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

{"title":"Oerskovia flava sp. nov., a deoxynivalenol (DON)-degrading actinomycete isolated from the rhizosphere soil of long-term continuous cropping cucumber","authors":"Wei Wei,&nbsp;Wenjun Guo,&nbsp;Biyue Yang,&nbsp;Kaili Wang,&nbsp;Xinyu Hu,&nbsp;Guanya Ji,&nbsp;Xiangru Xu,&nbsp;Shenkui Liu,&nbsp;Lin Zhu","doi":"10.1007/s10482-024-01972-y","DOIUrl":"10.1007/s10482-024-01972-y","url":null,"abstract":"<div><p>The deoxynivalenol (DON)-degrading bacterium JB1-3-2^T was isolated from a rhizosphere soil sample of cucumber collected from a greenhouse located in Zhenjiang, Eastern China. The JB1-3-2^T strain is a Gram-stain-positive, nonmotile and round actinomycete. Growth was observed at temperatures between 15 and 40 ℃ (optimum, 35 ℃), in the presence of 15% (w/v) NaCl (optimum, 3%), and at pH 3 and 11 (optimum, 7). The major cellular fatty acids identified were anteiso-C_15:0, iso-C_16:0 and anteiso-C_17:0. Genome sequencing revealed a genome size of 4.11 Mb and a DNA G + C content of 72.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the JB1-3-2^T strain was most closely related to type strains of the <i>Oerskovia</i> species, with the highest sequence similarity to <i>Oerskovia turbata</i> NRRL B-8019^T (98.2%), and shared 98.1% sequence identity with other valid type strains of this genus. Digital DNA‒DNA hybridization (dDDH) and average nucleotide identity (ANI) showed 21.8–22.2% and 77.2–77.3% relatedness, respectively, between JB1-3-2^T and type strains of the genus <i>Oerskovia</i>. Based on genotypic, phylogenetic, chemotaxonomic, physiological and biochemical characterization, <i>Oerskovia flava</i>, a novel species in the genus <i>Oerskovia,</i> was proposed, and the type strain was JB1-3-2^T (= CGMCC 1.18555^T = JCM 35248^T). Additionally, this novel strain has a DON degradation ability that other species in the genus <i>Oerskovia</i> do not possess, and glutathione-S-transferase was speculated to be the key enzyme for strain JB1-3-2^T to degrade DON.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140652168","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":"The role of insect gut microbiota in host fitness, detoxification and nutrient supplementation","authors":"U. Shamjana,&nbsp;Deepa Azhchath Vasu,&nbsp;Preety Sweta Hembrom,&nbsp;Karunakar Nayak,&nbsp;Tony Grace","doi":"10.1007/s10482-024-01970-0","DOIUrl":"10.1007/s10482-024-01970-0","url":null,"abstract":"<div><p>Insects are incredibly diverse, ubiquitous and have successfully flourished out of the dynamic and often unpredictable nature of evolutionary processes. The resident microbiome has accompanied the physical and biological adaptations that enable their continued survival and proliferation in a wide array of environments. The host insect and microbiome’s bidirectional relationship exhibits their capability to influence each other’s physiology, behavior and characteristics. Insects are reported to rely directly on the microbial community to break down complex food, adapt to nutrient-deficit environments, protect themselves from natural adversaries and control the expression of social behavior. High-throughput metagenomic approaches have enhanced the potential for determining the abundance, composition, diversity and functional activities of microbial fauna associated with insect hosts, enabling in-depth investigation into insect-microbe interactions. We undertook a review of some of the major advances in the field of metagenomics, focusing on insect-microbe interaction, diversity and composition of resident microbiota, the functional capability of endosymbionts and discussions on different symbiotic relationships. The review aims to be a valuable resource on insect gut symbiotic microbiota by providing a comprehensive understanding of how insect gut symbionts systematically perform a range of functions, viz., insecticide degradation, nutritional support and immune fitness. A thorough understanding of manipulating specific gut symbionts may aid in developing advanced insect-associated research to attain health and design strategies for pest management.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140652081","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":"Pedobacter rhodius sp. nov. and Pedobacter punctiformis sp. nov., isolated from soil","authors":"Haejin Woo,&nbsp;Geeta Chhetri,&nbsp;Inhyup Kim,&nbsp;Yoonseop So,&nbsp;Sunho Park,&nbsp;Yonghee Jung,&nbsp;Taegun Seo","doi":"10.1007/s10482-024-01963-z","DOIUrl":"10.1007/s10482-024-01963-z","url":null,"abstract":"<div><p>Two Gram-staining negative, catalase- and oxidase-positive, pinkish-colored and rod-shaped strains, designated SJ11^T and HCMS5-2^T, were isolated from soil in South Korea. The growth of strain SJ11^T was observed from 15℃ to 35℃ (optimum, 30℃), from pH 6.0 to 11.0 (optimum, pH 6.0–7.0) and with NaCl 0–1% (w/v) (optimum, 0%) and that of strain HCMS5-2^T was observed from 4℃ to 40℃ (optimum, 25℃), from pH 6.0 to pH 8.0 (optimum, pH 7.0) and with NaCl 0–5% (w/v) (optimum, 0–1%). Phylogenetic analysis based on 16S rRNA gene sequences showed that both strains belonged to the genus <i>Pedobacter</i>. Strain SJ11^T had the highest 16S rRNA similarities with <i>Pedobacter jejuensis</i> THG-DR3^T (98.5%) and strain HCMS5-2^T had the highest similarities with <i>Pedobacter nototheniae</i> 36B243^T (98.7%). The digital DNA-DNA hybridization value of strain SJ11^T with <i>Pedobacter jejuensis</i> THG-DR3^T was 23.6%, with an average nucleotide identity value of 79.6%, and that of strain HCMS5-2^T with <i>Pedobacter nototheniae</i> 36B243^T was 26.4%, with an average nucleotide identity value of 83.1%. The predominant cellular fatty acids (&gt; 10%) of SJ11^T and HCMS5-2^T were iso-C_15:0, summed feature 3 (comprising C_16:1<i>ω</i>7<i>c</i> and/or C_16:1<i>ω</i>6<i>c</i>) and iso-C_17:0 3-OH. The genome size of strain SJ11^T was approximately 4.7 Mb with a G + C content of 37.7% and that of strain HCMS5-2^T was approximately 4.1 Mb with a G + C content of 36.4%. The major polar lipid and respiratory quinone of SJ11^T and HCMS5-2^T were phosphatidylethanolamine and menaquinone NK-7, respectively. Results of this study showed that strains SJ11^T and HCMS5-2^T belonged to the genus <i>Pedobacter</i> as novel species, of which the name <i>Pedobacter rhodius</i> sp. nov., with the type strain SJ11^T (= KACC 22884^T = TBRC 16597^T) and <i>Pedobacter punctiformis</i> sp. nov., with the type strain HCMS5-2^T (= KACC 22863^T = TBRC 16598^T) were respectively proposed.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140652875","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":"Novel aerobic anoxygenic phototrophic bacterium Jannaschia pagri sp. nov., isolated from seawater around a fish farm","authors":"Koyo Kuwata,&nbsp;Yuki Sato-Takabe,&nbsp;Ryosuke Nakai,&nbsp;Yuya Sugimura,&nbsp;Nozomi Tazato,&nbsp;Tadao Kunihiro,&nbsp;Sho Morohoshi,&nbsp;Mitsunori Iwataki,&nbsp;Koji Hamasaki,&nbsp;Takuhei Shiozaki","doi":"10.1007/s10482-024-01971-z","DOIUrl":"10.1007/s10482-024-01971-z","url":null,"abstract":"<div><p>The genus <i>Jannaschia</i> is one of the representatives of aerobic anoxygenic phototrophic (AAP) bacteria, which is a strictly aerobic bacterium, producing a photosynthetic pigment bacteriochlorophyll (BChl) <i>a</i>. However, a part of the genus <i>Jannaschia</i> members have not been confirmed the photosynthetic ability. The partly presence of the ability in the genus <i>Jannaschia</i> could suggest the complexity of evolutionary history for anoxygenic photosynthesis in the genus, which is expected as gene loss and/or horizontal gene transfer. Here a novel AAP bacterium designated as strain AI_62^T (= DSM 115720^T = NBRC 115938^T), was isolated from coastal seawater around a fish farm in the Uwa Sea, Japan. Its closest relatives were identified as <i>Jannaschia seohaensis</i> SMK-146^T (95.6% identity) and <i>J. formosa</i> 12N15^T (94.6% identity), which have been reported to produce BChl <i>a</i>. The genomic characteristic of strain AI_62^T clearly showed the possession of the anoxygenic photosynthesis related gene sets. This could be a useful model organism to approach the evolutionary mystery of anoxygenic photosynthesis in the genus <i>Jannaschia</i>. Based on a comprehensive consideration of both phylogenetic and phenotypic characteristics, we propose the classification of a novel species within the genus <i>Jannaschia</i>, designated as <i>Jannaschia pagri</i> sp. nov. The type strain for this newly proposed species is AI_62^T (= DSM 115720^T = NBRC 115938^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140665624","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":"Bradyrhizobium ontarionense sp. nov., a novel bacterial symbiont isolated from Aeschynomene indica (Indian jointvetch), harbours photosynthesis, nitrogen fixation and nitrous oxide (N2O) reductase genes","authors":"Eden S. P. Bromfield,&nbsp;Sylvie Cloutier","doi":"10.1007/s10482-024-01940-6","DOIUrl":"10.1007/s10482-024-01940-6","url":null,"abstract":"<div><p>A novel bacterial symbiont, strain A19^T, was previously isolated from a root-nodule of <i>Aeschynomene indica</i> and assigned to a new lineage in the photosynthetic clade of the genus <i>Bradyrhizobium.</i> Here data are presented for the detailed genomic and taxonomic analyses of novel strain A19^T. Emphasis is placed on the analysis of genes of practical or ecological significance (photosynthesis, nitrous oxide reductase and nitrogen fixation genes). Phylogenomic analysis of whole genome sequences as well as 50 single-copy core gene sequences placed A19^T in a highly supported lineage distinct from described <i>Bradyrhizobium</i> species with <i>B. oligotrophicum</i> as the closest relative. The digital DNA-DNA hybridization and average nucleotide identity values for A19^T in pair-wise comparisons with close relatives were far lower than the respective threshold values of 70% and ~ 96% for definition of species boundaries. The complete genome of A19^T consists of a single 8.44 Mbp chromosome and contains a photosynthesis gene cluster, nitrogen-fixation genes and genes encoding a complete denitrifying enzyme system including nitrous oxide reductase implicated in the reduction of N₂O, a potent greenhouse gas, to inert dinitrogen. Nodulation and type III secretion system genes, needed for nodulation by most rhizobia, were not detected. Data for multiple phenotypic tests complemented the sequence-based analyses. Strain A19^T elicits nitrogen-fixing nodules on stems and roots of <i>A. indica</i> plants but not on soybeans or <i>Macroptilium atropurpureum</i>. Based on the data presented, a new species named <i>Bradyrhizobium ontarionense</i> sp. nov. is proposed with strain A19^T (= LMG 32638^T = HAMBI 3761^T) as the type strain.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10482-024-01940-6.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140799763","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Two novel Fe(III)-reducing bacteria, Geothrix campi sp. nov. and Geothrix mesophila sp. nov., isolated from paddy soils","authors":"Shuang Han,&nbsp;Shang Yang,&nbsp;Rong Tang,&nbsp;Cheng-Jie Xie,&nbsp;Xing Liu,&nbsp;Guo-Hong Liu,&nbsp;Shun-Gui Zhou","doi":"10.1007/s10482-024-01967-9","DOIUrl":"10.1007/s10482-024-01967-9","url":null,"abstract":"<div><p>In this research, two novel Fe(III)-reducing bacteria, SG10^T and SG198^T of genus <i>Geothrix</i>, were isolated from the rice field of Fujian Agriculture and Forestry University in Fuzhou, Fujian Province, China. Strains SG10^T and SG198^T were strictly anaerobic, rod-shaped and Gram-stain-negative. The two novel strains exhibited iron reduction ability, utilizing various single organic acid as the elector donor and Fe(III) as a terminal electron acceptor. Strains SG10^T and SG198^T showed the highest 16S rRNA sequences similarities to the type strains of <i>Geothrix oryzisoli</i> SG189^T (99.0–99.5%) and <i>Geothrix paludis</i> SG195^T (99.0–99.7%), respectively. The phylogenetic trees based on the 16S rRNA gene and genome 120 conserved core genes showed that strains SG10^T and SG198^T belong to the genus <i>Geothrix.</i> Average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between the phylogenetic neighbors and the two isolated strains were 86.1–94.3% and 30.7–59.5%, respectively. The major fatty acids were iso-C_15:0, anteiso-C_15:0, C_16:0 and iso-C_13:0 3OH, and MK-8 was the main respiratory quinone. According to above results, the two strains were assigned to the genus <i>Geothrix</i> with the names <i>Geothrix campi</i> sp. nov. and <i>Geothrix mesophila</i> sp. nov. Type strains are SG10^T (= GDMCC 1.3406^T = JCM 39331^T) and SG198^T (= GDMCC 62910^T = KCTC 25635^T), respectively.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140612925","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":"Roseihalotalea indica gen. nov., sp. nov., a halophilic Bacteroidetes from mesopelagic Southwest Indian Ocean with higher carbohydrate metabolic potential","authors":"Beihan Chen,&nbsp;Mingzhe Zhang,&nbsp;Dan Lin,&nbsp;Jianing Ye,&nbsp;Kai Tang","doi":"10.1007/s10482-024-01965-x","DOIUrl":"10.1007/s10482-024-01965-x","url":null,"abstract":"<div><p>The pink-colored and strictly aerobic bacterium strain, designated as TK19036^T, was isolated from mesopelagic layer of the Southwest Indian Ocean. This novel isolate can grow at 10–45 °C (optimum, 30 °C), pH 6.0–8.0 (optimum, pH 7.0), and 2–14% NaCl concentrations (w/v) (optimum, 6%). The predominant respiratory quinone was Menaquinone-7. Major polar lipid profiles contained two aminolipids, aminophospholipid, two glycolipids, phosphatidylethanolamine, and three unknown polar lipids. The preponderant cellular fatty acids were iso-C_15:0, C_16:1 <i>ω</i>5<i>c</i> and iso-C_17:0 3-OH. Phylogenetic analyses based on 16S rRNA gene sequence uncovered that the strain TK19036^T pertained to the family <i>Catalinimonadaceae</i> under phylum <i>Bacteroidota</i>, and formed a distinct lineage with the closed species <i>Tunicatimonas pelagia</i> NBRC 107804^T. The up-to-bacteria-core gene phylogenetic trees also demonstrated a deep and novel branch formed by the strain TK19036^T within the family <i>Catalinimonadaceae</i>. Based on chemotaxonomic, phylogenetic and genomic features presented above, strain TK19036^T represents a novel species from a novel genus of the family <i>Catalinimonadaceae</i>, for which the name <i>Roseihalotalea indica</i> gen. nov. sp. nov. is proposed. The type strain is TK19036^T (= CGMCC 1.18940^T = NBRC 116371^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580645","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":"Terrihabitans rhizophilus sp. nov., isolated from the rhizosphere soil of plant in temperate semi-arid steppe","authors":"Runze Bao,&nbsp;Huiling Guo,&nbsp;Yungang Liang,&nbsp;Kai Tang,&nbsp;Fuying Feng,&nbsp;Jianyu Meng","doi":"10.1007/s10482-024-01966-w","DOIUrl":"10.1007/s10482-024-01966-w","url":null,"abstract":"<div><p>A bacterial strain PJ23^T was isolated from the rhizosphere soil of <i>Elymus dahuricus</i> Turcz. sampled from a temperate semi-arid steppe in the northern of Inner Mongolia Autonomous Region, China. The strain is Gram-stain-negative, aerobic, light-pink, short rod-shaped, and non-spore-forming. Cell growth could be observed at 4–29℃ (optimal at 24℃), pH 6.0–8.6 (optimal at 8.0) and in the presence of 0–5.0% (w/v) NaCl (optimal at 2.5%). The major cellular fatty acids of strain PJ23^T were Summed feature 8 (C_{18:1 <i>ω</i>6c} and/or C_{18:1 <i>ω</i>7c}) (39.42%) and C_16:0 (9.60%). The polar lipids were phosphatidylcholine, two unidentified glycolipids, one unidentified aminophospholipid, and two other unidentified polar lipids. The major respiratory quinone was ubiquinone-10. Phylogeny analysis based on 16S rRNA gene sequences retrieved from the genomes showed that, the strain was closely related to the species <i>Terrihabitans soli</i> IZ6^T and <i>Flaviflagellibacter deserti</i> SYSU D60017^T, with the sequence similarities of 96.79% and 96.15%, respectively. The G + C content was 65.23 mol% calculated on draft genome sequencing. Between the strains PJ23^T and <i>Terrihabitans soli</i> IZ6^T, the average nucleotide identity (ANI), amino acid identity (AAI) and digital DNA-DNA hybridization (dDDH) was 73.39%,71.12% and 15.7%, these values were lower than the proposed and generally accepted species boundaries of ANI, AAI and dDDH, respectively. Based on phenotypic, chemotaxonomic, and phylogenetic characteristics, strain PJ23^T represents a novel species of <i>Terrihabitans</i>, for which the name <i>Terrihabitans rhizophilus</i> sp. nov. is proposed. The type strain is PJ23^T (= KCTC 92977^T = CGMCC 1.61577^T).</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580866","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":"Prokaryotic communities of the French Polynesian sponge Dactylospongia metachromia display a site-specific and stable diversity during an aquaculture trial","authors":"Mathilde Maslin,&nbsp;Benoît Paix,&nbsp;Niels van der Windt,&nbsp;Rohani Ambo-Rappe,&nbsp;Cécile Debitus,&nbsp;Nabila Gaertner-Mazouni,&nbsp;Raimana Ho,&nbsp;Nicole J. de Voogd","doi":"10.1007/s10482-024-01962-0","DOIUrl":"10.1007/s10482-024-01962-0","url":null,"abstract":"<div><p>Dynamics of microbiomes through time are fundamental regarding survival and resilience of their hosts when facing environmental alterations. As for marine species with commercial applications, such as marine sponges, assessing the temporal change of prokaryotic communities allows us to better consider the adaptation of sponges to aquaculture designs. The present study aims to investigate the factors shaping the microbiome of the sponge <i>Dactylospongia metachromia</i>, in a context of aquaculture development in French Polynesia, Rangiroa, Tuamotu archipelago. A temporal approach targeting explants collected during farming trials revealed a relative high stability of the prokaryotic diversity, meanwhile a complementary biogeographical study confirmed a spatial specificity amongst samples at different longitudinal scales. Results from this additional spatial analysis confirmed that differences in prokaryotic communities might first be explained by environmental changes (mainly temperature and salinity), while no significant effect of the host phylogeny was observed. The core community of <i>D. metachromia</i> is thus characterized by a high spatiotemporal constancy, which is a good prospect for the sustainable exploitation of this species towards drug development. Indeed, a microbiome stability across locations and throughout the farming process, as evidenced by our results, should go against a negative influence of sponge translocation during in situ aquaculture.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s10482-024-01962-0.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140580635","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comprehensive analysis of the CRISPR-Cas systems in Streptococcus thermophilus strains isolated from traditional yogurts.","authors":"Ali Özcan, Artun Yıbar, Deniz Kiraz, Özge Kahraman Ilıkkan","doi":"10.1007/s10482-024-01960-2","DOIUrl":"10.1007/s10482-024-01960-2","url":null,"abstract":"<p><p>Phage resistance is crucial for lactic acid bacteria in the dairy industry. However, identifying all phages affecting these bacteria is challenging. CRISPR-Cas systems offer a resistance mechanism developed by bacteria and archaea against phages and plasmids. In this study, 11 S. thermophilus strains from traditional yogurts underwent analysis using next-generation sequencing (NGS) and bioinformatics tools. Initial characterization involved molecular ribotyping. Bioinformatics analysis of the NGS raw data revealed that all 11 strains possessed at least one CRISPR type. A total of 21 CRISPR loci were identified, belonging to CRISPR types II-A, II-C, and III-A, including 13 Type II-A, 1 Type III-C, and 7 Type III-A CRISPR types. By analyzing spacer sequences in S. thermophilus bacterial genomes and matching them with phage/plasmid genomes, notable strains emerged. SY9 showed prominence with 132 phage matches and 30 plasmid matches, followed by SY12 with 35 phage matches and 25 plasmid matches, and SY18 with 49 phage matches and 13 plasmid matches. These findings indicate the potential of S. thermophilus strains in phage/plasmid resistance for selecting starter cultures, ultimately improving the quality and quantity of dairy products. Nevertheless, further research is required to validate these results and explore the practical applications of this approach.</p>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":"63"},"PeriodicalIF":1.8,"publicationDate":"2024-04-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140337554","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}