Lian Xu , Hua-Mei Wei , Ye-Nan Sun , Qi Wu , Xiao-Yan Gao , Biao Shen , Ji-Quan Sun
{"title":"Halomonas rhizosphaerae sp.","authors":"Lian Xu , Hua-Mei Wei , Ye-Nan Sun , Qi Wu , Xiao-Yan Gao , Biao Shen , Ji-Quan Sun","doi":"10.1016/j.syapm.2024.126488","DOIUrl":null,"url":null,"abstract":"<div><p><span>Four vanillic acid-degrading bacterial strains, named LR5S13</span><sup>T</sup>, LR5S20, and M4R5S39<sup>T</sup> and LN1S58, were isolated from <em>Kalidium cuspidatum</em><span><span><span> rhizosphere and bulk soils, respectively. </span>Phylogenetic analysis based on 16S </span>rRNA gene as well as core genome revealed that LR5S13</span><sup>T</sup> and LR5S20 clustered closely with each other and with <span><em>Halomonas</em><em> ventosae</em></span> Al12<sup>T</sup>, and that the two strains shared the highest similarities (both 99.3 %) with <em>H. ventosae</em> Al12<sup>T</sup>, in contrast, M4R5S39<sup>T</sup> and LN1S58 clustered together and with <em>Halomonas heilongjiangensis</em> 9–2<sup>T</sup>, and the two strains shared the highest similarities (99.4 and 99.2 %, respectively) with <em>H. heilongjiangensis</em> 9–2<sup>T</sup>. The average nucleotides identities based on BLAST (ANIb) and digital DNA-DNA hybridization (dDDH) values of strains LR5S13<sup>T</sup> to LR5S20, and M4R5S39<sup>T</sup><span> to LN1S58, were both higher than the threshold values for delineation of a species. The ANIb and dDDH values of the four strains to their closely relatives were lower than the threshold values. All four strains take phosphatidylethanolamine<span>, phosphatidylglycerol<span>, and diphosphatidylglycerol as the major polar lipids, Summed Feature 8, Summed Feature 3, and C</span></span></span><sub>16:0</sub> as the major fatty acids. Based on the phylogenetic and phenotypic results, the four strains should be classified as two novel <em>Halomonas</em> species. Therefore, <em>Halomonas rhizosphaerae</em> sp. nov. (type strain LR5S13<sup>T</sup> = KCTC 8016<sup>T</sup> = CGMCC 1.62049<sup>T</sup>) and <em>Halomonas kalidii</em> (type strain M4R5S39<sup>T</sup> = KCTC 8015<sup>T</sup> = CGMCC 1.62047<sup>T</sup><span>) are proposed. The geographical distribution analysis based on 16S rRNA gene revealed that the two novel species are widely distributed across the globe, specifically in highly saline habits, especially in Central and Eastern Asia.</span></p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 1","pages":"Article 126488"},"PeriodicalIF":3.3000,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Halomonas rhizosphaerae sp. nov. and Halomonas kalidii sp. nov., two novel moderate halophilic phenolic acid-degrading species isolated from saline soil\",\"authors\":\"Lian Xu , Hua-Mei Wei , Ye-Nan Sun , Qi Wu , Xiao-Yan Gao , Biao Shen , Ji-Quan Sun\",\"doi\":\"10.1016/j.syapm.2024.126488\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p><span>Four vanillic acid-degrading bacterial strains, named LR5S13</span><sup>T</sup>, LR5S20, and M4R5S39<sup>T</sup> and LN1S58, were isolated from <em>Kalidium cuspidatum</em><span><span><span> rhizosphere and bulk soils, respectively. </span>Phylogenetic analysis based on 16S </span>rRNA gene as well as core genome revealed that LR5S13</span><sup>T</sup> and LR5S20 clustered closely with each other and with <span><em>Halomonas</em><em> ventosae</em></span> Al12<sup>T</sup>, and that the two strains shared the highest similarities (both 99.3 %) with <em>H. ventosae</em> Al12<sup>T</sup>, in contrast, M4R5S39<sup>T</sup> and LN1S58 clustered together and with <em>Halomonas heilongjiangensis</em> 9–2<sup>T</sup>, and the two strains shared the highest similarities (99.4 and 99.2 %, respectively) with <em>H. heilongjiangensis</em> 9–2<sup>T</sup>. The average nucleotides identities based on BLAST (ANIb) and digital DNA-DNA hybridization (dDDH) values of strains LR5S13<sup>T</sup> to LR5S20, and M4R5S39<sup>T</sup><span> to LN1S58, were both higher than the threshold values for delineation of a species. The ANIb and dDDH values of the four strains to their closely relatives were lower than the threshold values. All four strains take phosphatidylethanolamine<span>, phosphatidylglycerol<span>, and diphosphatidylglycerol as the major polar lipids, Summed Feature 8, Summed Feature 3, and C</span></span></span><sub>16:0</sub> as the major fatty acids. Based on the phylogenetic and phenotypic results, the four strains should be classified as two novel <em>Halomonas</em> species. Therefore, <em>Halomonas rhizosphaerae</em> sp. nov. (type strain LR5S13<sup>T</sup> = KCTC 8016<sup>T</sup> = CGMCC 1.62049<sup>T</sup>) and <em>Halomonas kalidii</em> (type strain M4R5S39<sup>T</sup> = KCTC 8015<sup>T</sup> = CGMCC 1.62047<sup>T</sup><span>) are proposed. The geographical distribution analysis based on 16S rRNA gene revealed that the two novel species are widely distributed across the globe, specifically in highly saline habits, especially in Central and Eastern Asia.</span></p></div>\",\"PeriodicalId\":22124,\"journal\":{\"name\":\"Systematic and applied microbiology\",\"volume\":\"47 1\",\"pages\":\"Article 126488\"},\"PeriodicalIF\":3.3000,\"publicationDate\":\"2024-01-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Systematic and applied microbiology\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S072320202400002X\",\"RegionNum\":2,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"BIOTECHNOLOGY & APPLIED MICROBIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Systematic and applied microbiology","FirstCategoryId":"99","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S072320202400002X","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"BIOTECHNOLOGY & APPLIED MICROBIOLOGY","Score":null,"Total":0}
Halomonas rhizosphaerae sp. nov. and Halomonas kalidii sp. nov., two novel moderate halophilic phenolic acid-degrading species isolated from saline soil
Four vanillic acid-degrading bacterial strains, named LR5S13T, LR5S20, and M4R5S39T and LN1S58, were isolated from Kalidium cuspidatum rhizosphere and bulk soils, respectively. Phylogenetic analysis based on 16S rRNA gene as well as core genome revealed that LR5S13T and LR5S20 clustered closely with each other and with Halomonas ventosae Al12T, and that the two strains shared the highest similarities (both 99.3 %) with H. ventosae Al12T, in contrast, M4R5S39T and LN1S58 clustered together and with Halomonas heilongjiangensis 9–2T, and the two strains shared the highest similarities (99.4 and 99.2 %, respectively) with H. heilongjiangensis 9–2T. The average nucleotides identities based on BLAST (ANIb) and digital DNA-DNA hybridization (dDDH) values of strains LR5S13T to LR5S20, and M4R5S39T to LN1S58, were both higher than the threshold values for delineation of a species. The ANIb and dDDH values of the four strains to their closely relatives were lower than the threshold values. All four strains take phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol as the major polar lipids, Summed Feature 8, Summed Feature 3, and C16:0 as the major fatty acids. Based on the phylogenetic and phenotypic results, the four strains should be classified as two novel Halomonas species. Therefore, Halomonas rhizosphaerae sp. nov. (type strain LR5S13T = KCTC 8016T = CGMCC 1.62049T) and Halomonas kalidii (type strain M4R5S39T = KCTC 8015T = CGMCC 1.62047T) are proposed. The geographical distribution analysis based on 16S rRNA gene revealed that the two novel species are widely distributed across the globe, specifically in highly saline habits, especially in Central and Eastern Asia.
期刊介绍:
Systematic and Applied Microbiology deals with various aspects of microbial diversity and systematics of prokaryotes. It focuses on Bacteria and Archaea; eukaryotic microorganisms will only be considered in rare cases. The journal perceives a broad understanding of microbial diversity and encourages the submission of manuscripts from the following branches of microbiology: