Results 21 to 30 of about 3,677,492 (346)

Discovering multiple types of DNA methylation from bacteria and microbiome using nanopore sequencing

Nature Methods, 2021
Bacterial DNA methylation occurs at diverse sequence contexts and plays important functional roles in cellular defense and gene regulation. Existing methods for detecting DNA modification from nanopore sequencing data do not effectively support de novo ...
A. Tourancheau, E. Mead, Xue-Song Zhang, Gang Fang   +3 more
semanticscholar   +1 more source

A first insight into the genome of Prototheca wickerhamii, a major causative agent of human protothecosis

BMC Genomics, 2021
Background Colourless microalgae of the Prototheca genus are the only known plants that have consistently been implicated in a range of clinically relevant opportunistic infections in both animals and humans.
Zofia Bakuła, Paweł Siedlecki, Robert Gromadka, Jan Gawor, Agnieszka Gromadka, Jan J. Pomorski, Hanna Panagiotopoulou, Tomasz Jagielski   +7 more
doaj   +1 more source

DNA methylation-calling tools for Oxford Nanopore sequencing: a survey and human epigenome-wide evaluation

Genome Biology, 2021
Nanopore long-read sequencing technology greatly expands the capacity of long-range, single-molecule DNA-modification detection. A growing number of analytical tools have been developed to detect DNA methylation from nanopore sequencing reads.
Yang Liu, Wojciech Rosikiewicz, Ziwei Pan, Nathaniel Jillette, Ping Wang, A. Taghbalout, J. Foox, C. Mason, M. Carroll, A. Cheng, Sheng Li   +10 more
semanticscholar   +1 more source

Exoquence DNA sequencing [PDF]

Nucleic Acids Research, 1993
We have developed a strategy for DNA sequencing based on exonuclease III digestion followed by double strand specific endonuclease digestion and direct dideoxynucleotide sequencing reaction. This strategy eliminates the need for subcloning, oligonucleotide primers, and prior knowledge of the DNA to be sequenced.
Chuan Li, Philip W. Tucker
openaire   +3 more sources

An optimized method for high quality DNA extraction from microalga Prototheca wickerhamii for genome sequencing

Plant Methods, 2017
Background The complex cell wall structure of algae often precludes efficient extraction of their genetic material. The purpose of this study was to design a next-generation sequencing-suitable DNA isolation method for unicellular, achlorophyllous, yeast-
Tomasz Jagielski, Jan Gawor, Zofia Bakuła, Karolina Zuchniewicz, Iwona Żak, Robert Gromadka   +5 more
doaj   +1 more source

Bacterial Communities Associated with Poa annua Roots in Central European (Poland) and Antarctic Settings (King George Island)

Microorganisms, 2021
Poa annua (annual bluegrass) is one of the most ubiquitous grass species in the world. In isolated regions of maritime Antarctica, it has become an invasive organism threatening native tundra communities.
Anna Znój, Jakub Grzesiak, Jan Gawor, Robert Gromadka, Katarzyna J. Chwedorzewska   +4 more
doaj   +1 more source

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

bioRxiv, 2016
The Illumina DNA sequencing platform generates accurate but short reads, which can be used to produce accurate but fragmented genome assemblies. Pacific Biosciences and Oxford Nanopore Technologies DNA sequencing platforms generate long reads that can ...
R. Wick, L. Judd, C. Gorrie, K. Holt
semanticscholar   +1 more source

Genome description of Phlebia radiata 79 with comparative genomics analysis on lignocellulose decomposition machinery of phlebioid fungi

BMC Genomics, 2019
Background The white rot fungus Phlebia radiata, a type species of the genus Phlebia, is an efficient decomposer of plant cell wall polysaccharides, modifier of softwood and hardwood lignin, and is able to produce ethanol from various waste ...
Mari Mäkinen, Jaana Kuuskeri, Pia Laine, Olli-Pekka Smolander, Andriy Kovalchuk, Zhen Zeng, Fred O. Asiegbu, Lars Paulin, Petri Auvinen, Taina Lundell   +9 more
doaj   +1 more source

Divergent northern and southern populations and demographic history of the pearl oyster in the western Pacific revealed with genomic SNPs

Evolutionary Applications, 2020
In the open ocean without terrain boundaries, marine invertebrates with pelagic larvae can migrate long distances using ocean currents, suggesting reduced genetic diversification.
Takeshi Takeuchi, Tetsuji Masaoka, Hideo Aoki, Ryo Koyanagi, Manabu Fujie, Noriyuki Satoh   +5 more
doaj   +1 more source

DNA Sequences at a Glance

PLoS ONE, 2013
Data summarization and triage is one of the current top challenges in visual analytics. The goal is to let users visually inspect large data sets and examine or request data with particular characteristics. The need for summarization and visual analytics is also felt when dealing with digital representations of DNA sequences.
Armando J. Pinho, Diogo Pratas, Paulo J. S. G. Ferreira, Sara P. Garcia   +3 more
openaire   +5 more sources