Biocontrol Potential and Growth-Promoting Effects of Freshwater Trichoderma Strains against Plant Pathogenic Fungi in Red Pepper

Article information

Plant Pathol J. 2025;41(3):392-408
Publication date (electronic) : 2025 June 1
doi : https://doi.org/10.5423/PPJ.OA.02.2025.0019
Fungi Research Division, Biological Resources Research Department, Nakdonggang National Institute of Biological Resources, Sangju 37242, Korea
*Corresponding author. Phone) +82-54-530-0864, FAX) +82-54-530-0869, E-mail) cws24@nnibr.re.kr
Handling Editor : Young-Su Seo
Received 2025 February 12; Revised 2025 April 10; Accepted 2025 April 21.

Abstract

The aim of this study was to investigate the biocontrol potential of Trichoderma spp. against plant pathogenic fungi. Forty-four Trichoderma strains isolated from freshwater environments were evaluated for their biocontrol potential against Phytophthora capsici and Fusarium solani, as well as for their siderophore production, phosphate solubilization, and enzymatic activities. Seven Trichoderma strains showed excellent performance and were selected for further experiments. These strains were identified as T. longibrachiatum and T. capillare based on the internal transcribed spacer and translational elongation factor 1-alpha gene sequences. The selected strains demonstrated strong antifungal activity against six fungal pathogens in dual-culture and volatile organic compound (VOC) assays. Strain FBCC-F1645 exhibited particularly high antifungal activity and completely inhibited the growth of P. capsici in the VOC assay. All the selected strains significantly enhanced the growth parameters of red pepper seedlings, and flowering was effectively promoted in the treatment groups. Additionally, these strains demonstrated preventive effects against Fusarium oxysporum and P. capsici, the causative agents of Fusarium wilt and Phytophthora blight, respectively, achieving notable control efficacy. Notably, strain FBCC-F1547 completely inhibited wilting and exhibited a strong preventive effect against blight. In the pepper anthracnose prevention experiment, all the tested strain suspensions (diluted 100-fold and 500-fold) effectively inhibited Colletotrichum acutatum. These findings suggest that Trichoderma spp. isolated from freshwater environments have the potential to reduce chemical pesticide use and promote sustainable agriculture.

The application of biological control agents (BCAs) in agriculture has increased significantly because of their potential to reduce reliance on chemical pesticides, enhance plant resilience, and improve soil health. Among these agents, Trichoderma spp. have emerged as versatile fungi with proven antifungal properties and plant growth-promoting activities (Tyśkiewicz et al., 2022; Woo et al., 2014; Wyckhuys et al., 2024).

Traditionally isolated from soil, these fungi employ mechanisms such as mycoparasitism, competition for nutrients, and the production of antifungal metabolites to suppress phytopathogens (Oszust et al., 2020; Tyśkiewicz et al., 2022; Zin and Badaluddin, 2020). However, the potential of freshwater ecosystems as sources of agriculturally beneficial Trichoderma spp. remains unexplored. Plant pathogens like Colletotrichum spp., Fusarium spp., and Phytophthora spp. have devastating impacts on agricultural crops worldwide, making their control critical for sustainable agriculture (Dean et al., 2012; Kamoun et al., 2015; Kurchenko et al., 2023).

Colletotrichum spp. are responsible for anthracnose (bitter rot), a destructive disease affecting fruits, vegetables, and cereals, resulting in significant yield losses (Crouch and Beirn, 2009; Dowling et al., 2020; Manova et al., 2022). Specifically, C. gloeosporioides (Cg), C. siamense (Csi), and C. fructicola (Cfr) cause bitter rot in apples, whereas C. acutatum (Ca) causes anthracnose in red peppers, leading to severe fruit damage and substantial economic losses (Dowling et al., 2020; Guo et al., 2022; Than et al., 2008). Similarly, Fusarium spp. are major soil-borne pathogens that cause vascular wilt, head blight, scab, and root rot in crops such as bananas, tomatoes, cotton, beans, and cucumbers, leading to significant yield losses (Okungbowa and Shittu, 2012). Fusarium wilt in red pepper (Capsicum annuum L.) has been reported to reduce both yield and quality (Gabrekiristos et al., 2020). Moreover, Phytophthora capsici (Pc) severely affects cucurbits, tomatoes, eggplants, and red peppers, causing root rot, stem blight, and fruit rot, and has a significant economic impact on red pepper production (Saltos et al., 2022). In South Korea, these pathogens severely affect horticultural and staple crops, emphasizing the need for sustainable and eco-friendly control strategies (Heo et al., 2024; Kim et al., 2023a, 2023b). The increasing demand for alternative solutions has driven interest in BCAs such as Trichoderma spp., which reduce environmental contamination while minimizing the risks to human health (Sundh and Goettel, 2013; Zin and Badaluddin, 2020). These fungi also promote plant growth by enhancing nutrient availability and inducing systemic resistance in plants (Yao et al., 2023).

The aim of this study was to (1) screen the antagonistic activity, siderophore production, and phosphate solubilization potential of Trichoderma strains isolated from freshwater ecosystems to identify candidates for further experimentation; (2) evaluate the selected strains for their efficacy in volatile organic compound (VOC) assays and confirm their biocontrol effects on red pepper fruits and seedlings; and (3) assess the growth-promoting effects of these strains on red pepper seedlings.

Materials and Methods

Isolation of fungal strains from freshwater environment

Fungal strains were isolated from freshwater environments by collecting samples from soil sediments, water, and plant litter in various regions. Details of the strains used in this study are provided in Table 1. The freshwater samples were immediately filtered onsite using a hand pump to pass 50 mL of the sample through an MCE membrane filter (HAWP04700; MF-Millipore, Merck Millipore, Burlington, MA, USA). The filters were then placed onto water agar (WA; 20 g/L agar, 1 L distilled water, 100 ppm streptomycin) plates and incubated at 15°C for 2 days. The collected freshwater sediments and plant materials were washed twice with sterile distilled water (SDW) and placed in SDW at 20°C for 1 week. After incubation, 100 μL of the cultured water was spread onto WA and incubated at 15°C for 2 days. The collected soil samples were serially diluted to 10−2, 10−3, and 10−4 using SDW, and 200 μL of each dilution was spread onto potato dextrose agar (PDA; Difco, Franklin Lakes, NJ, USA) plates and incubated at 15°C for 2 days. All the fungi cultured from the isolates were subjected to single-spore isolation. The pure isolates were inoculated onto PDA and incubated at 20°C. The isolated fungi were suspended in 15% glycerol and stored at −80°C.

Information of Trichoderma isolates isolated from freshwater environments

Molecular identification of fungal isolates

To identify the isolated strains, fungal mycelia cultured on PDA were harvested and placed in tubes containing glass beads for homogenization. Fungal genomic DNA was isolated using the NucleoSpin Plant II DNA extraction Kit (Macherey-Nagel, Düren, Germany) and MagListo 5M Plant Genomic DNA Extraction Kit (Bioneer, Daejeon, Korea). For molecular identification of the fungi, PCR amplification of the internal transcribed spacer (ITS) rDNA region was performed using primers ITS5 (5′-GGAAGTAAAAGTCGTAACAAGG-3′) and ITS4 (5′-TCCTCCGCTTATTGATATGC-3′) (White et al., 1990). The translational elongation factor 1-alpha (TEF1α) region was amplified using primers EF1 (5′-ATGGGTAAGGARGACAAGAC-3′) and EF2 (5′-GGARGTACCAGTSATCAT-3′) (O’Donnell et al., 1998). Amplicons were sequenced by Macrogen (Seoul, Korea) using the same primers. MEGA-X software (Biodesign Institute, Tempe, AZ, USA) was used for sequence alignment and phylogenetic tree construction.

Morphological characterization of fungal isolates

The isolates were cultured on PDA medium and incubated at 25°C for 5 days. The morphological characteristics of the fungal mycelia were examined based on the spore characteristics described by Jaklitsch (2009). For microscopic observation, a drop of distilled water was placed on a glass slide, and a small section of mycelia was cut. The specimen was then covered with a coverslip and observed under a microscope (Goh et al., 2018). Conidiophores and conidia were examined using an Eclipse Ni microscope (H550S, Nikon, Tokyo, Japan) equipped with a Ds-Ri2 digital camera (Nikon). Conidia dimensions are presented as the mean values of a minimum of 50 conidia, with extreme values in parentheses.

Fungal pathogen cultures

Pathogenic fungal cultures of Fusarium oxysporum (Fo), F. solani (Fs), and Pc were obtained from the Korean Agricultural Culture Collection (KACC), National Agrobiodiversity Center (NAAC), Rural Development Administration (RDA), Korea. Additionally, Ca, Cg, Csi, and Cfr were sourced from the Plant Clinical Pathology Laboratory at Andong National University.

Screening experiments utilizing dual-culture, siderophore production, and phosphate solubilization assays

A screening experiment was conducted to evaluate the antifungal activity of freshwater fungal isolates against phytopathogenic fungi, using a dual culture plate assay as per the procedure described by Hernandez Castillo et al. (2011). Freshwater fungal isolates were cultured on PDA medium and incubated at 25°C for 7 days. Pathogenic fungi, Pc and Fs, were also cultured on PDA medium under identical conditions. Using a 5-mm cork borer, mycelial plugs were collected from 7-day-old cultures of both the freshwater isolates and the pathogens. These plugs were placed 4 cm apart on opposite sides of a 6-cm-diameter Petri dish. The control group comprised pathogenic fungi on PDA plates paired with agar plugs without fungi. The plates were incubated at 25°C for 10 days. Following incubation, the degree of growth inhibition between the mycelial plugs and the pathogen was measured and compared with that of the untreated control. The inhibition rate was calculated using the method provided by Rahman et al. (2009), following formula:

Inhibition rate (%)=(Mycelial growth of control-Mycelial growth of treatment)Mycelial growth of control×100

Siderophore production and phosphate-solubilizing ability, which have positive effects on plant growth, were evaluated. The ability of the fungal strains to produce siderophores was assessed using the Chrome Azurol Sulfate (CAS) assay developed by Schwyn and Neilands (1987). To prepare CAS agar, 30.24 g/L PIPES and 1.5% agar were dissolved in 900 mL double-distilled water (ddH2O). The pH was adjusted to 6.5 using 10 N NaOH, and the solution was sterilized by autoclaving at 121°C for 15 min. After sterilization, the CAS agar was supplemented with a sterile blue dye solution (CAS, 2 Mm; FeCl3·6H2O, 1 mM; HDTMA [CTAB], 5 mM). The prepared CAS was poured into six-well plates. After solidification, the agar was cut in half and placed in contact with the cut surface of a 7-day-old PDA fungal culture using the method described by Osman et al. (2019). Siderophore production was indicated by the degree of discoloration of the CAS agar in contact with the fungal mycelium. The discoloration rate was calculated using the following formula:

Discoloration rate (%)=(Area of triangle+Area of sector)×2Area of semicircle×100

Furthermore, phosphate-solubilizing ability was assessed using Pikovskaya’s (PVK) agar plate method described by Zhang et al. (2018). Briefly, 31.3 g/L PVK agar and 0.025 g/L bromophenol blue were dissolved in ddH2O and sterilized by autoclaving at 121°C for 15 min. After placing the fungal plug in the center of the plate, it was incubated at 25°C for 7 days. The solubilization index was calculated using the method described by Doilom et al. (2020), according to the following formula:

Solubilization index=(Clearing zone diameter+Colony diameter)-Colony diameter

Production of amylase, chitinase, and glycosidase

The ability of fungi to produce various enzymes, including amylase, chitinase, and glycosidase, was assessed in vitro. The freshwater fungi used in the experiment were cultured on PDA medium at 25°C for 7 days, after which 5-mm plugs were cut from the cultures using a cork borer. The ability of fungi to produce various enzymes, including amylase, chitinase, and glycosidase, was assessed in vitro. The freshwater fungi used in the experiment were cultured on PDA medium at 25°C for 7 days, after which 5-mm plugs were excised from the cultures using a cork borer. Amylase and chitinase activities were determined following the method described by Mun et al. (2023). For the amylase activity assay, the medium was prepared by dissolving 0.1% AZCL-amylose, 0.5% xanthan gum, and 2% agar in ddH2O. The chitinase activity assay medium was prepared by adding 4.5 g of colloidal chitin, 0.3 g of MgSO ·7H2O, 3 g of (NH4)2SO4, 1 g of KH2PO4, 0.15 g of bromocresol purple, 0.2 mL of Tween 80, and 15 g of agar to 1 L of ddH2O. The glycosidase activity assay medium was prepared by dissolving Esculin Iron Agar (16.5 g/L) and agar (10 g/L) in ddH2O, following the method of Mathlouthi et al. (2002). All media were sterilized by autoclaving at 121°C for 15 min. A fungal plug was placed at the center of each medium, and the plates were incubated at 25°C. After 3 days, enzyme activity was assessed. Amylase and chitinase activities were evaluated by observing the presence of clear zones around the fungal plug. Glycosidase activity was measured based on the length of the darkened zone, signifying hydrolysis by the fungi. The enzyme activity index was determined following the method outlined by Azuddin et al. (2024), using the following formula:

Enzyme activity index=Diameter of zone/Diameter of fungal growth

In vitro antagonistic effect of Trichoderma isolated from freshwater

Trichoderma strains with strong antifungal activity were selected for further experiments. The antifungal efficacy of these isolates were evaluated against six plant pathogens: apple bitter rot (Cg, Csi, and Cfr), red pepper anthracnose (Ca), red pepper Phytophthora blight (Pc), and red pepper Fusarium wilt (Fo). Dual-culture assays were performed as described by Hernandez Castillo et al. (2011). The pathogens were dual-cultured with the Trichoderma isolates on PDA medium and incubated at 25°C for 10 days. The antifungal activity of the Trichoderma isolates was determined by measuring the inhibition of pathogen mycelial growth. The inhibition rate was calculated using the method provided by Rahman et al. (2009), following formula:

Inhibition rate (%)=(Mycelial growth of control-Mycelial growth of treatment)/Mycelial growth of control×100

Evaluation of VOCs in Trichoderma using overlapping plates assay

An experiment was conducted to determine whether Trichoderma spp. isolated from freshwater can produce VOCs that inhibit the growth of plant pathogenic fungi. This experiment was based on the methodology described by Kim et al. (2023b) using a sandwich plate assay. Trichoderma and the pathogenic fungi were inoculated at the center of separate PDA plates and incubated at 25°C for 10 days. After incubation, 5 mm fungal plugs were collected from the cultures using a cork borer. The plugs of the pathogenic fungi and Trichoderma isolates were inoculated in the center of 6 cm PDA plates, which were then assembled in a sandwich format. In the control group, PDA plates containing pathogenic fungi were overlapped without Trichoderma. All plates were incubated at 25°C for 4 days, and the inhibition of mycelial growth of the pathogenic fungi was observed. The inhibition rate was calculated using the method provided by Rahman et al. (2009), following formula:

Inhibition rate (%)=(Mycelial growth of control-Mycelial growth of treatment)/Mycelial growth of control×100

Growth-promoting effects of Trichoderma isolated from freshwater on red pepper plants

To evaluate the plant growth-promoting potential of Trichoderma spp., red pepper seeds (cv. Millennium) were sown in plant trays (570 × 390 × 90 mm) filled with commercial garden soil (Shinsung Minera Ltd., Goesan, Korea). After 4 weeks, the germinated seedlings were transplanted into pots (12 × 10 cm). Trichoderma cultured on PDA medium for 10 days were cut into 5 mm plugs, and three plugs were inoculated into potato dextrose broth liquid medium. After 7 days, 25 mL of Trichoderma suspension (105 spores/mL) was applied to the soil in the pots. The Trichoderma suspension was drenched three times at 14-day intervals. The plants were grown in a greenhouse maintained at 25 ± 5°C. Shoot length, stem diameter, and number of flowers were measured and recorded 45 days after inoculation.

Control for soil-borne fungal pathogen in red pepper

We evaluated the preventive effects of Trichoderma suspensions against Fusarium wilt and Phytophthora blight on red pepper seedlings. Fo was cultured on PDA medium at 25°C for 10 days, and the pathogen concentration was adjusted to 1 × 105 spores/mL using SDW. Pc was cultured on V8 medium (80 mL V8 juice, 10 g agar, 1 L ddH2O, pH adjusted to 6.5 with 10 N NaOH) at 25°C for 10 days. To induce zoospore formation, SDW was added to the V8 plates, followed by a cold shock (10°C for 24 h) and exposure to broad-spectrum light at room temperature for 24 h. Red pepper seedlings were transplanted to plastic pots (12 × 10 cm) containing commercial garden soil. After 1 week, 25 mL of Trichoderma suspension from seven different strains was applied three times at 7-day intervals. Two days after the third application, 25 mL of Fo suspension was applied to the soil to cause Fusarium wilt. To induce Phytophthora blight, Pc was inoculated according to the method of Bartual et al. (1993), in which a plug (Ø 6 mm) of mycelium was placed on a wounded stem. The control group consisted of seedlings treated with SDW only. Pots were maintained in a greenhouse at 25°C. Disease severity caused by both pathogens was assessed 14 days after inoculation. Disease severity (%) was calculated using the method described by Ahmed et al. (2022), and the control value (%) was calculated using the method described by Heo et al. (2024), according to the following formula:

Disease severity (%) was calculated based on the disease index scale (from 0 to 4), where 0 = no visible disease symptoms; 1 = slightly wilted leaves with brownish lesions beginning to appear on the stems; 2 = 30–50% of plants diseased; 3 = 51–70% of plants diseased; 4 = 71–100% of plants diseased. The following equations were used:

Disease severity (%)=[Σ(Disease index×Number of pots with disease index)/(Maximum disease index×Total number of posts)]×100Control value (%)=(1-Incidence rate of treatment group/Incidence rate of control group)×100.

Ex vivo assay for control of red pepper anthracnose

An experiment was conducted to determine whether Trichoderma suspension could control anthracnose in red pepper fruits. This experiment was performed based on the method described by Kim and Kim (2020). Red peppers of similar size were surface sterilized by immersion in 1% NaOCl for 3 min and 70% ethanol for 2 min. Subsequently, the red peppers were rinsed twice with SDW and air-dried. Three wounds were made on the surface of each red pepper using a sterile needle. A 10 μL suspension of Trichoderma (diluted 100-fold and 500-fold with SDW) was applied to the wounded sites. After drying, a 10 μL suspension of Ca (105 conidia/mL) was applied to the same sites. The red peppers were then placed in a plastic tray lined with a wet towel at the bottom and incubated at 25°C. Seven days after inoculation, the disease index was measured to calculate the disease severity and control values. The disease index rated on a scale from 0 to 4, where 0 = no symptoms; 1 = 1–25% with disease lesions ≥ 2 mm; 2 = 26–50% with disease lesions ≥ 4 mm; 3 = 51–75% with disease lesions < 8 mm; and 4 = 76–100% with sunken lesions and spore production. Disease severity (%) was calculated using the method described by Ahmed et al. (2022), and the control value (%) was calculated using the method described by Heo et al. (2024), according to the following formula:

Disease severity (%)=[Σ(Disease index×Number of fruits with disease index)/(Maximum disease index×Total number of fruits)]×100Control value (%)=(1-Incidence rate of treatment group/Incidence rate of control group)×100.

Statistical analysis

Data were analyzed using analysis of variance (ANOVA) with R software (RStudio “Prairie Trillium” Release [2022-05-20] for Windows). An independence test was performed using Pearson’s chi-squared test (Agresti, 2007). Significant differences between treatment means were determined using the least significant difference method, with statistical significance set at P < 0.05. All experiments were performed at least twice and the data were analyzed separately for each experiment. The results from representative experiments are provided.

Results

Isolation and molecular identification of Trichoderma species

The phylogenetic relationships of Trichoderma spp. were determined using sequences from two molecular markers: ITS and TEF1α. Seven Korean isolates from freshwater environments (Table 1) and previously published authentic isolates were included in the analysis. Phylogenetic trees based on ITS and TEF1α clearly resolved the seven isolates, all belonging to Longibrachiatum Clade, and were identified as T. longibrachiatum and T. capillare. Strains FBCC-F1514, FBCC-F1537, FBCC-F1645, FBCC-F1688, and FBCC-F1835 formed a well-supported clade (100% bootstrap value) with the type isolate T. longibrachiatum ATCC18648. Similarly, strains FBCC-F1634 and FBCC-F1547 clustered with the type isolate T. capillare C.P.K.2883, which was supported by 100% bootstrap values (Fig. 1).

Fig. 1

Maximum likelihood phylogenetic tree of representative Trichoderma spp. from different clades within the genus. The tree was reconstructed based on a concatenated internal transcribed spacer and translation elongation factor 1-alpha sequence dataset. The scale bar indicates 0.05 substitutions per nucleotide position.

Morphological characteristics of Trichoderma species

The morphological characteristics of T. longibrachiatum and T. capillare were examined by culturing isolates on PDA and observing colony morphology and conidial structures over time (Fig. 2).

Fig. 2

Morphological characteristics and microscopic observations of Trichoderma longibrachiatum and T. capillare. (A–E) Colonies of T. longibrachiatum after 7 days of incubation at 25°C on potato dextrose agar (PDA) plates (A, FBCC-F1514; B, FBCC-F1537; C, FBCC-F1645; D, FBCC-F1688; E, FBCC-F1835). Conidiophores, phialides (H, I) and conidia (J) of T. longibrachiatum. (F, G) Colonies of T. capillare after 7 days of incubation at 25°C on PDA plates (F, FBCC-F1547; G, FBCC-F1634). Conidiophores, phialides (K, L) and conidia (M) of T. capillare (scale bars = 10 μm).

T. longibrachiatum, isolates FBCC-F1514, FBCC-F1688, FBCC-F1645, and FBCC-F1835 produced white aerial mycelia that were densest at the center and became sparser toward the periphery after 5 days of incubation. The colony reverse was also white in these isolates. FBCC-F1537 exhibited white aerial mycelia with a yellow reverse. After 7 days (Fig. 2A–E), the aerial mycelia and reverse of FBCC-F1835 had turned green. Microscopic observation revealed lageniform phialides, mostly straight, nearly cylindrical or distinctly swollen below the middle (Fig. 2H and I). The conidia were green, slightly rough-walled, subglobose to broadly ellipsoidal, and measured 3.0–4.5 × 2.2–3.2 μm (length × width) (Fig. 2J). The morphology observed in this study matches that of T. longibrachiatum as described in earlier reports (Kim et al., 2023b; Park et al., 2005).

T. capillare, isolate FBCC-F1634 displayed white to green aerial mycelia that were dense at the center and became lighter towards the margin after 5 days of growth, with the reverse side showing a yellow coloration. Isolate FBCC-F1547 also showed white to green aerial mycelia, although growth was relatively shallow and the reverse was similarly yellow. After 7 days (Fig. 2F and G), FBCC-F1634 and FBCC-F1547 showed a distinct green coloration of the aerial mycelia. Phialides were lageniform, mostly straight, nearly cylindrical, or swollen below the middle (Fig. 2K and L). The conidia were green, slightly roughened, subglobose to broadly ellipsoidal, and measured 2.3–4.0 × 2.0–3.0 μm (length × width) (Fig. 2M). The observed morphological traits correspond well with the descriptions of T. capillare provided by Goh et al. (2018).

In vitro antagonistic screening against fungal pathogens

An experiment was conducted to evaluate the antifungal activity of 44 Trichoderma strains against pathogenic fungi Pc and Fs. The results showed that all 44 strains exhibited antifungal activity against these pathogens, with inhibition rates ranging from 40–100%. Among these, the seven selected Trichoderma strains demonstrated high antifungal activity, with FBCC-F1835 exhibiting a particularly strong antagonistic ability, achieving 100% inhibition of both pathogens (Table 2).

In vitro screening of antagonistic activity, plant growth promotion, and enzyme activity assays

Effect of Trichoderma on siderophore production and phosphate solubilization

The ability of 44 Trichoderma strains isolated from freshwater to produce siderophores and solubilize phosphate was evaluated using agar plate assays. Among them, 30 strains showed siderophore production, whereas all strains exhibited phosphate solubilization activity. Seven selected Trichoderma strains demonstrated high activity, with siderophore production > 80% and phosphate solubilization > 60% (Table 2). These findings suggest that the isolated Trichoderma strains not compete with pathogens for Fe3+ by producing siderophores but also possess the ability to solubilize insoluble phosphate, thereby enhancing nutrient availability.

Enzymatic activity of Trichoderma isolated from freshwater

A total of 44 Trichoderma strains were evaluated for chitinase, glycosidase, and amylase activities using enzyme activity plate assays. The results showed that most strains exhibited glycosidase and amylase activities, whereas chitinase activity was minimal. Among the selected strains, six displayed glycosidase activity and four exhibited amylase activity (Table 2). These findings suggest that glycosidase activity may contribute to the activation of plant defense mechanisms under stressful conditions.

Evaluation of dual-culture and VOCs for inhibition of fungal pathogens

Seven strains were selected through screening assays (Table 2). Dual-culture assays were conducted to test the antimicrobial activities of the selected strains against various pathogenic fungi. All strains showed > 80% antifungal activity against Colletotrichum spp. Notably, strain FBCC-F1835 exhibited high antifungal activity, with 94.17%, 87.50%, and 94.17% inhibition of Csi, Cfr, and Cg, respectively. For Ca, strain FBCC-F1537 showed the highest control rate (89.17%). For Fo, the strains demonstrated > 70% antifungal activity, ranging from 72.50–93.33%. Additionally, all seven strains exhibited 100% inhibition of mycelial growth of Pc (Fig. 3). An overlapping plate assay was conducted to determine whether the VOCs produced by the selected Trichoderma strains inhibited pathogenic fungi. The results showed that VOCs from Trichoderma strains inhibited mycelial growth in all pathogens, except Csi. Strain FBCC-F1514 exhibited superior inhibitory effects against five pathogenic fungi: Ca, Csi, Cfr, Cg, and Fo. Strain FBCC-F1645 showed 100% inhibition of Pc (Fig. 4).

Fig. 3

In vitro antagonistic effect of seven selected Trichoderma strains against the growth of six pathogenic fungi using a dual culture plate assay. The colony diameter was measured at 10 days after incubation at 25°C. Bars with the same letters do not differ from each other according to the least significant difference at P < 0.05. The abbreviations representing the fungal pathogens are as follows: Ca (Colletotrichum acutatum), Csi (C. siamense), Cfr (C. fructicola), Cg (C. gloeosporioides), Fo (Fusarium oxysporum), Pc (Phytophthora capsici).

Fig. 4

The inhibitory effect of volatile organic compounds produced by seven selected Trichoderma against the growth of six fungal pathogenic isolates was tested using the overlapping plate assay. The colony diameter was measured at 4 days after incubation at 25°C. Bars with the same letters do not differ from each other according to the least significant difference at P < 0.05. The abbreviations representing the fungal pathogens are as follows: Ca (Colletotrichum acutatum), Csi (C. siamense), Cfr (C. fructicola), Cg (C. gloeosporioides), Fo (Fusarium oxysporum), Pc (Phytophthora capsici).

Evaluation of plant growth promotion by inoculation with freshwater fungi

The growth-promoting effects of the Trichoderma isolates were evaluated on red pepper seedlings under greenhouse conditions over 45 days (Fig. 5). All treatments demonstrated an increase in shoot growth. The control group exhibited an average shoot length of 448.33 mm, whereas the FBCC-F1688 treatment resulted in the highest shoot length, measuring 616.67 mm. Similarly, stem diameter increased in all treatments compared to that in the control, with FBCC-F1514 yielding the thickest stems. The control group did not produce any flowers, whereas all treatments, except FBCC-F1645, induced flowering. The FBCC-F1634 treatment produced the highest number of flowers with an average of seven (Table 3). These results suggest that the tested Trichoderma strains have possess substantial plant growth-promoting potential, making them promising candidates for use as BCAs with added agronomic benefits.

Fig. 5

Effect of Trichoderma treatment on growth-promoting ability of red pepper. Effect of treatment with Trichoderma suspension (105 spores/mL) on growth-promoting ability of red pepper seedlings in comparison to non-treated control (water) under greenhouse conditions after 45 days.

Effect of growth-promoting with selected Trichoderma strains in red pepper under greenhouse pot trials

Control of soil-borne fungal pathogens by Trichoderma spore suspensions

The biocontrol efficacy of Trichoderma strains against Fusarium wilt in red pepper was evaluated 14 days after inoculation with a Fo suspension under greenhouse conditions. All seven Trichoderma strains exhibited control rates > 40%. Among these, FBCC-F1547 demonstrated the highest efficacy with a complete disease control rate of 100%. The remaining strains, excluding FBCC-F1634, showed control rates > 70%, with the lowest efficacy of 43.75% (Fig. 6). These findings underscore the potential of FBCC-F1547 as a highly effective biocontrol agent for the management of Fusarium wilt in red pepper.

Fig. 6

Control value of Fusarium wilt (Fusarium oxysporum) by treatment with Trichoderma suspensions on red pepper seedlings. The results were compared with control 14 days maintained at 25°C. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Further evaluation of biological control efficacy was conducted by applying Pc mycelial plugs to wounds on pepper plants inoculated three times with a Trichoderma suspension. All seven Trichoderma strains tested demonstrated disease control rates > 50%, with FBCC-F1547 and FBCC-F1688 showing the highest efficacy of 75%. FBCC-F1514 exhibited the lowest efficacy of 50%, with wilting and defoliation consistently observed in the leaves. Cross-sectional stem analysis revealed that the control group was completely desiccated, whereas the treated groups displayed only minor browning of the stem tips (Fig. 7). These results suggest that the tested strains have the potential to act as BCAs to directly prevent Fusarium wilt and Phytophthora blight in plants.

Fig. 7

Control value of Phytophthora blight (Phytophthora capsici) by treatment with Trichoderma suspensions on red pepper seedlings. The results were compared with control 14 days maintained at 25°C. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Using Trichoderma suspension to control anthracnose in red pepper fruits

The efficacy of Trichoderma suspensions in controlling anthracnose in red peppers was evaluated using 100-fold and 500-fold dilutions. After 7 days of incubation in a plant growth chamber, both dilutions effectively suppressed anthracnose. The 500-fold dilution achieved preventative effects ranging from 40–86.67%, whereas the 100-fold dilution showed higher efficacy, with preventive effects ranging from 66.67–86.68%. Notably, the 500-fold suspensions of FBCC-F1514 and FBCC-F1645 exhibited greater control efficacy than their respective 100-fold suspensions. All treatments, except for FBCC-F1688 (100-fold and 500-fold) and FBCC-F1835 (500-fold), exhibited anthracnose control values > 70%. Moreover, FBCC-F1634 demonstrated consistent efficacy across both dilutions (Fig. 8). These findings highlight the potential of the seven Trichoderma isolates as effective BCAs against red pepper anthracnose.

Fig. 8

Effect of Trichoderma suspensions (diluted to 500-fold and 100-fold with sterile distilled water) on suppression of control value (%) of anthracnose caused by C. acutatum (105 conidia/mL) on red pepper. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Discussion

The screening of 44 Trichoderma isolates from freshwater environments in Korea to identify the most effective antagonistic strains against plant pathogens. Seven isolates demonstrated antifungal activities ranging from 55–100% against Fs and Pc. These isolates also exhibited > 60% activity in siderophore production (CAS assay) and phosphate solubilization (PVK assay). Enzyme activity assays revealed that six isolates produced glycosidase, whereas four isolates showed amylase activity. However, no chitinase activity was observed. Microbial enzymes, such as glycosidases and amylases, play important roles in maintaining soil quality and promoting plant growth (Khare and Yadav, 2017; Rafanomezantsoa et al., 2023).

In dual-culture assays, these isolates inhibited pathogens, including Colletotrichum spp. (Ca, Cg, Csi, and Cfr) that causes anthracnose (bitter rot) in peppers and apples, Fo that causes Fusarium wilt in peppers, and Pc that causes Phytophthora blight in peppers. Notably, all seven isolates completely inhibited Pc, demonstrating strong biocontrol potential. The ability to grow rapidly provides antagonists such as Trichoderma with a significant advantage in competing with pathogens for space and nutrients (Benítez et al., 2004; Simon and Sivasithaparam, 1988). These findings align with those of previous studies highlighting the antifungal properties of T. longibrachiatum as a biocontrol agent (Anjum et al., 2020; Kim et al., 2023b; Zhang et al., 2015). Similarly, T. capillare has been reported to exhibit antifungal activity against Verticillium dahliae, the causative agent of Verticillium wilt, and F. oxysporum f. sp. cubense, the causative agent of Fusarium wilt (Al-Ani and Albaayit, 2018; Carrasco et al., 2024). However, this is the first study to report the antifungal activity of T. capillare against Colletotrichum spp., the causative agent of anthracnose (bitter rot), and Pc, the causative agent of Phytophthora blight. Furthermore, Naglot et al. (2015) reported that the T. viride SDRLIN1 strain exhibited inhibitory activity against Fs and Cg in dual culture assays. These findings align with previous studies supporting the biocontrol potential of Trichoderma spp. (Al-Ani and Albaayit, 2018; Carrasco et al., 2024).

We investigated the impact of VOCs produced by Trichoderma on the growth of the pathogens using the overlapping plate method. The results showed that VOCs significantly inhibited the growth of Colletotrichum spp. (Ca, Cg, Csi, and Cfr), Fo, and Pc compared with the untreated control after 4 days of incubation. Notably, FBCC-F1645 completely inhibited the growth of Pc 100%. The antifungal activity of VOCs produced by Trichoderma spp. has been investigated in various studies (Da Silva et al., 2023; Joo and Hussein, 2022; Rajani et al., 2021; You et al., 2022). Santos et al. (2023) reported that VOCs from T. aggressivum f. europaeum TA and T. longibrachiatum TL inhibited the mycelial growth of Pc. Additionally, the VOCs produced by T. asperellum T1 and T3, as well as T. koningiopsis PSU3-2, were found to suppress the growth of Colletotrichum spp. (Chávez-Avilés et al., 2024; Ruangwong et al., 2021). The VOCs produced by Trichoderma have been reported to possess diverse antifungal properties, induce plant defenses, and promote plant growth (Phoka et al., 2020). Key VOCs, such as azetidine, 2-phenylethanol, and ethyl hexadecanoate, have been shown to exhibit antimicrobial activity (Angel et al., 2016; Choi et al., 2010; Li et al., 2018). Furthermore, Trichoderma spp. are known to secrete hydrolytic enzymes including chitinase and β-1,3-glucanase, which contribute to their antagonistic properties in degrading the fungal cell wall (Asad et al., 2015; El_Komy et al., 2015). These findings highlight the multifaceted biocontrol potential of VOCs and enzymatic activity of Trichoderma isolates.

In the pepper seedling growth promotion experiment, Trichoderma strains significantly enhanced aerial growth, stem thickness, and flowering compared with the control group. Previous studies have shown that Trichoderma promotes root growth and increases nutrient availability (Contreras-Cornejo et al., 2009). Specifically, Trichoderma isolates from the rhizosphere can control plant diseases, enrich soil microbial communities, reduce toxic ion concentrations, and promote plant growth in saline-alkaline environments. T. capillare and T. longibrachiatum produce indole-3-acetic acid, a plant growth-promoting hormone, and T. longibrachiatum HL167 increases leaf chlorophyll content in black soybean (Harman et al., 2004; Liu et al., 2023; Mendoza-Mendoza et al., 2018; Nieto-Jacobo et al., 2017; Zhang et al., 2019). Similarly, Bader et al. (2020) reported that T. harzianum FCCT 16 and FCCT 363-2 promoted tomato growth by producing phytohormones, increasing leaf area, and enhancing phosphorus uptake. This study demonstrates the positive growth-promoting effects of T. longibrachiatum and T. capillare on red pepper seedlings.

In disease prevention experiments, all Trichoderma strains exhibited high efficacy against Fusarium wilt and Phytophthora blight. Notably, FBCC-F1547 completely inhibited Fusarium wilt disease (100%) and strongly suppressed Phytophthora blight (75%). Previous studies have reported that the antagonistic effect of T. longibrachiatum TG1 is associated not only with direct competition and parasitism, but also with the activation of systemic defense responses via the salicylic acid pathway, enhanced synthesis of plant hormones, increased activity of reactive oxygen species–scavenging enzymes, and improved osmotic balance and metabolic homeostasis in wheat seedlings (Boamah et al., 2021). Furthermore, T. atroviride has been reported to effectively suppress F. oxysporum f. sp. lycopersici, a major soil-borne pathogen affecting tomato seedlings. Similarly, T. virens HZA14 produces gliotoxin, a compound with antiviral, antibacterial, and immunosuppressive properties, which effectively inhibits Pc, a destructive oomycete pathogen in peppers (Nofal et al., 2021; Tomah et al., 2020). These findings suggest that T. longibrachiatum and T. capillare are promising biocontrol agents with the potential to prevent wilt disease and Phytophthora blight in pepper seedlings.

Both 100-fold and 500-fold dilutions of Trichoderma suspensions demonstrated significant preventive efficacy against pepper fruit anthracnose. The bioassays conducted with Trichoderma spp. have demonstrated their effectiveness in disease management. Biological control does not completely eradicate pathogens but rather suppresses their populations, thereby reducing disease incidence (López-López et al., 2022). Zhang et al. (2022) reported that the application of T. harzianum Tha739, either before or after inoculation of wounded apples with Cg, exhibited both preventive and curative effects, with prevention being more effective. Furthermore, Trichoderma spp. have been shown to exert biocontrol activity against Botrytis cinerea in strawberries (Debode et al., 2018), F. incarnatum in melons (Intana et al., 2021), Phomopsis perseae and Neofusicoccum parvum in avocados (López-López et al., 2022); and Ca in peppers (Kim et al., 2023b).

In conclusion, among the 44 Trichoderma strains isolated from freshwater, four T. longibrachiatum and two T. capillare strains demonstrated exceptional antagonistic activity against plant pathogenic fungi and significant plant growth-promoting properties. These findings highlight their potential role as BCAs, reducing reliance on chemical pesticides and advancing sustainable agricultural practices.

Notes

Conflicts of Interest

No potential conflict of interest relevant to this article was reported.

Acknowledgments

This work was supported by a grant from the Nakdonggang National Institute of Biological Resources (NNIBR)(NNIBR20253106) and the Korea Environment Industry & Technology Institute (KEITI) through a project to make multi-ministerial national biological research resources a more advanced program (2021003420002) funded by the Korea Ministry of Environment (MOE).

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Fig. 1

Maximum likelihood phylogenetic tree of representative Trichoderma spp. from different clades within the genus. The tree was reconstructed based on a concatenated internal transcribed spacer and translation elongation factor 1-alpha sequence dataset. The scale bar indicates 0.05 substitutions per nucleotide position.

Fig. 2

Morphological characteristics and microscopic observations of Trichoderma longibrachiatum and T. capillare. (A–E) Colonies of T. longibrachiatum after 7 days of incubation at 25°C on potato dextrose agar (PDA) plates (A, FBCC-F1514; B, FBCC-F1537; C, FBCC-F1645; D, FBCC-F1688; E, FBCC-F1835). Conidiophores, phialides (H, I) and conidia (J) of T. longibrachiatum. (F, G) Colonies of T. capillare after 7 days of incubation at 25°C on PDA plates (F, FBCC-F1547; G, FBCC-F1634). Conidiophores, phialides (K, L) and conidia (M) of T. capillare (scale bars = 10 μm).

Fig. 3

In vitro antagonistic effect of seven selected Trichoderma strains against the growth of six pathogenic fungi using a dual culture plate assay. The colony diameter was measured at 10 days after incubation at 25°C. Bars with the same letters do not differ from each other according to the least significant difference at P < 0.05. The abbreviations representing the fungal pathogens are as follows: Ca (Colletotrichum acutatum), Csi (C. siamense), Cfr (C. fructicola), Cg (C. gloeosporioides), Fo (Fusarium oxysporum), Pc (Phytophthora capsici).

Fig. 4

The inhibitory effect of volatile organic compounds produced by seven selected Trichoderma against the growth of six fungal pathogenic isolates was tested using the overlapping plate assay. The colony diameter was measured at 4 days after incubation at 25°C. Bars with the same letters do not differ from each other according to the least significant difference at P < 0.05. The abbreviations representing the fungal pathogens are as follows: Ca (Colletotrichum acutatum), Csi (C. siamense), Cfr (C. fructicola), Cg (C. gloeosporioides), Fo (Fusarium oxysporum), Pc (Phytophthora capsici).

Fig. 5

Effect of Trichoderma treatment on growth-promoting ability of red pepper. Effect of treatment with Trichoderma suspension (105 spores/mL) on growth-promoting ability of red pepper seedlings in comparison to non-treated control (water) under greenhouse conditions after 45 days.

Fig. 6

Control value of Fusarium wilt (Fusarium oxysporum) by treatment with Trichoderma suspensions on red pepper seedlings. The results were compared with control 14 days maintained at 25°C. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Fig. 7

Control value of Phytophthora blight (Phytophthora capsici) by treatment with Trichoderma suspensions on red pepper seedlings. The results were compared with control 14 days maintained at 25°C. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Fig. 8

Effect of Trichoderma suspensions (diluted to 500-fold and 100-fold with sterile distilled water) on suppression of control value (%) of anthracnose caused by C. acutatum (105 conidia/mL) on red pepper. Bars with the same letters do not differ each other according to the least significant difference (P < 0.05).

Table 1

Information of Trichoderma isolates isolated from freshwater environments

Strain Isolation source Locations GenBank accession no.

ITS TEF1α
FBCC-F1514 Soil Jikdong-ri, Sohol-eup, Pocheon-si, Gyeonggi-do PQ662379 PQ671514
FBCC-F1537 Water Hwangjuk-ri, Jinsang-myeon, Gwangyang-si, Jeollanam-do PQ662381 PQ671512
FBCC-F1547 Water Dangbuk-ri, Oksan-myeon, Gunsan, Jeollabuk-do PQ662382 PQ671516
FBCC-F1634 Water Seoksan-ri, Samgukyusa-myeon, Gunwi-gun, Gyeongsangbuk-do PQ662383 PQ671515
FBCC-F1645 Water Samdeok-ri, Singwang-myeon, Hampyeong-gun, Jeollanam-do PQ662384 PQ671511
FBCC-F1688 Soil Hohyeong-ri, Goheung-eup, Goheung-gun, Jeollanam-do PQ662385 PQ671510
FBCC-F1835 Soil Seoksan-ri, Samguk Yusa-myeon, Gunwi-gun, Gyeongsangbuk-do PQ662386 PQ671509

ITS, internal transcribed spacer; TEF1α, translational elongation factor 1-alpha.

Table 2

In vitro screening of antagonistic activity, plant growth promotion, and enzyme activity assays

Strain Antifungal activity Plant growth promotion Enzyme activity



Fs Pc Phosphate Siderophore Chitinase Glycosidase Amylase
FBCC-F1514 64.00 ± 2.00 88.00 ± 0.00 ++ +++ +++ +
FBCC-F1537 67.78 ± 2.55 90.00 ± 0.00 ++ +++ +++ +
FBCC-F1547 67.78 ± 2.55 57.22 ± 1.92 +++ +++ +++ +++
FBCC-F1634 72.78 ± 0.96 60.56 ± 4.19 +++ +++ + +++ +++
FBCC-F1645 74.44 ± 0.96 71.11 ± 2.55 +++ +++
FBCC-F1688 80.00 ± 2.89 100.00 ± 0.00 +++ +++ +
FBCC-F1835 100.00 ± 0.00 100.00 ± 0.00 +++ +++ +

−, none; +, less than 60% effect; ++, effect of more than 60% to less than 80%; +++, effect of more than 80%.

Fs, Fusarium solani; Pc, Phytophthora capsici.

Table 3

Effect of growth-promoting with selected Trichoderma strains in red pepper under greenhouse pot trials

Shoot length (mm) No. of flowers Diameter (mm)
Control 448.33 ± 1.36 0.00 51.67 ± 0.27
FBCC-F1514 564.67 ± 2.37 2.67 ± 0.72 67.33 ± 1.44
FBCC-F1537 523.33 ± 9.81 3.33 ± 0.72 59.33 ± 0.54
FBCC-F1547 511.67 ± 5.93 3.33 ± 1.09 54.67 ± 0.27
FBCC-F1634 610.00 ± 12.47 7.00 ± 0.47 64.33 ± 0.72
FBCC-F1645 518.33 ± 3.60 0.00 53.67 ± 0.72
FBCC-F1688 513.33 ± 7.20 3.67 ± 1.66 64.00 ± 1.24
FBCC-F1835 616.67 ± 7.20 4.00 ± 0.94 57.67 ± 1.78