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

{"title":"Isoptericola haloaureus sp. nov., a dimorphic actinobacterium isolated from mangrove sediments of southeast India, implicating biosaline agricultural significance through nitrogen fixation and salt tolerance genes","authors":"Munisamy Prathaban,&nbsp;Ragothaman Prathiviraj,&nbsp;Mythili Ravichandran,&nbsp;Sharmila Devi Natarajan,&nbsp;Murugesan Sobanaa,&nbsp;S. Hari Krishna Kumar,&nbsp;Varadharaju Chandrasekar,&nbsp;Joseph Selvin","doi":"10.1007/s10482-024-01985-7","DOIUrl":"10.1007/s10482-024-01985-7","url":null,"abstract":"<div><p>Strain MP-1014^T, an obligate halophilic actinobacterium, was isolated from the mangrove soil of Thandavarayancholanganpettai, Tamil Nadu, India. A polyphasic approach was utilized to explore its phylogenetic position completely. The isolate was Gram-positive, filamentous, non-motile, and coccoid in older cultures. Ideal growth conditions were seen at 30 °C and pH 7.0, with 5% NaCl (W/V), and the DNA G + C content was 73.3%. The phylogenic analysis of this strain based upon 16S rRNA gene sequence revealed 97–99.8% similarity to the recognized species of the genus <i>Isoptericola.</i> Strain MP-1014^T exhibits the highest similarity to <i>I. sediminis</i> JC619^T (99.7%), <i>I. chiayiensis</i> KCTC19740^T (98.9%), and subsequently to <i>I. halotolerans</i> KCTC19646^T (98.6%), when compared with other members within the <i>Isoptericola</i> genus (&lt; 98%). ANI scores of strain MP-1014^T are 86.4%, 84.2%, and 81.5% and dDDH values are 59.7%, 53.6%, and 34.8% with <i>I. sediminis</i> JC619^T, <i>I. chiayiensis</i> KCTC19740^T and <i>I. halotolerans</i> KCTC19646^T respectively. The major polar lipids of the strain MP-1014^T were phosphatidylinositol, phosphatidylglycerol, diphosphotidylglycerol, two unknown phospholipids, and glycolipids. The predominant respiratory menaquinones were MK₉ (H₄) and MK₉ (H₂). The major fatty acids were anteiso-C_15:0, anteiso-C_17:0, iso-C_14:0, C_15:0, and C_16:0. Also, initial genome analysis of the organism suggests it as a biostimulant for enhancing agriculture in saline environments. Based on phenotypic and genetic distinctiveness, the strain MP-1014 ^T represents the novel species of the genus <i>Isoptericola</i> assigned <i>Isoptericola haloaureus</i> sp. nov., is addressed by the strain MP-1014 ^T, given its phenotypic, phylogenetic, and hereditary uniqueness. The type strain is MP-1014^T [(NCBI = OP672482.1 = GCA_036689775.1) ATCC = BAA 2646^T; DSMZ = 29325^T; MTCC = 13246^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":"2024-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141301989","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":"Alkalimonas mucilaginosa sp. nov. and Alkalimonas cellulosilytica sp. nov. isolated from alkaline Lonar lake, India","authors":"Sonia Thite,&nbsp;Devika Godbole,&nbsp;Mahima Debnath,&nbsp;Agrima Bhatt,&nbsp;Amit Yadav,&nbsp;Tushar Lodha,&nbsp;Neetha Joseph,&nbsp;Kiran Kirdat,&nbsp;Dibyajyoti Boruah,&nbsp;Roohani Sharma,&nbsp;Amaraja Joshi","doi":"10.1007/s10482-024-01986-6","DOIUrl":"10.1007/s10482-024-01986-6","url":null,"abstract":"<div><p>Two alkaliphilic, Gram‐stain-negative bacterial strains (MEB004^T and MEB108^T) were isolated from water samples collected from Lonar lake, India. The phylogenetic analysis of their 16S rRNA gene sequences showed the highest similarity to <i>A. delamerensis</i> DSM 18314^T (98.4%), followed by <i>A. amylolytica</i> DSM 18337^T and <i>A. collagenimarina</i> JCM 14267^T (97.9%). The genome sizes of strains MEB004^T and MEB108^T were determined to be 3,858,702 and 4,029,814 bp, respectively, with genomic DNA G + C contents of 51.4 and 51.9%. Average Nucleotide Identity, DNA–DNA Hybridization and Amino Acid Identity values between strains (MEB004^T and MEB108^T) and <i>A. amylolytica</i> DSM 18337^T were (82.3 and 85.5), (25.0 and 29.2) and (86.7 and 90.2%). Both novel strains produced industrially important enzymes, such as amylase, lipase, cellulase, caseinase, and chitinase at pH 10 evidenced by the genomic presence of carbohydrate-active enzymes encoding genes. Genomic analyses further identified pH tolerance genes, affirming their adaptation to alkaline Lonar Lake. Dominant fatty acids were Summed feature 8 (C_18:1 <i>ω</i>7<i>c</i> and/or C_18:1 <i>ω</i>6<i>c</i>), C_16:0, Summed feature 3, Sum In Feature 2 and C_12:0 3OH. The prevalent polar lipids included phosphatidyl ethanolamine, phosphatidyl glycerol, and diphosphatidyl glycerol. The major respiratory quinone was ubiquinone-8. Based on the polyphasic data, we propose the classification of strains MEB004^T and MEB108^T as novel species within the genus <i>Alkalimonas</i> assigning the names <i>Alkalimonas mucilaginosa</i> sp. nov. and <i>Alkalimonas cellulosilytica</i> sp. nov., respectively. The type strains are MEB004^T (= MCC 5208^T = JCM 35954^T = NCIMB 15460^T) and MEB108^T (= MCC 5330^T = JCM 35955^T = NCIMB 15461^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":"2024-06-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141293894","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":"Roseateles caseinilyticus sp. nov. and Roseateles cellulosilyticus sp. nov., isolated from rice paddy field soil","authors":"Yoonseop So,&nbsp;Geeta Chhetri,&nbsp;Inhyup Kim,&nbsp;Sunho Park,&nbsp;Yonghee Jung,&nbsp;Taegun Seo","doi":"10.1007/s10482-024-01988-4","DOIUrl":"10.1007/s10482-024-01988-4","url":null,"abstract":"<div><p>Two novel Gram-stain-negative strains designated P7^T and P8^T, were isolated from the soil of a paddy field in Goyang, Republic of Korea, and identified as new species within the genus <i>Roseateles</i> through a polyphasic taxonomic approach. These aerobic, rod-shaped, non-sporulating strains demonstrated optimal growth at 30 °C, pH 7, and in the absence of NaCl (0% w/v). Phylogenetic analysis based on 16S rRNA gene sequences indicated close relationships with <i>Roseateles saccharophilus</i> DSM654^T (98.7%) and <i>Roseateles puraquae</i> CCUG 52769^T (98.96%), respectively. The average nucleotide identity (ANI) and digital DNA–DNA hybridization (dDDH) values between the isolates with the most closely related strains with publicly available whole genomes were 82.0–85.5% and 25.0–30.2%, respectively. The predominant fatty acids identified were C_16:0 and summed feature 3 (composed of C_16:1 ω6c and/or C_16:1 <i>ω</i>7c), with minor amounts of C_12:0, C_10:0 3–OH and summed feature 8 (composed of C_18:1 <i>ω</i>7c and/or C_18:1 <i>ω</i>6c; 26.4%). Ubiquinone 8 was the main quinone, and the polar lipid profile included phosphatidylethanolamine, phosphatidylglycerol, two unidentified phosphoaminolipids, one unidentified phosphoglycolipid, three unidentified phospholipids, and one unidentified aminolipid. The draft genome sequences revealed genomic DNA G + C contents of 70.1% for P7^T and 68.2% for P8^T. Comprehensive physiological, biochemical, and 16S rRNA sequence analyses confirm these isolates as novel species of the genus <i>Roseateles</i>, proposed to be named <i>Roseateles caseinilyticus</i> sp. nov for strain P7^T (= KACC 22504^T = TBRC 15694^T) and <i>Roseateles cellulosilyticus</i> sp. nov. for strain P8^T (= KACC 22505^T = TBRC 15695^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":"2024-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141238780","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":"Insights into the genomic traits of Yersinia frederiksenii, Yersinia intermedia and Yersinia kristensenii isolated from diverse sources in Brazil","authors":"Felipe Pinheiro Vilela,&nbsp;Priscilla Fernanda Martins Imori,&nbsp;Marc William Allard,&nbsp;Juliana Pfrimer Falcão","doi":"10.1007/s10482-024-01984-8","DOIUrl":"10.1007/s10482-024-01984-8","url":null,"abstract":"<div><p><i>Yersinia</i> is an important genus comprising foodborne, zoonotic and pathogenic bacteria. On the other hand, species of the so-called group <i>Yersinia enterocolitica</i>-like are understudied and mostly characterized as non-pathogenic, despite of some reports of human infections. The present study aimed to provide genomic insights of <i>Yersinia frederiksenii</i> (YF), <i>Yersinia intermedia</i> (YI) and <i>Yersinia kristensenii</i> (YK) isolated worldwide. A total of 22 YF, 20 YI and 14 YK genomes were searched for antimicrobial resistance genes, plasmids, prophages, and virulence factors. Their phylogenomic relatedness was analyzed by Gegenees and core-genome multi-locus sequence typing. Beta-lactam resistance gene <i>bla</i>_TEM-116 and five plasmids replicons (pYE854, ColRNAI, ColE10, Col(pHAD28) and IncN3) were detected in less than five genomes. A total of 59 prophages, 106 virulence markers of the <i>Yersinia</i> genus, associated to adherence, antiphagocytosis, exoenzymes, invasion, iron uptake, proteases, secretion systems and the O-antigen, and virulence factors associated to other 20 bacterial genera were detected. Phylogenomic analysis revealed high inter-species distinction and four highly diverse YF clusters. In conclusion, the results obtained through the analyses of YF, YI and YK genomes suggest the virulence potential of these strains due to the broad diversity and high frequency of prophages and virulence factors found. Phylogenetic analyses were able to correctly distinguish these closely related species and show the presence of different genetic subgroups. These data contributed for a better understanding of YF, YI and YK virulence-associated features and global genetic diversity, and reinforced the need for better characterization of these <i>Y. enterocolitica</i>-like species considered non-pathogenic.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141201160","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":"Isolation, identification, and characterization of thermophilic lactic acid bacteria isolated from whey of Kars Kashar cheeses","authors":"Şehriban Oğuz,&nbsp;Seval Andiç","doi":"10.1007/s10482-024-01982-w","DOIUrl":"10.1007/s10482-024-01982-w","url":null,"abstract":"<div><p>Kars Kashar cheese is an artisanal pasta-filata type cheese and geographically marked in Eastern Anatolia of Turkey. The aims of this research were to determine for the first time thermophilic lactic acid bacteria (LAB) of Kars Kashar cheese and characterize the technological properties of obtained isolates. In our research, a number of 15 samples of whey were collected from the different villages in Kars. These samples were incubated at 45 °C and used as the source material for isolating thermophilic LAB. A total of 250 colonies were isolated from thermophilic whey, and 217 of them were determined to be presumptive LAB based on their Gram staining and catalase test. A total of 170 isolates were characterized by their phenotypic properties and identified using the MALDI-TOF mass spectrometry method. Phenotypic identification of isolates displayed that <i>Enterococcus</i> and <i>Lactobacillus</i> were the predominant microbiota. According to MALDI-TOF MS identification, 89 isolates were identified as <i>Enterococcus</i> (52.35%), 57 isolates as <i>Lactobacillus</i> (33.53%), 23 isolates as <i>Streptococcus</i> (13.53%), and one isolate as <i>Lactococcus</i> (0.59%). All thermophilic LAB isolates were successfully identified to the species level and it has been observed that MALDI-TOF MS can be successfully used for the identification of selected LAB. The acidification and proteolytic activities of the isolated thermophilic LAB were examined, and the isolates designated for use as starter cultures were also genotypically defined.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141176854","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":"Whole-genome sequencing of Pseudoalteromonas piscicida 2515 revealed its antibacterial potency against Vibrio anguillarum: a preliminary invitro study","authors":"Fenglin Wang,&nbsp;Abdallah Ghonimy,&nbsp;Xiuhua Wang","doi":"10.1007/s10482-024-01974-w","DOIUrl":"10.1007/s10482-024-01974-w","url":null,"abstract":"<div><p><i>Pseudoalteromonas piscicida</i> 2515, isolated from <i>Litopenaeus vannamei</i> culture water, is a potential marine probiotic with broad anti-Vibrio properties. However, genomic information on <i>P. piscicida</i> 2515 is scarce. In this study, the general genomic characteristics and probiotic properties of the <i>P. piscicida</i> 2515 strain were analysed. In addition, we determined the antibacterial mechanism of this bacterial strain by scanning electron microscopy (SEM). The results indicated that the whole-genome sequence of <i>P. piscicida</i> 2515 contained one chromosome and one plasmid, including a total length of 5,541,406 bp with a G + C content of 43.24%, and 4679 protein-coding genes were predicted. Various adhesion-related genes, amino acid and vitamin metabolism and biosynthesis genes, and stress-responsive genes were found with genome mining tools. The presence of genes encoding chitin, bromocyclic peptides, lantibiotics, and sactipeptides showed the strong antibacterial activity of the <i>P. piscicida</i> 2515 strain. Moreover, in coculture with <i>Vibrio anguillarum</i>, <i>P. piscicida</i> 2515 displayed vesicle/pilus-like structures located on its surface that possibly participated in its bactericidal activity, representing an antibacterial mechanism. Additionally, 16 haemolytic genes and 3 antibiotic resistance genes, including tetracycline, fluoroquinolone, and carbapenem were annotated, but virulence genes encoding enterotoxin FM (entFM), cereulide (ces), and cytotoxin K were not detected. Further tests should be conducted to confirm the safety characteristics of <i>P. piscicida</i> 2515, including long-term toxicology tests, ecotoxicological assessment, and antibiotic resistance transfer risk assessment. Our results here revealed a new understanding of the probiotic properties and antibacterial mechanism of <i>P. piscicida</i> 2515, in addition to theoretical information for its application in 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":"2024-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141161517","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":"Methylobacterium nigriterrae sp. nov., isolated from black soil","authors":"Le-Bin Chen,&nbsp;Yu-Ting OuYang,&nbsp;Lan Liu,&nbsp;Pin-Jiao Jin,&nbsp;Rong-Rong Huang,&nbsp;Wen-Yi Pan,&nbsp;Ying Wang,&nbsp;Jia-Ying Xing,&nbsp;Ting-Ting She,&nbsp;Jian-Yu Jiao,&nbsp;Shuang Wang,&nbsp;Wen-Jun Li","doi":"10.1007/s10482-024-01981-x","DOIUrl":"10.1007/s10482-024-01981-x","url":null,"abstract":"<div><p>An aerobic, Gram-stain-negative, motile rod bacterium, designated as SYSU BS000021^T, was isolated from a black soil sample in Harbin, Heilongjiang province, China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belongs to the genus <i>Methylobacterium</i>, and showed the highest sequence similarity to <i>Methylobacterium segetis</i> KCTC 62267^T (98.51%) and <i>Methylobacterium oxalidis</i> DSM 24028^T (97.79%). Growth occurred at 20–37℃ (optimum, 28 °C), pH 6.0–8.0 (optimum, pH 7.0) and in the presence of 0% (w/v) NaCl. Polar lipids comprised of phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, one unidentified aminolipid and one unidentified polar lipid. The major cellular fatty acids (&gt; 5%) were C_18:0 and C_18:1 <i>ω</i>7<i>c</i> and/or C_18:1 <i>ω</i>6<i>c</i>. The predominant respiratory quinone was Q-10. The genomic G + C content was 68.36% based on the whole genome analysis. The average nucleotide identity (≤ 83.5%) and digital DNA–DNA hybridization (≤ 27.3%) values between strain SYSU BS000021^T and other members of the genus <i>Methylobacterium</i> were all lower than the threshold values recommended for distinguishing novel prokaryotic species. Based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, strain SYSU BS000021^T represents a novel species of the genus <i>Methylobacterium</i>, for which the name <i>Methylobacterium nigriterrae</i> sp. nov. is proposed. The type strain of the proposed novel species is SYSU BS000021^T (= GDMCC 1.3814^T = KCTC 8051^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":"2024-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141161476","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":"Biotechnological potential of actinomycetes in the 21st century: a brief review","authors":"Rafael de Souza Rodrigues,&nbsp;Antonia Queiroz Lima de Souza,&nbsp;Maria Divina Oliveira Feitoza,&nbsp;Thalita Caroline Lima Alves,&nbsp;Anderson Nogueira Barbosa,&nbsp;Sarah Raquel Silveira da Silva Santiago,&nbsp;Afonso Duarte Leão de Souza","doi":"10.1007/s10482-024-01964-y","DOIUrl":"10.1007/s10482-024-01964-y","url":null,"abstract":"<div><p>This brief review aims to draw attention to the biotechnological potential of actinomycetes. Their main uses as sources of antibiotics and in agriculture would be enough not to neglect them; however, as we will see, their biotechnological application is much broader. Far from intending to exhaust this issue, we present a short survey of the research involving actinomycetes and their applications published in the last 23 years. We highlight a perspective for the discovery of new active ingredients or new applications for the known metabolites of these microorganisms that, for approximately 80 years, since the discovery of streptomycin, have been the main source of antibiotics. Based on the collected data, we organize the text to show how the cosmopolitanism of actinomycetes and the evolutionary biotic and abiotic ecological relationships of actinomycetes translate into the expression of metabolites in the environment and the richness of biosynthetic gene clusters, many of which remain silenced in traditional laboratory cultures. We also present the main strategies used in the twenty-first century to promote the expression of these silenced genes and obtain new secondary metabolites from known or new strains. Many of these metabolites have biological activities relevant to medicine, agriculture, and biotechnology industries, including candidates for new drugs or drug models against infectious and non-infectious diseases. Below, we present significant examples of the antimicrobial spectrum of actinomycetes, which is the most commonly investigated and best known, as well as their non-antimicrobial spectrum, which is becoming better known and increasingly explored.</p></div>","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-05-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141094416","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":"Paracoccus benzoatiresistens sp. nov., a benzoate resistance and selenite reduction bacterium isolated from wetland","authors":"Weidong Mu,&nbsp;Haoran Liu,&nbsp;Bai Guo,&nbsp;Kaiyue Wang,&nbsp;Jinhua Hu,&nbsp;Jianjun Song,&nbsp;Xiuyun Li,&nbsp;Shuzhen Wei,&nbsp;Aijv Liu,&nbsp;Hongliang Liu","doi":"10.1007/s10482-024-01969-7","DOIUrl":"10.1007/s10482-024-01969-7","url":null,"abstract":"&lt;div&gt;&lt;p&gt;A Gram-stain-negative, aerobic, non-motile, catalase- and oxidase-positive, pale orange, rod-shaped strain EF6&lt;sup&gt;T&lt;/sup&gt;, was isolated from a natural wetland reserve in Hebei province, China. The strain grew at 25–37 °C (optimum, 30 °C), pH 5–9 (optimum, pH 7), and in the presence of 1.0–4.0% (w/v) NaCl (optimum, 2%). A phylogenetic analysis based on 16S rRNA gene sequence revealed that strain EF6&lt;sup&gt;T&lt;/sup&gt; belongs to the genus &lt;i&gt;Paracoccus&lt;/i&gt;, and the closest members were &lt;i&gt;Paracoccus shandongensis&lt;/i&gt; wg2&lt;sup&gt;T&lt;/sup&gt; with 98.1% similarity, &lt;i&gt;Paracoccus fontiphilus&lt;/i&gt; MVW-1&lt;sup&gt; T&lt;/sup&gt; (97.9%), &lt;i&gt;Paracoccus everestensis&lt;/i&gt; S8-55&lt;sup&gt; T&lt;/sup&gt; (97.7%), &lt;i&gt;Paracoccus subflavus&lt;/i&gt; GY0581&lt;sup&gt;T&lt;/sup&gt; (97.6%), &lt;i&gt;Paracoccus sediminis&lt;/i&gt; CMB17&lt;sup&gt;T&lt;/sup&gt; (97.3%), &lt;i&gt;Paracoccus caeni&lt;/i&gt; MJ17&lt;sup&gt;T&lt;/sup&gt; (97.0%), and &lt;i&gt;Paracoccus angustae&lt;/i&gt; E6&lt;sup&gt;T&lt;/sup&gt; (97.0%). The genome size of strain EF6&lt;sup&gt;T&lt;/sup&gt; was 4.88 Mb, and the DNA G + C content was 65.3%. The digital DNA-DNA hybridization, average nucleotide identity, and average amino acid identity values between strain EF6&lt;sup&gt;T&lt;/sup&gt; and the reference strains were all below the threshold limit for species delineation (&lt; 32.8%, &lt; 88.0%, and &lt; 86.7%, respectively). The major fatty acids (≥ 5.0%) were summed feature 8 (86.3%, C&lt;sub&gt;18:1&lt;/sub&gt; &lt;i&gt;ω&lt;/i&gt;6&lt;i&gt;c&lt;/i&gt; and/or C&lt;sub&gt;18:1&lt;/sub&gt; &lt;i&gt;ω&lt;/i&gt;7&lt;i&gt;c&lt;/i&gt;) and C&lt;sub&gt;18:1&lt;/sub&gt; (5.0%) and the only isoprenoid quinone was Q-10. The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, two unidentified glycolipids, five unidentified phospholipids, and an unidentified aminolipid. Strain EF6&lt;sup&gt;T&lt;/sup&gt; displays notable resistance to benzoate and selenite, with higher tolerance levels (25 g/L for benzoate and 150 mM for selenite) compared to the closely related species. Genomic analysis identified six benzoate resistance genes (&lt;i&gt;acdA&lt;/i&gt;, &lt;i&gt;pcaF&lt;/i&gt;, &lt;i&gt;fadA&lt;/i&gt;, &lt;i&gt;pcaC&lt;/i&gt;, &lt;i&gt;purB&lt;/i&gt;, and &lt;i&gt;catA&lt;/i&gt;) and twenty selenite resistance and reduction-related genes (&lt;i&gt;iscR&lt;/i&gt;, &lt;i&gt;ssuB&lt;/i&gt;, &lt;i&gt;ssuD&lt;/i&gt;, &lt;i&gt;selA&lt;/i&gt;, &lt;i&gt;selD&lt;/i&gt; and so on). Additionally, EF6&lt;sup&gt;T&lt;/sup&gt; possesses unique genes (&lt;i&gt;catA&lt;/i&gt;, &lt;i&gt;ssuB&lt;/i&gt;, and &lt;i&gt;ssuC&lt;/i&gt;) absent in the closely related species for benzoate and selenite resistance. Its robust resistance to benzoate and selenite, coupled with its genomic makeup, make EF6&lt;sup&gt;T&lt;/sup&gt; a promising candidate for the remediation of both organic and inorganic pollutants. It is worth noting that the specific resistance phenotypes described above were not reported in other novel species in &lt;i&gt;Paracoccus&lt;/i&gt;. Based on the results of biochemical, physiological, phylogenetic, and chemotaxonomic analyses, combined with comparisons of the 16S rRNA gene sequence and the whole genome sequence, strain EF6&lt;sup&gt;T&lt;/sup&gt; is considered to represent a novel species of the genus &lt;i&gt;Paracoccus&lt;/i&gt; within the family &lt;i&gt;Rhodobacteraceae&lt;/i&gt;, for which the name &lt;i&gt;Paracoccus benzoatiresistens&lt;/i&gt; sp. nov. is p","PeriodicalId":50746,"journal":{"name":"Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology","volume":"117 1","pages":""},"PeriodicalIF":1.8,"publicationDate":"2024-05-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141080987","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":"Adlercreutzia faecimuris sp. nov., producing propionate and acetate isolated from mouse feces","authors":"Min Kuk Suh,&nbsp;Jong- Sik Jin,&nbsp;Hyo Eun Do,&nbsp;Ji-Sun Kim,&nbsp;Mi Kyung Eom,&nbsp;Han Sol Kim,&nbsp;Jung- Sook Lee","doi":"10.1007/s10482-024-01980-y","DOIUrl":"10.1007/s10482-024-01980-y","url":null,"abstract":"<div><p>A novel strictly anaerobic bacterium, strain JBNU-10^T, was isolated from BALB/c mouse feces. Cells of the strain JBNU-10^T were Gram-stain positive, non-motile and rod-shaped. Optimum growth occurred at 37℃, with 1% (w/v) NaCl and at pH 7. Phylogenetic analysis based on 16S rRNA gene sequence showed that strain JBNU-10^T belonged to the genus <i>Adlercreutzia</i> and were closely related to <i>Adlercreutzia muris</i> WCA-131-CoC-2^T (95.90%). The genome sequencing of strain JBNU-10^T revealed a genome size of 2,790,983 bp, a DNA G + C content of 69.4 mol%. It contains a total of 2,266 CDSs, 5 rRNA genes and 49 tRNA genes. According to the data obtained strain JBNU-10^T shared ANI value below 77.6- 67.7%, dDDH value below 23.8% with the closely type species. Strain JBNU-10^T possessed iso-C_16:0 DMA, C_18:1 CIS 9 FAME, and C_18:0 DMA as the major fatty acids and had DMMK-6. The major end products of fermentation is propionate and acetate. Based on phylogenetic, physiological and chemotaxonomic characteristics, strain JBNU-10^T represent a novel species of the genus <i>Adlercreutzia</i>. The type strain is JBNU-10^T (= KCTC 25028^T = CCUG 75610^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":"2024-05-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141077256","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}