{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,3]],"date-time":"2026-10-03T00:39:24Z","timestamp":1790987964824,"version":"4.1.0"},"reference-count":41,"publisher":"MDPI AG","issue":"5","license":[{"start":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T00:00:00Z","timestamp":1746057600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Research Foundation of Korea (NRF)","award":["RS-2023-00240204"],"award-info":[{"award-number":["RS-2023-00240204"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Microorganisms"],"abstract":"<jats:p>Background\/Objectives: The growing number of households with companion dogs raises concerns. Co-living environments between companion dogs and their owners are linked to a heightened risk of cross-infections from strains such as Escherichia coli (E. coli), Staphylococcus aureus (S. aureus), Salmonella, and faecal coliforms. Therefore, this study aims to propose measures for healthy cohabitation by analysing the faecal microbiota of puppies and adult dogs. Methods: We isolated lactic acid bacteria (LAB) from their faeces and assessed their potential to inhibit E. coli, S. aureus, and Salmonella spp. Faecal samples from puppies (&lt;2 months old) and adult dogs (&gt;12 months old) were analysed and compared. Results: The analysis revealed that Lactobacillus dominated puppy faeces, while Bacteroidetes were more abundant in adult dogs. In total, 109 primary LAB candidates were isolated from faecal samples. These isolates underwent secondary screening for acid tolerance, bile salt resistance, acid production, heat resistance, protease activity, and antimicrobial activity against E. coli, S. aureus, and Salmonella spp. Five secondary LAB candidates with probiotic potential were further characterised via morphological and genetic analysis. All five strains were Lactobacillus reuteri, with L. reuteri JJ37, JJ68, JJ69, JJ71, and JJ77 emerging as the final probiotic candidates. Conclusions: They promote healthier cohabitation between dogs and their owners.<\/jats:p>","DOI":"10.3390\/microorganisms13051059","type":"journal-article","created":{"date-parts":[[2025,5,1]],"date-time":"2025-05-01T06:49:02Z","timestamp":1746082142000},"page":"1059","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Microbiota Analysis and Characterisation of the Novel Limosilactobacillus Strains Isolated from Dogs"],"prefix":"10.3390","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0009-0001-4088-2314","authenticated-orcid":false,"given":"Ga-Yeong","family":"Lee","sequence":"first","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hae-Yeon","family":"Jo","sequence":"additional","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1071-4176","authenticated-orcid":false,"given":"Muhammad Aleem","family":"Abbas","sequence":"additional","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ling","family":"Gui","sequence":"additional","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1119-2530","authenticated-orcid":false,"given":"Md Sekendar","family":"Ali","sequence":"additional","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seung-Jun","family":"Kim","sequence":"additional","affiliation":[{"name":"Veterinary Obstetrics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8539-1087","authenticated-orcid":false,"given":"Seung-Chun","family":"Park","sequence":"additional","affiliation":[{"name":"Laboratory of Veterinary Pharmacokinetics and Pharmacodynamics, Institute for Veterinary Biomedical Science, College of Veterinary Medicine, Kyungpook National University, Daegu 41566, Republic of Korea"},{"name":"Cardiovascular Research Institute, Kyungpook National University, Daegu 41566, Republic of Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,5,1]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1128\/MMBR.00007-19","article-title":"Gut Microbiota and Colonization Resistance against Bacterial Enteric Infection","volume":"83","author":"Ducarmon","year":"2019","journal-title":"Microbiol. Mol. Biol. Rev."},{"key":"ref_2","doi-asserted-by":"crossref","unstructured":"Wang, H., Zhou, Y., and Zhang, L. (2019). Antimicrobial Resistance, Gut Microbiota, and Health. Food Microbiology: Fundamentals and Frontiers, ASM Press. [5th ed.]. Chapter 34.","DOI":"10.1128\/9781555819972.ch34"},{"key":"ref_3","doi-asserted-by":"crossref","unstructured":"Zhou, Y., Ji, X., Liang, B., Jiang, B., Li, Y., Yuan, T., Zhu, L., Liu, J., Guo, X., and Sun, Y. (2022). Antimicrobial Resistance and Prevalence of Extended Spectrum \u03b2-Lactamase-Producing Escherichia coli from Dogs and Cats in Northeastern China from 2012 to 2021. Antibiotics, 11.","DOI":"10.3390\/antibiotics11111506"},{"key":"ref_4","doi-asserted-by":"crossref","unstructured":"Moon, B.-Y., Ali, M.S., Kwon, D.-H., Heo, Y.-E., Hwang, Y.-J., Kim, J.-I., Lee, Y.J., Yoon, S.-S., Moon, D.-C., and Lim, S.-K. (2023). Antimicrobial Resistance in Escherichia coli Isolated from Healthy Dogs and Cats in South Korea, 2020\u20132022. Antibiotics, 13.","DOI":"10.3390\/antibiotics13010027"},{"key":"ref_5","doi-asserted-by":"crossref","unstructured":"Yang, Q., and Wu, Z. (2023). Gut Probiotics and Health of Dogs and Cats: Benefits, Applications, and Underlying Mechanisms. Microorganisms, 11.","DOI":"10.3390\/microorganisms11102452"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"2618","DOI":"10.1039\/C9FO00087A","article-title":"Metagenomic Analysis Revealed Beneficial Effects of Probiotics in Improving the Composition and Function of the Gut Microbiota in Dogs with Diarrhoea","volume":"10","author":"Xu","year":"2019","journal-title":"Food Funct."},{"key":"ref_7","doi-asserted-by":"crossref","unstructured":"Pilla, R., and Suchodolski, J.S. (2020). The Role of the Canine Gut Microbiome and Metabolome in Health and Gastrointestinal Disease. Front. Vet. Sci., 6.","DOI":"10.3389\/fvets.2019.00498"},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"1079","DOI":"10.1080\/1828051X.2021.1940323","article-title":"The Synergistic Effect of Prebiotics, Probiotics and Antioxidants on Dogs with Chronic Kidney Disease","volume":"20","author":"Meineri","year":"2021","journal-title":"Ital. J. Anim. Sci."},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"Joubran, P., Roux, F.A., Serino, M., and Deschamps, J.-Y. (2024). Gut Microbiota Comparison in Rectal Swabs Versus Stool Samples in Cats with Kidney Stones. Microorganisms, 12.","DOI":"10.3390\/microorganisms12122411"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"99","DOI":"10.12938\/bmfh.33.99","article-title":"Establishment of Intestinal Bacteriology","volume":"33","author":"Mitsuoka","year":"2014","journal-title":"Biosci. Microbiota Food Health"},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"You, I., and Kim, M.J. (2021). Comparison of Gut Microbiota of 96 Healthy Dogs by Individual Traits: Breed, Age, and Body Condition Score. Animals, 11.","DOI":"10.3390\/ani11082432"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"935","DOI":"10.1007\/s11357-019-00121-y","article-title":"Age-Related Compositional and Functional Changes in Micro-Pig Gut Microbiome","volume":"41","author":"Lim","year":"2019","journal-title":"GeroScience"},{"key":"ref_13","doi-asserted-by":"crossref","unstructured":"Guard, B.C., Mila, H., Steiner, J.M., Mariani, C., Suchodolski, J.S., and Chastant-Maillard, S. (2017). Characterization of the Fecal Microbiome during Neonatal and Early Pediatric Development in Puppies. PLoS ONE, 12.","DOI":"10.1371\/journal.pone.0175718"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1016\/j.tim.2018.09.008","article-title":"The Human Microbiome and Child Growth\u2014First 1000 Days and Beyond","volume":"27","author":"Robertson","year":"2019","journal-title":"Trends Microbiol."},{"key":"ref_15","doi-asserted-by":"crossref","unstructured":"\u0141ubiech, K., and Twaru\u017cek, M. (2020). Lactobacillus Bacteria in Breast Milk. Nutrients, 12.","DOI":"10.3390\/nu12123783"},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"Choi, S.-Y., Choi, B.-H., Cha, J.-H., Lim, Y.-J., Sheet, S., Song, M.-J., Ko, M.-J., Kim, N.-Y., Kim, J.-S., and Lee, S.-J. (2022). Insight into the Fecal Microbiota Signature Associated with Growth Specificity in Korean Jindo Dogs Using 16S RRNA Sequencing. Animals, 12.","DOI":"10.3390\/ani12192499"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"859","DOI":"10.1152\/physrev.00045.2009","article-title":"Gut Microbiota in Health and Disease","volume":"90","author":"Sekirov","year":"2010","journal-title":"Physiol. Rev."},{"key":"ref_18","doi-asserted-by":"crossref","unstructured":"Ciaravolo, S., Mart\u00ednez-L\u00f3pez, L.M., Allcock, R.J.N., Woodward, A.P., and Mansfield, C. (2021). Longitudinal Survey of Fecal Microbiota in Healthy Dogs Administered a Commercial Probiotic. Front. Vet. Sci., 8.","DOI":"10.3389\/fvets.2021.664318"},{"key":"ref_19","doi-asserted-by":"crossref","unstructured":"Koliada, A., Syzenko, G., Moseiko, V., Budovska, L., Puchkov, K., Perederiy, V., Gavalko, Y., Dorofeyev, A., Romanenko, M., and Tkach, S. (2017). Association between Body Mass Index and Firmicutes\/Bacteroidetes Ratio in an Adult Ukrainian Population. BMC Microbiol., 17.","DOI":"10.1186\/s12866-017-1027-1"},{"key":"ref_20","doi-asserted-by":"crossref","unstructured":"Mogrovejo, D.C., Perini, L., Gostin\u010dar, C., Sep\u010di\u0107, K., Turk, M., Ambro\u017ei\u010d-Avgu\u0161tin, J., Brill, F.H.H., and Gunde-Cimerman, N. (2020). Prevalence of Antimicrobial Resistance and Hemolytic Phenotypes in Culturable Arctic Bacteria. Front. Microbiol., 11.","DOI":"10.3389\/fmicb.2020.00570"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1111\/j.1348-0421.1976.tb01005.x","article-title":"Persistent High Numbers of Clostridium Perfringens in the Intestines of Japanese Aged Adults","volume":"20","author":"Yamagishi","year":"1976","journal-title":"Jpn. J. Microbiol."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1038\/s41426-018-0144-8","article-title":"An Update on the Human and Animal Enteric Pathogen Clostridium Perfringens","volume":"7","author":"Kiu","year":"2018","journal-title":"Emerg. Microbes Infect."},{"key":"ref_23","doi-asserted-by":"crossref","unstructured":"Le Goff, G., Lopes, P., Arcile, G., Vlachou, P., Van Elslande, E., Retailleau, P., Gallard, J.-F., Weis, M., Benayahu, Y., and Fokialakis, N. (2019). Impact of the Cultivation Technique on the Production of Secondary Metabolites by Chrysosporium Lobatum TM-237-S5, Isolated from the Sponge Acanthella Cavernosa. Mar. Drugs, 17.","DOI":"10.3390\/md17120678"},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Garrigues, Q., Apper, E., Chastant, S., and Mila, H. (2022). Gut Microbiota Development in the Growing Dog: A Dynamic Process Influenced by Maternal, Environmental and Host Factors. Front. Vet. Sci., 9.","DOI":"10.3389\/fvets.2022.964649"},{"key":"ref_25","doi-asserted-by":"crossref","unstructured":"Shokryazdan, P., Sieo, C.C., Kalavathy, R., Liang, J.B., Alitheen, N.B., Faseleh Jahromi, M., and Ho, Y.W. (2014). Probiotic Potential of Lactobacillus Strains with Antimicrobial Activity against Some Human Pathogenic Strains. Biomed Res. Int., 2014.","DOI":"10.1155\/2014\/927268"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"81","DOI":"10.14405\/kjvr.2015.55.2.81","article-title":"Selection and Immunomodulatory Evaluation of Lactic Acid Bacteria Suitable for Use as Canine Probiotics","volume":"55","author":"Park","year":"2015","journal-title":"Korean J. Vet. Res."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"188","DOI":"10.1111\/j.1600-0722.2005.00191.x","article-title":"Probiotics: Do They Have a Role in Oral Medicine and Dentistry?","volume":"113","author":"Meurman","year":"2005","journal-title":"Eur. J. Oral Sci."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1159\/000104752","article-title":"Bacteriocins from Lactic Acid Bacteria: Production, Purification, and Food Applications","volume":"13","author":"Leroy","year":"2007","journal-title":"Microb. Physiol."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"3045","DOI":"10.3168\/jds.S0022-0302(84)81670-7","article-title":"Importance of Bile Tolerance of Lactobacillus Acidophilus Used as a Dietary Adjunct","volume":"67","author":"Gilliland","year":"1984","journal-title":"J. Dairy Sci."},{"key":"ref_30","doi-asserted-by":"crossref","unstructured":"Aguinaga B\u00f3squez, J.P., O\u01e7uz, E., Cebeci, A., Majadi, M., Kisk\u00f3, G., Gillay, Z., and Kovacs, Z. (2022). Characterization and Viability Prediction of Commercial Probiotic Supplements under Temperature and Concentration Conditioning Factors by NIR Spectroscopy. Fermentation, 8.","DOI":"10.3390\/fermentation8020066"},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"125","DOI":"10.2174\/1389203719666180517100339","article-title":"Influence of Probiotics on Dietary Protein Digestion and Utilization in the Gastrointestinal Tract","volume":"20","author":"Wang","year":"2018","journal-title":"Curr. Protein Pept. Sci."},{"key":"ref_32","doi-asserted-by":"crossref","unstructured":"Mokoena, M.P. (2017). Lactic Acid Bacteria and Their Bacteriocins: Classification, Biosynthesis and Applications against Uropathogens: A Mini-Review. Molecules, 22.","DOI":"10.3390\/molecules22081255"},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"e04974","DOI":"10.1016\/j.heliyon.2020.e04974","article-title":"Lactic Acid Production\u2014Producing Microorganisms and Substrates Sources-State of Art","volume":"6","author":"Abedi","year":"2020","journal-title":"Heliyon"},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"441","DOI":"10.4315\/0362-028X.JFP-18-303","article-title":"Inhibitory Effect of Lactic Acid Bacteria on Foodborne Pathogens: A Review","volume":"82","author":"Gao","year":"2019","journal-title":"J. Food Prot."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"820","DOI":"10.4315\/0362-028X-40.12.820","article-title":"Antagonistic Action of Lactobacillus Acidophilus Toward Intestinal and Foodborne Pathogens in Associative Cultures","volume":"40","author":"Gilliland","year":"1977","journal-title":"J. Food Prot."},{"key":"ref_36","unstructured":"Hwang, Y., Park, K., Park, S., and Park, J. (2025, February 10). Policy Suggestions for Fostering the Pet Food Industry as a New Growth Engine of the Agro-Food Industry. Available online: https:\/\/repository.krei.re.kr\/bitstream\/2018.oak\/31237\/1\/R978_e_summary.pdf."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"763","DOI":"10.14202\/vetworld.2015.763-767","article-title":"Zoonotic Importance of Canine Scabies and Dermatophytosis in Relation to Knowledge Level of Dog Owners","volume":"8","author":"Raval","year":"2015","journal-title":"Vet. World"},{"key":"ref_38","first-page":"93","article-title":"A Case Control Study of Salmonella SPP. Infection in Stray Dogs in Tehran Shelters and the Correlation between Paraclinical Tests Results and Clinical Findings","volume":"75","author":"Askari","year":"2020","journal-title":"Arch. Razi Inst."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"422","DOI":"10.4014\/jmb.1209.09051","article-title":"Characterization and Zoonotic Potential of Uropathogenic Escherichia Coli Isolated from Dogs","volume":"23","author":"Nam","year":"2013","journal-title":"J. Microbiol. Biotechnol."},{"key":"ref_40","doi-asserted-by":"crossref","unstructured":"Liyanagama, I., Oh, S., Choi, J.H., Yi, M.-H., Kim, M., Yun, S., Kang, D., Kim, S.L., Ojeda Ayala, M.G., and Odua, F. (2024). Metabarcoding Study of Potential Pathogens and Zoonotic Risks Associated with Dog Feces in Seoul, South Korea. PLoS Negl. Trop. Dis., 18.","DOI":"10.1371\/journal.pntd.0012441"},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"191","DOI":"10.17221\/112\/2022-VETMED","article-title":"Antimicrobial Properties of Limosilactobacillus Reuteri Strains for Control of Escherichia coli and Salmonella Strains, Diarrhoea Cause in Weaning Pigs","volume":"68","author":"Yoo","year":"2023","journal-title":"Vet. Med."}],"container-title":["Microorganisms"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2076-2607\/13\/5\/1059\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,9]],"date-time":"2025-10-09T17:26:05Z","timestamp":1760030765000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2076-2607\/13\/5\/1059"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,5,1]]},"references-count":41,"journal-issue":{"issue":"5","published-online":{"date-parts":[[2025,5]]}},"alternative-id":["microorganisms13051059"],"URL":"https:\/\/doi.org\/10.3390\/microorganisms13051059","relation":{},"ISSN":["2076-2607"],"issn-type":[{"value":"2076-2607","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,5,1]]}}}