Accurate and complete genomes from metagenomes

LX Chen, K Anantharaman, A Shaiber… - Genome …, 2020 - genome.cshlp.org
Genomes are an integral component of the biological information about an organism; thus,
the more complete the genome, the more informative it is. Historically, bacterial and …

Next generation sequencing approaches to evaluate water and wastewater quality

E Garner, BC Davis, E Milligan, MF Blair, I Keenum… - Water Research, 2021 - Elsevier
The emergence of next generation sequencing (NGS) is revolutionizing the potential to
address complex microbiological challenges in the water industry. NGS technologies can …

Nitrogen cycling and microbial cooperation in the terrestrial subsurface

OE Mosley, E Gios, M Close, L Weaver… - The ISME …, 2022 - academic.oup.com
The nitrogen cycle plays a major role in aquatic nitrogen transformations, including in the
terrestrial subsurface. However, the variety of transformations remains understudied. To …

Cellular adhesiveness and cellulolytic capacity in Anaerolineae revealed by omics-based genome interpretation

Y **a, Y Wang, Y Wang, FYL Chin, T Zhang - Biotechnology for Biofuels, 2016 - Springer
Abstract Background The Anaerolineae lineage of Chloroflexi had been identified as one of
the core microbial populations in anaerobic digesters; however, the ecological role of the …

Recovering complete and draft population genomes from metagenome datasets

N Sangwan, F **a, JA Gilbert - Microbiome, 2016 - Springer
Assembly of metagenomic sequence data into microbial genomes is of fundamental value to
improving our understanding of microbial ecology and metabolism by elucidating the …

Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages

LA Hug, BC Thomas, I Sharon… - Environmental …, 2016 - Wiley Online Library
Nitrogen, sulfur and carbon fluxes in the terrestrial subsurface are determined by the
intersecting activities of microbial community members, yet the organisms responsible are …

Microbial community structure and function in sediments from e-waste contaminated rivers at Guiyu area of China

J Liu, X Chen, H Shu, X Lin, Q Zhou, T Bramryd… - Environmental …, 2018 - Elsevier
The release of toxic organic pollutants and heavy metals by primitive electronic waste (e-
waste) processing to waterways has raised significant concerns, but little is known about …

Novel arsenic-transforming bacteria and the diversity of their arsenic-related genes and enzymes arising from arsenic-polluted freshwater sediment

MLS Suhadolnik, APC Salgado, LLS Scholte… - Scientific reports, 2017 - nature.com
Bacteria are essential in arsenic cycling. However, few studies have addressed 16S rRNA
and arsenic-related functional gene diversity in long-term arsenic-contaminated tropical …

MEGAnnotator: a user-friendly pipeline for microbial genomes assembly and annotation

GA Lugli, C Milani, L Mancabelli… - FEMS microbiology …, 2016 - academic.oup.com
Genome annotation is one of the key actions that must be undertaken in order to decipher
the genetic blueprint of organisms. Thus, a correct and reliable annotation is essential in …

Bacterial community response to chronic heavy metal contamination in marine sediments of the East China Sea

H Chen, C Ji, H Hu, S Hu, S Yue, M Zhao - Environmental Pollution, 2022 - Elsevier
Marine sediments act as a sink for various heavy metals, which may have profound impact
on sedimentary microbiota. However, our knowledge about the collaborative response of …