The larvae of the greater wax moth,Galleria mellonella, are pests of active beehives. In infection biology, these larvae are playing a more and more attractive role as an invertebrate host model. Here, we report on the first genome sequence ofGalleria mellonella. Copyright © 2018 Lange et al.
The archaeon Methanobrevibacter smithii is a major colonizer of the human gut. Methanobrevibacter smithii strain KB11 was newly isolated from a Korean fecal sample. Here, we present the complete genome sequence of strain KB11 and a brief comparison with that of M. smithii type strain ATCC 35061T.
Bacillus sp. strain UFRGS-B20 was isolated in 2012 from Brazilian land-farming soil contaminated with petrochemical oily sludge. This strain was subjected to hydrocarbon biodegradation tests, showing degradation rates of up to 60%. Here, we present the 6.82-Mb draft genome sequence of the strain, which contains 2,178 proteins with functional assignments.
Enterobacter cancerogenus CR-Eb1 and Enterococcus sp. CR-Ec1 were isolated from the larval gut of Galleria mellonella, the greater wax moth. Here, we report the completed and annotated genome sequences of insect gut-dwelling bacteria.
We report here the completion of the genome sequence of a new species of haloarchaea, Haloarcula taiwanensis, isolated in southern Taiwan. The 3,721,706-bp genome consisted of chromosome I (2,966,258 bp, 63.6% GC content), chromosome II (525,233 bp, 59.6% GC content), plasmid pNYT1 (129,893 bp, 55.3% GC content), and plasmid pNYT2 (100,322 bp, 55.7% GC content).
We report here the complete genome sequence of Pseudomonas sp. strain NC02, isolated from soil in eastern Massachusetts. We assembled PacBio reads into a single closed contig with 132× mean coverage and then polished this contig using Illumina MiSeq reads, yielding a 6,890,566-bp sequence with 61.1% GC content. Copyright © 2018 Cerra et al.
We report here the complete genome sequence of Escherichia coli strain ML35. We assembled PacBio reads into a single closed contig with 169× mean coverage and then polished this contig using Illumina MiSeq reads, yielding a 4,918,774-bp sequence with 50.8% GC content. Copyright © 2018 Casale et al.
Plasmodium falciparum is the species of human malaria parasite that causes the most severe form of the disease. Here, we used single-molecule real-time (SMRT) sequencing technology from Pacific Biosciences (PacBio) to sequence, assemble de novo, and annotate the genome of a P. falciparum NF54 clone. Copyright © 2018 Bryant et al.
Dietzia sp. strain WMMA184 was isolated from the marine coralMontastraea faveolataas part of ongoing drug discovery efforts. Analysis of the 4.16-Mb genome provides information regarding interspecies interactions as it pertains to the regulation of secondary metabolism and natural product biosynthesis potential. Copyright © 2018 Braun et al.
Thermoanaerobacterium sp. strain RBIITD was isolated from contaminated rich growth medium at 55°C in an anaerobic chamber. It primarily produces butyrate as a fermentation product from plant biomass-derived sugars. The whole-genome sequence of the strain is 3.4 Mbp, with 3,444 genes and 32.48% GC content.
Alternaria brassicicola causes dark spot (or black spot) disease, which is one of the most common and destructive fungal diseases of Brassicaceae spp. worldwide. Here, we report the draft genome sequence of strain Abra43. The assembly comprises 29 scaffolds, with an N50 value of 2.1 Mb. The assembled genome was 31,036,461 bp in length, with a G+C content of 50.85%.
Bacillus caldolyticus NEB414 is the original source strain for the restriction enzyme BclI. Its complete sequence and full methylome were determined using single-molecule real-time sequencing. Copyright © 2018 Fomenkov et al.
We report here the complete genome sequence of Streptococcus thermophilus DGCC 7710. S. thermophilus is widely used in industrial dairy production.
During DNA extraction the DNA molecule undergoes physical and chemical shearing, causing the DNA to fragment into shorter and shorter pieces. Under common laboratory conditions this fragmentation yields DNA fragments of 5-35 kilobases (kb) in length. This fragment length is more than sufficient for DNA sequencing using short-read technologies which generate reads 50-600 bp in length, but insufficient for long-read sequencing and linked reads where fragment lengths of more than 40 kb may be desirable. This study provides a theoretical framework for quality management to ensure access to high molecular weight DNA in samples. Shearing can be divided into physical and chemical shearing which generate different patterns of fragmentation. Exposure to physical shearing creates a characteristic fragment length where DNA fragments are cut in half by shear stress. This characteristic length can be measured using gel electrophoresis or instruments for DNA fragment analysis. Chemical shearing generates randomly distributed fragment lengths visible as a smear of DNA below the peak fragment length. By measuring the peak of DNA fragment length and the proportion of very short DNA fragments both sources of shearing can be measured using commonly used laboratory techniques, providing a suitable quantification of DNA integrity of DNA for sequencing with long-read technologies.
esearch. However, data produced by NGS is affected by different errors such as substitutions, deletions or insertion. It is essential to differentiate between true biological variants and alterations occurred due to errors for accurate downstream analysis. Many types of methods and tools have been developed for NGS error correction. Some of these methods only correct substitutions errors whereas others correct multi types of data errors. In this article, a comprehensive evaluation of three types of methods (k-spectrum based, Multi- sequencing alignment and Hybrid based) is presented which are implemented and adopted by different tools. Experiments have been conducted to compare the performance based on runtime and error correction rate. Two different computing platforms have been used for the experiments to evaluate effectiveness of runtime and error correction rate. The mission and aim of this comparative evaluation is to provide recommendations for selection of suitable tools to cope with the specific needs of users and practitioners. It has been noticed that k-mer spectrum based methodology generated superior results as compared to other methods. Amongst all the tools being utilized, Racer has shown eminent performance in terms of error correction rate and execution time for both small as well as large data sets. In multisequence alignment based tools, Karect depicts excellent error correction rate whereas Coral shows better execution time for all data sets. In hybrid based tools, Jabba shows better error correction rate and execution time as compared to brownie. Computing platforms mostly affect execution time but have no general effect on error correction rate.
If you have a question, need to check the status of an order, or are interested in purchasing an instrument, we're here to help.