Results 21 to 30 of about 1,837,634 (299)

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

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

Taxonomy of anaerobic digestion microbiome reveals biases associated with the applied high throughput sequencing strategies [PDF]

, 2018
In the past few years, many studies investigated the anaerobic digestion microbiome by means of 16S rRNA amplicon sequencing. Results obtained from these studies were compared to each other without taking into consideration the followed procedure for ...
Angelidaki, Irini, Campanaro, Stefano, Kougias, Panagiotis G., Treu, Laura, Zhu, Xinyu   +4 more
core   +3 more sources

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

VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research [PDF]

, 2016
Accurate variant calling in next generation sequencing (NGS) is critical to understand cancer genomes better. Here we present VarDict, a novel and versatile variant caller for both DNA- and RNA-sequencing data.
Ahdesmaki, Miika, Barrett, J. Carl, Chapman, Brad, Dougherty, Brian, Dry, Jonathan R., Hofmann, Oliver, Johnson, Justin, Lai, Zhongwu, Markovets, Aleksandra, McEwen, Robert   +9 more
core   +2 more sources

Comparative genomics of four strains of the edible brown alga, Cladosiphon okamuranus

BMC Genomics, 2020
Background The brown alga, Cladosiphon okamuranus (Okinawa mozuku), is one of the most important edible seaweeds, and it is cultivated for market primarily in Okinawa, Japan.
Koki Nishitsuji, Asuka Arimoto, Yoshitaka Yonashiro, Kanako Hisata, Manabu Fujie, Mayumi Kawamitsu, Eiichi Shoguchi, Noriyuki Satoh   +7 more
doaj   +1 more source

Optimization of DNA extraction from human urinary samples for mycobiome community profiling. [PDF]

, 2019
IntroductionRecent data suggest the urinary tract hosts a microbial community of varying composition, even in the absence of infection. Culture-independent methodologies, such as next-generation sequencing of conserved ribosomal DNA sequences, provide an
Ackerman, A Lenore, Ackerman, James E, Anger, Jennifer Tash, Freeman, Michael R, Khalique, Muhammad Umair, Kim, Jayoung, NIH Multidisciplinary Approach to the Study of Chronic Pelvic Pain (MAPP), Tang, Jie, Underhill, David M   +8 more
core   +3 more sources

High-throughput DNA sequencing to survey bacterial histidine and tyrosine decarboxylases in raw milk cheeses [PDF]

, 2015
peer-reviewedBackground The aim of this study was to employ high-throughput DNA sequencing to assess the incidence of bacteria with biogenic amine (BA; histamine and tyramine) producing potential from among 10 different cheeses varieties.
Cotter, Paul D., Fallico, Vincenzo, Giblin, Linda, McSweeney, Paul L. H., O'Sullivan, Daniel, O'Sullivan, Orla, Sheehan, Diarmuid (JJ)   +6 more
core   +1 more source

Highly accurate long reads are crucial for realizing the potential of biodiversity genomics

BMC Genomics, 2023
Background Generating the most contiguous, accurate genome assemblies given available sequencing technologies is a long-standing challenge in genome science.
Scott Hotaling, Edward R. Wilcox, Jacqueline Heckenhauer, Russell J. Stewart, Paul B. Frandsen   +4 more
doaj   +1 more source

Gene-specific quantification of nascent transcription following targeted degradation of endogenous proteins in cultured cells

STAR Protocols, 2021
Summary: Genome-wide nuclear run-ons are a powerful way to determine the impact of a perturbation such as transcription factor degradation on transcriptional patterns.
Alissa D. Guarnaccia, April M. Weissmiller, William P. Tansey   +2 more
doaj   +1 more source