{"title":"从土壤中分离的 Agromyces silvae sp.","authors":"Hyosun Lee, Dhiraj Kumar Chaudhary, Dong-Uk Kim","doi":"10.4014/jmb.2404.04007","DOIUrl":null,"url":null,"abstract":"<p><p>Three Gram-stain-positive, aerobic, rod-shaped, and non-motile bacteria, labelled as W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup>, were isolated from soil, and performed their polyphasic taxonomic investigation. The phylogenetic and 16S rRNA gene sequence analysis showed that strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> belonged to the genera <i>Agromyces</i>, <i>Rathayibacter</i>, and <i>Nocardioides</i>, respectively. Strain W11<sup>T</sup> was closely affiliated with <i>Agromyces cavernae</i> SYSU K20354<sup>T</sup> (98.1%), strain SW19<sup>T</sup> showed the closest affiliation with <i>Rathayibacter rubneri</i> ZW T2_19<sup>T</sup> (97.0%), and strain YR1<sup>T</sup> was most closely related to <i>Nocardioides marmorisolisilvae</i> KIS18-7<sup>T</sup> (98.0%). The genome sizes of strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> were 4,181,720 bp, 4,740,677 bp, and 4,228,226 bp, respectively, with DNA G+C contents of 70.5%, 64.2%, and 69.7%, respectively. Average nucleotide identity and digital DNA-DNA hybridization values of W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> with their respective reference species were <79.6% and <23.6%, respectively. The predominant cellular fatty acids detected in strain W11<sup>T</sup> were anteiso-C<sub>15:0</sub>, iso-C<sub>16:0</sub>, and anteiso-C<sub>17:0</sub>. In strain SW19<sup>T</sup>, they were summed feature 9 (C<sub>16:0</sub> 10-methyl and/or iso-C<sub>17:1</sub>ω 9c), anteiso-C<sub>17:0</sub>, and anteiso-C<sub>15:0</sub>. Strain YR1<sup>T</sup> exhibited C<sub>18:1</sub>ω 9c, C<sub>18:0</sub> 10-methyl, TBSA, and anteiso-C<sub>15:0</sub> as its major cellular fatty acids. Overall, the polyphasic taxonomic comparisons indicated that strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> represent novel species within the genera <i>Agromyces</i>, <i>Rathayibacter</i>, and <i>Nocardioides</i>, respectively. Accordingly, we propose the names <i>Agromyces silvae</i> sp. nov., with the type strain W11<sup>T</sup> (=KCTC 49818<sup>T</sup> =NBRC 115999<sup>T</sup>), <i>Rathayibacter soli</i> sp. nov., with the type strain SW19<sup>T</sup> (=KCTC 49860<sup>T</sup> =NBRC 116108<sup>T</sup>), and <i>Nocardioides terrisoli</i> sp. nov., with the type strain YR1<sup>T</sup> (=KCTC 49863<sup>T</sup> =NBRC 116165<sup>T</sup>).</p>","PeriodicalId":16481,"journal":{"name":"Journal of microbiology and biotechnology","volume":null,"pages":null},"PeriodicalIF":2.5000,"publicationDate":"2024-07-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11294650/pdf/","citationCount":"0","resultStr":"{\"title\":\"<i>Agromyces silvae</i> sp. nov., <i>Rathayibacter soli</i> sp. nov., and <i>Nocardioides terrisoli</i> sp. nov., Isolated from Soil.\",\"authors\":\"Hyosun Lee, Dhiraj Kumar Chaudhary, Dong-Uk Kim\",\"doi\":\"10.4014/jmb.2404.04007\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Three Gram-stain-positive, aerobic, rod-shaped, and non-motile bacteria, labelled as W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup>, were isolated from soil, and performed their polyphasic taxonomic investigation. The phylogenetic and 16S rRNA gene sequence analysis showed that strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> belonged to the genera <i>Agromyces</i>, <i>Rathayibacter</i>, and <i>Nocardioides</i>, respectively. Strain W11<sup>T</sup> was closely affiliated with <i>Agromyces cavernae</i> SYSU K20354<sup>T</sup> (98.1%), strain SW19<sup>T</sup> showed the closest affiliation with <i>Rathayibacter rubneri</i> ZW T2_19<sup>T</sup> (97.0%), and strain YR1<sup>T</sup> was most closely related to <i>Nocardioides marmorisolisilvae</i> KIS18-7<sup>T</sup> (98.0%). The genome sizes of strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> were 4,181,720 bp, 4,740,677 bp, and 4,228,226 bp, respectively, with DNA G+C contents of 70.5%, 64.2%, and 69.7%, respectively. Average nucleotide identity and digital DNA-DNA hybridization values of W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> with their respective reference species were <79.6% and <23.6%, respectively. The predominant cellular fatty acids detected in strain W11<sup>T</sup> were anteiso-C<sub>15:0</sub>, iso-C<sub>16:0</sub>, and anteiso-C<sub>17:0</sub>. In strain SW19<sup>T</sup>, they were summed feature 9 (C<sub>16:0</sub> 10-methyl and/or iso-C<sub>17:1</sub>ω 9c), anteiso-C<sub>17:0</sub>, and anteiso-C<sub>15:0</sub>. Strain YR1<sup>T</sup> exhibited C<sub>18:1</sub>ω 9c, C<sub>18:0</sub> 10-methyl, TBSA, and anteiso-C<sub>15:0</sub> as its major cellular fatty acids. Overall, the polyphasic taxonomic comparisons indicated that strains W11<sup>T</sup>, SW19<sup>T</sup>, and YR1<sup>T</sup> represent novel species within the genera <i>Agromyces</i>, <i>Rathayibacter</i>, and <i>Nocardioides</i>, respectively. Accordingly, we propose the names <i>Agromyces silvae</i> sp. nov., with the type strain W11<sup>T</sup> (=KCTC 49818<sup>T</sup> =NBRC 115999<sup>T</sup>), <i>Rathayibacter soli</i> sp. nov., with the type strain SW19<sup>T</sup> (=KCTC 49860<sup>T</sup> =NBRC 116108<sup>T</sup>), and <i>Nocardioides terrisoli</i> sp. nov., with the type strain YR1<sup>T</sup> (=KCTC 49863<sup>T</sup> =NBRC 116165<sup>T</sup>).</p>\",\"PeriodicalId\":16481,\"journal\":{\"name\":\"Journal of microbiology and biotechnology\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":2.5000,\"publicationDate\":\"2024-07-28\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11294650/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of microbiology and biotechnology\",\"FirstCategoryId\":\"5\",\"ListUrlMain\":\"https://doi.org/10.4014/jmb.2404.04007\",\"RegionNum\":4,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2024/5/23 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"Q3\",\"JCRName\":\"BIOTECHNOLOGY & APPLIED MICROBIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of microbiology and biotechnology","FirstCategoryId":"5","ListUrlMain":"https://doi.org/10.4014/jmb.2404.04007","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2024/5/23 0:00:00","PubModel":"Epub","JCR":"Q3","JCRName":"BIOTECHNOLOGY & APPLIED MICROBIOLOGY","Score":null,"Total":0}
Agromyces silvae sp. nov., Rathayibacter soli sp. nov., and Nocardioides terrisoli sp. nov., Isolated from Soil.
Three Gram-stain-positive, aerobic, rod-shaped, and non-motile bacteria, labelled as W11T, SW19T, and YR1T, were isolated from soil, and performed their polyphasic taxonomic investigation. The phylogenetic and 16S rRNA gene sequence analysis showed that strains W11T, SW19T, and YR1T belonged to the genera Agromyces, Rathayibacter, and Nocardioides, respectively. Strain W11T was closely affiliated with Agromyces cavernae SYSU K20354T (98.1%), strain SW19T showed the closest affiliation with Rathayibacter rubneri ZW T2_19T (97.0%), and strain YR1T was most closely related to Nocardioides marmorisolisilvae KIS18-7T (98.0%). The genome sizes of strains W11T, SW19T, and YR1T were 4,181,720 bp, 4,740,677 bp, and 4,228,226 bp, respectively, with DNA G+C contents of 70.5%, 64.2%, and 69.7%, respectively. Average nucleotide identity and digital DNA-DNA hybridization values of W11T, SW19T, and YR1T with their respective reference species were <79.6% and <23.6%, respectively. The predominant cellular fatty acids detected in strain W11T were anteiso-C15:0, iso-C16:0, and anteiso-C17:0. In strain SW19T, they were summed feature 9 (C16:0 10-methyl and/or iso-C17:1ω 9c), anteiso-C17:0, and anteiso-C15:0. Strain YR1T exhibited C18:1ω 9c, C18:0 10-methyl, TBSA, and anteiso-C15:0 as its major cellular fatty acids. Overall, the polyphasic taxonomic comparisons indicated that strains W11T, SW19T, and YR1T represent novel species within the genera Agromyces, Rathayibacter, and Nocardioides, respectively. Accordingly, we propose the names Agromyces silvae sp. nov., with the type strain W11T (=KCTC 49818T =NBRC 115999T), Rathayibacter soli sp. nov., with the type strain SW19T (=KCTC 49860T =NBRC 116108T), and Nocardioides terrisoli sp. nov., with the type strain YR1T (=KCTC 49863T =NBRC 116165T).
期刊介绍:
The Journal of Microbiology and Biotechnology (JMB) is a monthly international journal devoted to the advancement and dissemination of scientific knowledge pertaining to microbiology, biotechnology, and related academic disciplines. It covers various scientific and technological aspects of Molecular and Cellular Microbiology, Environmental Microbiology and Biotechnology, Food Biotechnology, and Biotechnology and Bioengineering (subcategories are listed below). Launched in March 1991, the JMB is published by the Korean Society for Microbiology and Biotechnology (KMB) and distributed worldwide.