{"title":"描述从法国卡马格地区沿海咸水湿地水中分离出的果胶杆菌科新属 Prodigiosinella gen.","authors":"Nicole Hugouvieux-Cotte-Pattat , Jean-Pierre Flandrois , Jérôme Briolay , Sylvie Reverchon , Céline Brochier-Armanet","doi":"10.1016/j.syapm.2024.126497","DOIUrl":null,"url":null,"abstract":"<div><p>The <em>Pectobacteriaceae</em> family comprises plant pathogens able to provoke diverse diseases, including plant maceration due to the production of pectinases disrupting the plant cell wall. To better understand their diversity, a survey of pectinolytic bacteria was performed in brackish lakes of the French region La Camargue near the Mediterranean Sea. The genome of six atypical isolates was sequenced; their size is around 4.8 to 5.0 Mb, including a plasmid of 59 to 61 kb; their G+C values range from 49.1 to 49.3 mol%. Phylogenetic analyses indicated that the novel strains form a new clade of <em>Pectobacteriaceae</em> that branches at the basis of the group encompassing the genera <em>Lonsdalea</em>, <em>Musicola</em>, and <em>Dickeya</em>. Based on phenotypic, genomic and phylogenetic characteristics, we propose the creation of a new genus with the name <em>Prodigiosinella</em> gen. nov<em>.</em> Both the phenotypic and phylogenetic analyses separated the strains into two distinct subgroups, G1 and G2. The type strain LS101<sup>T</sup> (CFBP 8826<sup>T</sup> = LMG 32072<sup>T</sup>) and strain CE70 (CFBP 9054 = LMG 32867) are representative G1 and G2 members, respectively. Three genomic methods were used to analyze DNA–DNA relatedness: digital DNA–DNA hybridization (isDDH), average nucleotide identity (ANI), and genome alignment fraction (AF). They revealed a close relationship between genomes of the two groups, supporting their appurtenance to a same species for which we propose the name <em>Prodigiosinella aquatilis</em> sp. nov. Four strains previously designated as <em>Serratia</em> sp. (ATCC 39006), <em>Brenneria</em> “<em>ulupoensis”</em> (K61) or <em>Erwinia</em> sp. (MK01 and MK09) belong to the new genus <em>Prodigiosinella</em>.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 2","pages":"Article 126497"},"PeriodicalIF":3.3000,"publicationDate":"2024-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0723202024000110/pdfft?md5=80fdafebb6872b34e10a36ad1568139f&pid=1-s2.0-S0723202024000110-main.pdf","citationCount":"0","resultStr":"{\"title\":\"Description of a new genus of the Pectobacteriaceae family isolated from water in coastal brackish wetlands of the French Camargue region, Prodigiosinella gen. nov., including the new species Prodigiosinella aquatilis sp. nov\",\"authors\":\"Nicole Hugouvieux-Cotte-Pattat , Jean-Pierre Flandrois , Jérôme Briolay , Sylvie Reverchon , Céline Brochier-Armanet\",\"doi\":\"10.1016/j.syapm.2024.126497\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p>The <em>Pectobacteriaceae</em> family comprises plant pathogens able to provoke diverse diseases, including plant maceration due to the production of pectinases disrupting the plant cell wall. To better understand their diversity, a survey of pectinolytic bacteria was performed in brackish lakes of the French region La Camargue near the Mediterranean Sea. The genome of six atypical isolates was sequenced; their size is around 4.8 to 5.0 Mb, including a plasmid of 59 to 61 kb; their G+C values range from 49.1 to 49.3 mol%. Phylogenetic analyses indicated that the novel strains form a new clade of <em>Pectobacteriaceae</em> that branches at the basis of the group encompassing the genera <em>Lonsdalea</em>, <em>Musicola</em>, and <em>Dickeya</em>. Based on phenotypic, genomic and phylogenetic characteristics, we propose the creation of a new genus with the name <em>Prodigiosinella</em> gen. nov<em>.</em> Both the phenotypic and phylogenetic analyses separated the strains into two distinct subgroups, G1 and G2. The type strain LS101<sup>T</sup> (CFBP 8826<sup>T</sup> = LMG 32072<sup>T</sup>) and strain CE70 (CFBP 9054 = LMG 32867) are representative G1 and G2 members, respectively. Three genomic methods were used to analyze DNA–DNA relatedness: digital DNA–DNA hybridization (isDDH), average nucleotide identity (ANI), and genome alignment fraction (AF). They revealed a close relationship between genomes of the two groups, supporting their appurtenance to a same species for which we propose the name <em>Prodigiosinella aquatilis</em> sp. nov. Four strains previously designated as <em>Serratia</em> sp. (ATCC 39006), <em>Brenneria</em> “<em>ulupoensis”</em> (K61) or <em>Erwinia</em> sp. (MK01 and MK09) belong to the new genus <em>Prodigiosinella</em>.</p></div>\",\"PeriodicalId\":22124,\"journal\":{\"name\":\"Systematic and applied microbiology\",\"volume\":\"47 2\",\"pages\":\"Article 126497\"},\"PeriodicalIF\":3.3000,\"publicationDate\":\"2024-02-21\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.sciencedirect.com/science/article/pii/S0723202024000110/pdfft?md5=80fdafebb6872b34e10a36ad1568139f&pid=1-s2.0-S0723202024000110-main.pdf\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Systematic and applied microbiology\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S0723202024000110\",\"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/S0723202024000110","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}
Description of a new genus of the Pectobacteriaceae family isolated from water in coastal brackish wetlands of the French Camargue region, Prodigiosinella gen. nov., including the new species Prodigiosinella aquatilis sp. nov
The Pectobacteriaceae family comprises plant pathogens able to provoke diverse diseases, including plant maceration due to the production of pectinases disrupting the plant cell wall. To better understand their diversity, a survey of pectinolytic bacteria was performed in brackish lakes of the French region La Camargue near the Mediterranean Sea. The genome of six atypical isolates was sequenced; their size is around 4.8 to 5.0 Mb, including a plasmid of 59 to 61 kb; their G+C values range from 49.1 to 49.3 mol%. Phylogenetic analyses indicated that the novel strains form a new clade of Pectobacteriaceae that branches at the basis of the group encompassing the genera Lonsdalea, Musicola, and Dickeya. Based on phenotypic, genomic and phylogenetic characteristics, we propose the creation of a new genus with the name Prodigiosinella gen. nov. Both the phenotypic and phylogenetic analyses separated the strains into two distinct subgroups, G1 and G2. The type strain LS101T (CFBP 8826T = LMG 32072T) and strain CE70 (CFBP 9054 = LMG 32867) are representative G1 and G2 members, respectively. Three genomic methods were used to analyze DNA–DNA relatedness: digital DNA–DNA hybridization (isDDH), average nucleotide identity (ANI), and genome alignment fraction (AF). They revealed a close relationship between genomes of the two groups, supporting their appurtenance to a same species for which we propose the name Prodigiosinella aquatilis sp. nov. Four strains previously designated as Serratia sp. (ATCC 39006), Brenneria “ulupoensis” (K61) or Erwinia sp. (MK01 and MK09) belong to the new genus Prodigiosinella.
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: