Abstract:
:Microvirga lupini LUT6(T) is an aerobic, non-motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Lupinus texensis. LUT6(T) was isolated in 2006 from a nodule recovered from the roots of the annual L. texensis growing in Travis Co., Texas. LUT6(T) forms a highly specific nitrogen-fixing symbiosis with endemic L. texensis and no other Lupinus species can form an effective nitrogen-fixing symbiosis with this isolate. Here we describe the features of M. lupini LUT6(T), together with genome sequence information and its annotation. The 9,633,614 bp improved high quality draft genome is arranged into 160 scaffolds of 1,366 contigs containing 10,864 protein-coding genes and 87 RNA-only encoding genes, and is one of 20 rhizobial genomes sequenced as part of a DOE Joint Genome Institute 2010 Community Sequencing Project.
journal_name
Stand Genomic Scijournal_title
Standards in genomic sciencesauthors
Reeve W,Parker M,Tian R,Goodwin L,Teshima H,Tapia R,Han C,Han J,Liolios K,Huntemann M,Pati A,Woyke T,Mavromatis K,Markowitz V,Ivanova N,Kyrpides Ndoi
10.4056/sigs.5249382subject
Has Abstractpub_date
2014-03-01 00:00:00pages
1159-67issue
3issn
1944-3277pii
sigs.5249382journal_volume
9pub_type
杂志文章abstract::Methanoplanus petrolearius Ollivier et al. 1998 is the type strain of the genus Methanoplanus. The strain was originally isolated from an offshore oil field from the Gulf of Guinea. Members of the genus Methanoplanus are of interest because they play an important role in the carbon cycle and also because of their sign...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.1183143
更新日期:2010-10-27 00:00:00
abstract::Alistipes obesi sp. nov. strain ph8(T) is the type strain of A. obesi, a new species within the genus Alistipes. This strain, whose genome is described here, was isolated from the fecal flora of a 26-year-old woman suffering from morbid obesity. A. obesi is an obligately anaerobic rod. Here we describe the features of...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.3336746
更新日期:2013-02-25 00:00:00
abstract::Strain 3.5.1 was isolated from soils of the Republic of Tatarstan, Russia, on the basis of presence of a high phytate-degrading activity. Strains with such activities attract special interest because of its potential use as feed additives and natural manures. Strain 3.5.1 harbors a 99 % 16S rRNA nucleotide sequence si...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-015-0093-y
更新日期:2015-11-11 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::Lutibacter profundi LP1T within the family Flavobacteriaceae was isolated from a biofilm growing on the surface of a black smoker chimney at the Loki's Castle vent field, located on the Arctic Mid-Ocean Ridge. The complete genome of L. profundi LP1T is the first genome to be published within the genus Lutibacter. L. p...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-016-0219-x
更新日期:2017-01-07 00:00:00
abstract::Strain T5(T) is the type strain of the species Phaeobacter inhibens Martens et al. 2006, a secondary metabolite producing bacterium affiliated to the Roseobacter clade. Strain T5(T) was isolated from a water sample taken at the German Wadden Sea, southern North Sea. Here we describe the complete genome sequence and an...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.4448212
更新日期:2013-12-15 00:00:00
abstract::Thermosediminibacter oceani (Lee et al. 2006) is the type species of the genus Thermosediminibacter in the family Thermoanaerobacteraceae. The anaerobic, barophilic, chemoorganotrophic thermophile is characterized by straight to curved Gram-negative rods. The strain described in this study was isolated from a core sam...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.1133078
更新日期:2010-09-28 00:00:00
abstract::Phaeobacter arcticus Zhang et al. 2008 belongs to the marine Roseobacter clade whose members are phylogenetically and physiologically diverse. In contrast to the type species of this genus, Phaeobacter gallaeciensis, which is well characterized, relatively little is known about the characteristics of P. arcticus. Here...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.383362
更新日期:2013-07-30 00:00:00
abstract::Escherichia coli is the most abundant facultative anaerobic bacteria in the gastro-intestinal tract of mammals but can be responsible for intestinal infection due to acquisition of virulence factors. Genomes of pathogenic E. coli strains are widely described whereas those of bovine commensal E. coli strains are very s...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0272-0
更新日期:2017-10-10 00:00:00
abstract::Litoreibacter arenae Kim et al. 2012 is a member of the genomically well-characterized Rhodobacteraceae clade within the Roseobacter clade. Representatives of this clade are known to be metabolically versatile and involved in marine carbon-producing and biogeochemical processes. They form a physiologically heterogeneo...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.4258318
更新日期:2013-10-01 00:00:00
abstract::Mycoplasma testudineum is one of the pathogens that can cause upper respiratory tract disease in desert tortoises, Gopherus agassizii. We sequenced the genome of M. testudineum BH29T (ATCC 700618T = MCCM 03231T), isolated from the upper respiratory tract of a Mojave desert tortoise with upper respiratory tract disease...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-018-0309-z
更新日期:2018-04-11 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::A lytic bacteriophage RG-2014 infecting a biofilm forming multidrug resistant bacterium Delftia tsuruhatensis 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 Delftia tsuruhatensis st...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0290-y
更新日期:2017-12-18 00:00:00
abstract::'Treponema phagedenis' is considered to be a key agent in the pathogenesis of bovine digital dermatitis, an infectious foot condition of economic and animal welfare importance. We hereby report the draft sequence of 'T. phagedenis' strain V1. The draft genome assembly consists of 51 scaffolds comprising 3,129,551 bp a...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/s40793-015-0059-0
更新日期:2015-09-21 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::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::Mahella australiensis Bonilla Salinas et al. 2004 is the type species of the genus Mahella, which belongs to the family Thermoanaerobacteraceae. The species is of interest because it differs from other known anaerobic spore-forming bacteria in its G+C content, and in certain phenotypic traits, such as carbon source ut...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.1864526
更新日期:2011-07-01 00:00:00
abstract::The genus Porphyrobacter belongs to aerobic anoxygenic phototrophic bacteria cluster. Porphyrobacter neustonensis DSM 9434 was isolated from a eutrophic freshwater pond in Australia, and is able to synthesize Bacteriochlorophyll a as well as grow under aerobic conditions. It is the type species of the genus Porphyroba...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0243-5
更新日期:2017-05-10 00:00:00
abstract::Syntrophobacter fumaroxidans strain MPOB(T) is the best-studied species of the genus Syntrophobacter. The species is of interest because of its anaerobic syntrophic lifestyle, its involvement in the conversion of propionate to acetate, H2 and CO2 during the overall degradation of organic matter, and its release of pro...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.2996379
更新日期:2012-10-10 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::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 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::At present, Joostella marina Quan et al. 2008 is the sole species with a validly published name in the genus Joostella, family Flavobacteriacae, phylum Bacteriodetes. It is a yellow-pigmented, aerobic, marine organism about which little has been reported other than the chemotaxonomic features required for initial taxo...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.3537045
更新日期:2013-04-15 00:00:00
abstract::Brachymonas chironomi strain AIMA4(T) (Halpern et al., 2009) is a Gram-negative, non-motile, aerobic, chemoorganotroph bacterium. B. chironomi is a member of the Comamonadaceae, a family within the class Betaproteobacteria. This species was isolated from a chironomid (Diptera; Chironomidae) egg mass, sampled from a wa...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/s40793-015-0010-4
更新日期:2015-05-27 00:00:00
abstract::Bacteria belonging to the genus Pectobacterium are responsible for soft rot disease on a wide range of cultivated crops. The "Pectobacterium peruviense" specie, recently proposed inside the Pectobacterium genus, gathers strains isolated from potato tubers cultivated in Peru at high altitude. Here we report the draft g...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-018-0332-0
更新日期:2018-10-12 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::Hydrogenobacter thermophilus Kawasumi et al. 1984 is the type species of the genus Hydrogenobacter. H. thermophilus was the first obligate autotrophic organism reported among aerobic hydrogen-oxidizing bacteria. Strain TK-6(T) is of interest because of the unusually efficient hydrogen-oxidizing ability of this strain,...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.4056/sigs.1463589
更新日期:2011-04-29 00:00:00
abstract::Phage ST0 lysing Escherichia coli 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 po...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-017-0304-9
更新日期:2017-12-19 00:00:00
abstract::Mucilaginibacter pedocola TBZ30T (= CCTCC AB 2015301T = KCTC 42833T) is a Gram- negative, rod-shaped, non-motile and non-spore-forming bacterium isolated from a heavy metal contaminated paddy field. It shows resistance to multiple heavy metals and can adsorb/remove Zn2+ and Cd2+ during cultivation. In addition, strain...
journal_title:Standards in genomic sciences
pub_type:
doi:10.1186/s40793-018-0337-8
更新日期:2018-11-28 00:00:00
abstract::Enterobacter mori strain 5-4 is a Gram-negative, motile, rod shaped, and facultatively anaerobic bacterium, which was isolated from a mixture of formation water (also known as oil-reservior water) and crude-oil in Karamay oilfield, China. To date, there is only one E. mori genome has been sequenced and very little kno...
journal_title:Standards in genomic sciences
pub_type: 杂志文章
doi:10.1186/1944-3277-10-9
更新日期:2015-02-27 00:00:00