., Belshe R.B., Kaech S.M., Shaw A.C, & Kleinstein S.H. (2020). Seasonal Variability and Shared Molecular Signatures of Inactivated Influenza Vaccination in Young and Older Adults. Journal of immunology (Baltimore, Md. : 1950), 204(6), 1661-1673.

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RNA Extraction from FFPE Tissues

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Total RNA from paraffin-embedded blocks was extracted by applying RNeasy FFPE Kit (Qiagen, Venlo, Limburg, Netherlands) according to manufacturer's instruction. Briefly, 10μm thick sections were cut from FFFE blocks and 6 sections from each block were placed into a microcentrifuge tube for RNA extraction. The sections were treated with 320μl deparaffinization buffer (Qiagen) and 240μl buffer PKD. The customized protocol, RNeasy FFPE - 3-8 FFPE tissue sections – Standard, was selected to perform RNA extraction in QIAcube (Qiagen).
Total RNA from cells was prepared using QIAcube. The protocol, RNeasy Mini - Animal tissues and cells – Standard, was applied to extract RNA. The RNA concentration was determined by spectrophotometry. Total RNA (0.5μg) was reversed transcribed into cDNA in a 20μl reaction by RevertAid™ First Strand cDNA Synthesis Kit (Thermo Scientific). The resulting cDNA was diluted with 80μl dH₂O to obtain a concentration of 5 ng/μl cDNA.

Wei T., Biskup E., Rahbek Gjerdrum L.M., Niazi O., Ødum N, & Gniadecki R. (2016). Ubiquitin-specific protease 2 decreases p53-dependent apoptosis in cutaneous T-cell lymphoma. Oncotarget, 7(30), 48391-48400.

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MC3T3-E1 Cell Differentiation Analysis

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MC3T3-E1 subclone 4 cells were differentiated for 7 or 21 days and were then collected for gene expression analysis. RNA was extracted using the RNeasy plus mini kit (Qiagen; Hilden, Germany) with the QIAcube (Qiagen,) according to the manufacturer’s instructions. Briefly, cells were lysed in RLT buffer and spun in a QIAshredder column (Qiagen) before being processed by the QIAcube. RNA concentrations were measured using the DropSense96 (TRINEAN, Gentbrugge, Belgium).

De Bruyn F., Bonnet N., Baruchet M., Sabatier M., Breton I., Bourqui B., Jankovic I., Horcajada M.N, & Prioult G. (2024). Galacto-oligosaccharide preconditioning improves metabolic activity and engraftment of Limosilactobacillus reuteri and stimulates osteoblastogenesis ex vivo. Scientific Reports, 14, 4329.

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Dust and Nasal Swab DNA Extraction

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The filter with captured dust was homogenized using Mixer Mill MM 301 (Retsch GmbH, GER; frequency 25 s⁻¹, time 30 s). DNA was extracted from 200 mg of the homogenate utilizing the DNeasy PowerLyzer PowerSoil Kit (QIAGEN, GER). The dust was weighed into a Bead Tube (part of the extraction kit) and 750 μl of the Bead Solution and 60 μl of prewarmed (64 °C) C1 solution from the kit were added. The mixture was homogenized using BeadBlaster 24 (Benchmark Scientific, USA; 6,5 M/s, 45 s). Samples were centrifuged in Sigma 1–14 (Sigma, GER; 1 min, 10 000 RCF), the supernatant was transferred into Sample Tube RB (accessories for the QIAcube device, QIAGEN, GER), and 1 μl of RNase (New England BioLabs, USA; 25 μg/ml) was added to the supernatant. Subsequent steps were performed using the robotic workstation QIAcube (QIAGEN, GER) according to the manufacturer’s instructions for DNeasy PowerLyzer PowerSoil program; the elution volume was 50 μl.
DNA from nasopharyngeal swabs was extracted manually with the QIAamp DNA Mini Kit (QIAGEN, GER) according to the manufacturer’s instructions, the elution volume was 30 μl.
The purity and concentration of extracted DNA from dust and nasopharyngeal samples were determined using a spectrophotometer NanoDropND-1000 (Thermo Fisher Scientific, USA), and the quality of DNA was assessed using gel electrophoresis. Extracted DNA was stored at -20°C.

Konecna E., Videnska P., Buresova L., Urik M., Smetanova S., Smatana S., Prokes R., Lanickova B., Budinska E., Klanova J, & Borilova Linhartova P. (2023). Enrichment of human nasopharyngeal bacteriome with bacteria from dust after short-term exposure to indoor environment: a pilot study. BMC Microbiology, 23, 202.

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Automated RNA and DNA Extraction Protocol

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The total RNA was isolated using the automated QiaCube (Qiagen) system with RNeasy mini kits (Qiagen), following the manufacturer protocol. The total RNA was examined using an spectrophotometer (ND-1000; NanoDrop Technologies), with the total RNA integrity monitored using an RNA nano-chip on a Bioanalyser 2100 (Agilent). The same total RNA was used for the DNA microarray and for the RT-qPCR analysis. An additional step of genomic DNA removal using DNase I (Ambion) was performed prior to the cDNA synthesis. After the DNase I treatment, the RNA was transcribed into cDNA using SuperScript VILO kits (Invitrogen), according to the manufacturer protocol. The genomic DNA (gDNA) from the samples was isolated using DNA Blood kits (Qiagen), with an automated system for DNA isolation (QiaCube, Qiagen), according to the manufacturer protocol. The gDNA was quantified using spectrophotometer (ND-1000; NanoDrop Technologies).

Jamnikar U., Nikolic P., Belic A., Blas M., Gaser D., Francky A., Laux H., Blejec A., Baebler S, & Gruden K. (2015). Transcriptome study and identification of potential marker genes related to the stable expression of recombinant proteins in CHO clones. BMC Biotechnology, 15, 98.

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