Archive
Genome Sequences
Genome SequencesComplete Genome Sequence of Agrococcus sp. Strain SGAir0287, Isolated from Tropical Air Collected in SingaporeAgrococcus sp. strain SGAir0287 was isolated from tropical air samples collected in Singapore. Assembled using single-molecule real-time (SMRT) sequencing and MiSeq reads, the genome consists of one circular chromosome of 3,084,767 bp. The entire genome has 2,870 protein-coding genes, 45 tRNAs, and 3 rRNAs.
Genome SequencesGenome Sequences of Two Azospirillum sp. Strains, TSA2S and TSH100, Plant Growth-Promoting Rhizobacteria with N2O Mitigation AbilitiesAzospirillum sp. strains TSA2S and TSH100 are plant growth-promoting rhizobacteria with the capacity to mitigate N2O from agricultural soil. They were isolated from the rhizosphere of paddy soil in Tokyo, Japan. Here, we present the genome sequences of these two strains.
Genome SequencesDraft Genome Sequence of Massilia sp. Strain MC02, Isolated from a Sandy Loam Maize SoilFrom farmed corn soil in California, we isolated and sequenced a new member of the genus Massilia, Massilia sp. strain MC02. Massilia sp. MC02 has an assembled draft genome of 5,023,356 bp with a total of 4,790 protein-encoding genes and 3,028 predicted proteins, 47 tRNA genes, and 2 rRNA operons.
Genome SequencesComplete Genome Sequence of Enterotoxigenic Escherichia coli Podophage LL11Enterotoxigenic Escherichia coli (ETEC) is an opportunistic pathogen that commonly causes foodborne illness. Study of bacteriophages against this pathogen could be useful to develop alternative treatment approaches. Here, we present the complete genome sequence of LL11, a T7-like podophage that infects ETEC.
Genome SequencesGenome Sequence of a T4-like Phage, Escherichia Phage vB_EcoM-Sa45lw, Infecting Shiga Toxin-Producing Escherichia coli StrainsEscherichia phage vB_EcoM-Sa45lw, a new member of the T4-like phages, was isolated from surface water in a produce-growing area. The phage, containing double-stranded DNA with a genome size of 167,353 bp and 282 predicted open reading frames (ORFs), is able to infect generic Escherichia coli and Shiga toxin-producing...
Genome SequencesComplete Genome Sequences of Streptomyces lividans Bacteriophages Satis and JustBecauseWe present here the complete genomes of two Streptomyces bacteriophages, Satis and JustBecause. Both phages were isolated directly from soil samples collected in St. Louis, MO, and present with an unusual prolate head morphology and large genome lengths of over 180 kb.
Genome SequencesDraft Genome Sequence of Manganese-Oxidizing Bacterium Massilia sp. Strain Mn16-1_5, Isolated from Serpentine Soil in Taitung, TaiwanMassilia sp. strain Mn16-1_5 was isolated from serpentine soil. This strain is able to oxidize manganese and has the potential for bioremediation of chromium. Here, we present a 5.53-Mb draft genome sequence of this strain with a G+C content of 64.8% that might provide more information for species delineation and oxidase genes in this strain.
Genome SequencesDraft Genome Sequence of Brevundimonas sp. Strain T2.26MG-97, Isolated from a Rock Core Sample from 492.6 Meters Deep on the Subsurface of the Iberian Pyrite BeltThe draft genome of Brevundimonas sp. strain T2.26MG-97, isolated at a depth of 492.6 m in the subsurface of the Iberian Pyrite Belt, is reported here. It consists of 262 scaffolds with a total genome length of 3.68 Mbp, where 3,549 coding DNA sequences have been annotated.
Genome SequencesFirst Whole-Genome Sequence of a Highly Resistant Klebsiella pneumoniae Sequence Type 14 Strain Isolated from SudanKlebsiella pneumoniae is an opportunistic pathogen that accounts for a significant proportion of hospital-acquired infections and is a leading cause of nosocomial outbreaks. Here, we describe the genomic sequence of a highly resistant K. pneumoniae sequence type 14 (ST14) strain isolated from Sudan...
Genome SequencesComplete Genome Sequence and Methylome Analysis of Thermoactinomyces vulgaris 2HHere, we report the complete genome sequence and full methylome analysis of a newly isolated, aerobic, thermophilic, Gram-positive actinomycete, a strain of Thermoactinomyces vulgaris designated strain 2H.
Genome SequencesWhole-Genome Sequencing of Four Campylobacter Strains Isolated from Gull Excreta Collected from Hobie Beach (Oxnard, CA, USA)Campylobacter spp. are commensal organisms in avian species and are one of the leading causes of bacterial foodborne human diarrheal disease worldwide. We report the draft genome sequences of Campylobacter volucris, C. lari, and...
Genome SequencesDraft Genome Sequence of Massilia sp. Strain ONC3, a Novel Bacterial Species of the Oxalobacteraceae Family Isolated from Garden SoilFrom garden soil, we isolated and sequenced Massilia sp. strain ONC3, a new member of the Oxalobacteraceae within the Massilia genus. Sequence analysis showed an assembled genome size of 5,622,601 bp, with a predicted total of 5,104 protein-coding sequences, 3,194 functionally assigned...
Genome SequencesDraft Genome Sequences of Potentially Pathogenic Clostridium perfringens Strains from Environmental Surface Water in the North West Province of South AfricaSurface water systems in South Africa are experiencing a major decline in quality due to various anthropogenic factors. This poses a possible health risk for humans. Here, we present the draft genome sequences of three Clostridium perfringens isolates obtained from a fecally polluted river system in the North West province of South Africa.
Genome SequencesComplete Genome Sequence of Caloramator sp. Strain E03, a Novel Ethanologenic, Thermophilic, Obligately Anaerobic BacteriumHere, we report the complete genome sequence of Caloramator sp. strain E03, an anaerobic thermophile that was isolated from a hot spring within the Rabbit Creek area of Yellowstone National Park. The assembly contains a single 2,984,770-bp contig with a G+C content of 31.3% and is predicted to encode 2,678 proteins.
Genome SequencesComplete Genome Sequences of Three Star-Shaped Bacteria, Stella humosa, Stella vacuolata, and Stella Species ATCC 35155Stella species are unique star-shaped alphaproteobacteria found in various environments. We report the complete genome sequences of three Stella strains, Stella humosa ATCC 43930, Stella vacuolata ATCC 43931, and ...
Genome SequencesDraft Genome Sequence of Duganella sp. Strain DN04, Isolated from Cultivated Soil...Here, we sequenced Duganella sp. strain DN04, a novel species within the genus Duganella that was isolated from a maize field in North Carolina. The assembled draft genome size is 6,562,230 bp, with a total of 6,039 protein coding sequences and 3,889 functionally assigned genes, including genes putatively involved in the colonization of plants.
Genome SequencesComplete Genome Sequence of Nissabacter sp. Strain SGAir0207, Isolated from an Air Sample Collected in SingaporeNissabacter sp. strain SGAir0207 was isolated from a tropical air sample collected in Singapore. Its genome was assembled using a hybrid approach with long and short reads, resulting in one chromosome of 3.9 Mb and 7 plasmids. The complete genome consists of 4,403 protein-coding, 84 tRNA, and 22 rRNA genes.
Genome SequencesComplete Genome Sequences of Cluster F Mycobacteriophages EleanorGeorge, Mattes, and SpikeleeEleanorGeorge, Mattes, and Spikelee are mycobacteriophages isolated from different soil samples using Mycobacterium smegmatis mc2155 as the host. Each was obtained using direct isolation techniques, purified, and then sequenced. Based on sequence similarity, all three belong to the F1 subcluster and are temperate phages.
Genome SequencesFull Chloroplast Genome Sequence of the Economically Important Dietary Supplement and Spice Curcuma longaCurcuma longa L. is a native species of Asia that is commonly known as turmeric. It is a spice also used in traditional medicine to treat a wide range of illnesses. Here, we present the fully annotated chloroplast genome of Curcuma longa.
Genome SequencesWhole-Genome Sequence of Acinetobacter baumannii Strain NUBRI-A, Isolated from a Hospitalized Patient in Khartoum, SudanAcinetobacter baumannii has emerged as an important pathogen leading to multiple nosocomial outbreaks. Here, we describe the genomic sequence of a multidrug-resistant Acinetobacter baumannii sequence type 164 (ST164) isolate from a hospital patient in Sudan. To our knowledge, this is the first...
Genome SequencesComplete Genome Sequence of Brachybacterium sp. Strain SGAir0954, Isolated from Singapore AirBrachybacterium sp. strain SGAir0954 was isolated from tropical air collected in Singapore, and its genome was sequenced and assembled using long reads generated by single-molecule real-time (SMRT) sequencing. The complete genome has a size of 3.41 Mb and consists of 2,955 protein coding genes, 50 tRNAs, and 9 rRNAs.
Amplicon Sequence Collections
Amplicon Sequence Collections16S rRNA Gene Amplicon Sequence Data from Chicken Cecal Feces from Vietnam and ThailandHere, we report 16S rRNA amplicon sequence data from chicken cecal feces from Vietnam and Thailand. Lachnospiraceae, Ruminococcaceae, and Bacteroidaceae were dominant in cecal feces microbiota.
Protocols and Workflows
Protocols and WorkflowsoctoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. SwineThe diversity of the 8 genes of influenza A viruses (IAV) in swine reflects introductions from nonswine hosts and subsequent antigenic drift and shift. Here, we curated a data set and present a pipeline that assigns evolutionary lineage and genetic clade to query gene segments.
