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Effect of inulin supplementation in maternal fecal microbiota transplantation on the early growth of chicks
Microbiome volume 13, Article number: 98 (2025)
Abstract
Background
Fecal microbial transplantation (FMT) is an important technology for treating diarrhea and enteritis. Additionally, FMT has been applied to improve productivity, alter abnormal behavior, relieve stress, and reduce burdens. However, some previous studies have reported that FMT may cause stress in acceptor animals. Inulin, a prebiotic, can promote growth, enhance immunity, and balance the gut microbiota. Currently, there are limited reports on the effects of combining FMT with inulin on early growth performance in chicks.
Results
In this study, a total of 90 1-day-old chicks were randomly divided into the control group (CON), FMT group, and inulin group (INU). The CON group was fed a basic diet, whereas the FMT and INU groups received fecal microbiota transplantation and FMT with inulin treatment, respectively. Compared with the FMT and CON groups, the INU group presented significantly greater average daily gain (ADG) and average daily feed intake (ADFI) values (P < 0.05). However, the organ indices did not significantly change (P > 0.05). The ratio of the villi to crypts in the ileum significantly differed at 21 and 35 days (P < 0.05). In addition, the cecum concentrations of acetic acid and butyric acid significantly increased in the INU group (P < 0.05). In addition, gut inflammation and serum inflammation decreased in the INU group, and immune factors increased after inulin supplementation. (P < 0.05). Firmicutes and Bacteroidetes were the dominant phyla, with more than 90% of all sequences being identified as originating from these two phyla. Inulin supplementation during mother-sourced microbial transplantation significantly increased the abundance of Rikenella, Butyricicoccus, and [Ruminococcus], which contributed positively to the promotion of early intestinal health and facilitated the early growth of chicks.
Conclusion
The results of this study suggest that inulin supplementation in maternal fecal microbiota transplantation can effectively promote early growth and probiotic colonization, which favors the health of chicks.
Video Abstract
Graphical Abstract
Experimental design process diagram

Background
Maternal fecal microbiota plays a key role in disrupting the colonization and development of exogenous microbiota in early newborn to offspring [1]. The microbiota plays a critical role in regulating the chick weight, which colonizes the host gut, affects energy harvest from the diet, regulates host health, and promotes innate and acquired immunity [2]. Wang et al. [3] reported that fecal transplantation significantly increased the abundance of the intestinal flora, reduced the expression of proinflammatory factors, and increased the expression of anti-inflammatory factors within the intestine. A number of studies have shown that supplementation with fecal microbiota can significantly increase body weight during the early growth stages of livestock and poultry. Furthermore, the colonization of beneficial bacteria has been shown to exert long-term effects on health and development. These effects include the regulation of intestinal metabolites, enhancement of immune system function, and improved fermentation and absorption of dietary nutrients [4, 5]. However, in modern intensive culture, avian embryos grow in an incubator, limiting the delivery of gut bacteria from hens to offspring. Fecal microbiota transplantation (FMT) is an important technology for treating diarrhea and enteritis [6, 7]. Additionally, FMT has been applied to improve productivity; correct abnormal behavior, relieve stress, and reduce disease burdens [8]. Reports indicate that FMT improves weight gain by reshaping the gut microbiota in early life in laying chickens [9] and that FMT improves the gut morphology and microbial composition and increases nutrient absorption from food [10]. The gut function and composition are critical for body growth and development, and the intestinal tract of newborns is not fully developed and has an imperfect immune system. Therefore, the gut microbial composition is very important for gut growth and physiological plasticity in newborn chicks [11, 12].
FMT has a long history as a treatment for diarrhea and enteritis, and it has been increasingly used in medicine in recent years [13,14,15,16]. Brunse et al. [17] reported that oral FMT could improve bacterial adhesion, reduce mortality, and promote the colonization of pathogens in the internal organs, whereas rectal FMT could reduce the stimulation of the upper digestive tract and improve the effectiveness of FMT. These findings suggest that FMT benefits livestock growth and improves immunity and intestinal health. However, some reports indicate that FMT may damage the intestinal barrier and induce inflammation, which is a potentially dangerous health risk for animals [18]. Thus, a method is needed to fully harness the beneficial effects of FMT avoiding adverse impacts.
Inulin, a prebiotic, is a plant polysaccharide and a type of natural functional dietary fiber found in various plants [19, 20]. In animal husbandry, inulin can improve the growth performance of growing-finishing pigs; improving the immune system and promoting beneficial bacterial proliferation [21, 22]. Additionally, inulin can positively influence the gut microbiota by enhancing the balance of beneficial bacteria while reducing the presence of potential pathogens [21]. Inulin has also been confirmed to have anti-oxidative, anti-informatory, and anticancer activities, promote the colonic absorption of minerals, and stimulate the immune system [23,24,25]. Awad et al. [26] reported that inulin promotes glucose absorption, increases glucose transport by increasing jejunal mucosa permeability, and increases the intestinal permeability barrier in weaning piglets. The above evidence supports the use of inulin as a functional food ingredient for reducing diarrhea and inflammation [27].
In this study, to increase the practical applicability of FMT in production, we also aimed to demonstrate that inulin plays a role in enhancing the beneficial effects of FMT. Therefore, we added inulin and maternal source fecal bacterial mixture to the basal diet and observed the growth performance and immunoglobulin, intestinal, and bacterial abundances of chicks to investigate whether maternal microbial transplantation supplemented with inulin could favor FMT during the early growth of offspring.
Materials and methods
Fecal microbiota and basic diet preparation
Twenty healthy (Hy-Line Brown) hens at 6 months of age, with no history of gastrointestinal diseases and no prior vaccinations, were used as donors for FMT. Wing venous blood was collected for blood agglutination tests (Salmonella and Mycoplasma Galliscepticum). Fresh fecal samples were collected, with the white portion removed, followed by intestinal microbiota testing to confirm the absence of pathogenic contamination in the transplanted fecal bacteria. Then, the samples were immediately processed under anaerobic conditions to prepare an FMT stock solution for use in recipient laying hens and stored on ice. Feces were treated according to the methods of Siegerstetter, and the samples were mixed and homogenized with sterile saline (1:2) and filtered through sterile gauze and a 0.25-mm filter [10]. After that, the filtered mixture was centrifuged at 800 rpm for 3 min, the supernatant was removed, 10% bacterial freezing solution was added, and the mixture was stored in a − 80 °C freezer. Notably, the stored bacterial mixture could not be frozen and thawed repeatedly. The basal diet was purchased from Hefeng, Changchun, China. The food-grade inulin was purchased from ShanYou Biotechnology, Shanghai, China. The composition and nutrition levels of the basal diets are shown in Table 1.
Animal management
Chicks were provided by Changchun Agricultural Science and Technology College. This experiment was approved by the Animal Ethics Committee of Jilin Agricultural University (NO. 201,705,001). One-day-old chicks (initial body weight 39.23 ± 0.21 g) were considered recipients and randomly divided into three groups, the CON, FMT, and INU groups with 30 chicks in each group. Each group was subdivided into three cages (three replicates). The chicks were kept in cages (120 × 60 × 60 cm3) equipped with two nipple drinkers and one feeder, which are named in each group CON, FMT, and INU, respectively. Before the actual experiment began, all chicks were fed. Before the actual experiment began, all chicks were fed a basal diet and allowed access to water freely for 7 days. The CON group was fed a basal diet, the FMT group received a basal diet supplemented with 40 mL of fecal microbiota, and the INU group was fed a basal diet containing 1.5% inulin combined with 40 mL of fecal microbiota. We noted that 40 mL of fecal microbiota was added to the diet in two doses (20 mL each). The management regulations were free based on the Hy-line Brown Layer Breeder’s Manual.
Calculations of growth and development indicators
The chicks of the three groups were weighed each week. Feed intake was recorded every day, and the average daily gain (ADG) and conversion ratio (ADFI) were calculated. The immune organs were collected and their indices were calculated, while tibial length was measured. ADG is the (final body weight—initial body weight) number of days, whereas average daily feed intake (ADFI) was determined by dividing total feed consumption by the number of days and animals. The organ index was expressed as (organ weight/body weight) × 100.
Immune substance assay
The blood was collected (n = 5 for each group) and left at 4 °C for 30 min before serum was obtained by centrifugation (3500 × g, 15 min). Serum levels of lysozyme (LZM), immunoglobulin G (IgG), immunoglobulin A (IgA), immunoglobulin M (IgM), and interleukin 10 (IL-10) were estimated according to the instructions of the manufacturer of the ELISA kits (Bioimmune Biotechnology, Shanghai, China), and the process was repeated three times for each chick.
Short-chain fatty acid (SCFA) assay
On day 21, 0.1 g of caecum content (n = 5 for each group) was mixed with 1.5 mL of DEPC water and then centrifuged for 15 min (10 000 × g). One milliliter of the supernatant was collected and mixed with 0.2 mL of metaphosphoric acid (25%). Detection was performed via an Agilent 7980A gas chromatograph with three replicates.
Intestinal histologic observation
The ileum and jejunum (n = 5 for each group) of chicks were treated with 4% paraformaldehyde, dehydrated embedded in paraffin, sectioned at 5 µm, and stained with hematoxylin and eosin (Solberg Biotechnology, Beijing, China). Photographs of the ileal and jejunal sections were obtained using an Olympus light microscope, after which the villus height and crypt depth were measured via ImageJ software. Intestinal Paneth cells were colored red by fluorescent pink, and the background was recolored to yellow using tartar. Paneth cell stain was purchased from Leagene Biological, Beijing, China.
RNA extraction and qPCR analysis
RNA was extracted from the jejunum at 28 and day 35 days (n = 5 for each group). The RNA was quantified using a NanoDrop 2000 spectrophotometer and reverse-transcribed to cDNA (Thermo Fisher Scientific Inc.). Then, qPCR analyses were carried out on a CFX Reali-Time PCR Detection System (Bio-Rad, Hercules, CA, USA). In the present study, GAPDH was used as the housekeeping gene, and MUC2, ZO1, Occludin, IL-6, IL-17A, TGF-β, Foxp3, IL-1β, and Wnt3 were the target genes. The relative expression levels of the target genes in the jejunum were calculated via the 2−△△Ct, with three replicates per chick. The primers were designed and synthesized by Shenggong Biotechnology, Shanghai, China, and the sequences are shown in Table 2.
Sequencing analysis of bacterial colonies and statistical analysis
Total microbial RNA was extracted from the caecum contents of 21-day-old chicks (n = 5 for each group), and the microbiota of the feces was analyzed (n = 3). Sequencing analysis of bacterial colonies was performed by Personal Biotechnology, Shanghai, China. Classification of vital metabolic pathways was performed by analyzing the KEGG database and MetaCyc database. Protein function was predicted using the COG database. Finally, the metagenomeSeq method was combined with calling the fitFeatureModel function to use a zero-included log-normal model to fit the distribution of each pathway/group, and the results of this model were used to determine the significance of the differences. Group distributions use the results of this model to discriminate the significance of the differences.
The data were analyzed for significance using SPSS, and the mean ± standard errors were plotted using Prism software. P-values less than 0.05 were considered statistically significant, and P-values less than 0.01 were considered highly statistically significant [28, 29], * in the figure and lower case letters in the table are mean p values less than 0.05, ** in the figure and upper case letters are mean p values less than 0.01.
Results
Effects of FMT combined with inulin on growth performance and organ index development
Effects of FMT combined with inulin on ADG and ADFI
As shown in Table 3, the ADG was significantly greater in the INU group than in the FMT group during the first 2 weeks (P < 0.05). Additionally, the CON group also had a significantly higher ADG compared to the FMT group (P < 0.05). However, there was no significant difference between the CON and INU groups or among the three groups during the last 2 weeks (P > 0.05). Significant differences were detected among the three groups at 21 and 35 days, but not at 7 and 28 days. At 14 days, the INU and CON groups presented significantly greater ADFI than did the FMT group (P < 0.05), with no difference between the INU and CON groups (P > 0.05). At 21 days, the ADFI in the INU group was significantly greater than that in the FMT group (P < 0.05), but no differences were found between the INU and CON groups, or between the CON and FMT groups (P > 0.05). During the first 2 weeks of the experiment, no significant differences in the feed conversion ratio (FCR) were observed among the groups. However, in the second week, the FMT group presented a significantly greater FCR than the INU group.
Effects of FMT combined with inulin on tibial length
As shown in Table 4, tibial length differed significantly between 21 and 35 days; however, no significant differences were observed among the three groups at 1, 21, and 35 days. At 7 days, the tibial length in the INU group was significantly greater than that in the CON group (P < 0.05) and also significantly greater than that in the FMT group (P < 0.05). However, no significant difference was observed between the CON and FMT groups (P > 0.05). At 21 days, the INU group presented a significantly greater tibial length than did the CON group (P < 0.05), and the FMT group also presented a significant increase in tibial length compared with the CON group (P < 0.05). Nevertheless, no significant difference was detected between the INU and FMT groups (P > 0.05).
Effects of FMT combined with inulin on immune organ indices
As shown in Table 5, no significant differences in organ indices were observed among the CON, FMT, and INU groups at 21 and 35 days (P < 0.05).
Effects of FMT combined with inulin on immunological indices in serum
Histological examination of the ileum is presented in Fig. 1. As shown in Table 6, compared with those in the CON group, the levels of IgA, IgG, IgM, and LZM in the FMT group were significantly greater at 21 days (P < 0.05). The levels of IgA, IgM, and LZM in the INU group were also significantly greater than those in the CON group at 21 days (P < 0.05). In addition, the levels of IgG, IgM, and LZM in the FMT group were significantly greater than those in the INU group at 21 days (P < 0.05). Compared with those in the CON group, the levels of IgA in both the FMT and INU groups were significantly greater (P < 0.05). However, there were no significant differences in the levels of IgG, IgM, IL-10, or LZM among the three groups at 35 days (P > 0.05).
Effects of FMT combined with inulin on short-chain fatty acid levels in caecum
The effects of FMT combined with inulin on short-chain fatty acids in caecum as shown in Fig. 2. The concentrations of acetic acid and butyric acid were significantly greater in the INU group than in the CON and FMT groups (P < 0.05). The concentration of acetic acid in the FMT group was significantly greater than in the CON group (P < 0.05); however, butyric acid was significantly lower than that in the CON group (P < 0.05). Interestingly, the propionic acid content did not significantly differ among the three groups (P > 0.05).
Effects of FMT combined with inulin on intestinal morphology
Effects of FMT combined with inulin on ileum villi and crypts
The effects of FMT combined with inulin on ileal morphology are shown in Table 7. Compared with those in the INU group, the depths of the crypts in the CON and FMT groups were significantly greater (P = 0.001). The ratio of the villus height to the crypt depth in the INU group was significantly greater (P < 0.001), whereas no significant difference was detected in the villus height. At 35 days of age, the VH in the INU group was significantly greater than that in the FMT group (P = 0.001). However, no significant differences were detected in the depth of the crypts or the ratio of the villus height to the crypt depth among the three groups of chicks (P > 0.05).
Effects of FMT combined with inulin on paneth cells in jejunum
The histological staining of duodenal Paneth cells was shown in Fig. 3. In Table 8, the number of Paneth cells in the jejunum of chicks was greater in the FMT and INU groups than in the CON group (P < 0.05). Additionally, the expression of the Wnt3 gene was characterized. The expression of Wnt3 in the INU group was significantly greater than that in the FMT and CON groups (P < 0.05). Additionally, the expression of Wnt3 in the FMT group was significantly greater than that in the CON group (P < 0.05), as shown in Fig. 4.
FMT combined promotes the jejunal barrier and alleviates inflammation
As shown in Fig. 4, the expression levels of Muc2, ZO-1, and Occludin were significantly greater in the INU group than in the CON group (P < 0.05). Similarly, Muc2 and Occludin levels were significantly elevated in the FMT group (P < 0.05), although the expression levels of all three genes were markedly greater in the INU group than in the FMT group (P < 0.05). Additionally, Foxp3 expression was significantly increased in both the FMT and INU groups (P < 0.05), with higher levels observed in the INU group than in the FMT group (P < 0.05).
As for inflammatory markers, IL-6 expression was significantly lower in the FMT and INU groups than in the CON group (P < 0.05), whereas TGF-β levels were significantly higher in the INU group than in both the CON and FMT groups (P < 0.05). Furthermore, the IL-17A and IL-1β levels in the FMT group were significantly greater than those in the CON and INU groups (P < 0.05), with the IL-1β levels in the INU group being even lower than those in the CON group (P < 0.05).
Analysis of microbial composition differences in chicks
Analysis of microbial composition differences in the caecum
As shown in Fig. 5(a), there were a total of 488 microbial species in all the treatment groups, but there were 848 unique OTUs in the CON group, and 896 and 1252 unique OTUs in the FMT and INU groups, respectively. As shown in Fig. 5(b), PCoA analysis also revealed that the microbial community composition in the different treatment groups was different from that of the CON group at 21 days. However, the microbial community compositions of the FMT and INU groups were more similar at 21 days.
The different microbial compositions of the three groups were analyzed by Venn and PCoA analysis, as shown in a and b in Fig. 5, respectively
The top 20 microbial compositions of chicks at the phylum and genus levels
As shown in Fig. 6(a), at the phylum level, the top 20 most common microbiota sequences identified in chick guts were sequential, Firmicutes, Bacteroidetes, Proteobacteria, Actinobacteria, Tenericutes, Cyanobacteria, TM7, Verrucomicrobia, Lentisphaerae, Spirochaetes, NKB19, Deferribacteres, Synergistetes, Gemmatimonadetes, WS3, WWE1, and Fusobacteria and Chloroflexi. Notably, the abundance of Firmicutes in the FMT group was lower than that in the INU group, whereas the abundance of Bacteroidetes and Proteobacteria was greater in the FMT group than in the CON and INU groups. Compared with those in the CON and FMT groups, Actinobacteria and Tenericutes abundances were clearly increased in the INU group. As shown in Fig. 6b, at the genus level, the top 20 microbiota sequential proportions were Faecalibacterium, Oscillospira, [Ruminococcus], Phascolarctobacterium, Bacteroides, Ruminococcus, Butyricicoccus, Streptococcus, Lactobacillus, Campylobacter, Parabacteroides, Coprococcus, Rikenella, Blautia, Dorea, Barnesiella, Enterococcus, cc_115, Butyricimonas, and AF12. Notably, Oscillospira, [Ruminococcus], Bacteroides, Lactobacillus, Campylobacter, and Parabacteroides abundance were increased in the FMT group compared with the CON and INU groups, whereas Faecalibacterium, Ruminococcus, and Streptococcus abundance were decreased in the FMT group compared with the CON and INU groups. Additionally, Oscillospira, [Ruminococcus], Phascolarctobacterium, Bacteroides, Butyricicoccus, Streptococcus, and Parabacteroides were more abundant in the INU group than in the CON group.
FMT promoted microbial diversity in the caecum
As shown in Fig. 7, the cecal microbial community was analyzed via alpha diversity analysis at 21 days. Compared with those in the CON group, the Chao1 index and observed species index tended to be greater in the INU group, whereas the Shannon index, Simpson index, Pielou’s evenness index, and Faith’s PD index were significantly greater in the INU group at 21 days (P < 0.05). However, the Good’s coverage index was not significantly different between the CON group and the INU group (P > 0.05). Compared with those in the CON group, the PD indices in the FMT group were significantly greater (P < 0.05), but the other indices were not significantly different between the CON and FMT groups (P > 0.05). Compared with the FMT group, the INU group presented significantly higher Shannon, Simpson, and Pielou’s evenness indices (P < 0.05), but other indices did not significantly differ between the INU group and FMT group (P > 0.05).
Assessment of the effects of FMT combined with inulin on the microbiome
LefSe analysis was used to determine significant microbiota enrichment at the phylum and genus levels in the three chick groups after 2 weeks. Figure 8(a) and (b) show that 49 significant taxa differed among the groups (P < 0.05). At the phylum level, Actinobacteria and Tenericutes were enriched in the INU group, whereas Cyanobacteria were enriched in the FMT group. At the genus level, seven genera (Barnesiella, Parabacteroides, Oscillospira, Bilophila, Helicobacter, Tatumella, and Mycoplasma) were enriched in the FMT group; nine genera (Collinsella, Slackia, Butyricimonas, AF12, Rikenella, Streptococcus, Peptococcus, Phascolarctobacterium, and Sutterella) were enriched in the INU group, and five genera (Odoribacter, Fructobacillus, Anaerostipes, Lachnospira, Faecalibacterium, Phascolarctobacterium, cc_115, and Pseudomonas) were enriched in the CON group. Heatmap analysis further revealed changes in the microbial composition of the three groups. Based on changes in ASV abundance, the top 20 genera were selected. Among them, Ruminococcus was changed; Phascolarctobacterium, Rikenella, and Butyricimonas were altered in the FMT and INU groups. Faecalibacterium and cc_115 were enriched in the CON and INU groups. The Bacteroides, Barnesiella, Lactobacillus, Campylobacter, Oscillospira, Enterococcus, Parabacteroides, Butyricicoccus, and Dorea genera were enriched in the FMT group; Blautia was enriched in the CON group; and Streptococcus, Coprococcus, and AF12 were enriched in the INU group.
Relationships between microbiota communities and jejunal barrier function
The relationships between the microbiota community and barrier function and inflammation in the jejunum at 21 days were analyzed. As shown in Fig. 9, Blautia was positively correlated with IL-17A gene expression (P < 0.01). Butyricimonas and Anaerofilum were positively correlated with ZO-1 gene expression (P < 0.05). Odoribacter, Lysinibacillus, and Allobaculum were positively correlated with IL-6, Wnt3, and Muc2, respectively.
Effects of FMT combined with inulin on metabolic pathways
The metabolic pathway statistics, differential analysis of metabolic pathways, and species composition of metabolic pathways are shown in Fig. 10. As shown in Fig. 10 (a), improvements were observed in the following pathways: amino acid biosynthesis, carbohydrate biosynthesis, cell structure biosynthesis, cofactor, prosthetic group, electron carrier, and vitamin biosynthesis; fatty acid and lipid biosynthesis, nucleoside and nucleotide biosynthesis; and secondary metabolite biosynthesis under the biosynthesis category, as well as carbohydrate degradation, carboxylate degradation, and nucleoside and nucleotide degradation under the generation of precursor metabolites and energy category. The top 20 most common bacterial genera include 11 identified and 9 unidentified, as shown in Fig. 10 (b). Compared with the CON and INU groups, the FMT group presented highly significant increases in metabolic pathways, as shown in Fig. 10 (c) and (e). Figure 10 (d) shows significantly improved metabolic pathways in the INU group compared with those in the CON group.
Compared with the INU group, the FMT group presented highly significant differences in the following pathways (P < 0.001): aerobactin biosynthesis, norspermidine biosynthesis, superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation, and superpathway of L-arginine and L-ornithine degradation. Additionally, the FMT group presented significant improvements in the following pathways compared to the CON group (P < 0.001): biotin biosynthesis II, chondroitin sulfate degradation I (bacterial), superpathway of taurine degradation, and superpathway of sulfolactate degradation. Compared with those in the CON group, the following pathways in the INU group were highly significantly enriched (P < 0.001): biotin biosynthesis II, L-leucine degradation I, reductive acetyl coenzyme A pathway, and chondroitin sulfate degradation I (bacterial). The photorespiration and superpathway of sulfolactate degradation pathways were also significantly increased compared to the CON group (P < 0.05). However, the CON group presented significant improvements in the following pathways compared with the INU group (P < 0.001): aerobactin biosynthesis, the superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation, and the superpathway of L-arginine and L-ornithine degradation.
Analysis of the associations between hen fecal microbiota and chick intestinal microbiota
Analysis of microbial composition differences between hen feces and chick intestines
As shown in Fig. 11(a), there were a total of 127 microbial species in all the treatment groups, but there were 2087 unique OTUs in the Hen group, and 1090, 1323, and 1930 unique OTUs in the CON, FMT, and INU groups, respectively. As shown in Fig. 11(b), PCoA analysis also revealed that the microbial community composition in the Hen, FMT, and INU groups was different from that in the CON group. According to the PCoA results, the microbiota of the Hen group was more similar to that of the FMT and INU groups than of the CON group.
Comparison of fecal microbial richness in hens and intestinal microbial richness in chicks
As shown in Fig. 12, the richness of fecal microbiota in hens and intestinal microbiota was analyzed via Alpha diversity analysis. Compared with those in the CON group, the Chao 1 index and observed species index significantly increased in the Hen group (P < 0.05), but the values in the Hen group were not significantly different from those in the FMT and INU groups. The Simpson index, Pielou-E index, and Shannon index revealed that the values in the FMT and INU groups were significantly greater than those in the Hen group (P < 0.05).
Comparison of hen feces and chick intestinal microbial species
The microbial taxa with differences in abundance are displayed by LEfSe from the phylum to genus level in Fig. 13 (a), and 100 taxa were significantly different among the groups. Three phyla (Actinobacteria, Bacteroidetes, and Proteobacteria) were enriched in the INU, FMT, and Hen groups, respectively. At the genus level, 24 genera were significantly enriched in the Hen group (Corynebacterium, Leucobacter, Aeriscardovia, Wautersiella, Sphingobacterium, Bacillus, Solibacillus, Sporosarcina, Facklamia, Trichococcus, Enterococcus, GW_34, Epulopiscium, Erysipelothrix, Alcaligenes, Comamonas, Citrobacter, Escherichia, Proteus, Serratia, Shigella, Acinetobacter, Psychrobacter, Pseudomonas); 8 genera were significantly enriched in the FMT group (Bacteroides, Parabacteroides, [Ruminococcus], Dorea, Butyricicoccus, Oscillospira, Clostridium, Bilophila); and 9 genera were significantly enriched in the INU group (Butyricimonas, AF12, Rikenella, Streptococcus, Coprococcus, Peptococcus, Ruminococcus, Phascolarctobacterium, Sutterella). The top 20 microorganisms with changes in ASV abundance were analyzed using a heatmap to further observe their composition. Among them, the abundance of Butyricimonas and Phascolarctobacterium changed in the Hen, FMT, and INU groups; that of Enterococcus changed in the Hen and FMT groups; and that of Rikenella, Butyricicoccus, and [Ruminococcus] changed in the Hen and INU groups.
Discussion
Following China’s comprehensive ban on antibiotics, except for limited therapeutic use, the search for green, safe, and effective alternatives has gained significant attention [30]. Fecal microbiota transplantation, initially recognized for its efficacy in treating diarrhea and colitis, has been increasingly adopted in research and clinical practice since 2013. Currently, FMT is widely utilized in clinical settings, particularly for treating Clostridioides difficile infection [31]. Studies have demonstrated that combining probiotics with FMT can effectively alleviate diarrhea and enteritis [32,33,34]. However, there are few reports on the effects of maternal microorganisms transplanted to offspring on their growth and even fewer studies on the effects of FMT combined with probiotics on the early growth of livestock and poultry. Inulin is extracted primarily from plant sources, with industrial synthesis and commercial procurement serving as alternative approaches. Currently, plant extraction currently represents the most widely adopted method for commercial production. Inulin has significant therapeutic potential in various clinical applications, particularly in the management of digestive health, metabolic regulation, and cardiovascular diseases. Although the initial production costs are relatively high, the optimization of large-scale production processes has improved cost-effectiveness, indicating substantial market potential in both the pharmaceutical and functional food industries [20, 35]. In this study, we combined FMT with inulin to investigate its effects on the early growth of chicks and to investigate the changes in the gut microbiota of offspring after the transplantation of maternal microorganisms.
The ADG and ADFI can reflect the growth status of organisms and feed utilization [36]. Interestingly, the INU group ADG increased at 7 and 14 days, whereas there was no significant change at 21 and 35 days. However, the results revealed a significant increase in the ADFI at 14 and 21 days in the INU group. In addition, the ADG and ADFI did not increase significantly in the FMT group and were even lower than those in the CON group. Previous studies have shown that not all the benefits of FMT treatment are positive, and some have noted other negative effects of FMT. Mccormack et al. [37] reported that feeding 8 mL of a donor fecal bacteria suspension to newborn piglets could seriously damage the intestinal morphology of piglets and lead to weight loss, and the negative effect was significantly greater after four feeds than after only one. The reason is that the complete fecal flora contains numerous pathogenic bacteria, such as Streptococcus and Campylobacter. Deng et al. [38] reported that some patients receiving FMT may have mild adverse reactions, mainly diarrhea, abdominal pain, vomiting, constipation, and other gastrointestinal symptoms, some patients have fever and a few have lung infections. The tibial length can reflect the growth conditions and growth performance of poultry. Another interesting phenomenon is that tibia length in the INU group increased significantly at 7 and 21 days, but did not change markedly at 14 days; it remained the greatest among the three groups. A possible reason may be errors in the measurement process. In this study, there was no significant difference in organ indices among the three groups, which was different from our team’s previous studies. In addition, reports indicate that a single feeding of a fecal bacterial suspension with a bacterial volume of 1.2 × 109 CFU/mL (8 mL) may damage the intestinal environment homeostasis of newborn offspring, and cause receptor diarrhea, growth and development retraction, inflammation, and so on [18, 39, 40]. A thorough comparison of the previous experiments revealed the possible reasons for the different results: first, the volume of bacterial suspension added was significantly higher than in the previous protocol; second, the fecal bacteria were added directly to the diet; and third, the type of fecal bacteria was added after 7 days instead of within 1 days. The above findings suggest that FMT may have adverse effects, but the present study revealed that both ADG and ADFI increased in the INU group compared with those in the CON group or FMT group, suggesting that inulin can promote the beneficial effects of FMT.
Surprisingly, the villus height and crypt depth at 21 and 35 days were greater in the INU group than in the FMT group. We speculated that the FMT might cause intestinal inflammation. The result showed that supplementation with inulin can promote intestinal development. Next, the serum levels of inflammatory factors and immunoglobulins were determined. Interestingly, the results revealed that the level of IL-10 did not significantly differ among the three groups, whereas the FMT group presented significantly higher levels of the IgG, IgM, and LZM immunokines than did the INU group. To explore this phenomenon, jejunal barrier function and inflammatory and immune gene expression were characterized. Interestingly, Muc2, ZO-1, and Occludin gene expression were significantly greater in the INU group than in the CON and FMT groups, and the levels of IL-17A and IL-1β were significantly lower in the INU group than in the FMT group. In addition, the gene expression levels of Foxp3 and TGF-β were markedly greater in the INU group than in the FMT group. These findings provide evidence for our speculation. To further prove our hypothesis, Paneth cells were counted, which revealed more increased Paneth cells in the jejunum in the INU and FMT groups than in those of the CON group. We also measured Wnt3 gene expression, which was increased expression in the INU group compared with the CON and FMT groups. In summary, FMT supplemented with inulin had a positive effect on chicks.
The intestinal microbiota is a source of immunity, and adhering to the intestinal mucosa can enhance the intestinal mucosal barrier function, preventing the entry of some pathogenic bacteria and preventing the invasion of harmful bacteria, generating inflammation and strengthening the host immune response [41, 42]. Our study analyzed the composition of the caecum microbiota. The results of the intestinal biodiversity of chicks in the FMT and INU groups revealed an increase in the richness of the intestinal microbiota relative to that in the CON group. Among the three groups, Firmicutes accounted for the largest proportion, followed by Bacteroidetes. Faecalibacterium is the most important butyrate bacteria in the intestine and plays an important role in intestinal health, and its abundance is significantly reduced in the intestines of patients with inflammatory bowel disease and various other diseases according to data from numerous previous reports [43,44,45]. At the phylum level, the fecal microbiota was dominated by the Firmicutes and Bacteroidetes phyla, with a total abundance greater than 90%. Similar to previous studies, Zhang et al. [46] reported that adding inulin to the diet of mice increased the abundance of Firmicutes and Bacteroidetes. In addition, Zhu et al. [47] reported that Firmicutes accounted for the largest percentage of the gut microbiota of rats subjected to FMT. Furthermore, reports have shown that Faecalibacterium, [Ruminococcus], and Phascolar bacteria can promote the production of short-chain fatty acids (SCFAs), mostly acetic, propionic, and butyric acids, which play an important role in maintaining intestinal health [48, 49]. We also tested the SCFAs in the cecum and found that acetic acid and butyric acid significantly increased in the INU group, whereas only acetic acid significantly increased in the FMT group. In addition, the relationship between bacterial symbiosis and gene expression was found to be positive for ZO-1 by Butyricimonas and Allobaculum and beneficial for Muc2 by Allobaculum. These findings suggest that FMT can increase gut biodiversity, that the addition of inulin can promote the colonization of probiotics, and that the supplementing of inulin can effectively promote chick growth in early life. Combining the analysis of hen fecal microbiota with chick gut microbiota, we found that the inulin supplementation favored the colonization of intestinal probiotics (Coprococcus, Phascolarctobacterium, Butyricimonas); Coprococcus is a genus of anaerobic cocci that actively ferment carbohydrates to produce butyric and acetic acids as well as formic or propionic and/or lactic acids, among others [50], Butyricimonas, a beneficial bacterium that produces short-chain fatty acids to reduce inflammation, was found in a report by Han et al. [51]. Phascolarctobacterium, a specialized anaerobic and gram-negative bacterium that produces acetate and propionate [52], and the increase in short-chain fatty acid-producing microbiota in the INU group is consistent with the results of our SCFA content assay. In conclusion, FMT supplemented with inulin is beneficial for the colonization of beneficial intestinal bacteria and for the early growth of chicks.
Surprisingly, differences in metabolic pathways were observed. Compared with those in the CON group, PWY-5005 (biotin biosynthesis II) and PWY-6572 (chondroitin sulfate degradation I) were significantly increased in the FMT group and INU group. Additionally, LEU-DEG2-PWY (L-leucine degradation I) and CODH-PWY (reductive acetyl coenzyme A pathway) were improved in the INU group compared with the CON group. Previous studies have demonstrated that L-leucine metabolism promotes growth, muscle tissue protein synthesis, and intestinal immune function [53, 54]. Moreover, L-leucine releases energy for ATP synthesis via the acetyl coenzyme A reduction pathway. Interestingly, however, the AEROBACTINSYN-PWY (aerobactin biosynthesis) pathway was significantly increased in the FMT group compared with the INU group. In combination with the supplementary figures, which show the microbiota composition of metabolic pathways at the phylum and genus levels, we suspect that aerobactin from probiotics constitutes a significant proportion of the gut microbiota. Therefore, we believe that the addition of inulin can promote chick growth and immunity. Although growth performance was lower in the FMT group than in the INU group, chick growth should be observed over a longer period. Therefore, in future experiments, we will extend the observation period to assess the long-term effects of the treatments.
Conclusions
In conclusion, our data demonstrate that dietary inulin supplementation significantly enhances growth performance in chicks through maternal fecal microbiota transplantation. This effect is attributed to the modulation of early intestinal microbiota, which promotes the colonization of beneficial bacteria and enhances immune function. Specifically, the combined intervention of inulin and maternal fecal microbiota improved gut barrier integrity, upregulated immune-related gene expression, and reduced the expression of proinflammatory factors. These findings highlight the potential of inulin supplementation as a strategy to optimize early growth and intestinal health in poultry.
Data availability
The sequences of 3 cases of fecal microbiota sequencing in hens and 15 cases of microbiota sequencing in the cecum of chicks improved in the manuscript have been shared on the NCBI platform under the project number of hen flora: PRJNA 1181668 (https://www.ncbi.nlm.nih.gov/sra/PRJNA1181668); and under the project number of chick flora: PRJNA 1181746 (https://www.ncbi.nlm.nih.gov/sra/PRJNA1181746).
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Acknowledgements
The authors would like to thank Shuai Zhang, Guoxia Wang and Qilin Li from Jilin agriculture university for her assistance with the administration of the experiment.
Funding
This research was funded by the key technology research project of Changchun Key R&D Program, and the Outstanding Talents in Science, Technology Innovation and Entrepreneurship for Middle and Young People Project of Jilin Province and National Natural Science Foundation of China (No. 20170204043NY, 21ZGN6, and 32472995).
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Conceptualization, M.C., J.P., S.L., S.Y., and X.Z.; methodology, M.C., J.P., Y.S., P.S. and X.Z.; formal analysis, M.C., J.P. and X.Z.; re-source, M.C., J.P.; data curation, M.C., J.P and P.S.; writing——original draft preparation, M.C.; writing ——review and editing, M.C., J.P., Y.S., P.S. and X.Z.; project administration, M.C., J.P., S.L., Y.S. and X.Z.; funding acquisition, X.Z. All authors have read agreed to the published version of the manuscript.
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This study was approved by the Experimental Animal Ethical Committee of Jilin Agriculture University. The chicks came from a local family farm, and the farm owner was informed and agreed to the implementation of this experimental protocol.
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Chen, M., Pan, J., Song, Y. et al. Effect of inulin supplementation in maternal fecal microbiota transplantation on the early growth of chicks. Microbiome 13, 98 (2025). https://doiorg.publicaciones.saludcastillayleon.es/10.1186/s40168-025-02084-z
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DOI: https://doiorg.publicaciones.saludcastillayleon.es/10.1186/s40168-025-02084-z