[HTML][HTML] One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly

S Koren, AM Phillippy - Current opinion in microbiology, 2015 - Elsevier
Highlights•We describe three long-read sequencing technologies and their
characteristics.•We describe available algorithms for long-read assembly and their …

Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies

A Oulas, C Pavloudi, P Polymenakou… - … and biology insights, 2015 - journals.sagepub.com
Advances in next-generation sequencing (NGS) have allowed significant breakthroughs in
microbial ecology studies. This has led to the rapid expansion of research in the field and …

Two divergent haplotypes from a highly heterozygous lychee genome suggest independent domestication events for early and late-maturing cultivars

G Hu, J Feng, X Xiang, J Wang, J Salojärvi, C Liu… - Nature …, 2022 - nature.com
Lychee is an exotic tropical fruit with a distinct flavor. The genome of cultivar 'Feizixiao'was
assembled into 15 pseudochromosomes, totaling~ 470 Mb. High heterozygosity (2.27%) …

Comparative genomics of the major parasitic worms

Nature genetics, 2019 - nature.com
Parasitic nematodes (roundworms) and platyhelminths (flatworms) cause debilitating
chronic infections of humans and animals, decimate crop production and are a major …

Zika virus in the Americas: early epidemiological and genetic findings

NR Faria, RSS Azevedo, MUG Kraemer, R Souza… - Science, 2016 - science.org
Brazil has experienced an unprecedented epidemic of Zika virus (ZIKV), with~ 30,000 cases
reported to date. ZIKV was first detected in Brazil in May 2015, and cases of microcephaly …

Gut microbiota composition correlates with diet and health in the elderly

MJ Claesson, IB Jeffery, S Conde, SE Power… - Nature, 2012 - nature.com
Alterations in intestinal microbiota composition are associated with several chronic
conditions, including obesity and inflammatory diseases. The microbiota of older people …

Co-circulation of three camel coronavirus species and recombination of MERS-CoVs in Saudi Arabia

JSM Sabir, TTY Lam, MMM Ahmed, L Li, Y Shen… - Science, 2016 - science.org
Outbreaks of Middle East respiratory syndrome (MERS) raise questions about the
prevalence and evolution of the MERS coronavirus (CoV) in its animal reservoir. Our …

Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars

CR Cavanagh, S Chao, S Wang… - Proceedings of the …, 2013 - National Acad Sciences
Domesticated crops experience strong human-mediated selection aimed at developing high-
yielding varieties adapted to local conditions. To detect regions of the wheat genome subject …

Reshaping faecal gut microbiota composition by the intake of trans-resveratrol and quercetin in high-fat sucrose diet-fed rats

U Etxeberria, N Arias, N Boqué, MT Macarulla… - The Journal of nutritional …, 2015 - Elsevier
Diet-induced obesity is associated to an imbalance in the normal gut microbiota
composition. Resveratrol and quercetin, widely known for their health beneficial properties …

De novo transcriptome assembly: A comprehensive cross-species comparison of short-read RNA-Seq assemblers

M Hölzer, M Marz - Gigascience, 2019 - academic.oup.com
Background In recent years, massively parallel complementary DNA sequencing (RNA
sequencing [RNA-Seq]) has emerged as a fast, cost-effective, and robust technology to …