{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,25]],"date-time":"2026-08-25T17:23:14Z","timestamp":1787678594189,"version":"build-2784847793"},"reference-count":29,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2023,1,10]],"date-time":"2023-01-10T00:00:00Z","timestamp":1673308800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31941018, 32072888, U21A20261"],"award-info":[{"award-number":["31941018, 32072888, U21A20261"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100010211","name":"Education Department of Jilin Province","doi-asserted-by":"publisher","award":["JJKH20220366KJ"],"award-info":[{"award-number":["JJKH20220366KJ"]}],"id":[{"id":"10.13039\/501100010211","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:p>Rotavirus is one of the main pathogens that cause diarrhoea in young animals, and countless animals have died of rotavirus infection worldwide. Three strains of lactic acid bacteria isolated from Tibetan mushrooms were used to study the inhibition of rotavirus <jats:italic>in vitro<\/jats:italic> and <jats:italic>in vivo<\/jats:italic>. One part was to identify and study the biochemical and probiotic characteristics of three isolated lactic acid bacteria, and the other part was to evaluate the inhibitory effect on rotavirus <jats:italic>via in vivo<\/jats:italic> and <jats:italic>in vitro<\/jats:italic> experiments. The whole genome of the lactic acid bacteria with the best antiviral effect was sequenced, and the differences between them and the standard strains were analyzed by comparative genomic analysis, so as to provide a theoretical basis for exploring the antiviral effect of lactic acid bacteria.The three strains were identified as <jats:italic>Pediococcus acidilactici<\/jats:italic>, <jats:italic>Lactobacillus casei<\/jats:italic> and <jats:italic>Lactobacillus paracasei<\/jats:italic>. <jats:italic>Pediococcus acidilactici<\/jats:italic> showed good acid tolerance, bile salt tolerance, survival in artificial intestinal fluid, survival in gastric fluid and bacteriostasis. In <jats:italic>in vitro<\/jats:italic> experiments, pig intestinal epithelial cells cocultured with <jats:italic>Pediococcus acidilactici<\/jats:italic> exhibited reduced viral infection. In the <jats:italic>in vivo<\/jats:italic> experiment, the duodenum of mice fed <jats:italic>Pediococcus acidilactici<\/jats:italic> had extremely low numbers of virus particles. The total genome size was 2,026,809\u2009bp, the total number of genes was 1988, and the total length of genes was 1,767,273\u2009bp. The proportion of glycoside hydrolases and glycoside transferases in CAZy was 50.6 and 29.6%, respectively. The Metabolism function in KEEG had the highest number of Global and overview maps. Among the comparative genomes, <jats:italic>Pediococcus acidilactici<\/jats:italic> had the highest homology with GCF 000146325.1, and had a good collinearity with GCF 013127755.1, without numerous gene rearrangement events such as insertion, deletion, inversion and translocation. In conclusion, <jats:italic>Pediococcus acidilactici<\/jats:italic> was a good candidate strain for antiviral probiotics.<\/jats:p>","DOI":"10.3389\/fmicb.2022.1069981","type":"journal-article","created":{"date-parts":[[2023,1,10]],"date-time":"2023-01-10T21:12:28Z","timestamp":1673385148000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":4,"title":["Antiviral effects of Pediococcus acidilactici isolated from Tibetan mushroom and comparative genomic analysis"],"prefix":"10.3389","volume":"13","author":[{"given":"Tianming","family":"Niu","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuxin","family":"Jiang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shuhui","family":"Fan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Guilian","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chunwei","family":"Shi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liping","family":"Ye","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chunfeng","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2023,1,10]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"e8136","DOI":"10.1016\/j.heliyon.2021.e08136","article-title":"Lisolation, identification and characterization of species diversity from: traditional fermented buffalo milk gels in Sri Lanka","volume":"7","author":"Adikari","year":"2021","journal-title":"Heliyon"},{"key":"ref2","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1080\/10408398.2021.1949577","article-title":"Saccharomyces cerevisiae var. Boulardiihealth-promoting properties of as a probiotic; characteristics, isolation, and applications in dairy products","author":"Ansari","year":"2021","journal-title":"Crit. Rev. Food Sci. Nutr."},{"key":"ref3","doi-asserted-by":"publisher","first-page":"2239","DOI":"10.3390\/foods10102239","article-title":"Health-promoting properties of lacticaseibacillus paracasei: a focus on kefir isolates and exopolysaccharide-producing strains","volume":"10","author":"Bengoa","year":"2021","journal-title":"Foods"},{"key":"ref1001","doi-asserted-by":"publisher","DOI":"10.4315\/JFP-21-021","article-title":"Characterization and evaluation of probiotic potential in vitro and in situ of lacticaseibacillus paracasei isolated from tenate cheese","author":"Falf\u00e1n-Cortes","year":"2021","journal-title":"Journal of Food Protection"},{"key":"ref4","doi-asserted-by":"publisher","first-page":"56","DOI":"10.1007\/s12602-017-9277-7","article-title":"Bifidobacterium adolescentis (dsm 20083) and lactobacillus casei (lafti l26-dsl): probiotics able to block the in vitro adherence of rotavirus in ma104 cells","volume":"10","author":"Fernandez-Duarte","year":"2018","journal-title":"Prob. Antimicrob. Proteins"},{"key":"ref5","doi-asserted-by":"publisher","first-page":"137","DOI":"10.1016\/j.foodres.2018.11.056","article-title":"Comparative analysis of the microbial community composition between tibetan kefir grains and milks","volume":"116","author":"Gao","year":"2019","journal-title":"Food Res. Int."},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms9102158","article-title":"Lactobacillus kefiranofaciens: from isolation and taxonomy to probiotic properties and applications","volume":"9","author":"Georgalaki","year":"2021","journal-title":"Microorganisms"},{"key":"ref7","doi-asserted-by":"publisher","first-page":"116","DOI":"10.32607\/actanaturae.11020","article-title":"Efficacy of (r)-6-adamantane-derivatives of 1,3-oxazinan-2-one and piperidine-2,4-dione in the treatment of mice infected by the a\/California\/04\/2009 influenza virus","volume":"13","author":"Glubokova","year":"2021","journal-title":"Acta Nat."},{"key":"ref8","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1016\/j.rvsc.2021.07.002","article-title":"Inhibitory effects of lactobacillus plantarum metabolites on porcine epidemic diarrhea virus replication","volume":"139","author":"Huang","year":"2021","journal-title":"Res. Vet. Sci."},{"key":"ref9","doi-asserted-by":"publisher","first-page":"2275","DOI":"10.3390\/foods10102275","article-title":"Probiotic properties, prebiotic fermentability, and gaba-producing capacity of microorganisms isolated from mexican milk kefir grains: a clustering evaluation for functional dairy food applications","volume":"10","author":"Hurtado-Romero","year":"2021","journal-title":"Foods"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.4014\/jmb.2106.06044","article-title":"Bovine lactoferricin induces intestinal epithelial cell activation through phosphorylation of fak and paxillin and prevents rotavirus infection","volume":"31","author":"Jeong","year":"2021","journal-title":"J. Microbiol. Biotechnol."},{"key":"ref11","doi-asserted-by":"publisher","first-page":"750","DOI":"10.1097\/MPG.0b013e3182a356e1","article-title":"Lactobacillus rhamnosus gg on rotavirus-induced injury of ileal epithelium in gnotobiotic pigs","volume":"57","author":"Liu","year":"2013","journal-title":"J. Pediatr. Gastroenterol. Nutr."},{"key":"ref12","doi-asserted-by":"publisher","first-page":"e146312","DOI":"10.1371\/journal.pone.0146312","article-title":"Dietary lactobacillus rhamnosus gg supplementation improves the mucosal barrier function in the intestine of weaned piglets challenged by porcine rotavirus","volume":"11","author":"Mao","year":"2016","journal-title":"PLoS One"},{"key":"ref13","doi-asserted-by":"publisher","first-page":"133","DOI":"10.1111\/j.1574-695X.1997.tb01038.x","article-title":"Non-seasonal viral and bacterial episode of diarrhoea in the Jordan Valley, west of Jordan","volume":"18","author":"Mm","year":"1997","journal-title":"FEMS Immunol. Med. Microbiol."},{"key":"ref14","doi-asserted-by":"publisher","first-page":"1041","DOI":"10.1111\/jam.13069","article-title":"In vitro antiviral activity of lactobacillus casei and bifidobacterium adolescentis against rotavirus infection monitored by nsp4 protein production","volume":"120","author":"Olaya Gal\u00e1n","year":"2016","journal-title":"J. Appl. Microbiol."},{"key":"ref15","doi-asserted-by":"publisher","DOI":"10.3390\/v13101905","article-title":"Prevalence, pattern and genetic diversity of rotaviruses among children under 5 years of age with acute gastroenteritis in South Africa: a systematic review and meta-analysis","volume":"13","author":"Omatola","year":"2021","journal-title":"Viruses"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1007\/s12602-021-09841-0","article-title":"Effects of lactic acid bacteria isolated from equine on salmonella-infected gut mouse model","author":"Pei","year":"2021","journal-title":"Prob. Antimicrob. Proteins"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.3390\/vaccines9101067","article-title":"Lactobacillus plantarumpotential adjuvant therapeutic effect of probio-88 postbiotics against SARS-cov-2","volume":"9","author":"Rather","year":"2021","journal-title":"Vaccine"},{"key":"ref18","doi-asserted-by":"publisher","first-page":"1961970","DOI":"10.1080\/19490976.2021.1961970","article-title":"Lacticaseibacillus paracasei dg enhances the lactoferrin anti-SARS-cov-2 response in caco-2 cells","volume":"13","author":"Salaris","year":"2021","journal-title":"Gut Microbes"},{"key":"ref19","doi-asserted-by":"publisher","first-page":"e22192","DOI":"10.1097\/MD.0000000000022192","article-title":"Effect of a new lactobacillus plantarum product, lrcc5310, on clinical symptoms and virus reduction in children with rotaviral enteritis","volume":"99","author":"Shin","year":"2020","journal-title":"Medicine"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.3390\/antibiotics9060328","article-title":"Acinetobacter baumanniicharacterization of extremely drug-resistant and hypervirulent ab030","volume":"9","author":"Singh","year":"2020","journal-title":"Antibiotics"},{"key":"ref21","doi-asserted-by":"publisher","first-page":"203","DOI":"10.7774\/cevr.2021.10.3.203","article-title":"Parenteral, non-live rotavirus vaccine: recent history and future perspective","volume":"10","author":"Song","year":"2021","journal-title":"Clin. Exp. Vacc. Res."},{"key":"ref22","doi-asserted-by":"publisher","first-page":"925","DOI":"10.1039\/c8fo02096e","article-title":"Supplementation with lactobacillus kefiranofaciens zw3 from tibetan kefir improves depression-like behavior in stressed mice by modulating the gut microbiota","volume":"10","author":"Sun","year":"2019","journal-title":"Food Funct."},{"key":"ref23","doi-asserted-by":"publisher","first-page":"771","DOI":"10.1007\/s00011-016-0957-7","article-title":"Immunobiotic lactobacillus strains reduce small intestinal injury induced by intraepithelial lymphocytes after toll-like receptor 3 activation","volume":"65","author":"Tada","year":"2016","journal-title":"Inflamm. Res."},{"key":"ref24","doi-asserted-by":"publisher","first-page":"523","DOI":"10.1007\/s12602-017-9349-8","article-title":"Probiotic properties and cellular antioxidant activity of lactobacillus plantarum ma2 isolated from tibetan kefir grains","volume":"10","author":"Tang","year":"2018","journal-title":"Prob. Antimicrob. Proteins"},{"key":"ref25","doi-asserted-by":"publisher","first-page":"43","DOI":"10.12938\/bmfh.2020-019","article-title":"Enterococcus faecalisanti-influenza virus effects of kh2 and snk12 rna","volume":"40","author":"Watanabe","year":"2021","journal-title":"Biosci. Microb. Food Health"},{"key":"ref26","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1186\/1757-4749-5-22","article-title":"Probiotic lactobacillus rhamnosus gg mono-association suppresses human rotavirus-induced autophagy in the gnotobiotic piglet intestine","volume":"5","author":"Wu","year":"2013","journal-title":"Gut Pathogens"},{"key":"ref27","doi-asserted-by":"publisher","first-page":"153808","DOI":"10.1016\/j.phymed.2021.153808","article-title":"Broad antiviral and anti-inflammatory activity of qingwenjiere mixture against SARS-cov-2 and other human coronavirus infections","volume":"93","author":"Xie","year":"2021","journal-title":"Phytomed. Int. J. Phytother. Phytopharmacol."},{"key":"ref28","doi-asserted-by":"publisher","first-page":"1202","DOI":"10.1016\/j.ijbiomac.2019.11.088","article-title":"Hippophae rhamnoides polysaccharides protect ipec-j2 cells from lps-induced inflammation, apoptosis and barrier dysfunction in vitro via inhibiting tlr4\/nf-\u03bab signaling pathway","volume":"155","author":"Zhao","year":"2020","journal-title":"Int. J. Biol. Macromol."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2022.1069981\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,10]],"date-time":"2023-01-10T21:12:31Z","timestamp":1673385151000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2022.1069981\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,1,10]]},"references-count":29,"alternative-id":["10.3389\/fmicb.2022.1069981"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2022.1069981","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,1,10]]},"article-number":"1069981"}}