PBSIM: PacBio reads simulator—toward accurate genome assembly [PDF]
Bioinformatics, 2012 Abstract Motivation: PacBio sequencers produce two types of characteristic reads (continuous long reads: long and high error rate and circular consensus sequencing: short and low error rate), both of which could be useful for de novo assembly of genomes.
Yukiteru, Ono +2 more
openaire +2 more sources
Reference Genome Assembly for Australian Ascochyta rabiei Isolate ArME14
G3: Genes, Genomes, Genetics, 2020 Ascochyta rabiei is the causal organism of ascochyta blight of chickpea and is present in chickpea crops worldwide. Here we report the release of a high-quality PacBio genome assembly for the Australian A. rabiei isolate ArME14.
Ramisah Mohd Shah +7 more
doaj +1 more source
Reference genome and comparative genome analysis for the WHO reference strain for Mycobacterium bovis BCG Danish, the present tuberculosis vaccine [PDF]
, 2019 Background: Mycobacterium bovis bacillus Calmette-Guerin (M. bovis BCG) is the only vaccine available against tuberculosis (TB). In an effort to standardize the vaccine production, three substrains, i.e. BCG Danish 1331, Tokyo 172-1 and Russia BCG-1 were
Borgers, Katlyn +9 more
core +2 more sources
Improving Genome Assemblies by Sequencing PCR Products with PacBio [PDF]
BioTechniques, 2012 Advances in sequencing technologies have dramatically reduced costs in producing high-quality draft genomes. However, there are still many contigs and possible misassembled regions in those draft genomes. Improving the quality of these genomes requires an efficient and economical means to close gaps and resequence some regions.
Xiaojing Zhang +8 more
openaire +3 more sources
Long-Read Genome Sequence of the Sugar Beet Rhizosphere Mycoparasite Pythium oligandrum
G3: Genes, Genomes, Genetics, 2020 Pythium oligandrum is a soil born free living oomycete able to parasitize fungi and oomycetes prey, including important plant and animals pathogens. Pythium oligandrum can colonize endophytically the root tissues of diverse plants where it induces plant ...
Charlène Faure +12 more
doaj +1 more source
The complete mitochondrial genome of Eaton’s skate, Bathyraja eatonii (Rajiformes, Arhynchobatidae)
Mitochondrial DNA. Part B. Resources, 2021 The complete mitochondrial genome of Eaton’s skate Bathyraja eatonii was studied using the long-read technology, PacBio Sequel System. The complete mitochondrial genome form of B.
Jinmu Kim +8 more
doaj +1 more source
Transcriptome assemblies for two drug-type cannabis chemotypes by long-read RNA sequencing. [PDF]
Plant GenomeAbstract Cannabis sativa has undergone over 10,000 years of domestication, resulting in extensive genetic and phenotypic diversity among cultivated chemotypes. Increased medical and recreational use of specialized metabolites accumulating in cannabis glandular trichomes—primarily the cannabinoids ∆9‐tetrahydrocannabinol (THC) and cannabidiol (CBD)—has ...
Berkowitz O +5 more
europepmc +2 more sources
Complete Assembly of the Genome of an Acidovorax citrulli Strain Reveals a Naturally Occurring Plasmid in This Species [PDF]
, 2019 Acidovorax citrulli is the causal agent of bacterial fruit blotch (BFB), a serious threat to cucurbit crop production worldwide. Based on genetic and phenotypic properties, A.
Chen, Gong +6 more
core +1 more source
Mitochondrial DNA. Part B. Resources, 2022 Chondrichthyans (sharks, rays and chimeras) are a fascinating and highly vulnerable group of early branching gnathostomes. However, they remain comparatively poorly sampled from the point of view of molecular resources, with deep water taxa being ...
Nair Vilas-Arrondo +10 more
doaj +1 more source
The complete mitochondrial genome of Trematomus loennbergii (Perciformes, Nototheniidae)
Mitochondrial DNA. Part B. Resources, 2021 The complete mitochondrial genome of Trematomus loennbergii was studied using NGS technology with PacBio platform. The mitochondrial genome size was 19,374bp and it had 13 protein-coding genes, 22 tRNAs and 2 rRNAs.
Eunkyung Choi +8 more
doaj +1 more source