Topspin 3.5pl6

Manufactured by Bruker

Sourced in Germany

Topspin 3.5pl6 is a software package designed for the acquisition, processing, and visualization of nuclear magnetic resonance (NMR) data. It is developed and distributed by Bruker Corporation.

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Lab products found in correlation

Samplejet, by Bruker (2 mentions) Avance 3 hd console, by Bruker (1 mentions) 3 mm tci cryoprobe, by Bruker (1 mentions) Avance 3 hd spectrometer, by Bruker (1 mentions) Icon nmr, by Bruker (1 mentions) Advance 3 600 mhz nmr spectrometer, by Bruker (1 mentions)

Close spelling variants of this product

Topspin 3.2 (867 citations) TopSpin (401 citations)

4 protocols using topspin 3.5pl6

Quantitative 1D-1H NMR analysis of extracellular metabolites

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Culture supernatants were analyzed by 1D-¹H NMR on a Bruker Avance III 800MHz spectrometer (Bruker BioSpin, Rheinstetten, Germany) page equipped with a 5 mm CQPI cryoprobe at 280 K. To precisely quantify the extracellular compounds, the 1D-¹H NMR data were recorded after a 30° presaturation pulse (zgpr30), with a relaxation delay of 7 s. NMR spectra were processed using Topspin 3.5pl6 (Bruker BioSpin, Rheinstetten, Germany). The raw NMR data are available from Metabolights (accession number MTBLS2188).
The rate of glucose consumption and the rates of acetate and lactate production were quantified by analyzing the four-to-eight samples collected during the cell culture period. The ¹³C labeling profiles of acetate and lactate, including positional information on label incorporation, were also measured for the flux calculations.

Bergès C., Cahoreau E., Millard P., Enjalbert B., Dinclaux M., Heuillet M., Kulyk H., Gales L., Butin N., Chazalviel M., Palama T., Guionnet M., Sokol S., Peyriga L., Bellvert F., Heux S, & Portais J.C. (2021). Exploring the Glucose Fluxotype of the E. coli y-ome Using High-Resolution Fluxomics. Metabolites, 11(5), 271.

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NMR Profiling of Metabolite Samples

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NMR data were acquired on an Oxford 800 MHz magnet equipped with an Avance III HD console and 3 mm TCI cryoprobe (Bruker BioSpin). Samples were kept at 6 °C in the SampleJet before measurement at 25 °C. One-dimensional excitation sculpting with perfect echo pulse sequence (‘zgespe’) was used to acquire profiling data. With a sweep width of 20 ppm, 128 scans were acquired in 64 k points, using an acquisition time of 2.04 s and relaxation delay of 3 s. Data were zero-filled to 128 k and Fourier-transformed including 0.3 Hz exponential line-broadening. Spectra were phased and referenced to the TSP-d4 signal. All processing was performed in TopSpin 3.5 pl6 (Bruker BioSpin).

Nilsson A.K., Pedersen A., Malmodin D., Lund A.M., Hellgren G., Löfqvist C., Pupp I.H, & Hellström A. (2020). Serum choline in extremely preterm infants declines with increasing parenteral nutrition. European Journal of Nutrition, 60(2), 1081-1089.

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High-Resolution NMR Analysis Protocol

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¹H-NMR analysis was conducted at 298 K on an Avance III HD spectrometer operating at a ¹H frequency of 699.95 MHz, 16.4T (Bruker, Billerica, MA, United States) equipped with a 5-mm z-axis gradient TCI cryoprobe and SampleJet automatic sample changer. ¹H-NMR spectrum was recorded using the CPMG (Carr-Purcell-Meiboom-Gill) pulse sequence with residual water signal suppression using presaturation (cpmgpr1d). A total of 256 scans were collected into 64 k datapoints over a spectral width of 8,403.361 Hz, and a relaxation delay of 4 s. Free induction decays (FIDs) were multiplied by an exponential function with a line-broadening factor of 0.3 Hz before Fourier transformation. The ¹H-NMR spectra were manually corrected for phase and base line distortion using TopSpin 3.5 pl 6 (Bruker, Billerica, MA, United States). ¹H NMR chemical shifts were referenced to the TSP signal at 0.00 ppm.

Resendiz-Acevedo K., García-Aguilera M.E., Esturau-Escofet N, & Ruiz-Azuara L. (2021). 1H -NMR Metabolomics Study of the Effect of Cisplatin and Casiopeina IIgly on MDA-MB-231 Breast Tumor Cells. Frontiers in Molecular Biosciences, 8, 742859.

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1H NMR Spectroscopy of Food Samples

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¹H NMR spectra were recorded at the University of Copenhagen (Department of Food Science) using a Bruker Advance III 600 MHz NMR spectrometer equipped with a 5 mm broadband inverse RT (BBI) probe, automated tuning and matching accessory (ATMA) and cooling unit BCU-05, and an automated sample changer (Sample Jet, Bruker Biospin, Rheinstetten, Germany) with sample cooling (278 K) and preheating stations (298 K). Data acquisition and processing were carried out using TOPSPIN 3.5 PL6 (Bruker Biospin, Rheinstetten, Germany). The Icon NMR (Bruker Biospin, Rheinstetten, Germany) interface was used to control the automation of the overall measurement procedure. Automatic tuning and matching, lock, and shimming were performed using TOPSPIN 3.5 PL6. The standard pulse sequence with water suppression (noesygppr1d) was employed for measuring the one-dimensional ¹H NMR spectra. A total of 32 scans were acquired after 4 dummy scans, and the generated free induction decays (FIDs) were collected into 128 k data points using a spectral width of 20 ppm. Acquisition time, recycle delay, and mixing time were set to 2.72, 4.0, and 0.01 s, respectively. The receiver gain was set to 90.5. A more detailed description of NMR analysis has been reported in a previous paper [16 (link)].

Cui M., Trimigno A., Castro-Mejía J.L., Reitelseder S., Bülow J., Bechshøft R.L., Nielsen D.S., Holm L., Engelsen S.B, & Khakimov B. (2021). Human Fecal Metabolome Reflects Differences in Body Mass Index, Physical Fitness, and Blood Lipoproteins in Healthy Older Adults. Metabolites, 11(11), 717.

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