International journal of systematic and evolutionary microbiology最新文献

{"title":"<i>Pseudomonas fragariae</i> sp. nov., a novel bacterial species causing leaf spots on strawberry (<i>Fragaria</i>×<i>ananassa</i>).","authors":"Marcus Vinicius Marin, Renato Carvalho, Mathews L Paret, Jeffrey B Jones, Natalia A Peres","doi":"10.1099/ijsem.0.006476","DOIUrl":"10.1099/ijsem.0.006476","url":null,"abstract":"<p><p>In Florida, angular leaf spot, caused by <i>Xanthomonas fragariae</i>, was the only known bacterial disease in strawberry, which is sporadic and affects the foliage and calyx. However, from the 2019-2020 to 2023-2024 Florida strawberry seasons, unusual bacterial-like symptoms were observed in commercial farms, with reports of up to 30 % disease incidence. Typical lesions were water-soaked and angular in early stages that later became necrotic with a circular-ellipsoidal purple halo, and consistently yielded colonies resembling <i>Pseudomonas</i> on culture media. Strains were pathogenic on strawberry, fluorescent, oxidase- and arginine-dihydrolase-negative, elicited a hypersensitive reaction on tobacco, and lacked pectolytic activity. Although phenotypic assays, such as fatty acid methyl profiles and Biolog protocols, placed the strains into the <i>Pseudomonas</i> group, there was a low similarity at the species level. Further analysis using 16S rRNA genes, housekeeping genes, and whole genome sequencing showed that the strains cluster into the <i>Pseudomonas</i> group but do not share more than 95 % average nucleotide identity compared to representative members. Therefore, the genomic and phenotypic analysis confirm that the strains causing bacterial spot in strawberry represent a new plant pathogenic bacterial species for which we propose the name <i>Pseudomonas fragariae</i> sp. nov. with 20-417^T (17^T=LMG 32456^T=DSM 113340 ^T) as the type strain, in relation to <i>Fragaria</i>×<i>ananassa</i>, the plant species from which the pathogen was first isolated. Future work is needed to assess the epidemiology, cultivar susceptibility, chemical sensitivity, and disease management of this possible new emerging strawberry pathogen.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11324255/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141975669","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":"<i>Psychrosphaera algicola</i> sp. nov. and <i>Paraglaciecola algarum</i> sp. nov., and reclassification of <i>Pseudoalteromonas elyakovii</i>, <i>Pseudoalteromonas flavipulchra</i>, and <i>Pseudoalteromonas profundi</i> as later heterotypic synonyms of <i>P. distincta</i>, <i>P. maricaloris</i>, and <i>P. gelatinilytica</i>.","authors":"Hülya Bayburt, Byeong Jun Choi, Jeong Min Kim, Ju Hye Baek, Che Ok Jeon","doi":"10.1099/ijsem.0.006491","DOIUrl":"10.1099/ijsem.0.006491","url":null,"abstract":"<p><p>Two Gram-negative, obligately aerobic, rod-shaped bacteria, strains G1-22^T and G1-23^T, were isolated from the phycosphere of a marine brown alga. Both strains exhibited catalase- and oxidase-positive activities. Strain G1-22^T displayed optimal growth at 25 °C, pH 8.0, and 2.0-3.0% (w/v) NaCl, while strain G1-23^T exhibited optimal growth at 25 °C, pH 8.0, and 4.0% NaCl. Ubiquinone-8 was identified as the sole isoprenoid quinone in both strains. As major fatty acids (> 5%), strain G1-22^T contained C_16 : 0, summed feature 3 (C_16 : 1 <i>ω</i>7<i>c</i> and/or C_16 : 1 <i>ω</i>6<i>c</i>), 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_12 : 1 3-OH, and C_10 : 0 3-OH, while strain G1-23^T contained C_16 : 0, summed feature 3 (C_16 : 1 <i>ω</i>7<i>c</i> and/or C_16 : 1 <i>ω</i>6<i>c</i>), and C_14 : 0. Phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol were major polar lipids in both strains. Strains G1-22^T and G1-23^T had DNA G+C contents of 40.2 and 38.9 mol%, respectively. Phylogenetic analyses based on 16S rRNA and genome sequences revealed that strains G1-22^T and G1-23^T formed distinct phylogenetic lineages within the genera <i>Psychrosphaera</i> and <i>Paraglaciecola</i>, respectively. Strain G1-22^T showed closest relatedness to <i>Psychrosphaera ytuae</i> MTZ26^T with 97.8% 16S rRNA gene sequence similarity, 70.2% average nucleotide identity (ANI), and a 21.5% digital DNA-DNA hybridization (dDDH) value, while strain G1-23^T was most closely related to <i>Paraglaciecola aquimarina</i> KCTC 32108^T with 95.6% 16S rRNA gene sequence similarity, 74.6% ANI, and a 20.1% dDDH value. Based on phenotypic and molecular characteristics, strains G1-22^T and G1-23^T are proposed to represent two novel species, namely <i>Psychrosphaera algicola</i> sp. nov. (type strain G1-22^T=KACC 22486^T=JCM 34971^T) and <i>Paraglaciecola algarum</i> sp. nov. (type strain G1-23^T=KACC 22490^T=JCM 34972^T), respectively. Additionally, based on the comparison of whole genome sequences, it is proposed that <i>Pseudoalteromonas elyakovii</i>, <i>Pseudoalteromonas flavipulchra</i>, and <i>Pseudoalteromonas profundi</i> are reclassified as later heterotypic synonyms of <i>Pseudoalteromonas distincta</i>, <i>Pseudoalteromonas maricaloris</i>, and <i>Pseudoalteromonas gelatinilytica</i>, respectively.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11324256/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141975670","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":"<i>Oxyplasma meridianum</i> gen. nov., sp. nov., an extremely acidophilic organotrophic member of the order <i>Thermoplasmatales</i>.","authors":"Olga V Golyshina, Evgenii A Lunev, Marco A Distaso, Rafael Bargiela, Matthew C Gaines, Bertram Daum, Manuel Ferrer, Nicole J Bale, Michel Koenen, Jaap S Sinninghe Damsté, Mikhail M Yakimov, Peter N Golyshin","doi":"10.1099/ijsem.0.006499","DOIUrl":"10.1099/ijsem.0.006499","url":null,"abstract":"<p><p>A mesophilic, hyperacidophilic archaeon, strain M1^T, was isolated from a rock sample from Vulcano Island, Italy. Cells of this organism were cocci with an average diameter of 1 µm. Some cells possessed filaments. The strain grew in the range of temperatures between 15 and 52 °C and pH 0.5-4.0 with growth optima at 40 °C and pH 1.0. Strain M1^T was aerobic and chemoorganotrophic, growing on complex substrates, such as casamino acids, trypticase, tryptone, yeast and beef extracts. No growth at expenses of oxidation of elemental sulphur or reduced sulphur compounds, pyrite, or ferrous sulphate was observed. The core lipids were glycerol dibiphytanyl glycerol tetraether lipids (membrane spanning) with 0 to 4 cyclopentane moieties and archaeol, with trace amounts of hydroxy archaeol. The dominant quinone was MK-7 : 7. The genome size of M1^T was 1.67 Mbp with a G+C content of 39.76 mol%, and both characteristics were well within the common range for <i>Thermoplasmatales</i>. The phylogenetic analysis based on 16S rRNA gene sequence placed the strain M1^T within the order <i>Thermoplasmatales</i> with sequence identities of 90.9, 90.3 and 90.5% to the closest SSU rRNA gene sequences from organisms with validly published names, <i>Thermoplasma acidophilum</i>, <i>Thermoplasma volcanium</i> and <i>Thermogymnomonas acidicola</i>, respectively. Based on the results of our genomic, phylogenetic, physiological and chemotaxonomic studies, we propose that strain M1^T (=DSM 116605^T=JCM 36570^T) represents a new genus and species, <i>Oxyplasma meridianum</i> gen. nov., sp. nov., within the order <i>Thermoplasmatales</i>.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11349054/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142072829","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":"<i>Vagococcus jeotgali</i> sp. nov., isolated from cutlassfish jeotgal, a traditional Korean fermented seafood.","authors":"Sung-Hong Joe, Ah-In Yang, Bora Kim, Hae-In Joe, Yeongjin Hong, Na-Ri Shin","doi":"10.1099/ijsem.0.006489","DOIUrl":"https://doi.org/10.1099/ijsem.0.006489","url":null,"abstract":"<p><p>A novel, Gram-positive, facultatively anaerobic, and non-motile bacterial strain, designated B2T-5^T, was isolated from jeotgal, a traditional Korean fermented seafood. Colonies grown on gifu anaerobic medium agar plates were cream-coloured, irregular, and umbonate with curled margins. Optimal growth of strain B2T-5^T occurred at 20 °C, pH 8.0, and in the presence of 1% (w/v) NaCl. Strain B2T-5^T was negative for oxidase and catalase activity. Hippurate was not hydrolysed and acetoin was not produced. The major cellular fatty acids were C_18 : 1 <i> ω</i>9<i>c</i> and C_16 : 0. The cell-wall peptidoglycan was of the A4<i>α</i> type containing l-Lys-d-Asp. The predominant respiratory quinone was menaquinone 7. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylcholine. According to the phylogenetic analysis based on 16S rRNA gene sequences, strain B2T-5^T was most closely related to <i>Vagococcus teuberi</i> DSM 21459^T, showing 98.2% sequence similarity. Genome sequencing of strain B2T-5^T revealed a genome size of 2.0 Mbp and a G+C content of 33.8 mol%. The average nucleotide identities of strain B2T-5^T with <i>Vagococcus teuberi</i> DSM 21459^T, <i>Vagococcus bubulae</i> SS1994^T, and <i>Vagococcus martis</i> D7T301^T were 75.0, 74.7, and 75.1%, respectively. Based on the phenotypic, chemotaxonomic, and genotypic data, strain B2T-5^T represents a novel species of the genus <i>Vagococcus</i>, for which the name <i>Vagococcus jeotgali</i> sp. nov. is proposed. The type strain is B2T-5^T (=KCTC 21223^T=JCM 35937^T).</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141971118","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>Actinomycetospora aeridis</i> sp. nov., <i>Actinomycetospora flava</i> sp. nov. and <i>Actinomycetospora aurantiaca</i> sp. nov., endophytic actinobacteria isolated from wild orchid (<i>Aerides multiflora</i> Roxb).","authors":"Chanwit Suriyachadkun, Wipaporn Ngaemthao, Tawanmol Pujchakarn, Chatsuda Sakdapetsiri, Chanjira Ayawong, Kamonchai Chairote, Suwanee Chunhametha","doi":"10.1099/ijsem.0.006505","DOIUrl":"https://doi.org/10.1099/ijsem.0.006505","url":null,"abstract":"<p><p>Three novel mycelium-forming actinobacteria, designated OC33-EN06^T, OC33-EN07^T, and OC33-EN08^T, were isolated from wild orchid (<i>Aerides multiflora</i> Roxb), collected from a hill evergreen forest in Northern Thailand. Strains OC33-EN06^T and OC33-EN07^T showed the highest 16S rRNA gene similarity with <i>Actinomycetospora lutea</i> TT00-04^T, 99.17 and 99.45%, respectively. Strain OC33-EN08^T showed high similarity with four species, namely '<i>Actinomycetospora termitidis</i> Odt1-22^T' (99.37%), <i>Actinomycetospora chiangmaiensis</i> DSM 45062^T (99.02%), <i>Actinomycetospora corticicola</i> 014-5^T (99.02%), and <i>Actinomycetospora soli</i> SF1^T (98.81%). Comparative genome analysis of OC33-EN06^T, OC33-EN07^T, and OC33-EN08^T with the closely related type strains showed that average nucleotide identity (ANI) based on blast, ANI based on MUMmer, and average amino acid identity values were less than 95% and the digital DNA-DNA hybridization values were less than 70%, all below the thresholds for species demarcation. The digital G+C content of OC33-EN06^T, OC33-EN07^T, and OC33-EN08^T were 74.5, 74, and 74 mol%, respectively. These three strains developed bud-like chains of non-motile cylindrical spores with a smooth surface. The cell-wall peptidoglycan contained <i>meso</i>-diaminopimelic acid. The whole-cell sugars contained ribose, arabinose, and galactose. The predominant menaquinone was MK-8(H₄). The phospholipid profile included phosphatidylcholine, phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, and phosphatidylinositol. Based on comparative analysis of genotypic, phenotypic and chemotaxonomic data, strains OC33-EN06^T (=TBRC 18349^T=NBRC 116543^T), OC33-EN07^T (=TBRC 18350^T=NBRC 116544^T), and OC33-EN08^T (=TBRC 18318^T=NBRC 116542^T) represent the type strains of three novel species of the genus <i>Actinomycetospora</i> for which the names <i>Actinomycetospora aeridis</i> sp. nov., <i>Actinomycetospora flava</i> sp. nov., and <i>Actinomycetospora aurantiaca</i> sp. nov., are proposed.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142107330","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>Methylomonas rivi</i> sp. nov., <i>Methylomonas rosea</i> sp. nov., <i>Methylomonas aurea</i> sp. nov. and <i>Methylomonas subterranea</i> sp. nov., type I methane-oxidizing bacteria isolated from a freshwater creek and the deep terrestrial subsurface.","authors":"Christopher A Abin, Christopher T Garner, Krithivasan Sankaranarayanan, Reid A Sindelar, Kyrah F Kotary, Rosa M Garner, Samantha C Barclay, Haiyuan Cai, Paul A Lawson, Lee R Krumholz","doi":"10.1099/ijsem.0.006506","DOIUrl":"https://doi.org/10.1099/ijsem.0.006506","url":null,"abstract":"<p><p>Four methane-oxidizing bacteria, designated as strains WSC-6^T, WSC-7^T, SURF-1^T, and SURF-2^T, were isolated from Saddle Mountain Creek in southwestern Oklahoma, USA, and the Sanford Underground Research Facility (SURF) in Lead, South Dakota, USA. The strains were Gram-negative, motile, short rods that possessed intracytoplasmic membranes characteristic of type I methanotrophs. All four strains were oxidase-negative and weakly catalase-positive. Colonies ranged from pale pink to orange in colour. Methane and methanol were the only compounds that could serve as carbon and energy sources for growth. Strains WSC-6^T and WSC-7^T grew optimally at lower temperatures (25 and 20 °C, respectively) compared to strains SURF-1^T and SURF-2^T (40 °C). Strains WSC-6^T and SURF-2^T were neutrophilic (optimal pH of 7.5 and 7.3, respectively), while strains WSC-7^T and SURF-1^T were slightly alkaliphilic, with an optimal pH of 8.8. The strains grew best in media amended with ≤0.5% NaCl. The major cellular fatty acids were C_14 : 0, C_16 : 1  <i>ω</i>8<i>c</i>, C_16 : 1  <i>ω</i>7<i>c</i>, and C_16 : 1  <i>ω</i>5<i>c</i>. The DNA G+C content ranged from 51.5 to 56.0 mol%. Phylogenetic analyses indicated that the strains belonged to the genus <i>Methylomonas</i>, with each exhibiting 98.6-99.6% 16S rRNA gene sequence similarity to closely related strains. Genome-wide estimates of relatedness (84.5-88.4% average nucleotide identity, 85.8-92.4% average amino acid identity and 27.4-35.0% digital DNA-DNA hybridization) fell below established thresholds for species delineation. Based on these combined results, we propose to classify these strains as representing novel species of the genus <i>Methylomonas</i>, for which the names <i>Methylomonas rivi</i> (type strain WSC-6^T=ATCC TSD-251^T=DSM 112293^T), <i>Methylomonas rosea</i> (type strain WSC-7^T=ATCC TSD-252^T=DSM 112281^T), <i>Methylomonas aurea</i> (type strain SURF-1^T=ATCC TSD-253^T=DSM 112282^T), and <i>Methylomonas subterranea</i> (type strain SURF-2^T=ATCC TSD-254^T=DSM 112283^T) are proposed.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142107428","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":"Genome-based reclassification of <i>Kineococcus aureolus</i> Xu <i>et al</i>. 2017 as a later heterotypic synonym of <i>Kineococcus terrestris</i> Xu <i>et al</i>. 2017.","authors":"Jie Huang, Shuai Li, Jun Liu, Chun-Yan Lu, Sadia Manzoor, Lei Dong, Wen-Jun Li","doi":"10.1099/ijsem.0.006504","DOIUrl":"https://doi.org/10.1099/ijsem.0.006504","url":null,"abstract":"<p><p>We aimed to elucidate the relationship between <i>Kineococcus terrestris</i> and <i>Kineococcus aureolus</i> through whole-genome-based analysis. The genome-derived 16S rRNA gene sequences of <i>K. terrestris</i> KCTC 39738^T and <i>K. aureolus</i> KCTC 39739^T shared a 100% similarity. Phylogenetic trees based on 16S rRNA gene and whole-genome sequences revealed that <i>K. terrestris</i> KCTC 39738^T and <i>K. aureolus</i> KCTC 39739^T formed a robust clade, indicating a close relationship between them. Genomic comparison showed that the two strains shared 99.1% average nucleotide identity, 92.0% digital DNA-DNA hybridization and 98.9% average amino acid identity values, all of which exceeded the recommended threshold values for species classification. Most phenotypic characteristics between the two species were almost identical. Based on the above evidence, we propose the reclassification of <i>Kineococcus aureolus</i> Xu <i>et al</i>. 2017 as a later heterotypic synonym of <i>Kineococcus terrestris</i> Xu <i>et al</i>. 2017. Since these two species were proposed in the same article, the principle of priority does not apply. Our proposal is supported by the fact that the nomenclatural authorities first described <i>Kineococcus terrestris</i>.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142107429","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>Elongatibacter sediminis</i> gen. nov., sp. nov., isolated from intertidal sediment, and genomic comparison with all genera in the family <i>Wenzhouxiangellaceae</i>.","authors":"Xin-Yue Zhang, Yu-Qi Ye, Yan-Jun Feng, Hong-Nan Gong, Zong-Jun Du, Meng-Qi Ye","doi":"10.1099/ijsem.0.006440","DOIUrl":"https://doi.org/10.1099/ijsem.0.006440","url":null,"abstract":"<p><p>A novel slightly halophilic, aerobic, and Gram-stain-negative strain, designated as CH-27^T, was isolated during a bacterial resource investigation of intertidal sediment collected from Xiaoshi Island in Weihai, PR China. Cells of strain CH-27^T were rod-shaped with widths of 0.3-0.6 µm and lengths of 2.0-11.0 µm. Strain CH-27^T grew optimally at 37 °C, pH 7.0 and with 2.0 % (w/v) NaCl. Catalase activity was weakly positive and oxidase activity was positive. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CH-27^T was most related to <i>Marinihelvus fidelis</i> KCTC 92639^T (93.6 %), followed by <i>Wenzhouxiangella marina</i> MCCC 1K00261^T (92.0 %). Based on genome comparisons between strain CH-27^T and <i>M. fidelis</i> KCTC 92639^T, the average amino acid identity was 63.6 % and the percentage of conserved proteins was 48.3 %. The major cellular fatty acid of strain CH-27^T (≥10 %) was iso-C_15 : 0 and the sole respiratory quinone was quinone-8. The polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, and aminophospholipid. The DNA G+C content was 62.7 mol%. Based on comprehensive analysis of its phylogenetic, physiological, biochemical, and chemotaxonomic characteristics, strain CH-27^T represents a novel species in a novel genus, for which the name <i>Elongatibacter sediminis</i> gen. nov., sp.nov. is proposed. The type strain is CH-27^T (=MCCC 1H00480^T=KCTC 8011^T).</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141491909","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":"Valid publication of names for bacterial species from the chicken gut.","authors":"Mark J Pallen","doi":"10.1099/ijsem.0.006445","DOIUrl":"10.1099/ijsem.0.006445","url":null,"abstract":"<p><p>This article is a follow-up to Gilroy R, Ravi A, Getino M, Pursley I, Horton DL, <i>et al</i>. <i>PeerJ</i> 2021;9:e10941, detailing accession numbers from culture collections to ensure that names for 33 new species conform to the Rules of the International Code of Nomenclature of Prokaryotes required for valid publication of names for cultured species. The following species names are now proposed to be recognized as validly published: <i>Acinetobacter pecorum</i> sp. nov., <i>Arthrobacter gallicola</i> sp. nov., <i>Arthrobacter pullicola</i> sp. nov., <i>Bacillus norwichensis</i> sp. nov., <i>Brevibacterium gallinarum</i> sp. nov., <i>Brevundimonas guildfordensis</i> sp. nov., <i>Cellulomonas avistercoris</i> sp. nov., <i>Clostridium gallinarum</i> sp. nov., <i>Comamonas avium</i> sp. nov., <i>Corynebacterium gallinarum</i> sp. nov., <i>Cytobacillus stercorigallinarum</i> sp. nov., <i>Escherichia whittamii</i> sp. nov., <i>Kaistella pullorum</i> sp. nov., <i>Luteimonas colneyensis</i> sp. nov., <i>Microbacterium commune</i> sp. nov., <i>Microbacterium gallinarum</i> sp. nov., <i>Microbacterium pullorum</i> sp. nov., <i>Oceanitalea stevensii</i> sp. nov., <i>Ochrobactrum gallinarum</i> sp. nov., <i>Oerskovia douganii</i> sp. nov., <i>Oerskovia gallyi</i> sp. nov., <i>Oerskovia merdavium</i> sp. nov., <i>Oerskovia rustica</i> sp. nov., <i>Paenibacillus gallinarum</i> sp. nov., <i>Phocaeicola gallinarum</i> sp. nov., <i>Planococcus wigleyi</i> sp. nov., <i>Psychrobacter communis</i> sp. nov., <i>Serpens gallinarum</i> sp. nov., <i>Solibacillus faecavium</i> sp. nov., <i>Sporosarcina gallistercoris</i> sp. nov., <i>Sporosarcina quadrami</i> sp. nov., <i>Stenotrophomonas pennii</i> sp. nov. and <i>Ureibacillus galli</i> sp. nov.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11316582/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141534397","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":"<i>Promethearchaeum syntrophicum</i> gen. nov., sp. nov., an anaerobic, obligately syntrophic archaeon, the first isolate of the lineage 'Asgard' archaea, and proposal of the new archaeal phylum <i>Promethearchaeota</i> phyl. nov. and kingdom <i>Promethearchaeati</i> regn. nov.","authors":"Hiroyuki Imachi, Masaru K Nobu, Shingo Kato, Yoshihiro Takaki, Masayuki Miyazaki, Makoto Miyata, Miyuki Ogawara, Yumi Saito, Sanae Sakai, Yuhei O Tahara, Yoshinori Takano, Eiji Tasumi, Katsuyuki Uematsu, Toshihiro Yoshimura, Takashi Itoh, Moriya Ohkuma, Ken Takai","doi":"10.1099/ijsem.0.006435","DOIUrl":"10.1099/ijsem.0.006435","url":null,"abstract":"<p><p>An anaerobic, mesophilic, syntrophic, archaeon strain MK-D1^T, was isolated as a pure co-culture with <i>Methanogenium</i> sp. strain MK-MG from deep-sea methane seep sediment. This organism is, to our knowledge, the first cultured representative of 'Asgard' archaea, an archaeal group closely related to eukaryotes. Here, we describe the detailed physiology and phylogeny of MK-D1^T and propose <i>Promethearchaeum syntrophicum</i> gen. nov., sp. nov. to accommodate this strain. Cells were non-motile, small cocci, approximately 300-750 nm in diameter and produced membrane vesicles, chains of blebs and membrane-based protrusions. MK-D1^T grew at 4-30 °C with optimum growth at 20 °C. The strain grew chemoorganotrophically with amino acids, peptides and yeast extract with obligate dependence on syntrophy with H₂-/formate-utilizing organisms. MK-D1^T showed the fastest growth and highest maximum cell yield when grown with yeast extract as the substrate: approximately 3 months to full growth, reaching up to 6.7×10⁶ 16S rRNA gene copies ml^-1. MK-D1^T had a circular 4.32 Mb chromosome with a DNA G+C content of 31.1 mol%. The results of phylogenetic analyses of the 16S rRNA gene and conserved marker proteins indicated that the strain is affiliated with 'Asgard' archaea and more specifically DHVC1/DSAG/MBG-B and 'Lokiarchaeota'/'Lokiarchaeia'. On the basis of the results of 16S rRNA gene sequence analysis, the most closely related isolated relatives were <i>Infirmifilum lucidum</i> 3507LT^T (76.09 %) and <i>Methanothermobacter tenebrarum</i> RMAS^T (77.45 %) and the closest relative in enrichment culture was <i>Candidatus</i> 'Lokiarchaeum ossiferum' (95.39 %). The type strain of the type species is MK-D1^T (JCM 39240^T and JAMSTEC no. 115508). We propose the associated family, order, class, phylum, and kingdom as <i>Promethearchaeaceae</i> fam. nov., <i>Promethearchaeales</i> ord. nov., <i>Promethearchaeia</i> class. nov., <i>Promethearchaeota</i> phyl. nov., and <i>Promethearchaeati</i> regn. nov., respectively. These are in accordance with ICNP Rules 8 and 22 for nomenclature, Rule 30(3)(b) for validation and maintenance of the type strain, and Rule 31a for description as a member of an unambiguous syntrophic association.</p>","PeriodicalId":14390,"journal":{"name":"International journal of systematic and evolutionary microbiology","volume":null,"pages":null},"PeriodicalIF":2.0,"publicationDate":"2024-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11316595/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141534396","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}