Microbiological analysis in tobacco leaves with different aging treatments
Overview of the microbial community
The diversity of bacterial communities was evaluated by high-throughput sequencing of the 16S rRNA variable region. As shown in Fig. S1, rarefaction curves approached stabilization with increasing sequencing depth, indicating that the majority of microbial diversity within the samples had been captured. The coverage indices were all higher than 99.8%, further confirming that the sequencing effort was sufficient to represent the bacterial diversity and support reliable taxonomic classification. After filtering out singletons, a total of 81103–94247, 78697–92448, and 70182–87463 high-quality bacterial sequences in CK, FJ, and JM samples, respectively, were retained for subsequent analysis (Table S1). These sequences were clustered into operational taxonomic units (OTUs) at a 97% similarity threshold.
α- and β-diversity
To evaluate the richness and diversity of microbial communities during tobacco aging, α-diversity indices—including Ace, Chao, Shannon, and Simpson—were analyzed (Ruan et al. 2021). The Ace and Chao indices reflect species richness, whereas the Shannon and Simpson indices indicate species diversity and evenness. As shown in Fig. 1, the Ace and Chao indices revealed significantly higher bacterial richness in JM samples compared to FJ samples at 3–6 months of fermentation. However, this trend reversed at 9 months (Fig. 1A and B). The Shannon index was significantly higher in JM samples, while the Simpson index was higher in FJ samples, suggesting that the JM group supported a more diverse and evenly distributed microbial community (Fig. 1C and D). Throughout the fermentation process, the richness of FJ samples gradually increased, whereas JM samples showed minor change. Microbial diversity and evenness increased consistently in FJ samples but followed an initial increase followed by a decrease in JM samples. These results indicated that the richness and diversity of microbial communities varied with the aging time of tobacco leaves. Additionally, the application of a bacterial suspension and enzyme mixture significantly enhanced both richness and diversity compared to natural aging alone, with the exception of the three-month time point. These findings align with previous studies demonstrating that exogenous microbial inoculation can substantially reshape the microbial community structure in tobacco leaves (Shu et al. 2023).
β-diversity was assessed to characterize structural differences among microbial communities from different sample groups. Principal coordinate analysis (PCoA) employing the weighted Unifrac distance was employed to visualize the temporal dynamics of microbial composition during tobacco leaf aging (Fig. 1E–G). The first two principal coordinates (PCo1 and PCo2) accounted for 82.71%, 85.81%, and 91.83% of the total variance in CK, FJ, and JM treatments, respectively. Significant separation among aging stages along the y-axis indicated considerable temporal succession in community structure. Concurrently, a decline in Bray–Curtis dissimilarity suggested increasing community homogeneity and enhanced structural stability during mid to late fermentation. These findings were consistent with prior research on tobacco fermentation (Mai et al. 2025), which reported high initial community dispersion indicative of early ecological instability, followed by increased overlap in later stages, reflecting progressive stabilization. Together, these results demonstrated that the application of exogenous enzymes not only promotes microbial diversity but also contributes to the stabilization of the community structure.
Dynamic changes in microbial communities
The relative abundance of the microbial community in tobacco leaves with different aging treatments was analyzed at phylum and genus levels (Fig. 2). At the phylum level (Fig. 2A and C), Pseudomonadota consistently represented the most abundant phylum across all treatments (CK, FJ, JM), followed by Bacillota. Together, these two phyla consistently comprised over 80% of the total bacterial community. At identical aging stages, compared with the control group, the relative abundance of Pseudomonadota in the FJ and JM treatment groups decreased, while the relative abundance of Bacillota in the FJ treatment group increased, the relative abundances of Bacteroidota and Cyanobacteria in the JM treatment group significantly increased. These results indicated that the treatment of the bacterial enzyme mixture promoted the proliferation of Cyanobacteria and Bacteroidetes while maintaining substantial presence of Bacillus and Pseudomonadota, thereby significantly enhancing the diversity of the microbial community. During the aging of tobacco leaves treated with sterile water (CK), the relative abundance of Actinomycetota and Pseudomonadota gradually increased over time, whereas that of Cyanobacteriota and Bacillota declined. Across the 3-, 6-, and 9-month aging intervals, the combined relative abundance of Pseudomonadota and Bacillota reached 90.80%, 96.37%, and 96.98%, respectively, indicating their dominance within the microbiota. Other bacterial phyla were present at comparatively low abundances. For FJ treatment, extended aging led to a progressive increase in Bacteroidota and a reduction in Bacillota. Pseudomonadota and Bacillota together constituted 92.28%, 95.19%, and 90.79% of the community at 3, 6, and 9 months, respectively, confirming their continued predominance, with minor phyla representing only a small fraction. For JM treatment, the relative abundance of Pseudomonadota and Actinomycetota rose with aging time, while Bacillota decreased. The combined share of Pseudomonadota and Bacillota accounted for 83.91%, 90.36%, and 88.49% at each respective time point, reinforcing their role as the two most dominant phyla, with other taxa remaining relatively scarce.
At the genus level (Fig. 2B and D), the predominant bacterial communities in tobacco leaves varied significantly among treatments. In the CK treatment, the dominant genera were Franconibacter, Pseudomonas, and Enterobacter, with relative abundances of 29.11–39.29%, 22.50–31.88%, and 5.40–14.16%, respectively. In contrast, the FJ treatment was dominated by Franconibacter, Bacillus, Enterobacter, and Pseudomonas (relative abundances: 13.29–37.63%, 19.78–37.41%, 10.09–18.13%, and 4.61–19.22%), while the JM treatment exhibited a distinct profile dominated by Bacillus, Pseudomonas, Enterobacter, and Franconibacter (relative abundances: 24.25–27.30%, 15.00–18.16%, 9.46–13.12%, and 4.33–10.99%). These compositional differences indicated that the application of bacterial/enzymatic treatments significantly altered the microbial community structure and enhanced microbial diversity. Over the aging period, temporal shifts in genus abundance were also observed. In the CK group, the relative abundance of Pseudomonas and Sphingomonas gradually increased, while that of Enterobacter decreased. Notably, the combined abundance of Pseudomonas and Franconibacter accounted for 61.79%, 70.78%, and 60.99% of the microbiota at 3, 6, and 9 months, respectively, indicating their dominance throughout the aging process under control conditions. In the FJ treatment, genera such as Sphingomonas, Acinetobacter, Stenotrophomonas, Methylobacterium, Sphingobium, and Novosphingobium showed increasing trends over time, while Franconibacter declined. The sum of the relative abundances of Pseudomonas, Franconibacter, and Bacillus reached 69.17%, 73.26%, and 53.48% at 3, 6, and 9 months, respectively, highlighting their roles as the core dominant taxa in this treatment. Similarly, in the JM-treated leaves, the relative abundance of Acinetobacter and Novosphingobium increased with aging time, whereas Franconibacter decreased. The combined relative abundance of Pseudomonas and Bacillus constituted 45.46%, 39.25%, and 42.05% of the community at 3, 6, and 9 months, confirming their dominance among the microbial population in this treatment group.
Biomarker microorganisms in different aging treatments
Linear discriminant analysis (LDA) effect size (LEfSe) is an effective approach for identifying taxa that exhibit statistically significant and biologically meaningful differences across groups, particularly during dynamic process such as fermentation (Zhang et al. 2025c). This approach provides valuable insights into microbial succession and their potential associations with final product quality. In this study, LEfSe was employed to identify differentially abundant bacterial taxa in the CK, FJ, and JM groups across three aging time points (3, 6, and 9 months). The evolutionary cladograms (Fig. 3A–C) illustrate the phylogenetic distribution of identified biomarkers from phylum to species level, radiating from the inner to outer circles. Complementary biomarker (LDA > 4.0, p < 0.05) distributions for each treatment and aging points were shown in supplementary Fig. S2A–C. Specifically, in the CK treatments (Fig. 3A), the microbial composition at 3 months was characterized by biomarkers such as Franconibacter and Enterobacter. By 6 months, the community shifted towards taxa within Enterobacterales and Priestia. At 9 months, a further succession was observed, with significant enrichment of Pseudomonas, Pantoea, Acinetobacter, and Stenotrophomonas. In the FJ treatments (Fig. 3B), only Enterobacterales were significantly enriched at 3 months. By 9 months, biomarker diversity increased substantially, encompassing Pseudomonas, Enterobacter, Acinetobacter, Sphingomonas, and Stenotrophomonas. Compared to the FJ treatments, the JM treatments exhibited a more balanced successional pattern across aging periods (Fig. 3C). At 3 months, key biomarkers included Enterobacterales, Bacillus, and Pantoea. By 6 months, the community simplified, with only Pseudomonas and Enterobacter serving as predominant biomarkers. By 9 months, the biomarker profile broadened again to include Cyanobacteriia, Sphingomonas, and Stenotrophomonas. These results indicated that both aging treatment method and duration collectively shape the successional dynamics of microbial communities. This temporal progression of characteristic microorganisms is closely correlated with divergence in the flavor quality of aged tobacco leaves.
Microbial function prediction analysis
High-throughput sequencing data were aligned against the KEGG database, and functional potentials of the microbial communities in tobacco leaves were predicted using PICRUSt. As shown in Fig. 4A, six major categories were identified at KEGG Level 1 across all aging treatments, including Cellular Processes, Environmental Information Processing, Genetic Information Processing, Metabolism, Organismal Systems, and Human Diseases. Among these, metabolic pathways were predominant, accounting for 78.22% to 79.57% of the predicted functional profiles. Significant temporal shifts in metabolic functions were observed among the microbial communities. Under the same aging duration, the JM treatment exhibited higher metabolic activity compared to the CK and FJ treatments. Furthermore, within the JM treatment, the relative abundance of genes associated with metabolic functions progressively increased with extended aging time. These results indicated that metabolic function played significant role in tobacco leaves during aging.
Further classification within metabolism-related pathways identified a total of 11 metabolic pathways at KEGG Level 2 (Fig. 4B). Among these, carbohydrate metabolism pathway was the most abundant, accounting for 16.72–20.60%, followed by metabolism of cofactors and vitamins and amino acid metabolism, which accounting for 16.49–17.69% and 14.48%–16.67%, respectively. These results suggested that carbohydrate metabolism, metabolism of cofactors and vitamins, and amino acid and metabolism pathways were dominant during aging and likely contribute substantially to flavor compound formation of tobacco leaves. These findings align with previous studies on cigar, which also reported high relative abundances of carbohydrate metabolism, amino acid metabolism, energy metabolism, cofactor and vitamin metabolism, and membrane transport among the most active functional pathways (Pan et al. 2025). In carbohydrate metabolism (Fig. 4C), 15 pathways were detected. Branched dibasic acid metabolism accounted for the highest proportion (11.35–13.14%), followed by pentose phosphate pathway (9.02–10.96%) and pyruvate metabolism pathway (8.65–10.20%). In metabolism of cofactors and vitamins (Fig. 4D), a total of 12 metabolic pathways were identified. Lipoic acid metabolism was the most prominent (10.50–13.67%), followed by Pantothenate and CoA biosynthesis (10.77–11.84%) and biotin metabolism (8.74–11.24%).
Changes of volatile compounds in tobacco leaves with different aging treatments
A total of 326 volatile compounds were detected by HS-SPME-GC-MS, among which 29 substances were the main aromatic compounds of aged tobacco leaves, including 10 esters, 4 alcohols, 5 aldehydes, 7 ketones, and 3 others (Table 1). As shown in Fig. 5A, ketones consistently constituted the most abundant class of volatiles in CK and FJ treatments, followed by esters and alcohols. While in JM treatment, esters were the most abundant flavor compounds, followed by ketones and alcohols. Among all the treatments, aldehydes accounted for less than 7.5% of the total. As aging progressed, the relative abundance of ketones and esters continued to rise, while that of alcohols declined. This compositional shift implied that microbial-enzyme co-treatment facilitated the gradual conversion of long-chain alcohols into ketones and esters compounds, which were known for their low odor thresholds and desirable aromatic properties, thus improving the quality of tobacco. Consequently, these transformations likely contributed to the development of a more intense and persistent fruity and sweet aroma in the tobacco leaves (Zhang et al. 2025a). Figure 5B showed that the total volatile content in tobacco leaves varied considerably among the three aging treatments (p < 0.05). The control group (CK) exhibited volatile compound levels ranging from 124.74 to 142.95 µg/g. In contrast, the FJ treatmets showed a notable increase, with total volatile contents reaching 283.21–300.78 µg/g, while the bacterial-enzyme co-treatment (JM) further enhanced accumulation, yielding concentrations between 317.06–388.80 µg/g. These results suggested that exogenous microbial inoculation promotes the conversion of flavor precursors, and that the microbial-enzyme co-treatment exerted a compounded effect on the synthesis of volatile compounds.
Table 1
Contents and odor activity values of the main aromatic compounds in tobacco leaves with different aging treatments
| | Compound | Flavor a | Content(µg/g) | Odor threshold (µg/g) | Odor activity value |
CK-3 | CK-6 | CK-9 | FJ-3 | FJ-6 | FJ-9 | JM-3 | JM-6 | JM-9 | CK-3 | CK-6 | CK-9 | FJ-3 | FJ-6 | FJ-9 | JM-3 | JM-6 | JM-9 |
Esters | Dihydroactinidiolide | Sweet, creamy | 2.18 ± 0.06d | 0.02 ± 0.01i | 0.3 ± 0.01h | 1.97 ± 0.04e | 1.36 ± 0.02f | 2.86 ± 0.04b | 2.61 ± 0.06c | 0.91 ± 0.07g | 5.42 ± 0.19a | 0.5 | 4.36 | <1 | 0.60 | 3.94 | 2.72 | 5.72 | 5.22 | 1.82 | 10.84 |
Ethyl myristate | Ester aroma, fruity | - | 0.57 ± 0.04g | 0.47 ± 0.04g | 6.08 ± 0.03b | 2.68 ± 0.13f | 3.24 ± 0.08e | 8.96 ± 0.08a | 5.74 ± 0.1c | 4.4 ± 0.11d | 20 | - | <1 | <1 | <1 | <1 | <1 | <1 | <1 | <1 |
Methyl palmitate | Iris scent | - | - | - | 5.06 ± 0.04d | - | 14.61 ± 0.1b | 9.38 ± 0.33c | - | 22.09 ± 0.4a | 4000 | - | - | - | <1 | - | <1 | <1 | - | <1 |
Ethyl palmitate | Buttery | - | 12.81 ± 0.12h | 15.69 ± 0.15g | 35.32 ± 0.92f | 45.47 ± 0.65e | 49.02 ± 0.33d | 54.37 ± 1.28c | 89.81 ± 0.96a | 73.45 ± 0.72b | 1.5 | - | 8.54 | 10.46 | 23.55 | 30.31 | 32.68 | 36.25 | 59.87 | 48.97 |
Methyl linolenate | Melon flavor | - | 2.91 ± 0.07f | 6.83 ± 0.05d | - | 7.27 ± 0.06d | 8.65 ± 0.14c | - | 18.03 ± 0.17a | 9.47 ± 0.16b | / | - | - | - | - | - | - | - | - | - |
Ethyl linoleate | Fruity, floral | - | 2.94 ± 0.08g | 5.55 ± 0.08f | 14.62 ± 0.3e | 15.97 ± 0.47d | 14.27 ± 0.32e | 27.23 ± 0.29b | 36.65 ± 0.77a | 21.41 ± 0.36c | 2.8 | - | 1.05 | 1.98 | 5.22 | 5.70 | 5.10 | 9.73 | 13.09 | 7.65 |
Ethyl linolenate | Waxy | - | 5.14 ± 0.07g | 9.04 ± 0.13f | 21.18 ± 0.45e | 27.43 ± 0.41d | 28.03 ± 0.17d | 34.49 ± 0.66c | 51.91 ± 0.81a | 35.92 ± 0.76b | / | - | - | - | - | - | - | - | - | - |
Ethyl stearate | Wax aroma | - | 0.41 ± 0.02h | 0.76 ± 0.04g | 5.29 ± 0.06c | 2.96 ± 0.07f | 4.47 ± 0.09e | 9.46 ± 0.05a | 6.59 ± 0.06b | 5.07 ± 0.03d | 18 | - | <1 | <1 | <1 | <1 | <1 | <1 | <1 | <1 |
Dioctyl phthalate | Apricot flavor | - | - | 3.07 ± 0.04d | 5.4 ± 0.03c | 0.17 ± 0.03e | 0.52 ± 0.03e | 13.69 ± 0.21b | - | 18.42 ± 0.46a | / | - | - | - | - | - | - | - | - | - |
Methyl linoleate | Milky | - | 0.85 ± 0.02e | - | 16.13 ± 0.2b | 21.93 ± 0.88a | - | 9.14 ± 0.08c | 7.43 ± 0.15d | - | / | - | - | - | - | - | - | - | - | - |
Alcohols | Benzyl alcohol | Floral and fruity | 12.44 ± 0.09d | 7.38 ± 0.04f | 2.92 ± 0.06g | 15.12 ± 0.4b | 13.45 ± 0.09c | 10.17 ± 0.29e | 17.64 ± 0.18a | 2.55 ± 0.11g | 12.82 ± 0.18d | 10 | 1.24 | <1 | <1 | 1.51 | 1.35 | 1.02 | 1.76 | 0.26 | 1.28 |
Linalool | Floral, sweet | 2.54 ± 0.08d | 4.19 ± 0.06b | 0.32 ± 0.02f | 3.38 ± 0.07c | 3.23 ± 0.23c | 2.59 ± 0.05d | 3.93 ± 0.06b | 5.58 ± 0.28a | 0.62 ± 0.06e | 0.037 | 68.65 | 113.24 | 8.65 | 91.35 | 87.30 | 70.00 | 106.22 | 150.81 | 16.76 |
Phenethyl alcohol | Rose fragrance | 9.35 ± 0.05e | - | 3.89 ± 0.05f | 20.27 ± 0.51b | 20.03 ± 0.58b | - | 25.1 ± 0.54a | 17.94 ± 0.33c | 14.96 ± 0.1d | 31 | <1 | - | <1 | <1 | <1 | - | <1 | <1 | <1 |
Furfuryl alcohol | Sweet aroma and caramel | 1.14 ± 0.06c | - | 0.26 ± 0.02d | 3.39 ± 0.02b | - | - | 4.3 ± 0.07a | - | - | 0.07 | 16.29 | - | 3.71 | 48.43 | - | - | 61.43 | - | - |
Aldehydes | 3-Furfural | Almond-like aroma | - | - | - | - | - | 8.53 ± 0.26b | - | - | 14.71 ± 0.13a | / | - | - | - | - | - | - | - | - | - |
Benzaldehyde | Almond flavor | 0.93 ± 0.02e | - | 0.11 ± 0.01f | 2.34 ± 0.07b | 0.05 ± 0.03f | 1.37 ± 0.04d | 2.14 ± 0.06c | 0.01 ± 0f | 3.25 ± 0.11a | 0.35 | 2.66 | - | <1 | 6.69 | <1 | 3.91 | 6.11 | <1 | 9.29 |
Phenylacetaldehyde | Fruity, nutty | 6.87 ± 0.04b | 4.35 ± 0.07d | - | - | - | 4.76 ± 0.07c | - | - | 8.44 ± 0.18a | 1.8 | 3.82 | 2.42 | - | - | - | 2.64 | - | - | 4.69 |
β-Cyclocitral | Floral and fruity fragrance | 0.82 ± 0.02c | 0.42 ± 0.02e | - | 0.67 ± 0.06d | 0.3 ± 0.02f | 1.03 ± 0.03b | 0.97 ± 0.08b | 0.47 ± 0.03e | 1.26 ± 0.04a | 0.5 | 1.64 | 0.84 | - | 1.34 | <1 | 2.06 | 1.94 | <1 | 2.52 |
Furfural | Caramel aroma | - | - | - | - | 5.11 ± 0.08b | - | - | 11.87 ± 0.04a | - | 11.36 | - | - | - | - | <1 | - | - | 1.04 | - |
Ketones | Damascenone | Honey and floral notes | 18.68 ± 0.12d | 21.42 ± 0.03c | 22.78 ± 0.25b | 18.36 ± 0.68d | 22.32 ± 0.56b | 22.63 ± 0.19b | - | 13.41 ± 0.18e | 25.39 ± 0.63a | 50 | <1 | <1 | <1 | <1 | <1 | <1 | - | <1 | <1 |
Irisone | Floral and sweet | - | - | - | - | - | 3.18 ± 0.06c | 5.16 ± 0.06b | 7.49 ± 0.19a | 5.1 ± 0.02b | 7 | - | - | - | - | - | <1 | <1 | 1.07 | <1 |
4,7,9-Megastigmatrien-3-one | Sweet aroma of licorice | 55.09 ± 0.26f | 50.73 ± 0.19g | 60.82 ± 0.35e | 87.88 ± 1.05b | 87.4 ± 0.83b | 86.53 ± 0.21b | 65.71 ± 0.81d | 68.21 ± 0.49c | 92.42 ± 0.66a | / | - | - | - | - | - | - | - | - | - |
Phytone | Herbal scent | - | 3.33 ± 0.09d | 2.52 ± 0.1e | 2.49 ± 0.04e | 2.61 ± 0.08e | 3.95 ± 0.1c | - | 5.62 ± 0.26b | 6.36 ± 0.12a | / | - | - | - | - | - | - | - | - | - |
Geranylacetone | Floral and fruity aroma | 5.09 ± 0.06e | 7.48 ± 0.04a | 5.63 ± 0.08d | 4.99 ± 0.04e | 6.29 ± 0.17c | 7.42 ± 0.11a | 6.53 ± 0.22b | 6.13 ± 0.09c | - | 0.06 | 84.83 | 124.67 | 93.83 | 83.17 | 104.83 | 123.67 | 108.83 | 102.17 | - |
α-Damascenone | Rose fragrance | - | 3.58 ± 0.02c | 0.41 ± 0.02d | - | 7.44 ± 0.31a | 0.55 ± 0.02d | - | 4.96 ± 0.08b | - | 0.013 | - | 275.38 | 31.54 | - | 572.31 | 42.31 | - | 381.54 | - |
β-Ionone | Violet scent | - | 3.04 ± 0.05c | 0.69 ± 0.02d | 3.95 ± 0.07b | 4.6 ± 0.06a | - | - | - | - | 0.0009 | - | 3377.78 | 766.67 | 4388.89 | 5111.11 | - | - | - | - |
Others | 2-Methoxy-4-vinylphenol | Cedar and roasted peanut notes | 8.38 ± 0.06c | - | 0.89 ± 0.05e | 10.26 ± 0.23b | 2.71 ± 0.05d | - | 15.38 ± 0.58a | 8.45 ± 0.1c | - | / | - | - | - | - | - | - | - | - | - |
2-Acetylpyrrole | Nutty aroma | - | - | - | - | - | 3.48 ± 0.03b | - | - | 7.82 ± 0.16a | 0.002 | - | - | - | - | - | 1740.00 | - | - | 3910.00 |
2-Pentylfuran | Green bean and fruity notes | 1.23 ± 0.09b | - | - | 0.64 ± 0.04d | - | 1.35 ± 0.02a | 0.87 ± 0.02c | - | - | 0.002 | 615.00 | - | - | 320.00 | - | 675.00 | 435.00 | - | - |
| a Fragrance descriptions were obtained from the publicly available flavor database www.vcf-online.nl/VcfHome.cfm. |
| b Odor thresholds were referenced from the online database www.vcf-online.nl/VcfHome.cfm and the compilation by (Van Gemert 2011). |
Figure 5C showed the heat map generated by studying the relative content of identified main aromatic compounds and their relationship with the properties of different aging methods of tobacco leaves. A total of 29 aromatic compounds were found in all the tobacco leaves, but they varied depending on the aging methods and aging time-point. The difference of flavor substances in different aging stages of tobacco leaves might be caused by the flavor precursor catabolic reactions (Zhu et al. 2025).
Volatile ketones, which arise from pathways such as β-oxidation and degradation of fatty acids, oxidative cleavage of carotenoids, and Maillard reactions, represented the most abundant class of volatile compounds in the analyzed samples and were characterized by their relatively low sensory thresholds (Wang et al. 2024b; Wu et al. 2023). The total ketone content in FJ-treated samples exceeded that of both CK and JM groups across all fermentation periods. Among the ketones identified, damascenone, 4,7,9-megastigmatrien-3-one, geranylacetone were the most abundant in all three tobacco types. Their concentrations increased progressively with aging in both FJ and JM samples, promoting the development of an ideal floral and fruity aroma in the tobacco leaves. These findings are consistent with previous studies reporting similar trends in other tobacco varieties (Wu et al. 2022). Shan et al reported that the content of megastigmatrienone significantly increased in Bacillus velezensis TB-1 fermented low-grade tobacco leaves (Shan et al. 2025).
Esters in tobacco leaves were primarily formed through esterification reactions between short-chain acids and alcohols (Zhang et al. 2024b). The predominant volatile esters identified in aged tobacco leaves include methyl palmitate (35.32–89.81 µg/g), ethyl linoleate (21.18–51.91 µg/g), and ethyl linoleate (14.62–36.65 µg/g), which contribute pleasant fruity and floral notes and significantly enhance the overall aroma and flavor profile of tobacco (Wang et al. 2024a). Compared to the CK treatment, both the diversity and concentration of esters were elevated in the FJ and JM treatments. This increase may be attributed to the action of cellulase, which degraded tobacco cell walls and released additional precursors such as sugars and phenolic compounds. Concurrently, B. clausii likely facilitated the conversion of these precursors into ester compounds via its oxidative metabolic pathways.
Alcohols in tobacco leaves originate primarily from the enzymatic oxidation and breakdown of polyunsaturated fatty acids, as well as from the secondary degradation of fatty acid hydroperoxides or microbial fermentation of carbohydrates (Weng et al. 2024). Under all three aging methods, the total alcohol concentration exhibited a gradual decline as fermentation progressed. Although alcohols generally contributed pleasant aromas and are known to mellow the smoke and reduce irritation (Zhang et al. 2025b), their overall abundance decreased over time. Similar result was also found in tobacco leaves fermented by Bacillus velezensis TB-1, which reported that the content of 1,3-dioxolane-2-methanol and benzyl alcohol decreased after Bacillus velezensis TB-1 (Shan et al. 2025). These findings align with previously reported trends in fermented tobacco leaves and further demonstrated that exogenous microbial-enzyme co-fermentation enhances ester formation, thereby enriching the desirable floral and fruity aroma notes in tobacco leaves (Zhang et al. 2025b). Notably, the concentrations of specific key alcohols varied significantly among treatments. The content of benzyl alcohol increased from 12.44 µg/g (CK) to 15.12 µg/g (FJ) and 17.64 µg/g (JM) for aging 3 months. A more pronounced increase was observed for furfuryl alcohol, which rose from 1.14 µg/g (CK) to 3.39 µg/g (FJ) and 4.30 µg/g (JM). Benzyl alcohol, derived from the conversion of phenylalanine, serves as an important odor-active compound in tobacco, contributing distinct aromatic characteristics to cigarette smoke (Weng et al. 2024). Furfuryl alcohol imparted a sweet, caramel-like scent that significantly enriched the overall aroma (Liu et al. 2024). Furthermore, it played an effective role in reducing smoke irritation and masking undesirable odors in the tobacco leaves.
A total of only five volatile aldehydes were identified across the three types of aged tobacco leaves. Aldehydes—mainly derived from lipid oxidation—are known for their low odor thresholds and play a significant role in shaping the aroma profile of tobacco leaves (Fang et al. 2024). As shown in Fig. 5B and 5C, the total aldehyde content under the JM treatment was significantly higher than that in both the CK and FJ treatments at each aging time point. Moreover, aldehyde levels increased progressively throughout the fermentation period, suggesting that microbial-enzyme co-fermentation promoted the degradation and conversion of lipid, leading to increased aldehyde formation (Li et al. 2024). The five aldehydes detected during aging included 3-furaldehyde, benzaldehyde, phenylacetaldehyde, β-cyclocitral, and furfural. In all treatments, aldehydes collectively accounted for less than 7.5% of the total quantified aroma compounds. Their concentrations increased linearly over fermentation time in both FJ and JM samples. After nine months of aging, three aldehydes—3-furfural, phenylacetaldehyde, and β-cyclocitral—were uniquely generated in the FJ and JM treatments, with concentrations consistently higher in the JM-9 group than in FJ-9. In contrast, benzaldehyde was detected in all three treatments; its content was highest in JM (3.25 µg/g), followed by FJ (1.37 µg/g) and CK (0.11 µg/g). These aldehydes contribute floral, fruity, and nutty notes, substantially enriching the complexity and layering of the overall tobacco aroma.
The odor activity values (OAVs) of key aroma components in tobacco leaves subjected to different treatments are summarized in Table 1. The results indicated that the JM treatment exhibited significantly higher OAVs for dihydroactinidiolide and ethyl palmitate—both associated with milky notes—compared to the CK and FJ treatments. With OAVs exceeding 1, these compounds contributed to a more pronounced milky aroma in the JM group. Similarly, the JM treatment showed elevated OAVs for several floral- and fruity-scented compounds, including ethyl linoleate, linalool, benzaldehyde, β-ionone, benzyl alcohol, and β-cyclocitral. Among these, the OAVs of ethyl linoleate, linalool, and benzaldehyde were greater than 1, enhancing the fruity aroma profile of the JM treatment. Additionally, furfuryl alcohol, which imparted a caramel-like sweetness, displayed an OAV above 1 in the JM treatment, underscoring its role in enriching the sweet aromatic notes. Notably, benzaldehyde and 2-acetylpyrrole (nutty aromas) also exhibited higher OAVs in the JM treatment. Owing to its particularly low odor threshold, 2-acetylpyrrole yielded the highest OAV among all detected aroma compounds. Collectively, these substances, including ethyl linoleate, benzyl alcohol, linalool, benzaldehyde, phenylacetaldehyde, β-cyclocitral, β-ionone, and 2-acetylpyrrole, contributed significantly to the overall aroma profile of the JM treatment. With the exception of benzaldehyde, β-cyclocitral, and β-ionone, all exhibited OAVs greater than 1, identifying them as key aroma-active compounds following tobacco fermentation.
Characteristic volatile compounds in tobacco leaves with different aging treatments
A partial least squares-discriminant analysis (PLS-DA) model was applied to analyze the volatile compounds in tobacco leaves subjected to different aging treatments, as depicted in Fig. 6. The model demonstrated high reliability, with both the variable fit index (R²) and the predictive ability index (Q²) exceeding 0.5. Variables with a variable importance in projection (VIP) > 1 and p < 0.05 were considered as differential volatile flavor compounds (Wang et al. 2024a). When comparing the FJ group to the CK group, key differential compounds included ethyl palmitate, 4,7,9-megastigmatrien-3-one, phenethyl alcohol, methyl linoleate, ethyl linolenate, benzyl alcohol, and methyl palmitate. In the JM group versus CK, the main differential volatiles were ethyl palmitate, ethyl linolenate, 4,7,9-megastigmatrien-3-one, ethyl linoleate, dioctyl phthalate, and damascenone. The results indicated that these markers primarily belonged to esters, alcohols, and ketones. Most of these compounds contribute pleasant aromatic attributes and play essential roles in harmonizing, refining, and distinguishing the overall aroma profile of tobacco leaves under different aging conditions.
Correlation analysis between dominant microorganisms and characteristic volatile compounds
To elucidate the role of dominant microbiota in flavor formation, which is likely mediated by their high metabolic potential, this study investigated the correlations between the top ten bacterial genera and characteristic aroma components using Spearman correlation analysis and visualized using correlation networks (Fig. 7). Results showed that Pseudomonas exhibited correlations with three aroma compounds, showing positive correlations with furfuryl alcohol and 2-methoxy-4-vinylphenol, but a negative correlation with α-damascenone, while Stenotrophomonas was positively correlated with 3-furfural, 2-acetylpyrrole, and methyl linolenate. Previous study has implicated Pseudomonas and Stenotrophomonas in the formation of tobacco flavor, showing a significant positive correlation with compounds such as acetophenone, decyl aldehyde, and β-cyclonitroaldehyde during industrial fermentation, thereby highlighting their potential contribution to the sensory profile (Zhang et al. 2024a).
Franconibacter was exclusively negatively correlated with methyl linolenate, 3-furfural, and 2-acetylpyrrole. In contrast, Acinetobacter demonstrated the broadest influence, displaying positive correlations with five components, including methyl linolenate, ethyl palmitate, ethyl linolenate, phytone, and β-ionone. Enterobacter was strongly negatively correlated solely with dioctyl phthalate, Bacillus showed a single positive correlation with methyl linolenate. Similarly, Solibacillus was identified as a characteristic microorganism during the air-curing process, with correlation analysis indicating a significant positive relationship between its abundance and the formation of carbonyl compounds such as 3,5-octadien-2-one, geranyl acetone, and 2,3-pentanedione (Zhang et al. 2025a). These results preliminarily elucidate the potential contribution of bacterial communities to flavor compound formation during tobacco leaf aging. However, this study has certain limitations. However, due to the amplification preference of the primers selected for amplicon sequencing for different species, this method is difficult to accurately reflect the true composition and structure of the microbial community, which may affect the accurate inference of community functions (Cocolin et al. 2013). Moreover, the lack of full genomic information limits an in-depth exploration of the metabolic pathways involved. To further systematically explain the specific mechanisms of microorganisms in the flavor formation of tobacco leaves, future studies should employ metagenomic or metatranscriptomic technologies to enable direct analysis based on functional genes. Furthermore, isolating key microbial strains and validating their functions through laboratory and industrial-scale fermentation experiments will be essential to confirm their roles.