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1.  Genome Sequence of Pseudomonas putida Strain SJTE-1, a Bacterium Capable of Degrading Estrogens and Persistent Organic Pollutants 
Journal of Bacteriology  2012;194(17):4781-4782.
Pseudomonas putida strain SJTE-1 can utilize 17β-estradiol and other environmental estrogens/toxicants, such as estrone, and naphthalene as sole carbon sources. We report the draft genome sequence of strain SJTE-1 (5,551,505 bp, with a GC content of 62.25%) and major findings from its annotation, which could provide insights into its biodegradation mechanisms.
PMCID: PMC3415482  PMID: 22887678
2.  Genome Sequence of Pseudomonas aeruginosa Strain SJTD-1, a Bacterium Capable of Degrading Long-Chain Alkanes and Crude Oil 
Journal of Bacteriology  2012;194(17):4783-4784.
Pseudomonas aeruginosa strain SJTD-1 can utilize long-chain alkanes, diesel oil, and crude oil as sole carbon sources. We report the draft genome sequence of strain SJTD-1 (6,074,058 bp, with a GC content of 66.83%) and major findings from its annotation, which could provide insights into its petroleum biodegradation mechanism.
PMCID: PMC3415508  PMID: 22887679
3.  Revised Genome Sequence of Burkholderia thailandensis MSMB43 with Improved Annotation 
Journal of Bacteriology  2012;194(17):4749-4750.
There is growing interest in discovery of novel bioactive natural products from Burkholderia thailandensis. Here we report a significantly improved genome sequence and reannotation of Burkholderia thailandensis MSMB43, which will facilitate the discovery of new natural products through genome mining and studies of the metabolic versatility of this bacterium.
PMCID: PMC3415525  PMID: 22887659
4.  Genome Sequence of the Aerobic Bacterium Bacillus sp. Strain FJAT-13831 
Journal of Bacteriology  2012;194(23):6633.
Bacillus sp. strain FJAT-13831 was isolated from the no. 1 pit soil of Emperor Qin's Terracotta Warriors in Xi'an City, People's Republic of China. The isolate showed a close relationship to the Bacillus cereus group. The draft genome sequence of Bacillus sp. FJAT-13831 was 4,425,198 bp in size and consisted of 5,567 genes (protein-coding sequences [CDS]) with an average length of 782 bp and a G+C value of 36.36%.
PMCID: PMC3497504  PMID: 23144388
5.  Genome Sequence of the Biocontrol Agent Microbacterium barkeri Strain 2011-R4 
Journal of Bacteriology  2012;194(23):6666-6667.
Microbacterium barkeri strain 2011-R4 is a Gram-positive epiphyte which has been confirmed as a biocontrol agent against several plant pathogens in our previous studies. Here, we present the draft genome sequence of this strain, which was isolated from the rice rhizosphere in Tonglu city, Zhejiang province, China.
PMCID: PMC3497549  PMID: 23144410
6.  Complete Genome Sequence of Seoul Virus Isolated from Rattus norvegicus in the Democratic People's Republic of Korea 
Journal of Virology  2012;86(24):13853.
Seoul virus (SEOV) is responsible for 25% of cases of hemorrhagic fever with renal syndrome in Asia. Here we report the complete genome of strain DPRK08. The sequence information provided here is useful for understanding the molecular character of SEOV in the Democratic People's Republic of Korea (DPRK) and the circulation of SEOV in East Asia.
PMCID: PMC3503101  PMID: 23166256
7.  Complete Genome Sequence Analysis of a Natural Reassortant Infectious Bursal Disease Virus in China 
Journal of Virology  2012;86(21):11942-11943.
A novel isolate of infectious bursal disease virus (IBDV) was designated GX-NN-L. The GX-NN-L IBDV was a very virulent infectious bursal disease virus (vvIBDV) isolated from broiler flocks in Guangxi province, China, in 2011. The GX-NN-L IBDV caused high mortality, immunosuppression, low weight gain, and bursal atrophy in commercial broilers. Here, we report the complete genome sequence of the GX-NN-L IBDV, a reassortment strain with segments A and B derived from very virulent strains and attenuated IBDV, respectively. These findings from this study provide additional insights into the genetic exchange between attenuated and very virulent strains of IBDV and continuous monitoring of the spread of the virus in chicken.
PMCID: PMC3486314  PMID: 23043174
8.  Complete Genomic Sequence of a Novel Reassortant H11N3 Influenza Virus Isolated from Domestic Ducks in Jiangsu, China 
Journal of Virology  2012;86(21):11950-11951.
For the first time we report the complete genomic sequence of an H11N3 influenza virus from domestic ducks in China. Phylogenetic analysis showed that the H11N3 virus was a novel reassortant with its genes from different subtypes of domestic duck-origin avian influenza viruses, which further underlined that domestic ducks play a key role in the genetic reassortment and evolution of influenza viruses in China.
PMCID: PMC3486340  PMID: 23043179
9.  Complete Genome Sequence of a Newcastle Disease Virus Strain Isolated from Broiler Breeder Flocks in China 
Journal of Virology  2012;86(22):12461-12462.
In 2010 and 2011, several devastating Newcastle disease (ND) outbreaks occurred in China, affecting broilers, layers, and breeders. The CK-JSX1-201005 virus was isolated from broiler breeder flocks vaccinated with the classical ND virus (NDV) vaccine program, but laying rate decreased from 80% to 30 to 40% in the clinic. Here, we report the complete genome sequence and molecular characteristic of the CK-JSX1-201005 NDV. These findings provide additional insights into the genetic variation of NDV circulating in China and are useful for vaccine development for NDV.
PMCID: PMC3486497  PMID: 23087120
10.  Genome Sequence of a Natural Reassortant H5N2 Avian Influenza Virus from Domestic Mallard Ducks in Eastern China 
Journal of Virology  2012;86(22):12463-12464.
Here, we report the genomic sequence of a Chinese reassortant H5N2 avian influenza virus which possessed the polybasic motif PLREKRRK-R/GL at the hemagglutinin cleavage site. Phylogenetic analysis showed that all eight genes were of the Eurasian lineage, five of which were highly homologous to the endemic clade 2.3.4 H5N1 viruses and their H5N5 reassortant descendants. These data suggested that novel multisubtypic NA reassortants bearing the H5N1 backbone could be generated through genetic reassortment in H5N1 circulating regions, which will help in understanding the evolution and segment reassortment mechanism of H5 subtype avian influenza viruses.
PMCID: PMC3486508  PMID: 23087121
11.  Complete Genome Sequence of a Bovine Viral Diarrhea Virus 2 from Commercial Fetal Bovine Serum 
Journal of Virology  2012;86(18):10233.
We isolated a bovine viral diarrhea virus (BVDV) from commercial fetal bovine serum and designated it HLJ-10. The complete genome is 12,284 nucleotides (nt); the open reading frame is 11,694 nt, coding 3,898 amino acids. Phylogenetic analysis indicated that this strain belongs to BVDV group 2.
PMCID: PMC3446569  PMID: 22923795
12.  Complete Genome Sequence of the Metabolically Versatile Halophilic Archaeon Haloferax mediterranei, a Poly(3-Hydroxybutyrate-co-3-Hydroxyvalerate) Producer 
Journal of Bacteriology  2012;194(16):4463-4464.
Haloferax mediterranei, an extremely halophilic archaeon, has shown promise for production of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) from unrelated cheap carbon sources. Here we report the complete genome (3,904,707 bp) of H. mediterranei CGMCC 1.2087, consisting of one chromosome and three megaplasmids.
PMCID: PMC3416209  PMID: 22843593
13.  Whole-Genome Sequence of Staphylococcus aureus Strain LCT-SA112 
Journal of Bacteriology  2012;194(15):4124.
Staphylococcus aureus is a facultative anaerobic Gram-positive coccal bacterium. S. aureus is the most common species of Staphylococcus to cause staphylococcal infections, which are very common in clinical medicine. Here we report the genome sequence of S. aureus strain LCT-SA112, which was isolated from S. aureus subsp. aureus CGMCC 1.230.
PMCID: PMC3416511  PMID: 22815443
14.  Whole-Genome Sequence of Klebsiella pneumonia Strain LCT-KP214 
Journal of Bacteriology  2012;194(12):3281.
Klebsiella pneumoniae is a Gram-negative, nonmotile, encapsulated, lactose-fermenting, facultative anaerobic, rod-shaped bacterium found in the normal flora of the mouth, skin, and intestines. Here we present the fine-draft genome sequence of K. pneumoniae strain LCT-KP214, which originated from K. pneumoniae strain CGMCC 1.1736.
PMCID: PMC3370881  PMID: 22628509
15.  Complete Genomic Sequence of Duck Flavivirus from China 
Journal of Virology  2012;86(6):3398-3399.
We report here the complete genomic sequence of the Chinese duck flavivirus TA strain. This work is the first to document the complete genomic sequence of this previously unknown duck flavivirus strain. The sequence will help further relevant epidemiological studies and extend our general knowledge of flaviviruses.
PMCID: PMC3302339  PMID: 22354941
16.  Complete Genome Sequence of Salmonella enterica Serovar Pullorum RKS5078 
Journal of Bacteriology  2012;194(3):744.
Salmonella enterica serovar Pullorum is a chicken-adapted pathogen, causing pullorum disease. Its strict host adaptation has been suspected to result in gene decay. To validate this hypothesis and identify the decayed genes, we sequenced the complete genome of S. Pullorum RKS5078. We found 263 pseudogenes in this strain and conducted functional analyses of the decayed genes.
PMCID: PMC3264078  PMID: 22247537
17.  Complete Genome Sequence of Haloarcula hispanica, a Model Haloarchaeon for Studying Genetics, Metabolism, and Virus-Host Interaction 
Journal of Bacteriology  2011;193(21):6086-6087.
Haloarcula hispanica is an extremely halophilic archaeon that has an unusually low restriction barrier and is therefore significant for studying archaeal genetics, metabolism, and virus-host interactions. Here we report the complete genome sequence (3,890,005 bp) of H. hispanica strain CGMCC 1.2049, consisting of two chromosomes and one megaplasmid.
PMCID: PMC3194904  PMID: 21994921
18.  Genome Sequence of the Tobacco Bacterial Wilt Pathogen Ralstonia solanacearum 
Journal of Bacteriology  2011;193(21):6088-6089.
Ralstonia solanacearum is a causal agent of plant bacterial wilt with thousands of distinct strains in a heterogeneous species complex. Here we report the genome sequence of a phylotype IB strain, Y45, isolated from tobacco (Nicotiana tabacum) in China. Compared with the published genomes of eight strains which were isolated from other hosts and habitats, 794 specific genes and many rearrangements/inversion events were identified in the tobacco strain, demonstrating that this strain represents an important node within the R. solanacearum complex.
PMCID: PMC3194909  PMID: 21994922
19.  Complete Genome Sequence of the Industrial Strain Ketogulonicigenium vulgare WSH-001 
Journal of Bacteriology  2011;193(21):6108-6109.
Ketogulonicigenium vulgare is an industrial organism commonly used in the vitamin C industry. Here, we report the finished, annotated, and compared 3.28-Mbp high-quality genome sequence of Ketogulonicigenium vulgare WSH-001, a 2-keto-l-gulonic acid-producing industrial strain stocked in our laboratory.
PMCID: PMC3194925  PMID: 21994934
20.  Complete Genome Sequence of the Industrial Strain Bacillus megaterium WSH-002 
Journal of Bacteriology  2011;193(22):6389-6390.
Bacillus megaterium, an industrial strain, has been widely used in protein production and the vitamin C industry. Here we reported a finished, annotated, and compared 4.14-Mbp high-quality genome sequence of B. megaterium WSH-002, which is the companion strain for Ketogulonicigenium vulgare in the vitamin C industry and is stocked in our laboratory.
PMCID: PMC3209192  PMID: 22038958
21.  Genome Sequence of the Halotolerant Marine Bacterium Myxococcus fulvus HW-1 
Journal of Bacteriology  2011;193(18):5015-5016.
Myxococcus fulvus HW-1 (ATCC BAA-855) is a halotolerant marine myxobacterium. This strain exhibits complex social behaviors in the presence of low concentrations of seawater but adopts an asocial living pattern under oceanic conditions. The whole genome of M. fulvus HW-1 will enable us to further investigate the details of its evolution.
PMCID: PMC3165639  PMID: 21868801
22.  Draft Genome Sequence of Gordonia neofelifaecis NRRL B-59395, a Cholesterol-Degrading Actinomycete▿ 
Journal of Bacteriology  2011;193(18):5045-5046.
We report a draft sequence of the genome of Gordonia neofelifaecis NRRL B-59395, a cholesterol-degrading actinomycete isolated from fresh feces of a clouded leopard (Neofelis nebulosa). As predicted, the reported genome contains several gene clusters for cholesterol degradation. This is the second available genome sequence of the family Gordoniaceae.
PMCID: PMC3165644  PMID: 21742880
23.  Genome Sequence of the Repetitive-Sequence-Rich Mycoplasma fermentans Strain M64▿ 
Journal of Bacteriology  2011;193(16):4302-4303.
Mycoplasma fermentans is a microorganism commonly found in the genitourinary and respiratory tracts of healthy individuals and AIDS patients. The complete genome of the repetitive-sequence-rich M. fermentans strain M64 is reported here. Comparative genomics analysis revealed dramatic differences in genome size between this strain and the recently completely sequenced JER strain.
PMCID: PMC3147699  PMID: 21642450
24.  Whole Genome Sequences of Four Brucella Strains ▿ 
Journal of Bacteriology  2011;193(14):3674-3675.
Brucella melitensis and Brucella suis are intracellular pathogens of livestock and humans. Here we report four genome sequences, those of the virulent strain B. melitensis M28-12 and vaccine strains B. melitensis M5 and M111 and B. suis S2, which show different virulences and pathogenicities, which will help to design a more effective brucellosis vaccine.
PMCID: PMC3133323  PMID: 21602346
25.  Whole-Genome Sequences of Four Mycobacterium bovis BCG Vaccine Strains ▿ 
Journal of Bacteriology  2011;193(12):3152-3153.
Mycobacterium bovis Bacille Calmette-Guérin (BCG) is the only vaccine available against tuberculosis (TB). A number of BCG strains are in use, and they exhibit biochemical and genetic differences. We report the genome sequences of four BCG strains representing different lineages, which will help to design more effective TB vaccines.
PMCID: PMC3133212  PMID: 21478353

Results 1-25 (124)