Abstract:
: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 Medicago arborea L. in the Maamora Forest, Morocco. The strain forms effective nitrogen fixing nodules on species of the Medicago, Melilotus and Trigonella 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 Medicago truncatula Gaertn. Based on 16S rRNA gene sequence, multilocus sequence and average nucleotide identity analyses, FSM-MA is identified as a new Ensifer meliloti 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 E. meliloti 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.
journal_name
Stand Genomic Scijournal_title
Standards in genomic sciencesauthors
Nagymihály M,Vásarhelyi BM,Barrière Q,Chong TM,Bálint B,Bihari P,Hong KW,Horváth B,Ibijbijen J,Amar M,Farkas A,Kondorosi É,Chan KG,Gruber V,Ratet P,Mergaert P,Kereszt Adoi
10.1186/s40793-017-0298-3subject
Has Abstractpub_date
2017-12-13 00:00:00pages
75issn
1944-3277pii
298journal_volume
12pub_type
abstract::Leptonema illini Hovind-Hougen 1979 is the type species of the genus Leptonema, family Leptospiraceae, phylum Spirochaetes. Organisms of this family have a Gram-negative-like cell envelope consisting of a cytoplasmic membrane and an outer membrane. The peptidoglycan layer is associated with the cytoplasmic rather than...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.3637201
更新日期:2013-05-25 00:00:00
abstract::Halorhabdus utahensis Wainø et al. 2000 is the type species of the genus, which is of phylogenetic interest because of its location on one of the deepest branches within the very extensive euryarchaeal family Halobacteriaceae. H. utahensis is a free-living, motile, rod shaped to pleomorphic, Gram-negative archaeon, wh...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.31864
更新日期:2009-11-22 00:00:00
abstract::Herein, we report the draft-genome sequences and annotation of two opportunistic pathogenic strains of Staphylococcus cohnii isolated from humans. One strain (SC-57) was isolated from blood from a male patient in May 2006 and the other (SC-532) from a catheter from a male patient in June 2006. Similar to other genomes...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0263-1
更新日期:2017-08-31 00:00:00
abstract::Nereida ignava strain 2SM4(T) (= CECT 5292(T) = DSM 16309(T) = CIP 108404(T) = CCUG 49433(T)) is a marine bacterium belonging to the Roseobacter group of the family Rhodobacteraceae within the class Alphaproteobacteria. The strain was isolated from sea water surrounding cultivated oysters 2-3 miles off the Mediterrane...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0141-2
更新日期:2016-02-29 00:00:00
abstract::The tenacious association between strains of the heterotrophic alphaproteobacterial genus Acidiphilium and chemolithotrophic iron oxidizing bacteria has long been known. In this context the genome of the heterotroph Acidiphilium sp. JA12-A1, an isolate from an iron oxidizing mixed culture derived from a pilot plant fo...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/s40793-015-0040-y
更新日期:2015-08-19 00:00:00
abstract::Chryseobacterium bovis DSM 19482T (Hantsis-Zacharov et al., Int J Syst Evol Microbiol 58:1024-1028, 2008) is a Gram-negative, rod shaped, non-motile, facultative anaerobe, chemoorganotroph bacterium. C. bovis is a member of the Flavobacteriaceae, a family within the phylum Bacteroidetes. It was isolated when psychroto...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0242-6
更新日期:2017-05-08 00:00:00
abstract::The type strain of the prospective 10.1601/nm.30737 sp. nov. ERR11T, was isolated from a nodule of the leguminous tree Erythrina brucei native to Ethiopia. The type strain 10.1601/nm.1463 10.1601/strainfinder?urlappend=%3Fid%3DCCBAU+10071 T, was isolated from the nodules of Lespedeza cuneata in Beijing, China. The gen...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0283-x
更新日期:2017-12-05 00:00:00
abstract::This report summarizes the proceedings of the second workshop of the 'Minimum Information for Biological and Biomedical Investigations' (MIBBI) consortium held on Dec 1-2, 2010 in Rüdesheim, Germany through the sponsorship of the Beilstein-Institute. MIBBI is an umbrella organization uniting communities developing Min...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.147362
更新日期:2010-12-25 00:00:00
abstract::Kurthia senegalensis strain JC8E(T) sp. nov. is the type strain of K. senegalensis sp. nov., a new species within the genus Kurthia. This strain, whose genome is described here, was isolated from the fecal flora of a healthy patient. K. senegalensis is an aerobic rod. Here we describe the features of this organism, to...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.5078947
更新日期:2014-02-20 00:00:00
abstract::Thiobacillus thioparus DSM 505T is one of first two isolated strains of inorganic sulfur-oxidising Bacteria. The original strain of T. thioparus was lost almost 100 years ago and the working type strain is Culture CT (=DSM 505T = ATCC 8158T) isolated by Starkey in 1934 from agricultural soil at Rutgers University, New...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0229-3
更新日期:2017-01-19 00:00:00
abstract::In this study, following its isolation from contaminated soil, the genomic sequence of Pseudomonas alcaliphila strain JAB1 (=DSM 26533), a biphenyl-degrading bacterium, is reported and analyzed in relation to its extensive degradative capabilities. The P. alcaliphila JAB1 genome (GenBank accession no. CP016162) consis...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0306-7
更新日期:2018-02-01 00:00:00
abstract::Brachyspira murdochii Stanton et al. 1992 is a non-pathogenic, host-associated spirochete of the family Brachyspiraceae. Initially isolated from the intestinal content of a healthy swine, the 'group B spirochaetes' were first described as Serpulina murdochii. Members of the family Brachyspiraceae are of great phylogen...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.831993
更新日期:2010-06-15 00:00:00
abstract::The family Hyphomonadaceae within the Alphaproteobacteria is largely comprised of bacteria isolated from marine environments with striking morphologies and an unusual mode of cell growth. Here, we report the complete genome sequence Hirschia baltica, which is only the second a member of the Hyphomonadaceae with a publ...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.2205004
更新日期:2011-12-31 00:00:00
abstract::A plant-associated member of the family Enterobacteriaceae, Serratia plymuthica strain AS12 was isolated from rapeseed roots. It is of scientific interest because it promotes plant growth and inhibits plant pathogens. The genome of S. plymuthica AS12 comprises a 5,443,009 bp long circular chromosome, which consists of...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.2705996
更新日期:2012-05-25 00:00:00
abstract::Strain HIMB11 is a planktonic marine bacterium isolated from coastal seawater in Kaneohe Bay, Oahu, Hawaii belonging to the ubiquitous and versatile Roseobacter clade of the alphaproteobacterial family Rhodobacteraceae. Here we describe the preliminary characteristics of strain HIMB11, including annotation of the draf...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.4998989
更新日期:2014-03-15 00:00:00
abstract::This report details the outcome of the 13(th) Meeting of the Genomic Standards Consortium. The three-day conference was held at the Kingkey Palace Hotel, Shenzhen, China, on March 5-7, 2012, and was hosted by the Beijing Genomics Institute. The meeting, titled From Genomes to Interactions to Communities to Models, hig...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.2876184
更新日期:2012-05-25 00:00:00
abstract::We report the genome of a Staphylococcus aureus strain (ILRI_Eymole1/1) isolated from a nasal swab of a dromedary camel (Camelus dromedarius) in North Kenya. The complete genome sequence of this strain consists of a circular chromosome of 2,874,302 bp with a GC-content of 32.88 %. In silico annotation predicted 2755 p...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/s40793-015-0098-6
更新日期:2015-11-20 00:00:00
abstract::The nonheterocystous filamentous cyanobacterium, strain ESFC-1, is a recently described member of the order Oscillatoriales within the Cyanobacteria. ESFC-1 has been shown to be a major diazotroph in the intertidal microbial mat system at Elkhorn Slough, CA, USA. Based on phylogenetic analyses of the 16S RNA gene, ESF...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0174-6
更新日期:2016-08-24 00:00:00
abstract::Pedobacter steynii DX4 was isolated from the soil of Tibetan Plateau and it can use crude oil as sole carbon and energy source at 15 °C. The genome of Pedobacter steynii DX4 has been sequenced and served as basis for analysis its metabolic mechanism. It is the first genome of crude oil degrading strain in Pedobacter g...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0249-z
更新日期:2017-07-27 00:00:00
abstract::Cronobacter sakazakii is a Gram-negative opportunistic pathogen that causes life- threatening infantile infections, such as meningitis, septicemia, and necrotizing enterocolitis, as well as pneumonia, septicemia, and urinary tract and wound infections in adults. Here, we report 26 draft genome sequences of C. sakazaki...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-018-0339-6
更新日期:2018-11-29 00:00:00
abstract::Mesorhizobium loti strain NZP2037 was isolated in 1961 in Palmerston North, New Zealand from a Lotus divaricatus root nodule. Compared to most other M. loti strains, it has a broad host range and is one of very few M. loti strains able to form effective nodules on the agriculturally important legume Lotus pedunculatus...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/1944-3277-9-7
更新日期:2014-12-08 00:00:00
abstract::Pseudomonas lutea OK2(T) (=LMG 21974(T), CECT 5822(T)) is the type strain of the species and was isolated from the rhizosphere of grass growing in Spain in 2003 based on its phosphate-solubilizing capacity. In order to identify the functional significance of phosphate solubilization in Pseudomonas Plant growth promoti...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0173-7
更新日期:2016-08-23 00:00:00
abstract::Halorubrum lacusprofundi is an extreme halophile within the archaeal phylum Euryarchaeota. The type strain ACAM 34 was isolated from Deep Lake, Antarctica. H. lacusprofundi is of phylogenetic interest because it is distantly related to the haloarchaea that have previously been sequenced. It is also of interest because...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0194-2
更新日期:2016-09-10 00:00:00
abstract::Root nodule bacteria are free-living soil bacteria, belonging to diverse genera within the Alphaproteobacteria and Betaproteobacteria, that have the capacity to form nitrogen-fixing symbioses with legumes. The symbiosis is specific and is governed by signaling molecules produced from both host and bacteria. Sequencing...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/1944-3277-10-14
更新日期:2015-02-09 00:00:00
abstract::Burkholderia sp. strain WSM2230 is an aerobic, motile, Gram-negative, non-spore-forming acid-tolerant rod isolated from acidic soil collected in 2001 from Karijini National Park, Western Australia, using Kennedia coccinea (Coral Vine) as a host. WSM2230 was initially effective in nitrogen-fixation with K. coccinea, bu...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.5008793
更新日期:2013-12-31 00:00:00
abstract::Polynucleobacter necessarius subsp. asymbioticus strain QLW-P1DMWA-1(T) is a planktonic freshwater bacterium affiliated with the family Burkholderiaceae (class Betaproteobacteria). This strain is of interest because it represents a subspecies with cosmopolitan and ubiquitous distribution in standing freshwater systems...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.2395367
更新日期:2012-03-19 00:00:00
abstract::Although the hemipterans (Aphididae) are comprised of roughly 50,000 extant insect species, only four have sequenced genomes that are publically available, namely Acyrthosiphon pisum (pea aphid), Rhodnius prolixus (Kissing bug), Myzus persicae (Green peach aphid) and Diuraphis noxia (Russian wheat aphid). As a signifi...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0307-6
更新日期:2017-12-28 00:00:00
abstract::Members of the genus Halotalea (family Halomonadaceae) are of high significance since they can tolerate the greatest glucose and maltose concentrations ever reported for known bacteria and are involved in the degradation of industrial effluents. Here, the characteristics and the permanent-draft genome sequence and ann...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/s40793-015-0052-7
更新日期:2015-08-13 00:00:00
abstract::Thioalkalivibrio thiocyanoxidans strain ARh 2(T) is a sulfur-oxidizing bacterium isolated from haloalkaline soda lakes. It is a motile, Gram-negative member of the Gammaproteobacteria. Remarkable properties include the ability to grow on thiocyanate as the sole energy, sulfur and nitrogen source, and the capability of...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-015-0078-x
更新日期:2015-10-26 00:00:00
abstract::Candidatus Arsenophonus lipopteni (Enterobacteriaceae, Gammaproteobacteria) is an obligate intracellular symbiont of the blood feeding deer ked, Lipoptena cervi (Diptera: Hippoboscidae). The bacteria reside in specialized cells derived from host gut epithelia (bacteriocytes) forming a compact symbiotic organ (bacterio...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0195-1
更新日期:2016-09-17 00:00:00