Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology最新文献

{"title":"Trujillonella humicola sp. nov., a siderophore-synthesizing bacterium isolated from black soil in Northeast China","authors":"Ying Wang,&nbsp;Le-Bin Chen,&nbsp;Yu-Ting OuYang,&nbsp;Jia-Ying Xing,&nbsp;Ke Zhang,&nbsp;Nan-Feng Chen,&nbsp;Ting-Ting She,&nbsp;Shuang Wang,&nbsp;Jian-Yu Jiao,&nbsp;Wen-Jun Li","doi":"10.1007/s10482-025-02081-0","DOIUrl":"10.1007/s10482-025-02081-0","url":null,"abstract":"<div><p>A Gram-stain-positive, motile, and oval-shaped bacterium, designated as SYSU BS000539^T, was isolated from black soil in Heilongjiang Province, China. 16S rRNA gene sequencing revealed that the isolate shared the highest similarity to <i>Trujillonella endophytica</i> DSM 45413^T (98.32%), and phylogenetic analysis confirmed that it belonged to the genus <i>Trujillonella</i>. The strain could grow at temperatures from 15 to 37 °C (with an optimum at 28 °C), in salt concentrations of 0–5% (w/v) (with an optimum at 0%), and at pH levels from 6.0 to 10.0 (with an optimum at 8.0). The dominant cellular fatty acids (&gt; 5%) were iso-C_16:0, iso-C_15:0, and iso-C_16:1, while the principal respiratory quinones was menaquinone MK-9 (H₄) with menaquinone MK-8 as minor components. Polar lipids were composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol methylphosphonolipid, an unidentified aminolipid and two unidentified polar lipids. The G + C content of the genome was 74.97%. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain SYSU BS000539^T and <i>T. endophytica</i> DSM 45413^T were 84.10% and 27.60%, respectively, falling below species delineation thresholds. Combining phylogenetic, genotypic, chemotaxonomic, physiological and biochemical analyses, it is evident that SYSU BS000539^T represented a novel species within the genus <i>Trujillonella</i>, for which the name <i>Trujillonella humicola</i> sp. nov<i>.</i> is proposed. The type strain of the proposed novel species is SYSU BS000539^T (= MCCC 1K09330^T = KCTC 59402^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143861366","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Gracilibacillus pellucidus sp. nov., a moderately halophilic bacterium isolated from saline soil in Xinjiang province, China","authors":"Zengqin Zhang,&nbsp;Hui Wang,&nbsp;Mengli Xia,&nbsp;Wenjing Li,&nbsp;Pan Zhang,&nbsp;Yanwei Wang,&nbsp;Linpei Liu,&nbsp;Peixin Li,&nbsp;Yong Zhuang,&nbsp;Furong Tan","doi":"10.1007/s10482-025-02084-x","DOIUrl":"10.1007/s10482-025-02084-x","url":null,"abstract":"<div><p>A motile, Gram-positive, moderately halophilic, catalase-positive and oxidase-negative, obligate aerobic, slender rod-shaped bacterium, strain S3-1-1^T was isolated from the plant rhizosphere soil in saline soil of Xinjiang Uygur Autonomous Region. Strain S3-1-1^T grew in the presence of 1<i>–</i>21% NaCl and at pH 7.0<i>–</i>9.0, with optimum growth at 3% NaCl and pH 7.5. It grew at 16<i>–</i>45 °C, with optimum growth at 40 °C.Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S3-1-1^T should be placed within the genus <i>Gracilibacillus</i> and formed a separate branch. It exhibited highest similarities to <i>Gracilibacillus ureilyticus</i> MF38^T (sequence similarity 97.7%), <i>Gracilibacillus massiliensis</i> Awa-1^T (sequence similarity 97.5%), <i>Gracilibacillus xinjiangensis</i> J2^T (sequence similarity 97.4%) and <i>Gracilibacillus salitolerans</i> SCU50^T (sequence similarity 97.4%). Genomic comparisons revealed that strain S3-1-1^T shares closest phylogenetic relationships with <i>Gracilibacillus saliphilus</i> YIM 91119^T (ANI 77.4%, AAI 78.4%), <i>Gracilibacillus thailandensis</i> TP2-8T (ANI 77.2%, AAI 78.3%), and <i>Gracilibacillus salitolerans</i> SCU50^T (ANI 77.3%, AAI 78.1%). However, the digital DNA-DNA hybridization (19.3–22.1%), average nucleotide identity (71.1–77.4%), and average amino acid identity (66.9–78.6%) values all fell below the recommended thresholds for species delineation, supporting its novel taxonomic status. The major cellular fatty acids were anteiso-C_15:0, C_16:0, iso-C_15:0, and anteiso-C_17:0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and aminophospholipids. On the basis of their phenotypic, physiological, biochemical and phylogenetic characteristics, S3-1-1^T represented a novel species of the genus <i>Gracilibacillus</i>, for which the name <i>Gracilibacillus pellucidus</i> sp. nov. is proposed, with S3-1-1^T (= JCM 36422^T = GDMCC 1.4017^T) as the type strain.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143861367","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification, growth characteristics, and genomic potential analysis of indole-3-acetic acid producing strain D1 in the rhizosphere of ancient tea forests","authors":"Liujian Ye,&nbsp;Jialin Han,&nbsp;Shengbo Wei,&nbsp;Shuang He,&nbsp;Qixia Zhu,&nbsp;Xiaohu Wang,&nbsp;Jianzong Meng,&nbsp;Liqin Zhou","doi":"10.1007/s10482-025-02083-y","DOIUrl":"10.1007/s10482-025-02083-y","url":null,"abstract":"<div><p><i>Chryseobacterium</i> is one of the important beneficial microorganisms groups for protecting plant health. It has the functions of promoting host plant growth, stress resistance, inducing systemic resistance, and resisting pathogens, playing an important role in reducing soil biological barriers, and has broad application prospects. Therefore, screening for IAA producing <i>Chryseobacterium</i> and quickly understanding its genomic potential is of great significance in agricultural production. The unique ecological environment of wild ancient tea forests nurtures rhizosphere microbial resources with unique properties. This study identified the high-yielding indole-3-acetic acid (IAA) producing strain D1 from the rhizosphere of ancient tea forests as a new species of the <i>Chryseobacterium</i> genus, which is closely related to <i>Chryseobacterium aureum</i> and is recommended to be named <i>Chryseobacterium</i> tea sp. nov. Strain D1 exhibits excellent fermentation performance in producing IAA, achieving a maximum IAA yield of 149.24 mg/L after 60 h of fermentation in tryptophan medium. The optimal growth temperature for strain D1 is 25 °C, the optimal growth pH is 6, and the tolerance concentration to sodium chloride is 30 g/L. The genome of strain D1 contains abundant genetic resources for carbohydrate active enzymes, heavy metal resistance, secondary metabolite synthesis gene clusters, and plant pathogen resistance. This study enhances our understanding of the cultivation and genomic function of <i>Chryseobacterium</i> tea sp. nov, as well as the understanding of rhizosphere microorganisms in wild ancient tea forests. It also provides a theoretical basis for the development of <i>Chryseobacterium</i> tea sp. nov as functional fertilizers for crops.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143856537","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Detection and genetic characterisation of ESBL, carbapenemase, and mcr-1 genes in Gram-negative bacterial isolates from companion animals in Batna, Algeria","authors":"Amira Bouaziz,&nbsp;Esma Bendjama,&nbsp;Widad Chelaghma,&nbsp;Nawel Zaatout,&nbsp;Kaouther Farouk,&nbsp;Fatma Zohra Beghami,&nbsp;Rahma Boukhanoufa,&nbsp;Aroua Demikha,&nbsp;Jean-Marc Rolain,&nbsp;Lotfi Loucif","doi":"10.1007/s10482-025-02088-7","DOIUrl":"10.1007/s10482-025-02088-7","url":null,"abstract":"<div><p>The escalating prevalence of drug-resistant Gram-negative bacteria represents a widespread threat to global public health. This study aimed to investigate the occurrence and genetic determinants of extended-spectrum <i>β</i>-lactamases (ESBLs), carbapenemases, and <i>mcr</i>-encoding genes in GNB isolates from companion animals in the city of Batna, Algeria. In total, 50 faecal samples were collected from various veterinary clinics and pet shops, including direct collection of faecal droppings (<i>n</i> = 22) and rectal swabs (<i>n</i> = 28). After selective isolation, Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry was used to identify representative colonies. Susceptibility testing was carried out using the disk diffusion method. ESBLs, carbapenemases, and colistin resistance determinants were searched for by real-time PCR. Thirty-seven strains were isolated and were mostly identified as <i>Escherichia coli</i> (<i>n</i> = 21). Molecular analysis revealed that 23 isolates carried only the <i>bla</i>_ESBL genes. The genes which were most detected were <i>bla</i>_CTX-M-A (<i>n</i> = 14) and <i>bla</i>_CTX-M-A associated with <i>bla</i>_TEM (<i>n</i> = 8). Two <i>Enterobacter cloacae</i> isolates were positive for the <i>bla</i>_OXA-48 gene while one of them additionally carried the <i>bla</i>_CTX-M-A gene. The <i>mcr-</i>1 gene was detected in one <i>Enterobacter kobei</i> isolate. To the best of our knowledge, this is the first report of <i>E. kobei</i> carrying the <i>mcr</i>-1 gene from rectal swabs of cats.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143850933","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genotyping and antimicrobial susceptibility of Aeromonas veronii isolated from aquatic animals in Sichuan, China","authors":"Kun Peng,&nbsp;Silu Tian,&nbsp;Longjun Deng,&nbsp;Yu Yuan,&nbsp;Zixuan Cheng,&nbsp;Tiancai Li,&nbsp;Keyu Zhou,&nbsp;Jingyi Lin,&nbsp;Yi Geng","doi":"10.1007/s10482-025-02086-9","DOIUrl":"10.1007/s10482-025-02086-9","url":null,"abstract":"<div><p>As one of the motile species of <i>Aeromonas</i>, <i>Aeromonas veronii</i> is widely distributed in aquatic ecosystems and has been determined as an important pathogen for aquatic in addition to terrestrial animals and humans. In this study, we collected 34 <i>A. veronii</i> isolates from aquatic animals in Sichuan, China. Six housekeeping genes (<i>gyrB, groL, gltA, metG, ppsA</i> and <i>recA</i>) were used for multilocus sequence typing. The results showed that the isolates had high diversity, of which 21 subtypes could be divided into two groups. The group B consisted of 15 new sequence types (ST861-875), and the group A was more closely related to strains from water. Besides, the antibiotic susceptibility of each isolate was determined using the disc diffusion method. Discs of 17 antimicrobial agents were used, including penicillin, cefaclor, cefotaxime, meropenem, amoxicillin, kanamycin, gentamycin, amikacin, neomycin, ciprofloxacin, enrofloxacin, tetracycline, doxycycline, florfenicol, cotrimoxazole, rifampicin, and azithromycin. Most isolates showed resistance to 17 antibiotics such as penicillin, enrofloxacin, and doxycycline. Moreover, high-throughput qPCR was used to detect ARGs of the isolates. A total of 62 ARGs were detected positively based on 95 ARGs detection, in which class aminoglycosides, beta-lactams, and multiple drugs were the most prevalent. Our study indicated that different genotypes showed different distribution of ARPs and ARGs. To our knowledge, this is the first report of molecular subtyping and antibiotic resistance profiles in <i>A. veronii</i> from aquatic animals in Sichuan, these data provide a valuable referee for the prevention and control of corresponding diseases.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143845716","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Azole resistance: patterns of amino acid substitutions in Candida sterol 14α-demethylase","authors":"R. Shyama Prasad Rao,&nbsp;Larina Pinto,&nbsp;Rajesh P. Shastry,&nbsp;Tikam Chand Dakal,&nbsp;Prashanth Suravajhala,&nbsp;V. K. Sashindran,&nbsp;Sudeep D. Ghate","doi":"10.1007/s10482-025-02080-1","DOIUrl":"10.1007/s10482-025-02080-1","url":null,"abstract":"<div><p>The emergence of azole-resistant <i>Candida</i> infections is a major concern. A key mechanism is the gain of resistance through amino acid substitutions in the sterol 14α-demethylase, the main target of azole drugs. While numerous resistant substitutions are known, the pattern of such substitutions remains unclear. We hypothesized that resistant substitutions occur disproportionately at azole-binding sites. We compiled 2222 instances of azole-resistant substitutions from the literature and performed extensive computational sequence analyses. Altogether, there were 169 known substitutions at 133 sites in sterol 14α-demethylases of seven <i>Candida</i> species, whereas <i>C. albicans</i> alone had 120 substitutions at 97 sites. Just 10 sites and 18 substitutions (such as Y132F/H, K143R, D116E, and G464S) accounted for 75% of the total instances. Only about 48% of the sites were present within previously recognized hotspot regions, while just 33% of the azole-interacting residues had known resistant substitutions, most of them with only a few instances. The literature data on azole-resistant substitutions in <i>Candida</i> appear to be highly biased, as a few substitutions, such as Y132F/H and K143R, were preferentially sought and reported with over 1,000 instances. Additionally, there were numerous reports of “resistant” substitutions in azole-susceptible <i>Candida</i> isolates. Our study provides new perspectives into azole resistance.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143845704","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A novel carotenoid-producing bacterium, Paenibacillus roseopurpureus sp. nov., isolated from Korean marine mud","authors":"Chi Young Hwang,&nbsp;Eui-Sang Cho,&nbsp;Young-Do Nam,&nbsp;So-Lim Park,&nbsp;Seong-Il Lim,&nbsp;Myung-Ji Seo","doi":"10.1007/s10482-025-02077-w","DOIUrl":"10.1007/s10482-025-02077-w","url":null,"abstract":"<div><p>A novel bacterial strain, designated MBLB1832^T, was isolated from marine mud in Uljin, Republic of Korea. The strain was Gram-stain-positive, endospore-forming, and exhibited rod-shaped morphology. It grew at temperatures ranging from 10 to 45 °C (optimum 30 °C), at pH 6.0–9.0 (optimum 7.0), and in the presence of 0–2% NaCl (optimum 0%). Phylogenetic analysis based on the 16S rRNA gene sequence revealed that strain MBLB1832^T is closely related to <i>Paenibacillus allorhizoplanae</i> JJ-42^T, with 98.3% similarity. The predominant fatty acids were anteiso-C_15:0 and iso-C_16:0, and menaquinone-7 was identified as major isoprenoid quinone. Strain MBLB1832^T contained <i>meso</i>-diaminopimelic acid within the cell wall peptidoglycan. Polar lipid profiling indicated the presence of diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine as the major lipids. The genome of strain MBLB1832^T is 5.8 Mb in size with a G + C content of 46.9%. Average nucleotide identity, average amino acid identity, and DNA-DNA hybridization values confirmed that this strain is distinct from previously described species. Genome analysis revealed the presence of a complete C₃₀ carotenoid biosynthetic pathway, including genes encoding farnesyl diphosphate synthase, diapophytoene synthase, several diapophytoene desaturases, and distinct carotenoid glycosyltransferases and acyltransferases. Notably, the carotenoid pigments produced by the strain imparted a pink color, consistent with the coloration of its cell pellets. Based on these polyphasic taxonomic data, strain MBLB1832^T is proposed as a novel species of the genus <i>Paenibacillus</i>, for which the name <i>Paenibacillus roseopurpureus</i> sp. nov. is suggested (type strain MBLB1832^T = KCTC 43262^T = JCM 34221^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143809097","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Rubrolithibacter danxiaensis gen. nov., sp. nov. isolated from red sandy conglomerate in the Danxia Mountain","authors":"Wen-Hui Lian,&nbsp;Huan-Huan He,&nbsp;Ying Wang,&nbsp;Zhuo-Huan Zheng,&nbsp;Fang Chen,&nbsp;Ting Zhou,&nbsp;Chao-Jian Hu,&nbsp;Jia-Rui Han,&nbsp;Lei Dong,&nbsp;Wen-Jun Li","doi":"10.1007/s10482-025-02078-9","DOIUrl":"10.1007/s10482-025-02078-9","url":null,"abstract":"<div><p>A Gram-stain-negative, rod-shaped and non-motile bacterium, designated as strain SYSU DXS3258^T, was isolated from red sandy conglomerate sample collected from the Danxia Mountain in Guangdong Province, PR China. The bacterium was found to grow optimally at 28 °C, pH 7.0, and with 0–1% (w/v) NaCl. Phylogenetic analyses based on the 16S rRNA gene sequences placed strain SYSU DXS3258^T within the family <i>Sphingobacteriaceae</i>. Strain SYSU DXS3258^T showed the highest 16S rRNA gene sequence similarity to <i>Pararcticibacter tournemirensis</i> TF5-37.2-LB10^T (95.5%), <i>Paradesertivirga mongoliensis</i> 1-32^T (95.3%) and <i>Desertivirga xinjiangensis</i> 12157^T (95.2%). Digital DNA–DNA hybridization, orthologous average nucleotide identity and average amino acid identity values between strain SYSU DXS3258^T and the closest related members within the <i>Sphingobacteriaceae</i> were ≤ 13%, 70.3% and 69.9%, respectively. The genomic DNA G + C content was 38.8%. The major fatty acid was iso-C_15:0, C_18:0 and C_15:0 2-OH. The predominant polar lipids were phosphatidylethanolamine, three glycolipids, one phospholipid and one unidentified polar lipid. The major respiratory quinone was Q-7. Based on phenotypic, phylogenetic, chemotaxonomic and genomic results, we propose that strain SYSU DXS3258^T represents a novel species of a novel genus within the family <i>Sphingobacteriaceae</i>, for which the name <i>Rubrolithibacter danxiaensis</i> gen. nov., sp. nov. was proposed. The type strain is SYSU DXS3258^T (= MCCC 1K09420^T = KCTC 102322^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 5","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-04-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143793268","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative genome analysis of 15 Streptococcus thermophilus strains isolated from Turkish traditional yogurt","authors":"Deniz Kiraz,&nbsp;Ali Özcan","doi":"10.1007/s10482-025-02070-3","DOIUrl":"10.1007/s10482-025-02070-3","url":null,"abstract":"<div><p><i>Streptococcus thermophilus</i> plays a pivotal role in yogurt fermentation, yet strains from traditional fermented products remain largely unexplored compared to their industrial counterparts. This study aimed to characterize the genomic diversity and functional potential of 15 <i>S. thermophilus</i> strains isolated from Turkish traditional yogurts, and to compare them with industrial strains. Through whole-genome sequencing and advanced bioinformatics analyses, we revealed distinct phylogenetic patterns and genetic features that differentiate these traditional strains from industrial isolates. The genomes (1.68–1.86 Mb) exhibited high genetic homogeneity (ANI &gt; 98.69%) while maintaining significant functional diversity. Pan-genome analysis identified 1160 core genes and 5694 accessory genes, highlighting substantial genomic plasticity that enables niche adaptation. Our analysis uncovered several distinctive features: (1) unique phylogenetic clustering patterns based on both housekeeping genes and whole-genome SNPs, suggesting geographical isolation effects; (2) an extensive repertoire of carbohydrate-active enzymes (CAZymes), comprising 111 Glycoside Hydrolases, 227 Glycosyl Transferases, and 44 Carbohydrate Esterases and 13 Carbohydrate-Binding Modules, demonstrating sophisticated carbohydrate metabolism adaptation significantly enriched compared to industrial strains; (3) widespread GABA biosynthesis pathways in 8 strains, including complete gadB gene, indicating potential health-promoting properties; (4) multiple genomic islands containing genes for galactose utilization and stress response, suggesting specific adaptation to traditional fermentation environments; (5) diverse exopolysaccharide biosynthesis and bacteriocin gene clusters; and (6) widespread CRISPR-Cas systems with variable spacer content. Notably, we identified vanY glycopeptide resistance genes across all strains, with two strains additionally harboring vanT. These results reveal the genetic mechanisms behind <i>S. thermophilus</i> adaptation to traditional yogurt environments, offering valuable insights for developing starter cultures and preserving the unique qualities and potential health benefits of traditional dairy products.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 4","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143716888","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Characterization of Lactiplantibacillus plantarum strains isolated from Algerian fruits for probiotic and biotechnological applications","authors":"Lylia Ouarabi,&nbsp;Samia Hamma-Faradji,&nbsp;Nacim Barache,&nbsp;Ghania Zidi,&nbsp;Yanath Belguesmia,&nbsp;Djamel Drider","doi":"10.1007/s10482-025-02074-z","DOIUrl":"10.1007/s10482-025-02074-z","url":null,"abstract":"<div><p>Twenty-one lactic acid bacteria (LAB) strains were isolated from Algerian fruits such as white mulberry (<i>Morus alba</i> L.), prickly pear (<i>Opuntia ficus-indica</i>), date (<i>Phoenix dactylifera</i> L.), grape (<i>Vitis vinifera</i>) and fig (<i>Ficus carica</i>). The initial screening showed that ten out of twenty-one strains were tolerant to acid pH and bile salts and were further identified as <i>Lactiplantibacillus (L.) plantarum</i> strains by MALDI-TOF mass spectrometry and 16S rDNA sequencing. The identified strains were then characterized for their surface properties such as self-aggregation, hydrophobicity and biofilm formation. The resulting data were then statistically processed using Principal Component Analysis (PCA), after which only 5 strains were selected for further analysis. These five strains, designated <i>L. plantarum</i> F8, F13, FB23, D21 and M1, were found to be safe and able to adhere to human epithelial colorectal adenocarcinoma Caco-2 cells. In particular, all these strains were active against <i>Escherichia coli</i> ATCC 8739 and <i>Staphylococcus aureus</i> ATCC 6538 through the production of lactic acid (up to 12 g.l⁻¹) or bacteriocins, namely plantaricins, or their combination. In addition, these strains showed high antioxidant activity against the synthetic free radicals 2,2-diphenyl-2-picrylhydrazyl (DPPH) and 2,2-azino-bis: 3-ethyl-benzothiazoline-6-sulphonic acid (ABTS +) radical. These results demonstrate the importance of these <i>L. plantarum</i> strains for the development of new functional foods and probiotics and as biopreservatives. This study deepens and enriches the knowledge of <i>lactobacilli</i> from plant raw materials by focusing on the functional properties of new strains of <i>L. plantarum</i> isolated from Algerian fruits. In fact, with the growing interest in natural preservatives and probiotics, the results of this study could contribute to the development of new biotechnological products aimed at improving gut health, reducing food-borne illnesses and extending the shelf life of food by preventing spoilage.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"118 4","pages":""},"PeriodicalIF":1.8,"publicationDate":"2025-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143726609","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}