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Archive

March 2019; Volume 8,Issue 12

Genome Sequences

  • Genome Sequencing of Polydrug-, Multidrug-, and Extensively Drug-Resistant <span class="named-content genus-species" id="named-content-1">Mycobacterium tuberculosis</span> Strains from South India
    Genome Sequences
    Genome Sequencing of Polydrug-, Multidrug-, and Extensively Drug-Resistant Mycobacterium tuberculosis Strains from South India

    The genomes of 16 clinical Mycobacterium tuberculosis isolates were subjected to whole-genome sequencing to identify mutations related to resistance to one or more anti-Mycobacterium drugs. The sequence data will help in understanding the genomic characteristics of M. tuberculosis isolates...

    Sivakumar Shanmugam, Narender Kumar, Dina Nair, Mohan Natrajan, Srikanth Prasad Tripathy, Sharon J. Peacock, Soumya Swaminathan, Uma Devi Ranganathan
    21 Mar 2019
  • Draft Genome Sequence of <span class="named-content genus-species" id="named-content-1">Xylaria longipes</span> DSM 107183, a Saprotrophic Ascomycete Colonizing Hardwood
    Genome Sequences
    Draft Genome Sequence of Xylaria longipes DSM 107183, a Saprotrophic Ascomycete Colonizing Hardwood

    The saprotrophic soft-rot fungus Xylaria longipes was isolated from deadwood of Acer pseudoplatanus collected in the Bavarian Forest, Germany. The whole genome of this strain (DSM 107183) was sequenced with a total size of 43.2 Mb and a G+C content of 48.5%.

    Enrico Büttner, Anna Maria Gebauer, Martin Hofrichter, Christiane Liers, Harald Kellner
    21 Mar 2019
  • Complete Genome Sequences of <em>Bacillus</em> Bacteriophages Wes44 and Carmen17
    Genome Sequences
    Complete Genome Sequences of Bacillus Bacteriophages Wes44 and Carmen17

    Wes44 and Carmen17 are siphoviruses that infect Bacillus thuringiensis DSM-350. Wes44 contains 42,248 base pairs and 54 predicted genes; Carmen17 contains 41,820 base pairs and 51 predicted genes.

    Haley Alder, Madison Himelright, Emma Eisemann, Louise Temple
    21 Mar 2019
  • Complete Genome Sequence of Variant Porcine Epidemic Diarrhea Virus Strain ZJ/ZX2018-C10, Isolated in Zhejiang, China, in 2018
    Genome Sequences
    Complete Genome Sequence of Variant Porcine Epidemic Diarrhea Virus Strain ZJ/ZX2018-C10, Isolated in Zhejiang, China, in 2018

    We report here the complete genome sequence of porcine epidemic diarrhea virus (PEDV) strain ZJ/ZX2018-C10, isolated from infected piglets in Zhejiang Province, China. The genome sequence was highly similar to AH2012, a highly virulent Chinese PEDV strain.

    Fei Su, Bin Yu, Junxing Li, Lihua Xu, Xiufang Yuan
    21 Mar 2019
  • Complete Genome Sequence of <span class="named-content genus-species" id="named-content-1">Spiroplasma phoeniceum</span> Strain P40<sup>T</sup>, a Plant Pathogen Isolated from Diseased Plants of Madagascar Periwinkle [<em>Catharanthus roseus</em> (L.) G. Don]
    Genome Sequences
    Complete Genome Sequence of Spiroplasma phoeniceum Strain P40T, a Plant Pathogen Isolated from Diseased Plants of Madagascar Periwinkle [Catharanthus roseus (L.) G. Don]

    The phytopathogen Spiroplasma phoeniceum was isolated from diseased plants of Madagascar periwinkle [Catharanthus roseus (L.) G. Don]. Here, we report the nucleotide sequence of the 1,791,576-bp circular chromosome and three plasmids of strain P40T.

    Robert E. Davis, Jonathan Shao, Yan Zhao, Wei Wei, Kristi Bottner-Parker, Aliyah Silver, Zoey Stump, Gail E. Gasparich, Nicole Donofrio
    21 Mar 2019
  • Draft Genome Sequences of 27 <span class="named-content genus-species" id="named-content-1">Salmonella enterica</span> Serovar Schwarzengrund Isolates from Clinical Sources
    Genome Sequences
    Draft Genome Sequences of 27 Salmonella enterica Serovar Schwarzengrund Isolates from Clinical Sources

    Twenty-seven Salmonella enterica serovar Schwarzengrund isolates from clinical sources were sequenced as part of a larger study to examine phenotypic and genotypic characteristics. The majority of the sequenced strains were isolated from human stool (n = 20) followed by urine (n = 3) and blood (n = 2).

    Bijay K. Khajanchi, Noah C. Yoskowitz, Jing Han, Xiong Wang, Steven L. Foley
    21 Mar 2019
  • Draft Genome Sequences of 10 <span class="named-content genus-species" id="named-content-1">Paenibacillus</span> and <span class="named-content genus-species" id="named-content-2">Bacillus</span> sp. Strains Isolated from Healthy Tomato Plants and Rhizosphere Soil
    Genome Sequences
    Draft Genome Sequences of 10 Paenibacillus and Bacillus sp. Strains Isolated from Healthy Tomato Plants and Rhizosphere Soil

    In order to investigate the underlying interaction mechanisms between plants and Gram-positive bacteria, 10 Paenibacillus and Bacillus strains were isolated from healthy tomato rhizosphere and plant tissues.

    Lu Zhou, Chunxu Song, Anne de Jong, Oscar P. Kuipers
    21 Mar 2019
  • Complete Genome Sequence and Methylome Analysis of <span class="named-content genus-species" id="named-content-1">Deinococcus wulumuqiensis</span> 479
    Genome Sequences
    Complete Genome Sequence and Methylome Analysis of Deinococcus wulumuqiensis 479

    Deinococcus wulumuqiensis 479 (formerly known as Deinococcus radiodurans 479) is the original source strain for the restriction enzyme DrdI. Its complete sequence and full methylome were determined using Pacific Biosciences single-molecule real-time (SMRT) sequencing.

    Alexey Fomenkov, Yvette Luyten, Tamas Vincze, Brian P. Anton, Richard J. Roberts, Richard D. Morgan
    21 Mar 2019
  • High-Quality Draft Genome Sequences of <span class="named-content genus-species" id="named-content-1">Crenobacter cavernae</span> Strain CAVE-375 and <span class="named-content genus-species" id="named-content-2">Oxalobacteriaceae</span> sp. Strain CAVE-383, Two Bacteria Isolated from Dripping Water in a Karstic Cave in Portugal
    Genome Sequences
    High-Quality Draft Genome Sequences of Crenobacter cavernae Strain CAVE-375 and Oxalobacteriaceae sp. Strain CAVE-383, Two Bacteria Isolated from Dripping Water in a Karstic Cave in Portugal

    Crenobacter cavernae CAVE-375 and Oxalobacteriaceae sp. strain CAVE-383, two Gram-negative bacteria, were isolated during the first microbiology survey performed in a karst cave in Portugal.

    Catarina Coelho, António Veríssimo, Igor Tiago
    21 Mar 2019
  • Whole-Genome Sequences of a Cluster of 14 Unidentified Related <em>Veillonella</em> sp. Strains from Human Clinical Samples and Type Strains of 3 <em>Veillonella</em> Validated Species
    Genome Sequences
    Whole-Genome Sequences of a Cluster of 14 Unidentified Related Veillonella sp. Strains from Human Clinical Samples and Type Strains of 3 Veillonella Validated Species

    We report 17 draft genomes for 14 unidentified Veillonella sp. strains closely related in 16S rRNA gene-based phylogeny and type strains of 3 Veillonella species with the aims of deciphering relationships between related species, evaluating the accuracy of current thresholds for species delineation, and robustly describing new species in the genus.

    Fabien Aujoulat, Michel R. Popoff, Laure Diancourt, Alexis Criscuolo, Hélène Jean-Pierre, Estelle Jumas-Bilak, Hélène Marchandin
    21 Mar 2019
  • Microbiota of the Hickey Run Tributary of the Anacostia River
    Genome Sequences
    Microbiota of the Hickey Run Tributary of the Anacostia River

    Water from the Hickey Run Tributary of the Anacostia River is being collected quarterly (beginning August 2018) and analyzed to create high-resolution baseline taxonomic profiles of microbiota associated with this important aquatic ecosystem, which has a long history of exposure to residential and commercial effluents from Washington, DC. These United States National Arboretum Microbial Observatory data are available under NCBI...

    Robin Cagle, Padmini Ramachandran, Elizabeth Reed, Seth Commichaux, Mark K. Mammel, David W. Lacher, Daniela Miller, Sabina Lindley, Mihai Pop, Michael C. Bazaco, Beverly Wolpert, Errol A. Strain, Scott Aker, Joan Feely, Andrea Ottesen
    21 Mar 2019
  • Complete Genome Sequence of <span class="named-content genus-species" id="named-content-1">Lactobacillus crispatus</span> AB70, Isolated from a Vaginal Swab from a Healthy Pregnant Korean Woman
    Genome Sequences
    Complete Genome Sequence of Lactobacillus crispatus AB70, Isolated from a Vaginal Swab from a Healthy Pregnant Korean Woman

    The vaginal bacterial strain AB70, belonging to the species Lactobacillus crispatus, was isolated from a vaginal swab from a healthy pregnant Korean woman. Here, we report the 2.37-Mb complete genome sequence of this strain.

    Dong-Ho Chang, Moon-Soo Rhee, Sung-Ki Lee, In-Hwa Chung, Haeyoung Jeong, Byoung-Chan Kim
    21 Mar 2019
  • Complete Genome Sequence of <span class="named-content genus-species" id="named-content-1">Halorubrum ezzemoulense</span> Strain Fb21
    Genome Sequences
    Complete Genome Sequence of Halorubrum ezzemoulense Strain Fb21

    Isolated from Aran-Bidgol Lake in Iran, and reported here, Halorubrum ezzemoulense strain Fb21 represents the first complete genome from this archaeal species. Local recombination in this genome is in stark contrast to equidistant recombination events in bacteria.

    Yutian Feng, Artemis S. Louyakis, Andrea M. Makkay, Ray O. Guerrero, R. Thane Papke, J. Peter Gogarten
    21 Mar 2019
  • Complete Genome Sequences of 20 Nontyphoidal <em>Salmonella</em> Isolates from Rwanda
    Genome Sequences
    Complete Genome Sequences of 20 Nontyphoidal Salmonella Isolates from Rwanda

    Nontyphoidal Salmonella enterica strains are major foodborne pathogens with global public health importance. Foodborne salmonellosis can be life-threatening, especially in sub-Saharan Africa.

    Maurice Byukusenge, Lingling Li, Mediatrice Uwanyirigira, Venkata R. Vepachedu, Subhashinie Kariyawasam, Manassé Nzayirambaho, Suresh V. Kuchipudi, Bhushan M. Jayarao
    21 Mar 2019
  • Draft Whole-Genome Sequence of the Green Sulfur Photosynthetic Bacterium <em>Chlorobaculum</em> sp. Strain 24CR, Isolated from the Carmel River
    Genome Sequences
    Draft Whole-Genome Sequence of the Green Sulfur Photosynthetic Bacterium Chlorobaculum sp. Strain 24CR, Isolated from the Carmel River

    Green sulfur bacteria are in the family Chlorobiaceae, which is composed of four distinct genera, namely, Chlorobaculum, Chlorobium, Prosthecochloris, and Chloroherpeton, with Chlorobium species being the most commonly represented in genome studies. We have now sequenced only the fourth species of Chlorobaculum, which established Chlorobaculum sp. 24CR as a separate...

    Shawn Freed, Sydney Robertson, Terry Meyer, John Kyndt
    21 Mar 2019

Omics Data Sets

  • Transcriptome Sequence of Antibiotic-Treated <span class="named-content genus-species" id="named-content-1">Pseudomonas aeruginosa</span>
    Omics Data Sets
    Transcriptome Sequence of Antibiotic-Treated Pseudomonas aeruginosa

    Pseudomonas aeruginosa is known to tolerate antibiotic therapy during infection. This prevents clearance of infection and negatively impacts patient outcomes.

    Saika Esani, Tsute Chen, Kai P. Leung, Tricia A. Van Laar
    21 Mar 2019

Amplicon Sequence Collections

  • Microbial Community of Saline, Alkaline Lakes in the Nebraska Sandhills Based on 16S rRNA Gene Amplicon Sequence Data
    Amplicon Sequence Collections
    Microbial Community of Saline, Alkaline Lakes in the Nebraska Sandhills Based on 16S rRNA Gene Amplicon Sequence Data

    The Nebraska Sandhills region contains over 1,500 geochemically diverse interdunal lakes, some of which are potassium rich, alkaline, and hypersaline. Here, we report 16S rRNA amplicon pyrosequencing data on the water and sediment microbial communities of eight alkaline lakes in the Sandhills of western Nebraska.

    Nicole A. Fiore, David D. Dunigan, Julie J. Shaffer, Ryan Roberts, Sanjay Antony-Babu, Bradley A. Plantz, Kenneth W. Nickerson, Andrew K. Benson, Karrie A. Weber
    21 Mar 2019
  • Bacterial Diversity Based on a 16S rRNA Gene Amplicon Data Set from a High-Altitude Crater Lake and Glacial Samples of the Iztaccihuatl Volcanic Complex (Mexico)
    Amplicon Sequence Collections
    Bacterial Diversity Based on a 16S rRNA Gene Amplicon Data Set from a High-Altitude Crater Lake and Glacial Samples of the Iztaccihuatl Volcanic Complex (Mexico)

    Little is known about extremophilic microorganisms from glaciers found in subtropical regions, and to our knowledge, no reports have identified glacial bacteria in this ecosystem in Mexico. Herein, we report a 16S rRNA gene amplicon data set demonstrating bacterial diversity of three samples from the Iztaccihuatl volcanic complex (Mexico) with a total of 115,701 to 138,805 high-quality reads.

    Rosa P. Calvillo-Medina, Juan P. Reyes-Grajeda, Vicente D. Moreno-Andrade, Luis Barba-Escoto, Victor Bautista-de Lucio, George H. Jones, Juan Campos-Guillén
    21 Mar 2019
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Microbiology Resource Announcements: 8 (12)

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volume 8, issue 12
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