International journal of systematic and evolutionary microbiology最新文献

{"title":"<i>Microbispora maris</i> sp. nov., a novel actinobacterium isolated from the gill of the leopard coral grouper (<i>Plectropomus leopardus</i>).","authors":"Huan Xie, Qing-Yi Xie, Qing-Yun Ma, Li Yang, Hao-Fu Dai, You-Xing Zhao, Yu-E Hao","doi":"10.1099/ijsem.0.006568","DOIUrl":"https://doi.org/10.1099/ijsem.0.006568","url":null,"abstract":"<p><p>A novel actinomycete, designated strain ZYX-F-249^T, was isolated from the gill of a leopard coral grouper in Yongxing Island, Hainan Province, China. Based on 16S rRNA gene sequence analysis, strain ZYX-F-249^T belonged to the genus <i>Microbispora</i>, with high similarities to <i>Microbispora rosea</i> ATCC 12950^T (98.7 %), <i>Microbispora hainanensis</i> 211020^T (98.5 %), <i>Microbispora clausenae</i> CLES2^T (98.4 %), <i>Microbispora bryophytorum</i> NEAU-TX2-2^T (98.1 %) and <i>Microbispora oryzae</i>RL4-1S^T (98.0 %). Phylogenetic analysis of the 16S rRNA gene sequence of strain ZYX-F-249^T showed that the strain formed a stable subclade with <i>Microbispora rosea</i> ATCC 12950^T in the genus <i>Microbispora</i>. The cell wall of the novel isolate contained <i>meso</i>-diaminopimelic acid, while whole-cell sugars were madurose, glucose and ribose. The predominant menaquinones were MK-9(H₆), MK-9(H₄), MK-9(H₂) and MK-9(H₀). The characteristic phospholipids (PLs) were phosphatidylethanolamine, phosphatidylinositol, diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylinositol mannoside, glycophospholipids and an unknown PL. The major cellular fatty acids (>10%) were <i>iso</i>-C_16 : 0 and <i>iso</i>-C_18 : 0. Genome sequencing showed a DNA G+C content of 71.6%. The low average nucleotide identity, digital DNA-DNA hybridization and average amino acid identity values demonstrated that strain ZYX-F-249^T could be readily distinguished from closely related species. Based on data from these phylogenetic, chemotaxonomic and physiological characteristics, strain ZYX-F-249^T represents a novel species of the genus <i>Microbispora</i>, for which the name <i>Microbispora maris</i> sp. nov. is proposed. The type strain is ZYX-F-249^T (=CCTCC AA 2023030^T =JCM 36778^T).</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142604184","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 taxonomic note on the order <i>Caryophanales</i>: description of 12 novel families and emended description of 21 families.","authors":"Yangjie Li, Dechao Zhang, Dexin Bo, Donghai Peng, Ming Sun, Jinshui Zheng","doi":"10.1099/ijsem.0.006539","DOIUrl":"10.1099/ijsem.0.006539","url":null,"abstract":"<p><p>The order <i>Caryophanales</i>, belonging to class <i>Bacilli</i>, is globally distributed in various ecosystems. Currently, this order comprised 12 families that show vast phenotypic, ecological and genotypic variation. The classification of <i>Caryophanales</i> at the family level is currently mainly based on 16S rRNA gene sequencing analysis and the presence of shared phenotypic characteristics, resulting in noticeable anomalies. Our present study revises the taxonomy of <i>Caryophanales</i> based on 1080 available high-quality genome sequences of type strains. The evaluated parameters included the core-genome phylogeny, pairwise average aa identity, lineage-specific core genes, physiological criteria and ecological parameters. Based on the results of this polyphasic approach, we propose that the order <i>Caryophanales</i> be reclassified into 41 families, which include the existing 12 families, 17 families in a recent Validation List in the <i>IJSEM</i> (Validation List no. 215) and 12 novel families for which we propose the names <i>Aureibacillaceae</i>, <i>Cytobacillaceae</i>, <i>Domibacillaceae</i>, <i>Falsibacillaceae</i>, <i>Heyndrickxiaceae</i>, <i>Lottiidibacillaceae</i>, <i>Oxalophagaceae</i>, <i>Pradoshiaceae</i>, <i>Rossellomoreaceae</i>, <i>Schinkiaceae</i>, <i>Sulfoacidibacillaceae</i> and <i>Sutcliffiellaceae</i>. This work represents a genomic sequence-based and systematic framework for classifying the order <i>Caryophanales</i> at the family level, providing new insights into its evolution.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142667937","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":"<i>Kodamaea schenbergiae</i> f.a., sp. nov. and <i>Suhomyces schwaniae</i> f.a., sp. nov., two yeast species isolated from mushrooms and associated insects in a Brazilian Amazonian rainforest biome.","authors":"Rosangela Santa-Brigída, Ana Raquel O Santos, Marlúcia B Martins, Luiz Henrique Rosa, Marc-André Lachance, Carlos A Rosa","doi":"10.1099/ijsem.0.006587","DOIUrl":"https://doi.org/10.1099/ijsem.0.006587","url":null,"abstract":"<p><p>Thirty yeast isolates belonging to the genera <i>Kodamaea</i> and <i>Suhomyces</i> were isolated from mushrooms and associated drosophilids collected in a Brazilian Amazonian rainforest biome. Analyses of the sequences of the intergenic spacer region and the D1/D2 domains of the large subunit rRNA gene showed that these isolates represent two distinct species. The first, represented by ten isolates, is phylogenetically related to <i>Kodamaea plutei</i> and <i>Kodamaea lidongshanica</i> based on the sequences of the D1/D2 domains. The name <i>Kodamaea schenbergiae</i> f.a., sp. nov. (Holotype CBS 18628^T; MycoBank MB855624) is proposed to accommodate the species. The second species was represented by 20 isolates (13 isolates from drosophilids and 7 from mushrooms). This novel species is phylogenetically related to <i>Suhomyces bolitotheri</i>, <i>Suhomyces rilaensis</i> and <i>Suhomyces choctaworum</i>. The name <i>Suhomyces schwaniae</i> f.a., sp. nov. (Holotype CBS 18800^T; MycoBank MB855625) is proposed to accommodate the species. Both novel species did not produce asci or evidence of conjugation when cultured individually or in pairs. The isolation of these yeasts associated with mushrooms and drosophilids in the Amazonian biome suggests that these substrates are the habitat of both species.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142750142","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":"International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Mollicutes: minutes of the closed meeting, 7 July 2024, Gran Canaria, Spain.","authors":"Gail E Gasparich, Chih-Horng Kuo, Lucia Manso-Silván, Alain Blanchard, Mitchell F Balish","doi":"10.1099/ijsem.0.006576","DOIUrl":"https://doi.org/10.1099/ijsem.0.006576","url":null,"abstract":"<p><p><i>A corrigendum of this article has been published full details can be found at</i>https://doi.org/10.1099/ijsem.0.006662This report documents the International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Mollicutes minutes for the meeting held 7 July 2024, Gran Canaria, Spain, at the 25th International Organization for Mycoplasmology Congress.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143033127","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":"<i>Roseicyclus sediminis</i> sp. nov. and <i>Roseicyclus salinarum</i> sp. nov., isolated from marine environment, and reclassification of two species of the genus <i>Roseibacterium</i> as species of the genus <i>Roseicyclus</i>.","authors":"Ziyang Zhou, Xunian Yang, Yuyan Yue, Xinjiang Liu, Zhenxing Xu, Zongjun Du","doi":"10.1099/ijsem.0.006583","DOIUrl":"10.1099/ijsem.0.006583","url":null,"abstract":"<p><p>Two Gram-stain-negative, facultatively anaerobic, rod-shaped bacteria were isolated from coastal sediments and salt marshes in Weihai, China, and designated as SDUM158017^T and SDUM158016^T, respectively. Both grew at temperatures ranging from 20 to 43°C and within a pH range of 6.0 to 9.0. However, strain SDUM158016^T grew in the presence of 1.0-7.0% (w/v) NaCl, whereas strain SDUM158017^T was able to grow in the presence of 1.0-10.0% (w/v) NaCl. Strains SDUM158016^T and SDUM158017^T contain major fatty acids of C_18 : 1 <i>ω</i>7<i>ϲ</i> and C_16 : 0 and contain Q10 as the sole quinone. Based on 16S rRNA gene sequence analysis, the closest relatives of strains SDUM158016^T and SDUM158017^T are '<i>Roseibacterium beibuensis</i>' MCCC 1F00103^T, followed by <i>Roseibacterium elongatum</i> JCM 11220^T, with the highest similarities 97.1 and 97.3 %, respectively. The average nucleotide identity values between strain SDUM158016^T and species of the genera <i>Roseibacterium</i> and <i>Roseicyclus</i> ranged from 76.0 to 78.9 %, while they ranged from 75.9 to 78.6% for strain SDUM158017^T. These values are below the species delineation threshold of 98.6%, suggesting that both strains represent novel species. Phylogenetic analysis of the 16S rRNA genes and genome sequences further indicates that <i>Roseibacterium</i> species within the genus <i>Roseicyclus</i> and these isolates represent two potentially novel species within the genus <i>Roseicyclus</i>. Taken together, strains SDUM158017^T and SDUM158016^T represent two novel species of the genus <i>Roseicyclus</i>, for which the names <i>Roseicyclus sediminis</i> and <i>Roseicyclus salinarum</i> are proposed with the type strains SDUM158016^T (=KCTC 92632^T =MCCC 1H01367^T) and SDUM158017^T (=KCTC 92633^T =MCCC 1H01363^T), respectively. Based on phylogenetic and genomic analyses, we also propose the reclassification of <i>Roseibacterium elongatum</i> as <i>Roseicyclus elongatus</i> comb. nov. and <i>Roseibacterium persicicum</i> as <i>Roseicyclus persicicus</i> comb. nov.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142667925","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":"International Committee on Systematics of Prokaryotes: subcommittee on the taxonomy of methanogenic archaea. Minutes of the closed, online meeting held 06 September 2023.","authors":"Jeremy A Dodsworth, Om Prakash","doi":"10.1099/ijsem.0.006569","DOIUrl":"https://doi.org/10.1099/ijsem.0.006569","url":null,"abstract":"","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142604203","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":"<i>Clostridium lapidicellarium</i> sp. nov. and <i>Clostridium moutaii</i> sp. nov., two species isolated from fermentation cellar-producing sauce-flavour Chinese baijiu.","authors":"Fan Yang, Hui Wang, Liang-Qiang Chen, Nan Zhou, Jian-Jun Lu, Xiu-Xin Pu, Bo Wan, Li Wang, Shuang-Jiang Liu","doi":"10.1099/ijsem.0.006580","DOIUrl":"10.1099/ijsem.0.006580","url":null,"abstract":"<p><p><i>Clostridium</i> is an important microbial component in pit mud due to its ability to produce alcohol and short-chain fatty acids. This study presents the characterization and taxonomy of two Gram-stain-positive, strictly anaerobic, rod-shaped mesophilic bacterial strains, designated MT-113^T and MT-5^T, isolated from pit mud in a fermentation cellar used for producing sauce-flavour Chinese baijiu. Phylogenetic analysis based on genome and 16S rRNA gene sequences of strains MT-113^T and MT-5^T indicates their affiliation with the genus <i>Clostridium sensu stricto</i> (Cluster I of the Clostridia), with <i>C. luticellarii</i> FW431^T and <i>C. aromativorans</i> WLY-B-L2^T as the closest related species. The major cellular fatty acids (>10.0%) of both strains are C_14 : 0 and summed feature 1 (iso-C_15 : 1 h and/or C_13 : 0 3-OH). The G+C molar contents of the complete genomes for strains MT-113^T and MT-5^T are 35.84 and 32.74 mol%, respectively. The average nucleotide identity and average amino acid identity values between strains MT-113^T, MT-5^T, <i>C. aromativorans</i> WLY-B-L2^T and <i>C. luticellarii</i> FW431^T range from 79 to 85%. The primary products of glucose fermentation by MT-113^T are acetic, butyric and isovaleric acids, while those of MT-5^T are acetic, isobutyric, butyric and isovaleric acids. Based on their phenotypic, chemotaxonomic and phylogenetic characteristics, strains MT-113^T (=CGMCC 1.18018^T = JCM 36532^T) and MT-5^T (=CGMCC 1.18016^T = JCM 36530^T) are proposed as the type strains of two novel species of the genus <i>Clostridium</i>, namely <i>Clostridium lapidicellarium</i> sp. nov. and <i>Clostridium moutaii</i> sp. nov., respectively.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11648564/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142667911","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":"Description of <i>Olsenella absiana</i> sp. nov., an anaerobic bacterium isolated from pig faeces.","authors":"Jayoung Paek, Lu Bai, Yeseul Shin, Hongik Kim, Si Hyun Kim, Jeong Hwan Shin, Joong-Ki Kook, Young-Hyo Chang","doi":"10.1099/ijsem.0.006579","DOIUrl":"https://doi.org/10.1099/ijsem.0.006579","url":null,"abstract":"<p><p>A short-rod-shaped, obligate anaerobic, Gram-positive bacterium isolated from the faeces of a pig was designated as the strain YH-ols2223^T. Analysis of the 16S rRNA gene sequence revealed that the isolate was most closely related to <i>Olsenella urininfantis</i> KCTC 25755^T with 97.7% similarity. The multi-locus sequence tree revealed that the isolate formed a sub-cluster within the genus <i>Olsenella</i>. The average nucleotide identity and the digital DNA-DNA hybridization values for the isolate and the most closely related strains were 74.9-76.6% and 20.8-22.5%, respectively. The end products of the fermentation were lactic acid and acetic acid. The main fatty acids identified were C_18 : 0 DMA, C_18 : 1 <i> ω</i>9<i>c</i> DMA and C_18 : 1 <i> ω</i>9<i>c</i>. The cell wall contained the <i>meso</i>-diaminopimelic acid-based peptidoglycan. Given the chemotaxonomic, phenotypic and phylogenetic properties, YH-ols2223^T (= KCTC 25800^T = NBRC 116680^T) represents a novel taxon. The name <i>Olsenella absiana</i> sp. nov. was proposed.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142620436","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":"Corrigendum. Proposal of <i>Lactobacillus amylovorus</i> subsp. <i>animalis</i> subsp. nov. and an emended description of <i>Lactobacillus amylovorus</i>.","authors":"Kenji Yamane, Yasuhiro Tanizawa, Hisami Kobayashi, Tomomi Kamizono, Yoichiro Kojima, Hiroki Takagi, Masanori Tohno","doi":"10.1099/ijsem.0.006564","DOIUrl":"https://doi.org/10.1099/ijsem.0.006564","url":null,"abstract":"","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142568391","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":"<i>Dyadobacter helix</i> sp. nov. and <i>Dyadobacter linearis</i> sp. nov., from drinking water.","authors":"Teresa Lucena, María J Pujalte, David R Arahal","doi":"10.1099/ijsem.0.006570","DOIUrl":"10.1099/ijsem.0.006570","url":null,"abstract":"<p><p>The purpose of this study is to better characterize and complete the classification of two bacterial strains, CECT 9275^T and CECT 9623^T, isolated from drinking water systems and affiliated to the genus <i>Dyadobacter</i> by partial 16S rRNA gene sequence comparison. Hence, we report here the phenotypic, genomic and phylogenetic characterization performed on these strains. Both strains grow on R2A agar forming mucous, bright yellow colonies, developing at 26 °C in 48 h. They produce flexirubin and are oxidase and catalase positive, mesophilic and non-halophilic. The cells of strain CECT 9275^T are curved rods mainly associated in pairs, forming nearly closed rings or resembling the shape of the number three, to long spirals resembling a corkscrew. Its draft genome has an estimated size of 7.23 Mbp (G+C content 45.4%). Strain CECT 9623^T appeared on wet mounts as straight rods, mostly in pairs, sometimes forming long filaments (up to 20 µm). Its draft genome is shorter, with an estimated size of 6.45 Mbp (G+C content is 46.1%). Overall genome relatedness indexes clearly define them as separate organisms, so based on all the data collected, we propose the species <i>Dyadobacter helix</i> sp. nov. with type strain AB1^T (=CECT 9275^T=LMG 32341^T) and <i>Dyadobacter linearis</i> sp. nov. with type strain AB67^T (=CECT 9623^T=LMG 32342^T).</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":"74 11","pages":""},"PeriodicalIF":2.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11573002/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142667914","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}