[HTML][HTML] Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the illumina platform

L Sinclair, OA Osman, S Bertilsson, A Eiler - PloS one, 2015 - journals.plos.org
As new sequencing technologies become cheaper and older ones disappear, laboratories
switch vendors and platforms. Validating the new setups is a crucial part of conducting …

Bacterial diversity along a 2600 km river continuum

D Savio, L Sinclair, UZ Ijaz, J Parajka… - Environmental …, 2015 - Wiley Online Library
The bacterioplankton diversity in large rivers has thus far been under‐sampled despite the
importance of streams and rivers as components of continental landscapes. Here, we present …

[HTML][HTML] HTSstation: a web application and open-access libraries for high-throughput sequencing data analysis

…, S Carat, FJ Ross, G Lefebvre, Y Jarosz, L Sinclair… - PloS one, 2014 - journals.plos.org
The HTSstation analysis portal is a suite of simple web forms coupled to modular analysis
pipelines for various applications of High-Throughput Sequencing including ChIP-seq, RNA-…

Comparison of four DNA extraction methods for comprehensive assessment of 16S rRNA bacterial diversity in marine biofilms using high-throughput sequencing

N Corcoll, T Österlund, L Sinclair, A Eiler… - FEMS Microbiology …, 2017 - academic.oup.com
High-throughput DNA sequencing technologies are increasingly used for the metagenomic
characterisation of microbial biodiversity. However, basic issues, such as the choice of an …

Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria

A Eiler, R Mondav, L Sinclair… - The ISME …, 2016 - academic.oup.com
Most free-living planktonic cells are streamlined and in spite of their limitations in functional
flexibility, their vast populations have radiated into a wide range of aquatic habitats. Here we …

A multiplicity of factors contributes to selective RNA polymerase III occupancy of a subset of RNA polymerase III genes in mouse liver

…, R Liechti, O Martin, F Ross, L Sinclair… - Genome …, 2012 - genome.cshlp.org
The genomic loci occupied by RNA polymerase (RNAP) III have been characterized in
human culture cells by genome-wide chromatin immunoprecipitations, followed by deep …

[HTML][HTML] Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes

S Peura, L Sinclair, S Bertilsson, A Eiler - Scientific reports, 2015 - nature.com
Thousands of net-heterotrophic and strongly stratifying lakes dominate the boreal landscape.
Besides their central role as emitters of greenhouse gases, we have only recently begun to …

[HTML][HTML] PyroTRF-ID: a novel bioinformatics methodology for the affiliation of terminal-restriction fragments using 16S rRNA gene pyrosequencing data

DG Weissbrodt, N Shani, L Sinclair, G Lefebvre… - BMC microbiology, 2012 - Springer
Background In molecular microbial ecology, massive sequencing is gradually replacing
classical fingerprinting techniques such as terminal-restriction fragment length polymorphism (T-…

[HTML][HTML] Seqenv: linking sequences to environments through text mining

L Sinclair, UZ Ijaz, LJ Jensen, MJL Coolen… - PeerJ, 2016 - peerj.com
Understanding the distribution of taxa and associated traits across different environments is
one of the central questions in microbial ecology. High-throughput sequencing (HTS) studies …

Remnants of marine bacterial communities can be retrieved from deep sediments in lakes of marine origin

…, J Comte, Y Zha, MS Samad, L Sinclair… - Environmental …, 2016 - Wiley Online Library
Some bacteria can be preserved over time in deep sediments where they persist either in
dormant or slow‐growing vegetative stages. Here, we hypothesized that such cells can be …