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Indonesian Journal of Multidisciplinary Research 1(2) (2021) 171-206

Indonesian Journal of
Multidisciplinary Research
Journal homepage: http://ejournal.upi.edu/index.php/ IJOMR/

How to read and Interpret GC/MS Spectra

Adam Nugraha, Asep Bayu Dani Nandiyanto*

Departemen Pendidikan Kimia, Universitas Pendidikan Indonesia, Indonesia

Correspondence: E-mail: [email protected]

ABSTRACTS ARTICLE INFO

Gas chromatography mass spectrometry (GC/MS) analysis is Article History:
Received 01 May 2021
used as analytical tool for volatile and complex mixture Revised 11 May 2021
samples. Its effectivity and sensitivity to detect the analyte Accepted 10 Jun 2021
components make it applicable in a wide range of purposes. Available online 14 Jun 2021
This technique can be used to conduct quantitative as well as ____________________
Keyword:
qualitative analysis. Unfortunately, very few, if there are, of Fragmentation,
publications dedicate the research to give an explanatory Gas chromatogram,
report using a step-by-step approach on how to read and GC/MS,
Mass spectra,
interpret the analysis result. Thus, this study is aimed to fulfill Molecular structure.
the gap on bridging the spectra data output of GC/MS
measurement into the light of easy way reading and
interpreting its spectra. The research method used both
library spectra matching and a priory spectra interpretation
on chosen compound samples. The general guideline and
application are discussed.
© 2021 Kantor Jurnal dan Publikasi UPI
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1. INTRODUCTION

Gas chromatography mass spectrometry (GC/MS) analysis is an effective testing and

troubleshooting tool to identify and quantify chemicals in a complex mixture (Al-Rubaye et
al., 2017). Some of technical fields using GC-MS analysis are perfume industry (Van Asten,
2002), food (Chiu & Kuo, 2020; Vene et al., 2013), hydrocarbon fuels research pharmacy
research (He et al., 2016), forensic (Shimadzu, 2011; Bridge et al, 2018), and sometimes it
becomes more powerful to detect chemical warfare agent (Li et al., 2020).
GC and MS provide distinct but complementary results; while GC separates components of
a mixture, MS can analyze and identify these components. These methods were first used in
tandem in the 1950s, and are still widely applied in clinics and laboratories worldwide (Simon-
Manso et al., 2013).
Additionally, the separation by gas chromatography also provides information and
contributes to an unambiguous identification of organic substances. The process of
identification is nowadays supported by automated search algorithms; however, a profound
identification needs an in-depth knowledge of interpretation of both mass spectrometric and
gas chromatographic data. Therefore, this study is addressed to collect and summarize the
way to read and interpret GC/MS output in a practical and systematically manner. The
principal aspects of GC/MS data interpretation are given in advance by a brief description of
up-to-date processes of identification and, finally, by some examples from laboratory
research background and industrial uses as technical matter analyses.

1.1. Current knowledge for understanding GC/MS spectra

GC/MS is the synergetic combination of two powerful microanalytic techniques for
complex mixture (Bridge et al., 2019). The gas chromatograph separates the components of
a mixtures in time, and the spectrometer provides useful information on structural
identification of each component and quantifies the chemicals (Williams et al., 2014). Several
advantages resulting from this combination. Qualitative purposes can be obtained by complex
mixture separation with individual compound mass spectra showing a characteristic
fragmentation pattern or “chemical” fingerprint; quantitative information of the compound
collected in the same time from its nominal masses (Wu et al., 2013).
There are two types of data output (spectra) from different processes in the GC/MS
analysis:
a) Chromatogram. It describes a sequential peaks of separated analyte components at
different time (called as Relative Retention Indexes, RRI) resulted from different level of
attraction between the compounds and the column as shown in Figure 1. Every single one
of the chromatogram peaks represents a relative pure element of the sample after
separated chromatographically.
b) Fragmentogram (or mass spectra). The spectra show the pattern of mass fragmentation
of the detected elutants molecule ions as described in Figure 2. Fragmentation is the most
important process that allows to obtain information on the molecular structure of the
analyte measured by mass spectrometry (Holcapek & Byrdwell, 2017).
In order to achieve a successful structural determination, the mass spectrum should be of
a pure analyte (Sinha et al., 2011b). Total of ion current of the detected components become
the basic for measuring its relative concentration in the mixture as the distillation model
analysis gives a coherent and reliable measurement for the detected elutant as illustrated in
Figure 3 (Smith et al., 1977).

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Figure 1. Example of a GC/MS chromatogram displaying compound peaks sequence that

separated chromatograpically.

Figure 1. Example of mass spectrum from a mass spectrometer.

Figure 3. A schematic representation of a GC/MS profile, displaying relative concentration of

detected elementary compounds against its relative retention index, superimposed on the
corresponding total ion current plot (Smith et al., 1977).

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In a GC/MS qualitative analysis, there should be at least two spectra on either side of the
spectrum. Consistency of the spectrum to spectrum and the peak shape determine the
possibility of compound constitution, either the chromatogram represents a single compound
or more than it. Noise spikes, sometimes, are resulted by a neutral particle that is not
removed by the vacuum system striking the detector at the time ion of a specific m/z value
should be reaching it. It is distinguishable due to none of isotope peak associated. The
intensity of the noise peak can have a broad range from several orders of magnitude greater
than of the base peak of the analyte to as small as less than 1% of the density of the base
peak.
The prerequisite and key challenge of highly complex sample profiling is the rapid, reliable
and unambiguous identification (Schauer et al., 2005). The spectral retention index (RI) for
the unknown substances can be determined and matched with the database containing
values of compounds as the reference, for instance, the National Institutes of Standards and
Technology (NIST) which is updated every 3 years. This RI database is a useful tool to identify
the analyte along with the values based on literature citations and the GC/MS method used
in the procedure to obtain the values.
2. METHODS
2.1. Step-by-Step Interpretation Procedure of Analyte Chromatogram
GC/MS analysis has some optional means of sample introduction, including static
headspace analysis, thermal desorption, and direct injection (Al-Rubaye et al., 2017). They
can be opted based on type of sample and desired outcome. The resulting chromatograms
may differ in term of their appearance, but the basic understanding remain the same. The
systems and parameters used for an analysis need to be similar when comparing the results.
For instance, the comparison of failed epoxy and its reference spectra in a manufacturing
company (Figure 4) resulted from similar parameters (Pellett et al., 2018).
For explorational analysis, the procedure to interpret the GC chromatogram are as follows:
i. Step 1: Identify the peaks display. There should be at least two spectra to make a certain
judgement that analyte mixture has been separated well by the column. Every single one
of peak represents separated compound from the mixture.
ii. Step 2: Identify the order of the peaks along the RI axis. The order of the peaks is based
on their boiling points, except for isomers and molecules with similar molecular mass
which can be influenced by the method or column used on the compound retaining time.
The lowest one will be appeared as the first peak in the left chromatogram since they have
the lowest retention time. For commonly known compounds, we can compare the analyte
spectra pattern with internal references or any comparable laboratories data.

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Figure 2. An illustration of different spectra: a reference epoxy (top) and the analyzed epoxy
(bottom). Failed epoxy shows its large impurity of benzene compounds (y-axis) detected
around 9-minute mark of retention timeline (x-axis).
2.2. Step-by-Step interpretation procedure of mass spectra
After analyze the probability of detected compound through GC chromatogram, the next
step is to determine the structure based on mass spectra interpretation. Always read the mass
spectrum from the right to the left. The peaks at the highest m/z values in the spectrum
represent ions that contain the most information about the intact analyte. Following are steps
used in the m/z value determination for a molecular ion peak:
a) Step 1: Identify the molecular ion. The molecular ion (M+•) peak, if present, will be the
peak at the highest m/z value in the spectra (Figure 5). That does not represent sample
background or that is not an isotope peak. In an EI mass spectrum, the M +• peak
represents an odd-electron ion because all neutral molecules have an even number of
electrons, and the M+• is formed by the loss of a single electron from the neutral molecule
to form a particle that has a net-positive charge. The exception is for the compounds
containing an odd number of N atoms in addition to C, H, O, Si, S, P, and halogens will
have an odd nominal mass; therefore, the M+• peak for these compounds will have an odd
m/z value as shown in Figure 6. Any compound containing an even number of nitrogen
atoms will have an even m/z value M+• peak.

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b) Step 2: Identify the fragmentation pattern. M+• peak must be followed (right to left) by
non-isotope peaks that represent losses of logical groups of atoms based on nominal mass
and valence rules. The compounds are fragmented in a certain sequence. An aliphatic
chain always shows significant series of ion. For example, Figure 5 represents 1,1-
dichloroethane has fragments pattern as 27, 63, 83, 98. Its mass losses are 69-35-15. Thus,
the probability causes of its losses are Cl2, Cl, and CH3 (indicative as C1 aliphatic alkyl
fragment).
c) Step3: Determine for significant ion series. Aliphatic series has significant ion series which
is easy to identify. The indicative ion series of molecular fragmentation seen in Table 1.
Figure 6 shows the fragment peak as 114 m/z value. Its losses due to aliphatic chain by 71
m/z (resulted from 185-114). The number indicative for alkanes significant series.
d) Step 4: Identify the isotope pattern (S, Cl, Br). Chlorine and bromine are very important
elements in organic many organic analyses, especially for pollutants detection. Both
relative stable isotopes (35Cl/37Cl by ratio 3:1; and 79Br:81Br by ratio 1:1, respectively)
exhibit significant A+2 pattern with huge abundances. In Figure 5, observed from the
isotope peak that in molecular ion has typical pattern of exist Cl 2. Figure 7 shows a
comparison of mass spectra pattern of Cl-isotopes.
e) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Figure 6 shows that nitrogen as the hetero atom can induce the
cleavage of nearest bond. The fragment is detected in the spectra.

Figure 3. Scheme of typical mass spectrum adopted from Scwarzbauer (2020) with
modification.

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Figure 4. Mass spectra illustration of dihexylamine compounds following N rule

(Scwarzbauer, 2020).

Table 1. Indicative fragment patterns on mass spectra identification.

Functional group Start mass Ion series
Alkanes 29 (C2H5+) 43, 57, 71, 85, 99, 113, ...
Alkenes 27 (C2H3+) 41, 55, 69, 83, 97, 111, ...
Ethers 31 (CH3-O+) 45, 59, 73, 87, 101, ...
Alcohols 31 (H2C+-OH) 45, 59, 73, 87, 101, ...
Ketones 43 (CH3-C+O) 43, 57, 71, 85, 99, 113, ...
Amines 30 (H2C=N+H2) 30, 44, 58, 72, 86, 100, ...
Benzene 77 (C6H5+) 77

Figure 5. Isotopes pattern of chlorine.

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2.3. Experimental Methods

To understand how to read and interpret the GC/MS spectra, the step-by-step procedures
are applied to some studies conducted through GC/MS analysis. A hierarchical complexity
approach presented to achieve better comprehension as the case study started from the least
to the most complex mixtures and compounds structure in the analysis. The simple
compounds used to identify are: carbon disulfides, ethanol, acetaldehyde, and
dichloro(silyloxy) silane. The fairly complex compounds used are: methyl-tert-butyl-ether
(MTBE), methyl-oleic-ester, methyl-palmitic-ester and 1-(2-Hydroxyethyl)-2-imidazolidinone
(HEIA). The more complex compounds used are: β-cymene, 1,2,3-benzenetriol, and eugenol.
The very complex compounds used are: Diazepam, nordazepam, oxazepam, thiabendazole,
and testosterone.
CS2 spectra used here taken from Mujawar et al., (2014) in a chili mixture containing
pesticide compounds. Ethanol and acetaldehyde spectra resulted from a mixture of neural
tissue in mouse brain (Heit et al., 2017). Dichlorosilane spectra identification used from a
mixture of trichlorosilane with impurities contain (Cambria & McManus, 1990). MTBE is
identified from gasoline mixture (Quach et al., 1998). Methyl-oleic ester and methyl-palmitic
ester spectra are used from a mixture of fatty oil in tomato seed (Botinestean et al., 2012). 1-
(2-Hydroxyethyl)-2-imidazolidinone (HEIA) spectrum is obtained from post-combustion
products mixtures identification (Saeed et al., 2017). β-cymene compound spectrum is used
from the identification of the volatile organic compounds (VOCs) from Glycyrrhiza uralensis
and honey-roasting products (He et al., 2016). 1,2,3-benzenetriol is identified from extract of
Eugenia flocossa leaves (Kala et al., 2012). Eugenol spectrum is reported by Li et al., (2018)
from food samples (coca cola). Diazepam, nordazepam and oxazepam are used from blood
and urine samples using benzodiazepines assay (Wallace et al., 1980). Thiabendazole
chromatogram is resulted from grapefruit extract analysis (Schachterle, 2010). Testosterone
chromatogram is used from the report of Fitzgerald et al., (2010) analysis on human serum.
3. RESULTS AND DISCUSSION
3.1 GC/MS Interpretation of Simple Mixtures
3.1.1 Sample 1: Carbon disulfides
First mixture sample is the simplest example, carbon disulfides (Figure 8). The mixtures are
consisted of carbon disulfide (CS2) and other minor compounds. Mujawar et al., (2014)
reported that CS2 analysis could be used to determine the concentration of dithiocarbamate
pesticide in a mixture. Figure 9 shows GC/MS chromatogram of CS2.

Figure 8. CS2 structure.

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Figure 6. Chromatogram of CS2 (Mujawar et al., 2014).

Using step-by-step procedure to read and interpret the chromatogram, we can analyze
that:
1. Step 1: Identify the peaks display. Based on the chromatogram display, observed that the
sample has been ideally separated with a huge difference of area. There are two analytes
in total detected after separation of the sample by the column.
2. Step 2: Identify the order of the peaks along the RI axis. First detected compound is CS2 at
RI 1.5 min. Whereas at RI of 1.93 min; other compounds is observed.
Figure 10 represents the mass spectrum of CS2 individual compound. According to the
procedure, the interpretation steps are as follow:
1) Step 1: Identify the molecular ion. The molecular ion is observed in the rightest bar. Its
m/z value is 76, similar with its molecular weight.
2) Step 2: Identify the fragmentation pattern. Based on the bar graph, there are two other
peaks besides the molecular ion. The peak is at m/z 76, 44, and 32. Due to its simple
structure and the atoms built it, we can simply know that the logical mass losses are from
S and C as the masses are identical with their atomic weight.
3) Step 3: Determine for significant ion series. As the structure is the simplest one, none of
the series will be observed.
4) Step 4: Identify the isotope pattern (S, Cl, Br). The molecular ion isotope pattern of CS 2
has similar occurrence with typical pattern of S2. Its relative intensity represents the
proportional comparison between 32S and 34S as illustrated in Figure 11.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Both cleavages happen between C and S.
Using the step-by-step procedure, we can identify conclusively that based on the mass
spectra interpretation, the compound at relative RI 1.5 is CS2.

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Figure 7. CS2 mass spectrum and its interpretation result using ab initio procedural steps.

Figure 8. Relative intensities of the A+2 signals of Sulphur (34S) by increasing atom numbers
(Schwarzbauer & Jovančićević, 2020).
3.1.2 Sample 2: Ethanol and acetaldehyde
Second mixture sample is relatively simple, consisted of three major organic compounds,
namely ethanol, acetaldehyde, and toluene. The research conducted by Heit et al., (2017) was
purposed to identify ethanol and acetaldehyde as alcohol addiction cause metabolites in the
living tissues. Figure 12 shows GC/MS chromatogram resulting.

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Figure 9. Mixture and individual chromatogram of acetaldehyde, ethanol, and toluene (Heit
et al., 2017).
Using step-by-step procedure to read and interpret the chromatogram, we can analyze the
step as follow:
1) Step 1: Identify the peaks display. Based on the chromatogram display, observed that the
sample achieved ideal separation with a distinct resolution. In particular, ethanol was
detected sharp and strong.
2) Step 2: Identify the order of the peaks along the RI axis. First detected compound is
acetaldehyde at RI of 8.6 min; ethanol firmly observed at RI 9.8 min; while toluene peak
rises at 16.4 min.
On the other hand, relative spectral mass is to read and interpret by the following step-by-
step procedure:
1) Step 1: Identify the molecular ion. Based on Figure 13, molecular ion of ethanol is
measured by 45.1 m/z, while in the Figure 14, molecular ion of acetaldehyde appears at
44.1m/z.
2) Step 2: Identify the fragmentation pattern. In Figure 13, the fragmentation pattern
observed of m/z ratio is 45.1, 31.2, and so on. According to mass lost sequence, we assume
that in logical order of the lost due to the removal of 1 methyl. It is indicative as the mass
is 14 m/z. While for acetaldehyde (Figure 14), the mass loss represented by m/z order of
44.1 (molecular ion) to 29.2 (base peak). The logical order of mass loss is due to 1CH3.
3) Step 3: Determine for significant ion series. Mass losses from ethanol and acetaldehyde
are significant series of aliphatic chain as described in Table 1. The residual fragments also
typical for starting mass of alcohols and aldehyde groups.
4) Step 4: Identify the isotope pattern (S, Cl, Br). There is no S, Cl, nor Br containing.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. As the structures are relatively simple, the cleavages are following the
series pattern.

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Figure 10. Selected mass spectrum of ethanol (Heit et al., 2017), and its interpretation
result.

Figure 11 Selected mass spectrum of acetaldehyde and its interpretation result.

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3.1.3 Sample 3: Dichloro(silyloxy)silane

Sample 3 is dichloro(silyloxy)silane. It is not organic compound as GC/MS mostly used.
However, the application of the technique is possible to identify the presence of impurities in
the mixtures, especially for qualitative analysis after coupled with ICP (inductively coupled
plasma). Originally the compound has molecular formula Si2Cl2OH4. Thus, the qualitative
information based on the spectra is expected to give the predicted possible structure of the
compounds (whether it has structure of dichlorosilane or not), besides to identify some
impurities existence. Figure 15 shows GC/MS analysis spectra of dichloro(silyloxy)silane
(Si2Cl2OH4), with its interpretation using procedural steps.
The interpretation of Si2Cl2OH4 mixture chromatogram using step-by-step procedure is as
follow:
1) Step 1: Identify the peaks display. Based on the GC/MS chromatogram in Figure 15, the
spectrum shows separation processes are successful.
2) Step 2: Identify the order of the peaks along the RI axis. The assumed trichlorosilane (or
dichloro(silyloxy)silane, to be precise) compound is observed at relative retention time 8
min. The tailing effect next to assumed Si2Cl2OH4 apparently comes from unknown
component, which its peak comes up in RI 8.92 min. It gives a relatively higher peak as the
possible concentration also fairly high.
The mass spectra step-by-step interpretation procedures are following:
1) Step 1: Identify the molecular ion. The first bar on the right side is observed at m/z 147
given by isotope peak. While the molecular ion peak is identical with the molecular weight
of Si2Cl2OH4 ion, 145.
2) Step 2: Identify the fragmentation pattern. In Figure 15, the fragmentation pattern
observed of m/z ratio is 145, 109 (± 35.5), and 72 (-37). The pattern is closed to two times
of chlore atoms released. According to mass lose sequence, we assume that in logical
order of the lost due to the removal of first (35Cl) and second (37Cl) -Cl fragmented atoms.
3) Step 3: Determine for significant ion series. There is no ion series observed for no
hydrocarbon containing in the structure.
4) Step 4: Identify the isotope pattern (S, Cl, Br). From the fragmentation pattern in the step
2, we assumed that the isotopes are released. We can confirm from the isotope pattern
in the molecular ion bars shape. The pattern is similar with the Cl2 isotopes pattern in
Figure 7. Hence, it is confirming the Cl2 fragments in step 2.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. As the structures are relatively simple, the cleavages observed are only
due to chlorines without another backbone fragments release following.
After the GC-MS spectra interpretation by introduced procedural steps, we can conclude that
the compounds are identified as dichloro(silyloxy)silane (Si2Cl2OH4) with dichlorosilane
(SiCl2H-) structure in the mixture.

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Figure 15. GC/MS analysis spectra of dichloro(silyloxy)silane (Si2Cl2OH4) (M.Geiger &

McElmurry, 2020), with its interpretation using procedural steps.
3.2 GC/MS interpretation of fairly complex mixtures
3.2.1 Sample 1: Methyl-Tert-Butyl-Ether (MTBE)
First sample of fairly complex mixtures is methyl-tert-butyl ether in gasoline mixtures.
Quach et al. (1998) reported their experiment to analysis MTBE and benzene in gasoline.
Figure 16 shows chromatogram for gasoline mixtures in 1-chlorohexdecane. Gasoline was
prepared from mixtures of MTBE, benzene, toluene and o-xylene.
Based on the ion chromatogram, the interpretation using step-by-step procedures are as
follow:
1) Step 1: Identify the peaks display. Figure 16 represents the spectrum of gasoline mixture
separation process. The complex pattern of chromatogram (multiple peaks) given by
typical detection of large aromatic compounds; benzene, toluene, and o-xylene.
2) Step 2: Identify the order of the peaks along the RI axis. Measurement of compounds
masses indicate that MTBE (m/z = 73) tends to elute at the first place on relative RI 1.8
min (single peak). Benzene has more than one peak detected, 2.51, 8.57, and 9.52 min
respectively. The same phenomenon shown by toluene and o-xylene chromatogram
peaks, which have 4.58, 8.57, and 9.52 for toluene; 8.57 and 9.52 (both overlapped with
benzene and toluene peaks).

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The mass spectra step-by-step interpretation procedures are following:

1) Step 1: Identify the molecular ion. Individual mass spectrum of detected compound at 1.8
min is presented in Figure 17. The first bar (base peak) has m/z value 73. There is no
molecular ion peak due to loss of a -CH3 group during electronic impact ionization. It is the
cause of only one peak in ion chromatogram shown, where the methyl group undetected
in the molecular ion (Mr = 88).
2) Step 2: Identify the fragmentation pattern. In Figure 15, the fragmentation pattern
observed of m/z ratio is 145, 109 (± 35.5), and 72 (-37). The pattern is closed to two times
of chlore atoms released. According to mass lose sequence, we assume that in logical
order of the lost due to the removal of first (35Cl) and second (37Cl) -Cl fragmented atoms.
3) Step 3: Determine for significant ion series. The first mass losses representing indicative
aliphatic chain, so that we conclude that the leaving group is methyl (-CH3). m/z value of
43 tends to be significant series of ethers group.
4) Step 4: Identify the isotope pattern (S, Cl, Br). There is no S, Cl or Br in this mixture or
structures.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Besides methyl cleavage on methyl group, it is possible the cleavage
on tert-butyl side resulting m/z value 31. However, no bar indicating such cleavage. m/z
value 29 is closer to the cleavage of -+C2H5. Hence, only one optional cleavage that most
possible in this case.
Based on the GC-MS spectra interpretation by introduced procedural steps, we can
conclude that the compounds are identified as MTBE from the mixture of gasoline.

Figure 16. GC/MS chromatogram for the gasoline mixture sample in 1-chlorohexadecane.

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Figure 17. MTBE chromatogram (Quach et al., 1998), with ab initio interpretation using
procedural steps.

3.2.2 Sample 2: Methyl-Palmitic Ester and Methyl-Oleic Ester

The second samples to interpret and identify are methyl-palmitic ester and methyl-oleic
ester in the tomato seed oil (TSO) mixture. Both are two compounds obtained from
derivatized TSO fatty oil (Botinestean et al., 2012). Their differences come from chain length
and the presence of unsaturated bond, as shown in Figure 18 and Figure 19.

Figure 18. FAME structures of palmitic and oleic derivatized TSO.

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Figure 19. Chromatogram of Tomato Seed FAME (Botinestean et al., 2012).

Based on chromatogram of TSO in Figure 19, we can interpret the spectrum using
procedural steps:
1) Step 1: Identify the peaks display. Figure 19 depicts that palmitic and oleic TSO FAME are
separated from the mixture.
2) Step 2: Identify the order of the peaks along the RI axis. Palmitic methyl ester is eluted at
RI 26.685 min, while oleic derivate is measured at 29.705 min.
Since the main information has been withdrawn, the spectra of both compounds mass are
interpreted individually by the procedural steps:
1) Step 1: Identify the molecular ion. Individual mass spectrum of methyl-palmitic ester in
Figure 20 illustrating the fragmentation pattern processes. Its molecular ion detected at
m/z value 270. In the meantime, methyl-oleic ester molecular ion seen at m/z value 296
in Figure 21.

Figure 20. Palmitic FAME mass spectrum with ab initio interpretation using procedural
steps.

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Figure 21. Oleic FAME mass spectrum with ab initio interpretation using procedural steps.

2) Step 2: Identify the fragmentation pattern. Both palmitic and oleic derivates show the
fragmented peaks of methoxy group as the first leaving fragment. The next fragments
belong to carbonyl group, whereas the aliphatic chain following to break the bonds. The
difference of fragmentation pattern seems due to the presence of double bond in
octadecenoic chain, as shown in Figure 21.
3) Step 3: Determine for significant ion series. The fragmentation patterns of either palmitic
or oleic show the significant series of aliphatic alkanes and starting mass of ether groups.
The serial cleavages shown in Figure 20 and Figure 21.
4) Step 4: Identify the isotope pattern (S, Cl, Br). Both compounds have no S, Cl, nor Br in
their structures.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. The cleavages could be happened in methyl group to break its bond
with oxygen. The spectrum, however, indicates the cleavage prefer as methoxy group to
methyl one.
Based on the GC-MS spectra interpretation by introduced procedural steps, we can
conclude that the compounds are identified as methyl-palmitic ester and methyl-oleic ester
from the mixture of tomato seed oil (TSO).
3.2.3 Sample 4: 1-(2-Hydroxyethyl)-2-Imidazolidinone (HEIA)
The last one of fairly mixture sample 5 is 2-aminoethylethanolamine (AEEA) compound
degradation identification from post-combustion products mixtures (Saeed et al., 2017). It
has nitrogen in the structure of the compounds. The degradation product is 1-(2-
Hydroxyethyl)-2-imidazolidinone (HEIA) as shown in Figure 22. Figure 23 shown the gas
chromatogram (top) and mass spectrum (bottom) of HEIA.

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Figure 22. Chemical degradation reaction of AEEA to HEIA.

Figure 23. Gas chromatogram (top) and mass spectrum (bottom) of HEIA (Saeed et al.,
2017).

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According to the case, we are identifying the spectra of HEIA formed in the reaction. The
general step-by-step procedure are as follow:
1) Step 1: Identify the peaks display. Figure 23 (top picture) shows some tiny peaks in
generally. In contrary a single big and tall peak standing on the middle of the line. The
highest and biggest peak represents HEIA produced and separated from the mixture
components.
2) Step 2: Identify the order of the peaks along the RI axis. As the major component resulted
in the reaction and analyzed by the instrument, HEIA has retention time at 15 min. So,
another compound on the left and right are neglected as they are not the focus of the
study.
Based on Figure 23, we can summarize our study finding using step-by-step procedure
below:
1) Step 1: Identify the molecular ion. Figure 23 (bottom) shows the mass spectrum of HEIA.
The first bar detected has m/z ratio 130, which is identic with relative molecular mass of
HEIA.
2) Step 2: Identify the fragmentation pattern. The fragmented isotope detected
subsequently are 99, 70, 56, and so on. The pattern is so close to the data fetched from
NIST library as shown in Figure 24.
3) Step 3: Determine for significant ion series. The pattern of mass losses in Figure 24 are
indicative of alcohols ion series (31, 45, and so on).
4) Step 4: Identify the isotope pattern (S, Cl, Br). There is no S, Cl, or Br in this structure.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Possible cleavages of any bond in and out of the imidazolinone ring
are evaluated. Mass fragments possible the cleavages before (aliphatic chain) and after
the nitrogen from the ring involving its ring opening, and followed by subsequent
fragmentations.
From the result of spectra interpretation, we conclude that HEIA is identified from the
mixture of post-combustion product in RI 15 min.

Figure 24. Mass spectrum of HEIA and its interpretation using procedural steps.

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3.3 GC/MS Interpretation of More Complex Mixtures

3.3.1 Sample 1: β-cymene
First sample of more complex compound in this study is β-cymene (Figure 25), which is one
of the VOCs compound component from Chinese traditional herbs (He et al., 2016). Different
traditional preparation methods resulted different aromatic components. The gas
chromatogram from several preparation methods shown in Figure 26.

Figure 25. β-cymene structure.

Figure 12. GC/MS comparison for the different honey-roasting products (segment 0-35 min).

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Based on the chromatogram in Figure 26, we analyze the spectrum using step-by-step
approach:
1) Step 1: Identify the peaks display. Figure 26 shows that the sample has been separated by
the column.
2) Step 2: Identify the order of the peaks along the RI axis. The pattern of RI’s order is in the
very identical in three spectra for three sample. To interpret which is the peak of β-
cymene, the common method is to compare with the references used the similar method
of separation and column. This work has been reported in the article currently studied,
based on the comparative references study it tends to come up at RT 9.4 min. So, the
interpretation is continued to the individual mass spectra.
The mass spectra step-by-step interpretation are following:
1) Step 1: Identify the molecular ion. Figure 27 represents the mass spectrum of assumed β-
Cymene. First bar detects molecular ion at m/z value 134. It is similar with β-Cymene
molecular mass. The value is successful to distinguish β-Cymene from another compound
with has similar RI.
2) Step 2: Identify the fragmentation pattern. Based on mass spectrum, the fragments are
detected at m/z value 119, 91, 77, and so on. Its first mass loss is due to methyl group for
its indicative mass (m/z = 15). The second fragment also because of aliphatic chain (43).
While the m/z 77 is typical for benzene mass spectrum. To simplify the interpretation, the
benzene fragmentation will not be conducted further.
3) Step 3: Determine for significant ion series. The major losses are due to aliphatic chain
as 15 and 43 are significant ion series of alkanes.
4) Step 4: Identify the isotope pattern (S, Cl, Br). There is no S, Cl, nor Br atom in the
structure.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. There is no hetero atom in the β-Cymene compound structure.
Based on the step-by-step procedures, we conclude that the compound by which its RI is
9.41 and the spectrum interpreted is identified as β-Cymene.

Figure 27. β-Cymene mass spectrum and its interpretation result using procedural steps.

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3.3.2 Sample 2: 1,2,3-Benzenetriol

Sample 2 for more complex compound in organic mixture is 1,2,3-benzenetriol Eugenia
flocossa leaves (Kala et al., 2012). It has relatively complicated chromatogram pattern as well
as tends to more complex mixture characteristic. Figure 28 shows the overlapped and
broaden TIC peaks appearance.
The step-by-step interpretation procedure are as follow:
1) Step 1: Identify the peaks display. Figure 28 has plethora of peaks, which means separated
components are detected. The figure also displays imposed data of relative retention
indices with relative molecular masses. 1,2,3-benzenetriol compound has molecular mass
126 gr/mol.
2) Step 2: Identify the order of the peaks along the RI axis. The data of MR gives us a hint to
narrow the identification. We focus on the peaks that show molecule masses 126 gr/mol.
Unfortunately, there are more than one peak detected to have similar number in different
retention time.
Based on the mass spectra step-by-step interpretation, some explanation come up as
follow:
1) Step 1: Identify the molecular ion. Figure 29 depicts the mass spectrum of 1,2,3-
benzenetriol. The first right and highest bar belongs to 1,2,3-benzenetriol molecular ion
with m/z value 126.
2) Step 2: Identify the fragmentation pattern. Base peak is observed at 108 of m/z value,
followed by some 97, 80, and so on. First fragment (m/z= 108) has been expected for the
first -OH group leaves at first. However, the second fragment is too high by m/z value as
what to expect will be about 92. While peak of 80 is a bit higher as well than what is
believed belongs to benzene fragment pattern should be at 77 or 78, according to logical
order of mass losses of 3 -OH groups leaving the ring one-by-one.
3) Step 3: Determine for significant ion series. Indicative ion series can be guessed easily for
-OH groups as its mass are reduced by 18 value of m/z. Since the structure has three
hydroxyls, the bonds breaking needs three times of mass deduction in the spectrum.
However, the number of mass ratio is too higher than what expected by calculation.
4) Step 4: Identify isotope pattern. There is no S, Cl, nor Br atom exists in the structure, but
when we analyze the isotope peaks pattern, it gives an interesting information. The m/z
value from the second fragment onward are dominated by isotope peaks. That is why the
m/z value tend to be higher than it used to be. 13C isotopes make their relative intensities
higher than 12C after first -OH group leaves the benzene ring. The resulting m/z gap with
the 12C-benzene with two hydroxyl groups is higher than one or three of it attached to the
benzene. It is shown from its relative intensity is lower than the other two. The last and
basic benzene fragment without any -OH group shows narrower gap with 12C-benzene
(m/z=77), so that it confirms its stability for this favorable structure compared to the prior
ones.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. There is no another hetero atom than in hydroxyl leaving group.
Besides some rational isotope peaks of 13C with dominating m/z value of the benzene, no
other cleavages noticed out of the peak.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as 1,2,3-benzenetriol. The illustration of the
spectrum interpretation is shown in Figure 29.

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Figure 28. Chromatogram of the ethanolic leaf extract of Eugenia flocossa (Kala et al., 2012).

Figure 29. Mass spectrum of 1,2,3-benzenetriol and its interpretation via ab initio
procedural steps.
3.3.3 Sample 3: Eugenol
Sample 3 of more complex compound in organic mixture for GC/MS spectra determination
is eugenol (Figure 30). The compounds were analyzed from foods and beverages (Li et al.,
2018). In this study, the chromatogram chosen as the sample is from coca cola mixtures. The
analyzed chromatogram uses comparative line with internal standard. The stepwise
procedure to interpret the chromatogram as follow:
1) Step 1: Identify the peaks display. Figure 31 shows multiple peaks detected, in which a
single dominating peak distinguished from another separated component. Based on
cooperation result with internal standard mixtures, identified that eugenol retained at RI
9.3 min.
2) Step 2: Identify the order of the peaks along the RI axis. The chromatogram also shows
another ‘smooth’ low peak at RI around 8.7 min. The remaining peaks are too low to
observe, so we cannot conclude anything from them.
Based on the mass spectra of eugenol in Figure 32, the interpretation according stepwise
procedure are as follow:

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1) Step 1: Identify the molecular ion. Figure 32 illustrate the mass spectrum of eugenol. The
first detected on the right side appears not from eugenol, as eugenol has molecular mass
around 164m/z. So, it will be excluded from structural fragments identification. The next
m/z bar belongs to the eugenol molecule for its value is 163 closes to eugenol molecular
mass.
2) Step 2: Identify the fragmentation pattern. Base peak is observed at 147 of m/z value,
followed by some 135, 107, and 91. First fragment (m/z= 147) is expected for the first -OH
group leaves the molecule structure. The second fragment is significant for alcohol ion
series, as the mass losses are relatively similar to ethanol fragment. The alkyl group tends
to remove resulting the fragment with m/z 107, following the elimination of -OH group in
the first place. While the last one, given by phenolic fragment based on the simulation of
relative residual fragmentation tool.
3) Step 3: Determine for significant ion series. As mentioned above, the fragmentation
patterns show very indicative significant ion series of alcohol and alkanes groups
according to the mass loss patterns. Indicative ion series can be guessed easily for -OH
groups as its mass are reduced by 18 value of m/z.
4) Step 4: Identify isotope pattern. The spectrum in Figure 32 has no isotope peaks to
interpret. Hence, some inaccurate pattern of mass losses cannot be discussed further. Nor
any S, Cl, and Br atom exists in the structure.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. There is only one possible hetero atom cleavage in eugenol structure,
that is by methoxy group which leaves the structure as alcohols as detected in the
spectrum.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as eugenol. The chromatogram also in consistent
with the individual fragments pattern in mass spectrum analysis.

Figure 13. Eugenol structure.

Figure 14. Ion chromatogram of eugenol sample in coca cola mixture (Li et al., 2018).
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Figure 15. Mass spectrum of eugenol and its interpretation using ab initio procedure (Li et
al., 2018)
3.4 GC/MS Interpretation of very complex mixtures
The samples used for very complex compounds category are benzodiazepine derivatives
(diazepam, nordazepam, and oxazepam), benzimidazole derivative (thiabendazole), and
testosterone (underived). Diazepam, nordazepam and oxazepam are analyzed from the same
mixture using benzodiazepines assay from human excretes like blood and urine (Wallace et
al., 1980). Figure 33 illustrate the relationship of our samples with basic structure of
benzodiazepine.
The mixture of benzodiazepine derivatives is analyzed using GC/MS. The chromatogram
result is shown in Figure 34. Based on the spectrum, we can interpret it using the stepwise
procedure:
1) Step 1: Identify the peaks display. In benzodiazepine assay conducted, the sample was
compared with individual standard chromatogram. Thus, we have some conclusive
identification of the chromatogram peaks. The separation is well proceeded and all peaks
resulted are smooth and sharp.
2) Step 2: Identify the order of the peaks along the RI axis. It is well informed that diazepam,
nordazepam, and oxazepam peaks appear in RI 5.26, 5.49. and 6.29 min, respectively.
Another peaks of benzodiazepine derivatives are also detected as well, but not included
in the discussion.

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Figure 33. Schematic derivatives of benzodiazepines.

Figure 34. Chromatogram spectrum of human blood sample for benzodiazepine assay.
3.4.1 Sample 1: Diazepam
After the separation process conducted, the compounds individual mass spectra are about
to identify. We make assessment on the first retained component. It is assumed as diazepam.
To determine its structure, we do spectrum interpretation using step-by-step procedure
consistently. The spectrum of diazepam is shown in Figure 35. Following are interpretation
steps:
1) Step 1: Identify the molecular ion. Figure 35 represents the mass spectrum of diazepam.
First bar detected is identic to diazepam molecular mass, 284 m/z. Its nominal mass has
an even number, follows nitrogen rule.
2) Step 2: Identify the fragmentation pattern. Next to the molecular bar is the base peak
observed at 254 of m/z value, followed by some peaks at 249, 221, 199, and 165. For
simple and easy interpretation of the compound, we do not discuss every single fragment
we have. We can pick some noticeable and distinctive patterns only.
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3) Step 3: Determine for significant ion series. As the base peak is detected at 254 m/z value,
we can easily refer the lose mass as typical for ketones series (m/z is 30). The only -Cl in
the structure is fragmented resulting mass reduction from 284 to 249 (-35 m/z). The
alternative is, after ketones group leaves, -Cl follows them. The indicative peak appears at
m/z 221 to support this assumption.
4) Step 4: Identify isotope pattern. Since diazepam has one Cl, its isotope pattern can be
simply distinguished as we see in Figure 7 of Cl isotopes pattern and its relative intensity.
The fragment in spectrum of 249 m/z show typical isotope bar for one Cl.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Any cleavages in the structure due to its nitrogen containing is
considerable. Figure 35 show some most probable cleavages close to electronegative
hetero atom (i.e., nitrogen). Overall, there are three cleavage sites, next to nitrogen atoms
in the diazepine ring. For illustration details, we provide m/z values of the fragments
interpretation result, thus better comprehension can be achieved toward available figures
of the mass spectra.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as diazepam. The compared chromatogram result
is in line with the individual fragments pattern in mass spectrum analysis.

Figure 16. Mass spectrum of diazepam and its interpretation result.

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3.4.2 Sample 2: Nordazepam

Second sample of very complex compound is nordazepam, another derivative of
benzodiazepine. It is separated from the mixture of human serum, detected at RI 5.49 min
over benzodiazepines assay method. Based on its individual mass spectrum in Figure 36, we
can interpret it and identify the compound using step-by-step procedure as follow:
1) Step 1: Identify the molecular ion. For the nordazepam individual mass spectrum, we have
a peak at m/z 270. It is similar to nordazepam molecular mass. As seen in Figure 36, the
molecular ion has the strongest intensity. The compound has shown that its nominal mass
has an even number, follows nitrogen rule.
2) Step 2: Identify the fragmentation pattern. Next to the molecular bar is the base peak
observed at 241 of m/z value, followed by some peaks at 235, 207, 165, and so forth. For
some reasons, the fragmentation pattern is relatively similar to diazepam. Not only their
structures are so close, which their difference is only due to one methyl branch, but also
their fragmentation patterns are also similar. Thus, several assumptions are reliable as
well.
3) Step 3: Determine for significant ion series. As the base peak is detected at 241 m/z value,
we can easily refer the lose mass as typical for ketones series (m/z is 29). The only -Cl in
the structure is fragmented resulting mass reduction from 284 to 249 (-35 m/z). Or the
alternative is ketones first, and followed by -Cl as detected at peak of 207 m/z value.
Similar to diazepam pattern.
4) Step 4: Identify isotope pattern. Since nordazepam has one Cl, its isotope pattern can be
simply distinguished as we see in Figure 7 of Cl isotopes pattern and its relative intensity.
The fragment in spectrum of 249 m/z show typical isotope bar for one Cl. Once again,
structure assumptions that we use for diazepam are also reliable for nordazepam. It
reveals the conclusion that our procedure is consistent by results. The similar way seems
possible for oxazepam and other benzodiazepine derivatives.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Figure 36 shows some most probable cleavages next to the hetero
atom exist (i.e., nitrogen). The cleavages pattern is relatively similar with diazepam.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as nordazepam

Figure 36. Mass spectrum of Nordazepam and its interpretation result using step-by-step
procedure.
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Figure 37. Mass spectrum of oxazepam and its interpretation result using step-by-step
procedure.
3.4.3 Sample 3: Oxazepam
Our third sample of very complex compound is oxazepam. It is also benzodiazepine
derivate, as we have for diazepam and nordazepam, previously. Based on chromatogram in
Figure 34, we know that oxazepam is retained at 6.29 min, right after nordazepam detection.
Hence, to identify the compound, we proceed its individual mass spectrum using step-by-step
procedure:
1) Step 1: Identify the molecular ion. Oxazepam has relative molecular mass around 286.7.
Unfortunately, first appeared peak on the spectrum as shown in Figure 37 is 268.7 m/z
value. The phenomenon is similar to MTBE as what we found priorly. Hence, even though
the spectrum has no its molecular detected as we expected, but from the structure and
the molecular weight gap, we can justify its possibility.
2) Step 2: Identify the fragmentation pattern. First peak belongs to the compound base peak
observed at 270 of m/z value, followed by some peaks at 240, 235, 205, and so forth. First
fragment loss belongs to hydroxyl group (m/z=17). It is straightly removed when the
ionization process conducted, and the structure remaining is nordazepam (literally).
Followed by ketones removal, which seen from m/z 240 (-30) as what we saw earlier in
diazepam and nordazepam. 235 m/z value reveals after -Cl leaves the structure. While
m/z at 205 represents the -Cl group removal following the ketones group. Next
fragmentation patterns are identic to nordazepam group with few relatively shifting in
m/z peak values.
3) Step 3: Determine for significant ion series. As the base peak is detected at 270 m/z value,
it refers the lose mass as typical for hydroxyl group series (m/z is 17). Followed by mass
losses around 30 from ketones group series.
4) Step 4: Identify isotope pattern. Based on Figure 37, isotope pattern is most observed at
m/z peak 235 which indicative for one Cl.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. The pattern is mostly similar with nordazepam. So, the cleavages series
also follow nordazepam. Figure 38 shows the interpretation result using step-by-step
procedure in details.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as oxazepam. Figure 38 represents the
interpretation result.
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Figure 38. Interpretation result of oxazepam mass spectrum using step-by-step procedure.
3.4.4 Sample 4: Thiabendazole
We have thiabendazole (Figure 40) as the fourth sample of highly complex compound for
GC/MS spectra reading and interpretation using step-by-step procedure. Thiabendazole is a
derivate of benzimidazole. In this case, the analysis for thiabendazole is chosen from
grapefruit extract mixture (Schachterle, 2010). Figure 39 shows its chromatogram using
GC/MS analysis.
We conduct spectrum interpretation using step-by-step procedure as follow:
1) Step 1: Identify the peaks display. Figure 39 depicts multiple peaks detected of grapefruit
extract analytes. Some strong peaks are distinguished as retained components separation
are proceeded.
2) Step 2: Identify the order of the peaks along the RI axis. Based on the report (Schachterle,
2010), the chromatogram has been compared to the standard resulting the identification
of thiabendazole chromatogram peak at RI 15.77 min.
Mass spectrum for individual compound interpretation is conducted to identify the
molecules. Following are the step-by-step procedure:
1) Step 1: Identify the molecular ion. Thiabendazole has relative molecular mass 201. Figure
40 shows that the molecular ion peak is identic to thiabendazole.
2) Step 2: Identify the fragmentation pattern. First peak belongs to the compound base peak
observed at 174 of m/z value, followed by some peaks at 129, 89, 84, and so forth. First
fragment loss belongs to -CN group (m/z=27). Followed by amine-based compounds
fragmented from benzyl-imine, which seen from m/z 91. The fragmentation also can be
drawn by benzene ring removal which is detected from fragments at m/z values 72 and
129.
3) Step 3: Determine for significant ion series. The significant ion indicatives only shown by
benzene which reveals at m/z 70’s.
4) Step 4: Identify isotope pattern. Based on Figure 40, isotope patterns of S atom are
observed at m/z peak 203 and 131 out of noted peaks. These peaks are indicatives as seen
in Figure 11.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. Four cleavages pattern are simulated close to the hetero atoms, and
resulting significant fragments for identification of the compounds as seen in Figure 40.

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Based on the interpretation of mass spectrum using step-by-step procedures, we can

conclude that the compound is identified as Thiabendazole. Figure 40 illustrates the
interpretation result using step-by-step procedure.

Figure 39. GC/MS chromatogram of grapefruit extract (Schachterle, 2010).

Figure 40. Thiabendazole mass spectrum and its interpretation result using step-by-step
procedure.

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3.4.5 Sample 5: Testosterone

Our last sample is testosterone. The structure is relatively complex, as shown in Figure 41.
Fitzgerald et al., (2010) reported analysis of testosterone using GC/MS analytical method from
human serum. The GC/MS total ion chromatogram can be seen in Figure 42.
Based on the chromatogram in Figure 42, the interpretation steps are following:
1) Step 1: Identify the peaks display. Figure 42 shows multiple peaks detected with 2 of them
predominates the abundances. The separation tends to be well proceeded as the
retention time are clear for the separated components.
2) Step 2: Identify the order of the peaks along the RI axis. Two of the most massive
compounds are retained at 7.40 and 7.56 min, respectively. They are the epimers of
testosterone pentafluorobenzyl oxime (after derivation by protecting group).
Mass spectrum interpretation used here is based on NIST spectral data for the purpose of
simplification. Following are the step-by-step procedure:
1) Step 1: Identify the molecular ion. Testosterone (underived) has relative molecular mass
288. Figure 43 shows that the molecular ion peak is identic to testosterone.
2) Step 2: Identify the fragmentation pattern. First base peak appears at 246 of m/z value (-
42), followed by some significant peaks at 165, 147, 123, 79, and so forth. First fragment
loss belongs to -CH3 group (m/z=15), resulting peak at m/z 273 but its intensity is relatively
low. Fragmentation splits to both big molecules is observed at m/z 165, which the
fragment resulted also observed at m/z 123. The fragmentation illustration is shown at
Figure 43.
3) Step 3: Determine for significant ion series. The significant ion indicatives are observed
from methyl at m/z 273 and 147. Ketones group series also identified at m/z 246 (-42).
4) Step 4: Identify isotope pattern. In this case, there is no S, Cl, Br atoms. The isotopes of C
are also unidentified significantly to the mass fragments.
5) Step 5: Examine the more significant fragments and consider possible hetero atom
induced cleavages. There is no hetero atom expected in the main structure.
Based on the interpretation of mass spectrum using step-by-step procedures, we can
conclude that the compound is identified as testosterone. Figure 43 illustrates the
interpretation result using step-by-step procedure.

Figure 41. Testosterone structure.

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Figure 42. GC/MS chromatogram of Testosterone (Fitzgerald et al., 2010).

Figure 43. Testosterone mass spectrum with its ab initio interpretation using procedural
steps.
4. CONCLUSION

Gas chromatography / mass spectrometry (GC/MS) is the most ubiquitous analytical

method for the identification of mostly organic substances in complex matrices. This study
shows the simplest way to understand the result of GC/MS analysis. Comparative study using
chemical drawing software also conducted to achieve better understanding of the
fragmentation mechanism and mass spectra reading and interpretation. The result shows
that simulated fragmentation is consistent with the experimental one. Hence, we believe that
this article can be adopted in a practical basis for understanding and interpreting the GC/MS
data output.
5. AUTHORS' NOTE

The authors declare that there is no conflict of interest regarding the publication of this
article. The authors confirmed that the paper was free of plagiarism.

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