Chemical diversity in leaf and stem essential oils of Origanum vulgare L. and their effects on microbicidal activities

Essential oils (EOs) from the stems and leaves of Origanum vulgare L. grown in Saudi Arabia and Jordan were analyzed by gas chromatography–mass spectrometry (GC–MS) and GC–flame ionization detector (FID) techniques on two different columns (polar and nonpolar). A detailed phytochemical analysis led to the identification of 153 constituents of these essential oils. Both Saudi and Jordanian plants are classified by chemotypes rich in cymyl-compounds. However, the Saudi Origanum contains carvacrol as the major component and is, thus, characterized as a carvacrol chemotype, while the Jordanian Origanum contains thymol as the major component, and, thus, it is classified as a thymol chemotype. In addition, the antimicrobial activities of the studied EOs and their major components, including carvacrol and thymol, were evaluated against various Gram-positive and Gram-negative microorganisms. All the tested compounds exhibited significant antimicrobial activity against all the tested bacteria. Among them, thymol demonstrated superior activity against all the tested organisms, followed by carvacrol. Moreover, results on oil composition and oil yield of O. vulgare L. from different parts of the world is compared in detail with the present outcomes.


Introduction
Recently, the demand for the development of natural products from medicinal and aromatic plants as substitutes for artificial additives and as pharmacologically active agents has increased significantly (Atanasov et al. 2015). Among the different natural products, essential oils (EOs) have gained immense popularity in various industries, including the food, cosmetics, and pharmaceutical industries, because of their remarkable characteristics such as, strong odor, unique colors, and high volatility (Carvalho et al. 2016;Maggio et al. 2016). In particular, EOs play a significant role in the health care sector by virtue of their remarkable biological activities, which are directly associated with their biologically active essential oil components (Raut and Karuppayil 2014).
EOs are oily substances produced by different parts of the plants, including flowers, buds, leaves, twigs, stems, seeds, and fruits (Bakkali et al. 2008). Generally, these oils are comprised of complex mixtures of volatile substances that are biosynthesized by plants. These substances can be broadly classified into several groups, such as aromatic and aliphatic compounds, terpenes, and terpenoids (Pichersky et al. 2006).
Most of the biological activities of EOs, particularly their antimicrobial activity, is associated with oxygenated terpenes, such as alcohols and phenolic terpenes. However, a few hydrocarbons have been found to exhibit significant antibacterial effects (Bassolé and Juliani 2012). Usually, the complex interactions between the diverse classes of phytoconstituents, such as phenols, alcohols, aldehydes, ketones, or other hydrocarbons of EOs are responsible for their antibacterial activities. In some cases, these interactions may lead to antagonistic or synergistic effects that contribute to the antibacterial activity of EOs, and even minor components of EOs can play a critical role in these effects (Gutierrez et al. 2008). It has been widely reported that EOs containing phenols or aldehydes, including thymol, eugenol, carvacrol, and cinnamaldehyde, as major components display higher antimicrobial activities than EOs containing terpenes or alcohols (Ait-Ouazzou et al. 2011;Sacchetti et al. 2005).
For instance, various species of Thymus and Origanum display excellent antimicrobial activities because of the presence of phenolic phytoconstituents including thymol and carvacrol (de Barros et al. 2009;Khan et al. 2018;Soković et al. 2009). In contrast, the high antibacterial activities of Ocimum basilicum, Syzygium aromaticum, and Eugenia caryophillus are attributed to eugenol (Vlase et al. 2014). Indeed, the EO of Origanum has been extensively studied because of its diverse contents and remarkable characteristics (Lukas et al. 2015). Origanum is an economically important genus belonging to the Lamiaceae family. Many genera, such as thyme (Thymus), sage (Salvia), lavender (Lavandula), basil (Ocimum), and mint (Mentha), of the Lamiaceae family are well known for their commercial values and their applications in ethnobotanical practices (Ibadullayeva et al. 2012). Within this family, Origanum is included in the subfamily Nepetoideae of tribe Mentheae and subtribe Menthinae and comprises about 40 species, which are naturally distributed in different parts of the world including the Mediterranean, Central Asia, the Arabian Peninsula, Northern Africa, and Europe (De Martino et al. 2009).
The Origanum genus is extensively found in the Mediterranean region, particularly concentrated in the eastern Mediterranean region (Aligiannis et al. 2001). These Origanum species are typically applied as flavoring agents for food but are also used as additives in some beverages (Janssen et al. 1987;Valnet et al. 1978). Origanum species are generally identified by the presence of a range of secondary metabolites and by the differences in the characteristic phytoconstituents of their essential oils. In particular, the EOs of Origanum species show great variation in their chemical diversity for various reasons, including ecological and environmental effects, as well as genetic variations (Vokou et al. 1993). In addition, other factors, including available nutrients (nitrogen, water, and minerals), photoperiod, radiation, and temperature also have a significant effect on the content and quality of the EOs of O. vulgare L. (Kokkini et al. 1994). Therefore, a comparative investigation of the EOs of O. vulgare L. from different regions would be useful to explore the chemical diversity of this species and to realize its industrial potential. Although extensive studies of the EOs of Origanum species have been conducted, however, O. vulgare L. populations from the Middle East have been poorly explored. Moreover, in majority of preveous studies, only the characterization of the oil composition of whole plant is described and determination of chemical components of different organs of O. vulgare L. and their comparison is very rare. Thus, in this study, we analyzed the phytochemical compounds of volatile oils extracted from the leaves and stems of O. vulgare L. grown in two Middle Eastern countries: Saudi Arabia and Jordan (Scheme 1). The chemical profiling of the EOs was performed by different characterization techniques including NMR, gas chromatography (GC)-flame ionization detector (FID), and GC-mass spectrometry (MS) techniques on two different (polar and non-polar) columns. Furthermore, the antimicrobial properties of EOs and their main compounds obtained from the plants of two different regions were also determined against Gram-negative and Grampositive bacterial strains. First, the leaves and stems of freshly harvested whole plants of O. vulgare L. were separated and cut into small pieces. The resultant pieces of the leaves and stems of O. vulgare L. grown in Jordan and Saudi Arabia were separately processed for hydro-distillation in a Clevenger apparatus for 3 h according to a previously reported method (Khan et al. 2018), yielding light-yellow oils. The yields of the oils from the leaves and stems of Saudi O. vulgare L. were 1.3% and 0.4% (w/w) on a fresh weight basis, respectively. The oil yields from the leaves and stems of Jordanian O. vulgare L. were 0.6% and 0.2% (w/w) on a fresh weight basis, respectively. The volatile oils attained after the hydro-distillation were dried using anhydrous Na 2 SO 4 as the dehydrating agent and stored at 4 °C until further use.

GC and GC-MS analysis of O. vulgare L. essential oils
The essential oils obtained through hydro-distillation of the leaves and stems of O. vulgare L. collected from Saudi Arabia and Jordan were analyzed on HP-5MS and DB-Wax columns using previously described methods (Khan et al. 2016). The identified constituents and the contents of the leaf and stem essential oils of Jordanian and Saudi O. vulgare L. are documented in Table 1 according to the elution order of each compounds on the HP-5MS column.

Retention indices
The linear retention indices (LRIs) of the leaf and stem essential oil compounds of Jordanian and Saudi O. vulgare L. were determined following a reported method (Khan et al. 2016), and these are listed in Table 1.

Identification of volatile components
Identification of the volatile components was carried out via analysis on both columns (DB-Wax and HP-5MS) in a similar fashion to that reported previously (Khan et al. 2016). GC-FID Chromatogram with identified peaks of oil components on HP-5MS column is shown in Figs. 1, 2, Additional file 1: Figs. S1, S2.

Nuclear magnetic resonance (NMR) analysis
The 1 H and 13 C NMR spectra of the pure compounds were done in similar fashion as described earlier (Khan et al. 2018). Details are given in supporting information (Additional file 1).

Bacterial strains and growth medium
Four bacterial strains, Escherichia coli ATCC 25922, Pseudomonas aeruginosa ATCC 75853, Micrococcus luteus ATCC 10240, and Staphylococcus aureus ATCC 92213 were used as representative Gram-positive and Gram-negative bacteria. E. coli, P. aeruginosa, M. luteus, and S. aureus were grown on autoclaved Luria broth, nutrient broth, Müller-Hinton broth, and nutrient broth, respectively, at their respective optimal growth temperatures. For long-term preservation, strains were maintained on agar plates of their respective media and were stored at − 80 °C in 20% glycerol.

Results
The hydro-distillation of the leaves and stems of O. vulgare L. from both Saudi Arabia and Jordan was performed in a Clevenger-type apparatus, which yielded light-yellow oils. Based on the fresh weight of the materials, the EOs of the leaves and stems of Saudi O. vulgare L. were obtained in yields of 1.30% and 0.40% w/w; in contrast, the EOs of the same parts of its Jordanian counterpart were found to be 0.60% and 0.24% w/w from  Table 1 the leaves and stems, respectively. Notably, the studied parts of both Saudi and Jordanian O. vulgare L. produced a good oil yield, ranging from 0.2 to 1.3%, when compared to their counterparts found in different parts of the world, as shown in Additional file 1: Table S1. Apart from the Origanum species found in Turkey and Tunisia, which produce an excellent oil yield in the range of 4-7%, most species found in other parts of the world produce oil yields of < 1% (Additional file 1: Table S1).
A detailed phytochemical analysis of the essential oils led to the identification of a total of 153 compounds from these oils (EOs from the leaves and stems of O. vulgare L. from Saudi Arabia and Jordan). The analysis was performed via GC-MS and GC-FID using both polar and nonpolar columns. Among these constituents, 28 compounds were found to be common in the EOs of the leaves and stems of O. vulgare L. from both regions. Notably, compounds 13 and 15 are specific to the EOs of the leaves and stems, respectively, of Saudi O. vulgare L., whereas compounds 9 and 8 were only found in the leaves and stems, respectively, of Jordanian O. vulgare L. The identified compounds and their relative contents are listed in Table 1 according to their elution order on a nonpolar HP-5MS column.
The phytochemical constituents of the stems and leaves of both Saudi and Jordanian O. vulgare L. samples are dominated by oxygenated monoterpenes. Among the studied EOs, the stem and leaf oils of the Saudi plant contain the largest amount of monoterpenes, i.e., 88.5% and 78.9%, respectively, whereas its Jordanian counterpart contains 75.4% and 62.7%, respectively. The next major chemical class is the monoterpene hydrocarbons, which are present in large amount in the leaf oils of both Saudi (17.2%) and Jordanian (30.9%) plants, where their stem oils contain 5.0% and 2.4%, respectively. The other constituents, which were found in relatively smaller amounts in all studied EOs, are sesquiterpene hydrocarbons, oxygenated sesquiterpenes, aliphatic hydrocarbons, oxygenated aliphatic hydrocarbons, aromatics, and diterpenes (Fig. 3). Totally, 69 monoterpenoids were identified in the studied EOs. The oxygenated monoterpenes are mainly comprised of thymol, carvacrol, trans-sabinene hydrate, and terpinen-4-ol. Among the squiterpenoids, only β-caryophyllene was found in considerable quantity, whereas the other sesquiterpenoids such as germacrene D, germacrene D-4-ol, spathulenol, and caryophyllene oxide were present in minute concentrations (cf. Table 1).

Antimicrobial activity
All the tested samples exhibited significant antimicrobial activity against both Gram-positive and Gram-negative bacteria. The growth inhibition of E. coli (a commonly used Gram-negative bacteria), which was measured in terms of the change in OD600 with various concentrations of the test compounds, is shown in Fig. 4a.
Clearly, Saudi O. vulgaris leaf EO (SOVL) was the least inhibitory, and the complete inhibition of E. coli growth was observed only at a concentration of 300 µg/mL. Thymol exhibited the highest antimicrobial activity, inhibiting the growth of E. coli completely at a concentration of 100 µg/mL (Fig. 4). The antimicrobial activities of carvacrol and Saudi O. vulgare L. stem EO (SOVS) were comparable to those of thymol but varied in their half maximal inhibitory concentration (IC 50 ) values, as listed in Table 2. In contrast, Jordanian O. vulgare L. leaf and stem EOs (JOVL and JOVS, respectively) inhibited the growth of E. coli completely at a concentration of 200 µg/ mL.
The antimicrobial activity of the samples against another Gram-negative bacterium, P. aeruginosa, is shown in Fig. 4b. Because P. aeruginosa grows more vigorously than E. coli, inhibition was observed at a comparatively higher concentration. As observed for E. coli, the most effective compound against P. aeruginosa was also thymol, inhibiting growth completely at a concentration of 100 µg/mL. In contrast, carvacrol inhibited growth at 300 µg/mL. The SOVL could not inhibit the growth completely, even at the highest test concentration, 500 µg/ mL. The minimum inhibitory concentration (MIC) values of the tested samples against P. aeruginosa are listed in Table 2. Based on these values, the compounds can be arranged in order according to their microbicidal activity against P. aeruginosa (Table 3).
All the tested samples also exhibited good antimicrobial activity against the two tested Gram-positive bacteria. The antimicrobial activity of the tested samples against M. luteus is shown in Fig. 5. The figure clearly shows that SOVL was the least effective in inhibiting the  growth of M. luteus, and complete growth inhibition was not observed even at the highest test concentration of 500 µg/mL. However, thymol most effectively inhibited the growth of M. luteus, showing significant growth inhibition at 50 µg/mL (Fig. 5a). In contrast, carvacrol was able to completely inhibit the growth of M. luteus only at 100 µg/mL. Based on the IC 50 values, the antimicrobial activity against M. luteus can be arranged in the order given in Table 3. A similar trend in the antimicrobial activity of the samples was observed against another Gram-positive bacteria, S. aureus (Fig. 5b). In this test, thymol most effectively inhibited the growth of S. aureus, and SOVL was the least effective against S. aureus. Hence, the test compounds can be arranged in the order given in Table 3 based on their IC 50 values against S. aureus.
The trend in antimicrobial activity was very similar in all the four tested bacteria. However, it is evident from the MIC values listed in Table 2 that the tested compounds exhibited higher antimicrobial activity against the tested Gram-positive bacteria than against the Gram-negative bacteria. This trend is also in agreement with most of the studies investigating the action of whole EOs against food spoilage organisms and foodborne pathogens, which suggest that the EOs are slightly more active against Gram-positive than Gram-negative bacteria (Burt 2004). However, in several studies, the reverse trend has been observed (Pesavento et al. 2015). Typically, Gram-negative bacteria have an outer membrane surrounding the cell wall, which makes them susceptible to the action of common antibacterial agents (Vaara 1992). Notably, the MIC values of the samples tested in this study were many times lower than the MIC values of kanamycin and ampicillin obtained in this study (Table 2).

Discussion
Typically, the essential oils of plants of the same species grown in different locations exhibit significant variations in composition because of the different environmental conditions, such as altitude, solar exposure, and soil composition (Figueiredo et al. 2008). These geographic variations of the yield and composition of volatile oils have been found in several species, demonstrating that distinct chemotypes of plants grow in different locations (Bhatt et al. 2019;Fikry et al. 2019;Hussain et al. 2008;Tanasescu et al. 2019). Therefore, the study of the chemical variability and yield of volatile oils of commercially important plants such as O. vulgare L. grown in different locations is highly desirable. In this study, we made a detailed analysis of the chemical constituents of the leaf and stem volatile oils of O. vulgare L. grown in two different geographical locations: Saudi Arabia and Jordan. This study is the first example of the characterization of the essential oil constituents of the leaf and stem volatile  Based on the monoterpene constituents, both Saudi and Jordanian plants are classified as cymyl chemotypes, which is typical of various Origanum species grown in the Mediterranean (Lukas et al. 2015). For instance, the Origanum populations of southern and coastal Europe including Portugal, Spain, and Greece are often dominated by the cymyl chemotype. The Origanum species from the Middle East have been rarely studied, but the results obtained from the essential oils of Saudi and Jordanian O. vulgare L. indicate that the cymyl chemotype should predominate in most Origanum species from these regions. Althogh studied oils are classified as cymyl chemotypes, however, significant quantitative differences between four different oils are clearly apparent in two major isomeric phenols, i.e., carvacrol and thymol, and their biosynthetic precursors, i.e., γ-terpinene and p-cymene (Sivropoulou et al. 1996). For instance, the stem and leaf oils of Saudi Origanum contain carvacrol as the major component, containing 79.5% and 71.9%, respectively, followed by γ-terpinene (stem oil 1.9% and leaf oil 6.2%) and p-cymene (stem oil 1.4% and leaf oil 3.2%); thus, it is characterized as a carvacrol chemotype. In contrast, the studied oils of Jordanian Origanum contain thymol as the major component, containing 68.7% in the stem oil and 59.1% in the leaf oil, while its biosynthetic precursors γ-terpinene (stem oil 0.4% and leaf oil 17.0%) and p-cymene (stem oil 1.6% and leaf oil 6.8%) were also present in significant amounts; therefore, it is characterized as a thymol chemotype (Fig. 3). This variation in the phytochemical constituents of the stem and leaf oils of both Jordanian and Saudi O. vulgare L. can be attributed to the differences in the climatic conditions, geographical location of collection sites, and other genetic factors, as has been observed in several other species of Origanum from different regions (Sarikurkcu et al. 2015;Vokou et al. 1993).
Typically, the formation of thymol and carvacrol involves the hydroxylation of γ-terpinene and p-cymene precursors (Poulose and Croteau 1978). This process involves cytochrome P450 monooxygenases for the conversion of γ-terpinene to thymol and carvacrol via eleven cytochrome P450 gene sequences (CYP71D178-CYP71D182) from oregano, thyme, and marjoram (Crocoll et al. 2010). Thus, it has been suggested that CYP71D179/182 is responsible for the biosynthesis of thymol, whereas CYP71D181 may be involved in carvacrol biosynthesis. Therefore, in this study, the presence of a large amount of thymol in Jordanian Origanum can be attributed to the aforementioned biosynthetic process, in which CYP71D179/182 transcription of P450 is more active compared to the transcription of other genes. In contrast, CYP71D181 transcription might play a more active role in the biosynthesis of carvacrol in Saudi Origanum. Therefore, apart from the climatic and geographic conditions, other enzymatic processes may also be responsible for the variation in the phytochemical constituents of both Saudi and Jordanian Origanum plants.
A correlation between the antimicrobial activity of the tested compounds and the compositions of the stem and leaf oils of both Saudi and Jordanian origin used in this study was made. On comparing the activities of these compounds against the four organisms studied, it was found that thymol has showed the highest activity against all the tested organisms, followed by that of carvacrol. Both thymol and carvacrol are structurally very similar, having the hydroxyl group at a different location on the phenol ring. Typically, they appear to act by making the cell membrane permeable. In the case of Gram-negative bacteria, thymol and carvacrol induce the disintegration of the outer membrane, releasing lipopolysaccharides (LPS) and increasing the permeability of the cytoplasmic membrane to adenosine triphosphate (ATP) (Burt 2004). Furthermore, it has been proposed that these compounds can interact with membrane proteins and enzymes, as well as intracellular targets (Engel et al. 2017). In most cases, both thymol and carvacrol exhibit comparable antimicrobial properties because of their similar structures. However, in some cases, thymol has demonstrated better activity compared to carvacrol under similar conditions.
Studies of the antibacterial activity of thymol and carvacrol isolated from the EO of O. dictamnus L. have revealed that thymol exhibits stronger activity than carvacrol against most microbial types (Liolios et al. 2009). Similarly, in our previous study on S. mutans (a wellknown oral pathogen), we observed that thymol showed a relatively higher activity than carvacrol. Thymol showed higher activity by effectively inhibiting the growth of the tested organism by inducing stress and autolysis (Khan et al. 2017). Thymol also significantly disrupts the biofilms formed by S. mutans. As far as SOVL, SOVS, JOVL, and JOVS are concerned, JOVL and SOVS exhibited the highest antimicrobial activities against all the four tested organisms. Furthermore, the antimicrobial activities of these two essential oils were comparable. As shown in Table 1, JOVL contains 59.1% thymol and 2.0% carvacrol, while SOVS contains about 79.5% carvacrol and 2.1% thymol. Therefore, SOVS has the highest amount of the pure compound probably responsible for the remarkable antimicrobial activity. The cumulative effect of carvacrol and thymol has not yet been examined. JOVL shows significant activity, probably because of the cumulative effect of thymol with some other constituents including carvacrol and γ-terpinene. Notably, JOVL consists of the highest amount of γ-terpinene, constituting 17.0% of the total. γ-Terpinene is already known to have significant antimicrobial activity against a number of pathogenic microorganisms, even at a concentration of 0.1% (v/v) (Delaquis et al. 2002). JOVL also contains 7.0% cymene (alkyl benzene), which has also been shown to have good antimicrobial activity (Delaquis et al. 2002). Thus, it is very highly likely that the cumulative effect of thymol, carvacrol, p-cymene, and γ-terpinene resulted in the remarkable antimicrobial activity that was observed in this study.
The next most active essential oil was JOVS, which contains 68.7% thymol and 2.4% carvacrol. Other constituents that were present in significant amount in this essential oil were β-caryophyllene (2.5%), 2-tert-butyl-4-(dimethylbenzyl) phenol (2.1%), and p-cymene (1.6%). The cumulative effect of all these compounds may be responsible for the antimicrobial activity. The least activity was observed for SOVL, which mainly contain carvacrol (72.8%), γ-terpinene (6.2%), trans-sabinene hydrate (3.5%), p-cymene (3.2%), and β-myrcene (2.0%). These results reveal that the whole EOs and individual components of the oils studied, including thymol and carvacrol, show different degrees of activity against Gram-positive and Gram-negative bacteria. This is in agreement with the trend that the chemical composition of the EOs from a particular plant species vary with geographical origin and harvesting period. However, we can only speculate about the effects of the constituents and their combinations on the antimicrobial activity, and future detailed investigations on antibiofilm activity and antiquoroum sensing activities are required. Based on our results, we propose that plant species from different regions produce different compounds or mixtures of the compounds, and these variations result in completely different bioactivities.
Additional file 1. Additional figures and tables.