Gcms 2010se

Manufactured by Shimadzu

Sourced in Japan

The GCMS-2010SE is a gas chromatography-mass spectrometry (GC-MS) system developed by Shimadzu. It combines gas chromatography for sample separation with mass spectrometry for compound identification and quantification. The GCMS-2010SE provides high-sensitivity and high-speed analysis capabilities for a wide range of applications.

Automatically generated - may contain errors

Lab products found in correlation

Db 5ms capillary column, by Agilent Technologies (2 mentions) Qtrap 5500, by AB Sciex (1 mentions) 5 m duraguard column, by Agilent Technologies (1 mentions)

10 protocols using gcms 2010se

Comprehensive Analysis of Organic Acids and Sugars

Cited 2 times

Check if the same lab product or an alternative is used in the 5 most similar protocols

Organic acid and sugar content were evaluated using GC–MS (gas chromatography–mass spectrometry) following the procedures as described by Li et al. [29 (link)]. Soluble sugars and organic acids were extracted with 1.4 mL of 75% (V/V) methanol for 0.1 g of sample, with 400 ppm ribitol was used as internal standard, by shaking at 900 rpm at 70°C for 30 min. The supernatants were separated and transferred into a mixture of 750 μL chloroform (CHCl₃) and 1.4 mL ddH₂O. After mixing and centrifugation, samples of 2 μL and 50 μL of the supernatant were dried and then derivatized with 40 μL methoxyamine hydrochloride and 60 μL N-methyl-N-trimethylsilyl-trifluoroace-tamide (MSTFA). Analysis of soluble sugar and organic acid contents was conducted on a GCMS-2010SE instrument (Shimadzu Corporation, Kyoto, Japan).
The determination of starch content was performed as described by Li et al. [28 (link)]. The remaining precipitate after the extraction with 75% methanol for the determination of sugar and acid was repeatedly cleaned with 80% (v/v) ethanol three times, mixed with 0.1 M KOH and boiled for 30 min to gelatinize the starch. α-amylase at pH 4.5 was added and incubated at 55°C for 1 h. Reducing sugar content was determined by 3, 5-dinitrosalicylic acid (DNS), and then converted to starch content.

Zhang L., Wang C., Jia R., Yang N., Jin L., Zhu L., Ma B., Yao Y.X., Ma F, & Li M. (2022). Malate metabolism mediated by the cytoplasmic malate dehydrogenase gene MdcyMDH affects sucrose synthesis in apple fruit. Horticulture Research, 9, uhac194.

+ Open protocol

+ Expand

Metabolite Profiling of Plant Leaves

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

Soluble sugars were extracted and derivatized sequentially with methoxamine hydrochloride and N-methyl-N-trimethylsilyl-trifluoroacetamide, as described previously (Hu et al., 2018 (link)). The metabolites were analyzed with a Shimadzu GCMS-2010 SE (Shimadzu Corp., Kyoto, Japan). Values were calculated based on their corresponding standard curves and internal standards.
Amino acids were extracted and measured as described previously (Huo et al., 2020b (link)). Briefly, 200 mg of frozen leaf samples were extracted in 2 ml 50% ethanol (including 0.1 M HCl) and centrifuged at 13,000 g for 10 min. The supernatant was added to methanol at a final volume of 10 ml. The samples were filtered through a 0.22 μm filter to analyze the metabolites with a liquid chromatography-mass spectrometry system (QTRAP5500; SCIEX, Concord, ONT, Canada) equipped with an Inertsil ODS-4 C18 column (4.6 × 250 mm, 5 μm) at a flow rate of 0.3 ml/min. The solvent system consisted of water containing 0.1% (v/v) formic acid (A) and acetonitrile (B). Data were quantified by comparing the peak surface areas with those obtained using standard amino acids (Sigma-Aldrich, St. Louis, MO, United States).

Huo L., Guo Z., Zhang Z., Jia X., Sun Y., Sun X., Wang P., Gong X, & Ma F. (2020). The Apple Autophagy-Related Gene MdATG9 Confers Tolerance to Low Nitrogen in Transgenic Apple Callus. Frontiers in Plant Science, 11, 423.

+ Open protocol

+ Expand

Quantitative GC-MS Metabolite Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols

Soluble sugars and hexose phosphates were obtained and derivatized as described by Wang et al. (2010 (link)). Briefly, samples (0.09–0.11 g) were extracted in 1.4 mL of 75% methanol, with ribitol added as the internal standard. After the non-polar metabolites were fractionated into chloroform, 2 μl of the polar phase was transferred into 2.0-mL Eppendorf vials for measurements of the metabolites (Sor, Fru, Glc, Suc, galactose: Gal and myo-inositol) of each sample. They were dried under vacuum without heating and then derivatized sequentially with methoxyamine hydrochloride and N-methyl-N-trimethylsilyl-trifluoroacetamide (Lisec et al., 2006 (link)). Afterward, the metabolites were analyzed with a Shimadzu GCMS-2010SE (Shimadzu Corporation, Tyoto, Japan). These metabolites were identified by comparing their fragmentation patterns with those from a mass spectral library generated on our GC/MS system, and from an annotated quadrupole GC–MS spectral library downloaded from the Golm Metabolome Database (http://csbdb.mpimp-golm. mpg.de/csbdb/gmd/msri/gmd_msri.html. Quantifications were based on standard curves generated for each metabolite and internal standard.

Wei X., Liu F., Chen C., Ma F, & Li M. (2014). The Malus domestica sugar transporter gene family: identifications based on genome and expression profiling related to the accumulation of fruit sugars. Frontiers in Plant Science, 5, 569.

+ Open protocol

+ Expand

GC-MS Analysis of Soluble Sugars and Starch

Check if the same lab product or an alternative is used in the 5 most similar protocols

As previously described (Li et al., 2018; Yang et al., 2018), soluble sugars and hexose phosphates were extracted in 75% methanol with ribitol added as an internal standard and then derivatized sequentially with methoxyamine hydrochloride and N‐methyl‐N‐trimethylsilyl‐trifluoroacetamide. After derivatization, the metabolites were analysed using a Shimadzu GCMS‐2010SE (Shimadzu Corporation, Tokyo, Japan) with a DB‐5MS capillary column (20 m × 0.18 mm × 0.18 μm) and a 5‐m Duraguard column (Agilent Technology, California, USA). The residue after 75% methanol extraction for GC‐MS analysis was re‐extracted three times with 80% (v/v) ethanol at 80 °C, and the pellet was retained for the enzymatic determination of starch as Glc equivalents.

Wang Z., Wei X., Yang J., Li H., Ma B., Zhang K., Zhang Y., Cheng L., Ma F, & Li M. (2019). Heterologous expression of the apple hexose transporter MdHT2.2 altered sugar concentration with increasing cell wall invertase activity in tomato fruit. Plant Biotechnology Journal, 18(2), 540-552.

+ Open protocol

+ Expand

Metabolic Analysis of Seedling Leaves

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

As we described previously^{30 (link)}, soluble sugars were extracted and derivatized sequentially with methoxyamine hydrochloride and N-methyl-N-trimethylsilyl-trifluoroacetamide. Then, the metabolites were analyzed with a Shimadzu GCMS-2010 SE (Shimadzu Corporation, Kyoto, Japan). The tissue residue that remained after 75% methanol extraction for GC‒MS analysis was re-extracted three times with 80% (v/v) ethanol at 80 °C, and the pellet was retained for starch determinations^{30 (link)}. The assimilation of CO₂ in seedling leaves was monitored between 9:30 and 11:30 A.M. using a LI-COR 6400 portable photosynthesis system (LI-COR, Huntington Beach, CA, USA).

Yang J., Zhu L., Cui W., Zhang C., Li D., Ma B., Cheng L., Ruan Y.L., Ma F, & Li M. (2018). Increased activity of MdFRK2, a high-affinity fructokinase, leads to upregulation of sorbitol metabolism and downregulation of sucrose metabolism in apple leaves. Horticulture Research, 5, 71.

+ Open protocol

+ Expand

Metabolite and CO2 Assimilation Analysis

Cited 2 times

Check if the same lab product or an alternative is used in the 5 most similar protocols

Soluble sugars and sorbitol were extracted and derivatized sequentially with methoxyamine hydrochloride and N-methyl-N-trimethylsilyl-trifluoroacetamide, as previously described (51 (link)). Thereafter, the metabolites were analyzed with a Shimadzu GCMS-2010SE (Shimadzu Corporation, Kyoto, Japan). The tissue residue that remained after 75% methanol extraction for gas chromatography-mass spectrometry (GC‒MS) analysis was re-extracted three times with 80% (volume/volume) ethanol at 80 °C, and the pellet was retained for starch determinations (23 (link)). Additionally, the assimilation of CO₂ in seedling leaves was monitored between 9:30 and 11:30 AM, using a LI-COR 6400 portable photosynthesis system (LI-COR, Huntington Beach, CA).

Zhu L., Li B., Wu L., Li H., Wang Z., Wei X., Ma B., Zhang Y., Ma F., Ruan Y.L, & Li M. (2020). MdERDL6-mediated glucose efflux to the cytosol promotes sugar accumulation in the vacuole through up-regulating TSTs in apple and tomato. Proceedings of the National Academy of Sciences of the United States of America, 118(1), e2022788118.

+ Open protocol

+ Expand

Fatty Acid Composition Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols

The total fat in the samples was extracted according to published methods [32 ], and the fatty acid composition was determined by using a Shimadzu instrument (GC-MS 2010 SE, Kyoto, Japan). The map was queried against the National Institute of Standards and Technology (NIST) database (https://www.nist.gov/, accessed on 4 February 2022) for qualitative search, and the area normalization method was used for percentage quantification.

Sun Y., Shan X., Li D., Liu X., Han Z., Qin J., Guan B., Tan L., Zheng J., Wei M, & Jia Y. (2023). Analysis of the Differences in Muscle Nutrition among Individuals of Different Sexes in Redclaw Crayfish, Cherax quadricarinatus. Metabolites, 13(2), 190.

+ Open protocol

+ Expand

Derivatization and GC/MS Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols

As recently described [40 ], soluble sugars and hexose phosphates were extracted and then derivatized with methoxyamine hydrochloride and Nmethyl-N-trimethylsilyl-trifluoroacetamide. After derivatization, the metabolites were analyzed using a Shimadzu GC/MS-2010SE (Shimadzu Corporation, Tokyo, Japan).

Su J., Zhang C., Zhu L., Yang N., Yang J., Ma B., Ma F, & Li M. (2021). MdFRK2-mediated sugar metabolism accelerates cellulose accumulation in apple and poplar. Biotechnology for Biofuels, 14, 137.

+ Open protocol

+ Expand

Genetic Mapping of Fructose Content

Check if the same lab product or an alternative is used in the 5 most similar protocols

In accordance with previously described methods (Li et al., 2018) , soluble sugars were extracted with 75% methanol, and ribitol was added as an internal standard. The sugars were derivatized sequentially with methoxyamine hydrochloride and N-methyl-Ntrimethylsilyl-trifluoroacetamide. After derivatization, the analysis was performed with a Shimadzu GCMS-2010 SE (Shimadzu Corporation, Tokyo, Japan) equipped with a DB-5 MS capillary column (20 m 9 0.18 mm 9 0.18 µm) and a 5-m guard column (Agilent Technology, Santa Clara, CA, USA).
A high-density genetic linkage map was used for QTL detection of Fru contents. QTL analysis was conducted with MapQTL 6.0 (Kyazma, Wageningen, Netherlands) and was initially run with interval mapping (IM) computation. After a permutation test with 1000 replicates, a LOD threshold of 3.0 was used to find significant QTLs at the 95% confidence level (Wang et al., 2018) . Multiple QTL model (MQM) mapping was then performed using the loci nearest the QTL peaks as cofactors. The linkage map was graphed by MapChart 2.3 (Wageningen, Netherlands) (Voorrips, 2002) . Designations for QTLs were based on the years (2015 or 2016), parental genetic linkage map names (HC for 'Honeycrisp', QG for 'Qinguan'), and genetic positions (LG number). For LGs that had more than one QTL, the designation also included a dot and number suffix (Wang et al., 2018) .

Wang Z., Ma B., Yang N., Jin L., Wang L., Ma S., Ruan Y.L., Ma F, & Li M. (2022). Variation in the promoter of the sorbitol dehydrogenase gene MdSDH2 affects binding of the transcription factor MdABI3 and alters fructose content in apple fruit. The Plant journal : for cell and molecular biology, 109(5).

+ Open protocol

+ Expand

GC/MS Analysis of Soluble Metabolites

Check if the same lab product or an alternative is used in the 5 most similar protocols

As recently described [40] , soluble sugars and hexose phosphates were extracted and then derivatized with methoxyamine hydrochloride and Nmethyl-N-trimethylsilyl-tri uoroacetamide. After derivatization, the metabolites were analyzed using a Shimadzu GC/MS-2010SE (Shimadzu Corporation, Tokyo, Japan).

Wang J., Zhang C., Zhu L., Yang N., Yang J., Ma B., Ma F., & Li M. (2021). Overexpressing MdFRK2-mediated Sugar Metabolism Accelerates Cellulose Accumulation in Apple and Poplar.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!