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- Author:
- Pastrana, Diana V.; FitzGerald, Peter C.; Phan, Giao Q.; Raiji, Manish T.; Murphy, Philip M.; McDermott, David H.; Velez, Daniel; Bliskovsky, Valery; McBride, Alison A.; Buck, Christopher B.
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00812-13
- ISSN:
- 2169-8287
- Subject:
- feces; high-throughput nucleotide sequencing; Polyomaviridae; humans
- Abstract:
- ... Saint Louis polyomavirus (STLPyV) was recently discovered in human feces. Using random-primed rolling circle amplification combined with deep sequencing, we have found a divergent variant of STLPyV in a sanitized human skin wart specimen. The result strongly suggests that STLPyV directly infects humans and is not simply a dietary contaminant. ...
- DOI:
- 10.1128/genomeA.00812-13
- PubMed:
- 24158550
- PubMed Central:
- PMC3813180
-
http://dx.doi.org/10.1128/genomeA.00812-13
- Author:
- Hue, Fong; Ghalyanchi Langeroudi, Arash; Barbour, Alan G.
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00713-13
- ISSN:
- 2169-8287
- Subject:
- Borrelia miyamotoi; Ixodes scapularis; blood; chromosomes; fever; high-throughput nucleotide sequencing; human diseases; mice; ticks
- Abstract:
- ... Borrelia miyamotoi is a newly recognized agent of human disease. B. miyamotoi strain LB-2001, an isolate from the tick Ixodes scapularis, was propagated in mice. The sequence of the chromosome was determined by next-generation sequencing of DNA isolated from whole blood. The sequence established that B. miyamotoi is a relapsing fever group species. ...
- DOI:
- 10.1128/genomeA.00713-13
- PubMed:
- 24029760
- PubMed Central:
- PMC3772144
-
http://dx.doi.org/10.1128/genomeA.00713-13
- Author:
- Tekedar, Hasan C.; Waldbieser, Geoffrey C.; Karsi, Attila; Liles, Mark R.; Griffin, Matt J.; Vamenta, Stefanie; Sonstegard, Tad; Hossain, Mohammad; Schroeder, Steven G.; Khoo, Lester; Lawrence, Mark L.
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00755-13
- ISSN:
- 2169-8287
- Subject:
- Aeromonas hydrophila; Ictalurus punctatus; bacteria; humans; nucleotide sequences; septicemia
- Abstract:
- ... Aeromonas hydrophila is a Gram-negative, rod-shaped, mesophilic bacterium that infects both aquatic poikilothermic animals and mammals, including humans. Here, we present the complete genome sequence of Aeromonas hydrophila strain ML09-119, which represents a clonal group of A. hydrophila isolates causing outbreaks of bacterial septicemia in channel catfish since 2009. ...
- DOI:
- 10.1128/genomeA.00755-13
- PubMed:
- 24051325
- PubMed Central:
- PMC3778208
-
http://dx.doi.org/10.1128/genomeA.00755-13
- Author:
- Brechtel, Teal; Tyner, Molly; Tandon, Ritesh
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00693-13
- ISSN:
- 2169-8287
- Subject:
- Cytomegalovirus; Escherichia coli; bacteria; bacterial artificial chromosomes; fibroblasts; humans; nucleotide sequences
- Abstract:
- ... Here, we present the complete genome sequence of a cytomegalovirus, the Towne-BAC (bacterial artificial chromosome) isolate, which was maintained in bacterial cells for 10 years and then serially passaged in human fibroblasts for 10 passages. A total of 132 nucleotide differences were discovered in the Towne sequence compared to the reference sequence (GenBank accession no. AC146851). ...
- DOI:
- 10.1128/genomeA.00693-13
- PubMed:
- 24072857
- PubMed Central:
- PMC3784777
-
http://dx.doi.org/10.1128/genomeA.00693-13
- Author:
- Yang, Chenghuai; Li, Junping; Li, Qihong; Li, Huijiao; Xia, Yecai; Guo, Xin; Yu, Kangzhen; Yang, Hanchun
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00685-13
- ISSN:
- 2169-8287
- Subject:
- chickens; open reading frames; pathogenesis; virulence; Anatid alphaherpesvirus 1
- Abstract:
- ... Here, we present the complete genome sequence of an attenuated duck enteritis virus (DEV) obtained by serial chicken embryo passage. Compared with a virulent DEV, there is a serial deletion in unique long open reading frame 11 (LORF11) and unique long region 2 (UL2). This study will aid in further exploration of the molecular pathogenesis of DEV. ...
- DOI:
- 10.1128/genomeA.00685-13
- PubMed:
- 24009119
- PubMed Central:
- PMC3764414
-
http://dx.doi.org/10.1128/genomeA.00685-13
- Author:
- Guo, Jianhua; Baroch, John; Randall, Adam; Tizard, Ian
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00839-13
- ISSN:
- 2169-8287
- Subject:
- Bornavirus; Branta canadensis; geese; genotype; nucleotide sequences; surveys; swans; wild birds; North America
- Abstract:
- ... A recent survey among wild birds demonstrated the presence of a unique genotype of avian bornavirus (ABV) in wild geese and swans in North America. Here, we report the first complete genome sequence of an avian bornavirus of the goose genotype. ...
- DOI:
- 10.1128/genomeA.00839-13
- PubMed:
- 24158553
- PubMed Central:
- PMC3813183
-
http://dx.doi.org/10.1128/genomeA.00839-13
- Author:
- Yang, Jing-tian; Ma, Bing-cun
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00815-13
- ISSN:
- 2169-8287
- Subject:
- Infectious bronchitis virus; financial economics; nucleotide sequences; poultry industry; sequence analysis; China
- Abstract:
- ... Infectious bronchitis virus (IBV) causes tremendous economic losses to the poultry industry. Here, we report the complete genome analysis results for a new natural recombination nephropathogenic IBV strain named SAIBK, which was isolated in the Sichuan province of China in 2005. ...
- DOI:
- 10.1128/genomeA.00815-13
- PubMed:
- 24115543
- PubMed Central:
- PMC3795213
-
http://dx.doi.org/10.1128/genomeA.00815-13
- Author:
- Li, Rugang; Gao, Shan; Fei, Zhangjun; Ling, Kai-Shu
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00794-13
- ISSN:
- 2169-8287
- Subject:
- RNA; Tobamovirus; high-throughput nucleotide sequencing; new species; nucleotide sequences; phylogeny; tomatoes; viruses; Mexico
- Abstract:
- ... The complete genomic sequence of a new tobamovirus in tomatoes was determined through deep sequencing and assembly of small RNAs, then validated through Sanger sequencing. Based on the low sequence identity (≤85%) to known viruses and a close phylogenetic relationship to tobamoviruses, it was identified as a new species. ...
- DOI:
- 10.1128/genomeA.00794-13
- PubMed:
- 24092788
- PubMed Central:
- PMC3790092
-
http://dx.doi.org/10.1128/genomeA.00794-13
- Author:
- Zhang, Hong; Li, Zi; Yang, Hao; Liu, Yunzhi; Li, Fangcai; Wang, Lijie; Li, Xiaodan; Zhu, Yun; Cai, Yahui; Bai, Zhiyong; Yi, Feiyue; Shu, Yuelong
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00891-13
- ISSN:
- 2169-8287
- Subject:
- Influenza A virus; conservation areas; feces; gene pool; genes; lakes; nucleotide sequences; phylogeny; wild birds; China
- Abstract:
- ... An H12N8 subtype avian influenza virus (AIV) was isolated from a wild bird in China in 2011. It is the first report of isolation of the H12N8 subtype AIV in Asia. Phylogenetic analysis results suggested it is a reassortant, and all eight gene segments belong to the Eurasian gene pool. ...
- DOI:
- 10.1128/genomeA.00891-13
- PubMed:
- 24158557
- PubMed Central:
- PMC3813187
-
http://dx.doi.org/10.1128/genomeA.00891-13
- Author:
- Lau, Susanna K. P.; Woo, Patrick C. Y.; Yip, Cyril C. Y.; Bai, Ru; Wu, Ying; Tse, Herman; Yuen, Kwok-yung
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00708-13
- ISSN:
- 2169-8287
- Subject:
- sequence analysis; Mamastrovirus 2; humans; open reading frames; cats; genome; nucleotides; genotype; China
- Abstract:
- ... We report the first complete genome sequence of a feline astrovirus (FAstV), FAstV2 strain 1637F, identified from a domestic cat. The genome is 6,779 nucleotides (nt) in length and consists of three overlapping open reading frames (ORF1a-ORF1b-ORF2). Sequence analysis suggests that FAstV2 represents a new FAstV genotype that is closely related to human astroviruses. ...
- DOI:
- 10.1128/genomeA.00708-13
- PubMed:
- 24072858
- PubMed Central:
- PMC3784778
-
http://dx.doi.org/10.1128/genomeA.00708-13
- Author:
- Che, Shuai; Song, Lai; Song, Weizhi; Yang, Meng; Liu, Guiming; Lin, Xuezheng
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00725-13
- ISSN:
- 2169-8287
- Subject:
- Psychrobacter; bacteria; cold; enzymes; evolution; genomics; nucleotide sequences; physiology; temperature; Antarctic region; Antarctica
- Abstract:
- ... Here, we report the complete genome sequence of Psychrobacter sp. strain G, isolated from King George Island, Antarctica, which can produce lipolytic enzymes at low temperatures. The genomics information of this strain will facilitate the study of the physiology, cold adaptation properties, and evolution of this genus. ...
- DOI:
- 10.1128/genomeA.00725-13
- PubMed:
- 24051316
- PubMed Central:
- PMC3778199
-
http://dx.doi.org/10.1128/genomeA.00725-13
- Author:
- Brechtel, Teal M.; Tyner, Molly; Tandon, Ritesh
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00901-13
- ISSN:
- 2169-8287
- Subject:
- Cytomegalovirus; bacterial artificial chromosomes; fibroblasts; genes; genetic engineering; humans; mutants; mutation; nucleotide sequences
- Abstract:
- ... Here, we present the complete genome sequence of a cytomegalovirus Towne-BAC (bacterial artificial chromosome) isolate that we first genetically engineered to mutate the UL96 gene and then serially passaged in human fibroblasts to allow for the accumulation of compensatory mutations. A total of 17 single-base substitutions were discovered in the passaged genome compared to the reference sequence ( ...
- DOI:
- 10.1128/genomeA.00901-13
- PubMed:
- 24158558
- PubMed Central:
- PMC3813188
-
http://dx.doi.org/10.1128/genomeA.00901-13
- Author:
- Zeigler, Daniel R.
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00641-13
- ISSN:
- 2169-8287
- Subject:
- Bacillus subtilis; bacteriophages; loci; nucleotide sequences; regulon
- Abstract:
- ... A complete 39,318-bp genome sequence containing 52 coding sequences has been determined for the Bacillus subtilis temperate phage φ105. In a lysogen, B. subtilis strain 1L32, the φ105 prophage interrupts the radC locus, a part of the competence-induced ComK regulon. ...
- DOI:
- 10.1128/genomeA.00641-13
- PubMed:
- 24009114
- PubMed Central:
- PMC3764409
-
http://dx.doi.org/10.1128/genomeA.00641-13
- Author:
- Su, Yu-Ching; Hörhold, Franziska; Singh, Birendra; Riesbeck, Kristian
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00470-13
- ISSN:
- 2169-8287
- Subject:
- Haemophilus influenzae; encapsulation; etiology; myositis; nucleotide sequences; pathogenesis; patients; sepsis (infection); serotypes
- Abstract:
- ... Haemophilus influenzae serotype f (Hif) is an etiologic agent of bacterial invasive disease. Here, we report the first annotated genome sequence of the Hif strain KR494, which was isolated from a patient suffering from sepsis and necrotizing myositis. The genome sequence will increase the understanding of Hif pathogenesis. ...
- DOI:
- 10.1128/genomeA.00470-13
- PubMed:
- 24092777
- PubMed Central:
- PMC3790081
-
http://dx.doi.org/10.1128/genomeA.00470-13
- Author:
- Hirsch, Ann M.; Alvarado, Johana; Bruce, David; Chertkov, Olga; De Hoff, Peter L.; Detter, John C.; Fujishige, Nancy A.; Goodwin, Lynne A.; Han, James; Han, Shunsheng; Ivanova, Natalia; Land, Miriam L.; Lum, Michelle R.; Milani-Nejad, Nima; Nolan, Matt; Pati, Amrita; Pitluck, Sam; Tran, Stephen S.; Woyke, Tanja; Valdés, Maria
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00759-13
- ISSN:
- 2169-8287
- Subject:
- Casuarina equisetifolia; Micromonospora; actinorhizae; antibiotics; biological control; genome; nucleotide sequences; polysaccharides; root nodules; Mexico
- Abstract:
- ... Micromonospora species live in diverse environments and exhibit a broad range of functions, including antibiotic production, biocontrol, and degradation of complex polysaccharides. To learn more about these versatile actinomycetes, we sequenced the genome of strain L5, originally isolated from root nodules of an actinorhizal plant growing in Mexico. ...
- DOI:
- 10.1128/genomeA.00759-13
- PubMed:
- 24072863
- PubMed Central:
- PMC3784783
-
http://dx.doi.org/10.1128/genomeA.00759-13
- Author:
- Bae, Hee-Won; Cho, You-Hee
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00744-13
- ISSN:
- 2169-8287
- Subject:
- Pseudomonas aeruginosa; bacteriophages; fimbriae; nucleotide sequences; virus receptors
- Abstract:
- ... We report the complete genome sequence of Pseudomonas aeruginosa podophage MPK7. It displays synteny to the P. aeruginosa phages of the Phikmvlikevirus genus, which includes phiKMV and LKA1. MPK7 requires type IV pili (TFP) for infection, suggesting the role of functional TFP as the receptor for this phage genus. ...
- DOI:
- 10.1128/genomeA.00744-13
- PubMed:
- 24115538
- PubMed Central:
- PMC3795208
-
http://dx.doi.org/10.1128/genomeA.00744-13
- Author:
- Li, Junping; Yang, Chenghuai; Li, Qihong; Li, Huijiao; Xia, Yecai; Liu, Dan; Yu, Kangzhen; Yang, Hanchun
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00785-13
- ISSN:
- 2169-8287
- Subject:
- epidemiological studies; Meleagrid alphaherpesvirus 1; flocks; vaccines; nucleotide sequences; Reticuloendotheliosis virus; birds
- Abstract:
- ... Here, we present the complete genomic sequence of a reticuloendotheliosis virus (REV) isolated from a contaminated turkey herpesvirus (HVT) vaccine. This report will be helpful for epidemiological studies on REV infection in avian flocks. ...
- DOI:
- 10.1128/genomeA.00785-13
- PubMed:
- 24092783
- PubMed Central:
- PMC3790087
-
http://dx.doi.org/10.1128/genomeA.00785-13
- Author:
- George, Divya T.; Stephenson, David P.; Tran, Elizabeth; Morona, Renato; Verma, Naresh K.
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00626-13
- ISSN:
- 2169-8287
- Subject:
- Shigella flexneri; bacteriophages; nucleotide sequences; serotypes
- Abstract:
- ... SfII is a serotype-converting temperate bacteriophage of the highly prevalent Shigella flexneri serotype 2a. We isolated the SfII phage from a wild-type strain of S. flexneri serotype 2a. Here, we present the complete genome sequence of this phage. ...
- DOI:
- 10.1128/genomeA.00626-13
- PubMed:
- 24029753
- PubMed Central:
- PMC3772137
-
http://dx.doi.org/10.1128/genomeA.00626-13
- Author:
- Fraunholz, Martin; Bernhardt, Jörg; Schuldes, Jörg; Daniel, Rolf; Hecker, Michael; Sinha, Bhanu
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00775-13
- ISSN:
- 2169-8287
- Subject:
- Staphylococcus aureus; arthritis; bacteremia; bacteria; cytotoxicity; humans; nucleotide sequences; osteomyelitis; pathogens; patients; virulence
- Abstract:
- ... Staphylococcus aureus is a frequent human commensal bacterium and pathogen. Here we report the complete genome sequence of strain 6850 (spa type t185; sequence type 50 [ST50]), a highly cytotoxic and clinically virulent methicillin-sensitive strain from a patient with complicated S. aureus bacteremia associated with osteomyelitis and septic arthritis. ...
- DOI:
- 10.1128/genomeA.00775-13
- PubMed:
- 24072870
- PubMed Central:
- PMC3784790
-
http://dx.doi.org/10.1128/genomeA.00775-13
- Author:
- Davis, Richard; Hossain, Mohammad J.; Liles, Mark R.; Panizzi, Peter
- Source:
- Genome announcements 2013 v.1 no.5 pp. e00706-13
- ISSN:
- 2169-8287
- Subject:
- Staphylococcus aureus; abscess; multilocus sequence typing; nucleotide sequences
- Abstract:
- ... We report here the complete genome sequence of Staphylococcus aureus Tager 104, originally isolated from a cutaneous abscess in 1947 by Morris Tager. Sequence typing of the strain revealed its membership in sequence type 49 (ST49), a previously unknown multilocus sequence type (MLST) in clinical samples. ...
- DOI:
- 10.1128/genomeA.00706-13
- PubMed:
- 24029757
- PubMed Central:
- PMC3772141
-
http://dx.doi.org/10.1128/genomeA.00706-13