Outi Niemi, Pia Laine, Patrik Koskinen, Miia Pasanen, Ville Pennanen, Heidi Harjunpää, Johanna Nykyri, Liisa Holm, Lars Paulin, Petri Auvinen, E Tapio Palva, Minna Pirhonen
{"title":"Genome sequence of the model plant pathogen <i>Pectobacterium carotovorum</i> SCC1.","authors":"Outi Niemi, Pia Laine, Patrik Koskinen, Miia Pasanen, Ville Pennanen, Heidi Harjunpää, Johanna Nykyri, Liisa Holm, Lars Paulin, Petri Auvinen, E Tapio Palva, Minna Pirhonen","doi":"10.1186/s40793-017-0301-z","DOIUrl":"10.1186/s40793-017-0301-z","url":null,"abstract":"<p><p>Bacteria of the genus <i>Pectobacterium</i> are economically important plant pathogens that cause soft rot disease on a wide variety of plant species. Here, we report the genome sequence of <i>Pectobacterium carotovorum</i> strain SCC1, a Finnish soft rot model strain isolated from a diseased potato tuber in the early 1980's. The genome of strain SCC1 consists of one circular chromosome of 4,974,798 bp and one circular plasmid of 5524 bp. In total 4451 genes were predicted, of which 4349 are protein coding and 102 are RNA genes.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"87"},"PeriodicalIF":0.0,"publicationDate":"2017-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5738896/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35687046","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Raquel Quatrini, Lorena V Escudero, Ana Moya-Beltrán, Pedro A Galleguillos, Francisco Issotta, Mauricio Acosta, Juan Pablo Cárdenas, Harold Nuñez, Karina Salinas, David S Holmes, Cecilia Demergasso
{"title":"Draft genome sequence of <i>Acidithiobacillus thiooxidans</i> CLST isolated from the acidic hypersaline Gorbea salt flat in northern Chile.","authors":"Raquel Quatrini, Lorena V Escudero, Ana Moya-Beltrán, Pedro A Galleguillos, Francisco Issotta, Mauricio Acosta, Juan Pablo Cárdenas, Harold Nuñez, Karina Salinas, David S Holmes, Cecilia Demergasso","doi":"10.1186/s40793-017-0305-8","DOIUrl":"10.1186/s40793-017-0305-8","url":null,"abstract":"<p><p>10.1601/nm.2199 CLST is an extremely acidophilic gamma-proteobacteria that was isolated from the Gorbea salt flat, an acidic hypersaline environment in northern Chile. This kind of environment is considered a terrestrial analog of ancient Martian terrains and a source of new material for biotechnological applications. 10.1601/nm.2199 plays a key role in industrial bioleaching; it has the capacity of generating and maintaining acidic conditions by producing sulfuric acid and it can also remove sulfur layers from the surface of minerals, which are detrimental for their dissolution. CLST is a strain of 10.1601/nm.2199 able to tolerate moderate chloride concentrations (up to 15 g L<sup>-1</sup> Cl<sup>-</sup>), a feature that is quite unusual in extreme acidophilic microorganisms. Basic microbiological features and genomic properties of this biotechnologically relevant strain are described in this work. The 3,974,949 bp draft genome is arranged into 40 scaffolds of 389 contigs containing 3866 protein-coding genes and 75 RNAs encoding genes. This is the first draft genome of a halotolerant 10.1601/nm.2199 strain. The release of the genome sequence of this strain improves representation of these extreme acidophilic Gram negative bacteria in public databases and strengthens the framework for further investigation of the physiological diversity and ecological function of 10.1601/nm.2199 populations.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"84"},"PeriodicalIF":0.0,"publicationDate":"2017-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5735861/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35681868","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Complete genome of a novel virulent phage ST0 lysing <i>Escherichia coli</i> H8.","authors":"Honghui Liu, Xinchun Liu, Jinqing Li","doi":"10.1186/s40793-017-0304-9","DOIUrl":"https://doi.org/10.1186/s40793-017-0304-9","url":null,"abstract":"<p><p>Phage ST0 lysing <i>Escherichia coli</i> H8 was isolated from wastewater and sequenced using an Illumina HiSeq system. Genomic analyses revealed that it was virulent phages and contained a circular double-stranded DNA genome, consisting of 170,496 nucleotides with an average G + C content of 37.67%. This study may provide possible alternative materials for phage therapy.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"85"},"PeriodicalIF":0.0,"publicationDate":"2017-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0304-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35687106","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Akbar Adjie Pratama, Irshad Ul Haq, Rashid Nazir, Maryam Chaib De Mares, Jan Dirk van Elsas
{"title":"Draft genome sequences of three fungal-interactive <i>Paraburkholderia terrae</i> strains, BS007, BS110 and BS437.","authors":"Akbar Adjie Pratama, Irshad Ul Haq, Rashid Nazir, Maryam Chaib De Mares, Jan Dirk van Elsas","doi":"10.1186/s40793-017-0293-8","DOIUrl":"https://doi.org/10.1186/s40793-017-0293-8","url":null,"abstract":"<p><p>Here, we report the draft genome sequences of three fungal-interactive 10.1601/nm.27008 strains, denoted BS110, BS007 and BS437. Phylogenetic analyses showed that the three strains belong to clade II of the genus 10.1601/nm.1619, which was recently renamed 10.1601/nm.26956. This novel genus primarily contains environmental species, encompassing non-pathogenic plant- as well as fungal-interactive species. The genome of strain BS007 consists of 11,025,273 bp, whereas those of strains BS110 and BS437 have 11,178,081 and 11,303,071 bp, respectively. Analyses of the three annotated genomes revealed the presence of (1) a large suite of substrate capture systems, and (2) a suite of genetic systems required for adaptation to microenvironments in soil and the mycosphere. Thus, genes encoding traits that potentially confer fungal interactivity were found, such as type 4 pili, type 1, 2, 3, 4 and 6 secretion systems, and biofilm formation (PGA, alginate and <i>pel</i>) and glycerol uptake systems. Furthermore, the three genomes also revealed the presence of a highly conserved five-gene cluster that had previously been shown to be upregulated upon contact with fungal hyphae. Moreover, a considerable number of prophage-like and CRISPR spacer sequences was found, next to genetic systems responsible for secondary metabolite production. Overall, the three 10.1601/nm.27008 strains possess the genetic repertoire necessary for adaptation to diverse soil niches, including those influenced by soil fungi.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"81"},"PeriodicalIF":0.0,"publicationDate":"2017-12-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0293-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35681866","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ananda Shankar Bhattacharjee, Amir Mohaghegh Motlagh, Eddie B Gilcrease, Md Imdadul Islam, Sherwood R Casjens, Ramesh Goel
{"title":"Complete genome sequence of lytic bacteriophage RG-2014 that infects the multidrug resistant bacterium <i>Delftia tsuruhatensis</i> ARB-1.","authors":"Ananda Shankar Bhattacharjee, Amir Mohaghegh Motlagh, Eddie B Gilcrease, Md Imdadul Islam, Sherwood R Casjens, Ramesh Goel","doi":"10.1186/s40793-017-0290-y","DOIUrl":"https://doi.org/10.1186/s40793-017-0290-y","url":null,"abstract":"<p><p>A lytic bacteriophage RG-2014 infecting a biofilm forming multidrug resistant bacterium <i>Delftia tsuruhatensis</i> strain ARB-1 as its host was isolated from a full-scale municipal wastewater treatment plant. Lytic phage RG-2014 was isolated for developing phage based therapeutic approaches against <i>Delftia tsuruhatensis</i> strain ARB-1. The strain ARB-1 belongs to the <i>Comamonadaceae</i> family of the <i>Betaproteobacteria</i> class. RG-2014 was characterized for its type, burst size, latent and eclipse time periods of 150 ± 9 PFU/cell, 10-min, <5-min, respectively. The phage was found to be a dsDNA virus belonging to the <i>Podoviridae</i> family. It has an isometric icosahedrally shaped capsid with a diameter of 85 nm. The complete genome of the isolated phage was sequenced and determined to be 73.8 kbp in length with a G + C content of 59.9%. Significant similarities in gene homology and order were observed between <i>Delftia</i> phage RG-2014 and the <i>E. coli</i> phage N4 indicating that it is a member of the N4-like phage group.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"82"},"PeriodicalIF":0.0,"publicationDate":"2017-12-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0290-y","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35681867","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Fernando Uriel Rojas-Rojas, Erika Yanet Tapia-García, Maskit Maymon, Ethan Humm, Marcel Huntemann, Alicia Clum, Manoj Pillay, Krishnaveni Palaniappan, Neha Varghese, Natalia Mikhailova, Dimitrios Stamatis, T B K Reddy, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides, Tanja Woyke, Nicole Shapiro, Ann M Hirsch, Paulina Estrada-de Los Santos
{"title":"Draft genome of <i>Paraburkholderia caballeronis</i> TNe-841<sup>T</sup>, a free-living, nitrogen-fixing, tomato plant-associated bacterium.","authors":"Fernando Uriel Rojas-Rojas, Erika Yanet Tapia-García, Maskit Maymon, Ethan Humm, Marcel Huntemann, Alicia Clum, Manoj Pillay, Krishnaveni Palaniappan, Neha Varghese, Natalia Mikhailova, Dimitrios Stamatis, T B K Reddy, Victor Markowitz, Natalia Ivanova, Nikos Kyrpides, Tanja Woyke, Nicole Shapiro, Ann M Hirsch, Paulina Estrada-de Los Santos","doi":"10.1186/s40793-017-0294-7","DOIUrl":"https://doi.org/10.1186/s40793-017-0294-7","url":null,"abstract":"<p><p>10.1601/nm.26956 <i>caballeronis</i> is a plant-associated bacterium. Strain TNe-841<sup>T</sup> was isolated from the rhizosphere of tomato (<i>Solanum lycopersicum</i> L. var. lycopersicum) growing in Nepantla Mexico State. Initially this bacterium was found to effectively nodulate <i>Phaseolus vulgaris</i> L. However, from an analysis of the genome of strain TNe-841<sup>T</sup> and from repeat inoculation experiments, we found that this strain did not nodulate bean and also lacked nodulation genes, suggesting that the genes were lost. The genome consists of 7,115,141 bp with a G + C content of 67.01%. The sequence includes 6251 protein-coding genes and 87 RNA genes.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"80"},"PeriodicalIF":0.0,"publicationDate":"2017-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0294-7","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35668849","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nils-Kåre Birkeland, Peter Schönheit, Lianna Poghosyan, Anne Fiebig, Hans-Peter Klenk
{"title":"Complete genome sequence analysis of <i>Archaeoglobus fulgidus</i> strain 7324 (DSM 8774), a hyperthermophilic archaeal sulfate reducer from a North Sea oil field.","authors":"Nils-Kåre Birkeland, Peter Schönheit, Lianna Poghosyan, Anne Fiebig, Hans-Peter Klenk","doi":"10.1186/s40793-017-0296-5","DOIUrl":"https://doi.org/10.1186/s40793-017-0296-5","url":null,"abstract":"<p><p><i>Archaeoglobus fulgidus</i> is the type species of genus <i>Archaeoglobus</i> Stetter 1998, a hyperthermophilic sulfate reducing group within the <i>Archaeoglobi</i> class of the euryarchaeota phylum. Members of this genus grow heterotrophically or chemolithoautotrophically with sulfate or thiosulfate as electron acceptors. Except for <i>A. fulgidus</i> strain 7324 and the candidate species \"<i>Archaeoglobus lithotrophicus</i>\", which both originate from deep oil-fields, the other members of this genus have been recovered from marine hydrothermal systems. Here we describe the features of the <i>A. fulgidus</i> strain 7324 genome as compared to the <i>A. fulgidus</i> VC16 type strain. The 2.3 Mbp genome sequence of strain 7324 shares about 93.5% sequence identity with that of strain VC16<sup>T</sup> but is about 138 Kbp longer, which is mostly due to two large 'insertions' carrying one extra <i>cdc6</i> (cell-cycle control protein 6) gene, extra CRISPR elements and mobile genetic elements, a high-GC ncRNA gene (<i>hgc</i>C) and a large number of hypothetical gene functions. A comparison with four other <i>Archaeoglobus</i> spp. genomes identified 1001 core <i>Archaeoglobus</i> genes and more than 2900 pan-genome orthologous genes.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"79"},"PeriodicalIF":0.0,"publicationDate":"2017-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0296-5","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35681899","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Matías Castro, Ana Moya-Beltrán, Paulo C Covarrubias, Mónica Gonzalez, Juan Pablo Cardenas, Francisco Issotta, Harold Nuñez, Lillian G Acuña, Gonzalo Encina, David S Holmes, D Barrie Johnson, Raquel Quatrini
{"title":"Draft genome sequence of the type strain of the sulfur-oxidizing acidophile, <i>Acidithiobacillus albertensis</i> (DSM 14366).","authors":"Matías Castro, Ana Moya-Beltrán, Paulo C Covarrubias, Mónica Gonzalez, Juan Pablo Cardenas, Francisco Issotta, Harold Nuñez, Lillian G Acuña, Gonzalo Encina, David S Holmes, D Barrie Johnson, Raquel Quatrini","doi":"10.1186/s40793-017-0282-y","DOIUrl":"10.1186/s40793-017-0282-y","url":null,"abstract":"<p><p><i>Acidithiobacillus albertensis</i> is an extremely acidophilic, mesophilic, obligatory autotrophic sulfur-oxidizer, with potential importance in the bioleaching of sulfidic metal ores, first described in the 1980s. Here we present the draft genome sequence of <i>Acidithiobacillus albertensis</i> DSM 14366<sup>T</sup>, thereby both filling a long-standing gap in the genomics of the acidithiobacilli, and providing further insight into the understanding of the biology of the non iron-oxidizing members of the <i>Acidithiobacillus</i> genus. The assembled genome is 3,1 Mb, and contains 47 tRNAs, tmRNA gene and 2 rRNA operons, along with 3149 protein-coding predicted genes. The Whole Genome Shotgun project was deposited in DDBJ/EMBL/GenBank under the accession MOAD00000000.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"77"},"PeriodicalIF":0.0,"publicationDate":"2017-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5731081/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35668847","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Gina López, Carolina Diaz-Cárdenas, Nicole Shapiro, Tanja Woyke, Nikos C Kyrpides, J David Alzate, Laura N González, Silvia Restrepo, Sandra Baena
{"title":"Draft genome sequence of <i>Pseudomonas extremaustralis</i> strain USBA-GBX 515 isolated from Superparamo soil samples in Colombian Andes.","authors":"Gina López, Carolina Diaz-Cárdenas, Nicole Shapiro, Tanja Woyke, Nikos C Kyrpides, J David Alzate, Laura N González, Silvia Restrepo, Sandra Baena","doi":"10.1186/s40793-017-0292-9","DOIUrl":"https://doi.org/10.1186/s40793-017-0292-9","url":null,"abstract":"<p><p>Here we present the physiological features of <i>Pseudomonas extremaustralis</i> strain USBA-GBX-515 (<b>CMPUJU 515</b>), isolated from soils in Superparamo ecosystems, > 4000 m.a.s.l, in the northern Andes of South America, as well as the thorough analysis of the draft genome. Strain USBA-GBX-515 is a Gram-negative rod shaped bacterium of 1.0-3.0 μm × 0.5-1 μm, motile and unable to form spores, it grows aerobically and cells show one single flagellum. Several genetic indices, the phylogenetic analysis of the 16S rRNA gene sequence and the phenotypic characterization confirmed that USBA-GBX-515 is a member of <i>Pseudomonas</i> genus and, the similarity of the 16S rDNA sequence was 100% with <i>P. extremaustralis</i> strain CT14-3<sup>T</sup>. The draft genome of <i>P. extremaustralis</i> strain USBA-GBX-515 consisted of 6,143,638 Mb with a G + C content of 60.9 mol%. A total of 5665 genes were predicted and of those, 5544 were protein coding genes and 121 were RNA genes. The distribution of genes into COG functional categories showed that most genes were classified in the category of amino acid transport and metabolism (10.5%) followed by transcription (8.4%) and signal transduction mechanisms (7.3%). We performed experimental analyses of the lipolytic activity and results showed activity mainly on short chain fatty acids. The genome analysis demonstrated the existence of two genes, <i>lip515A</i> and <i>est515A,</i> related to a triacylglycerol lipase and carboxylesterase, respectively. Ammonification genes were also observed, mainly nitrate reductase genes. Genes related with synthesis of poly-hydroxyalkanoates (PHAs), especially poly-hydroxybutyrates (PHBs), were detected. The <i>phaABC</i> and <i>phbABC</i> operons also appeared complete in the genome. <i>P. extremaustralis</i> strain USBA-GBX-515 conserves the same gene organization of the type strain CT14-3<sup>T</sup>. We also thoroughly analyzed the potential for production of secondary metabolites finding close to 400 genes in 32 biosynthetic gene clusters involved in their production.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"78"},"PeriodicalIF":0.0,"publicationDate":"2017-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0292-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35668848","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Marianna Nagymihály, Bálint M Vásarhelyi, Quentin Barrière, Teik-Min Chong, Balázs Bálint, Péter Bihari, Kar-Wai Hong, Balázs Horváth, Jamal Ibijbijen, Mohammed Amar, Attila Farkas, Éva Kondorosi, Kok-Gan Chan, Véronique Gruber, Pascal Ratet, Peter Mergaert, Attila Kereszt
{"title":"The complete genome sequence of <i>Ensifer meliloti</i> strain CCMM B554 (FSM-MA), a highly effective nitrogen-fixing microsymbiont of <i>Medicago truncatula</i> Gaertn.","authors":"Marianna Nagymihály, Bálint M Vásarhelyi, Quentin Barrière, Teik-Min Chong, Balázs Bálint, Péter Bihari, Kar-Wai Hong, Balázs Horváth, Jamal Ibijbijen, Mohammed Amar, Attila Farkas, Éva Kondorosi, Kok-Gan Chan, Véronique Gruber, Pascal Ratet, Peter Mergaert, Attila Kereszt","doi":"10.1186/s40793-017-0298-3","DOIUrl":"https://doi.org/10.1186/s40793-017-0298-3","url":null,"abstract":"<p><p>Strain CCMM B554, also known as FSM-MA, is a soil dwelling and nodule forming, nitrogen-fixing bacterium isolated from the nodules of the legume <i>Medicago arborea</i> L. in the Maamora Forest, Morocco. The strain forms effective nitrogen fixing nodules on species of the <i>Medicago</i>, <i>Melilotus</i> and <i>Trigonella</i> genera and is exceptional because it is a highly effective symbiotic partner of the two most widely used accessions, A17 and R108, of the model legume <i>Medicago truncatula</i> Gaertn. Based on 16S rRNA gene sequence, multilocus sequence and average nucleotide identity analyses, FSM-MA is identified as a new <i>Ensifer meliloti</i> strain. The genome is 6,70 Mbp and is comprised of the chromosome (3,64 Mbp) harboring 3574 predicted genes and two megaplasmids, pSymA (1,42 Mbp) and pSymB (1,64 Mbp) with respectively 1481 and 1595 predicted genes. The average GC content of the genome is 61.93%. The FSM-MA genome structure is highly similar and co-linear to other <i>E. meliloti</i> strains in the chromosome and the pSymB megaplasmid while, in contrast, it shows high variability in the pSymA plasmid. The large number of strain-specific sequences in pSymA as well as strain-specific genes on pSymB involved in the biosynthesis of the lipopolysaccharide and capsular polysaccharide surface polysaccharides may encode novel symbiotic functions explaining the high symbiotic performance of FSM-MA.</p>","PeriodicalId":21965,"journal":{"name":"Standards in Genomic Sciences","volume":"12 ","pages":"75"},"PeriodicalIF":0.0,"publicationDate":"2017-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s40793-017-0298-3","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"35669432","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}