The soil microbiome—from metagenomics to metaphenomics

JK Jansson, KS Hofmockel - Current opinion in microbiology, 2018 - Elsevier
Soil microorganisms carry out important processes, including support of plant growth and
cycling of carbon and other nutrients. However, the majority of soil microbes have not yet …

Prochlorococcus: the structure and function of collective diversity

SJ Biller, PM Berube, D Lindell… - Nature Reviews …, 2015 - nature.com
The marine cyanobacterium Prochlorococcus is the smallest and most abundant
photosynthetic organism on Earth. In this Review, we summarize our understanding of the …

Ecological populations of bacteria act as socially cohesive units of antibiotic production and resistance

OX Cordero, H Wildschutte, B Kirkup, S Proehl, L Ngo… - Science, 2012 - science.org
In animals and plants, social structure can reduce conflict within populations and bias
aggression toward competing populations; however, for bacteria in the wild it remains …

Antibiotic resistance shaping multi-level population biology of bacteria

F Baquero, AP Tedim, TM Coque - Frontiers in microbiology, 2013 - frontiersin.org
Antibiotics have natural functions, mostly involving cell-to-cell signaling networks. The
anthropogenic production of antibiotics, and its release in the microbiosphere results in a …

Association mapping reveals novel serpentine adaptation gene clusters in a population of symbiotic Mesorhizobium

SS Porter, PL Chang, CA Conow, JP Dunham… - The ISME …, 2017 - academic.oup.com
The genetic variants that underlie microbial environmental adaptation are key components
of models of microbial diversification. Characterizing adaptive variants and the pangenomic …

Community-level cohesion without cooperation

M Tikhonov - Elife, 2016 - elifesciences.org
Recent work draws attention to community-community encounters ('coalescence') as likely
an important factor shaping natural ecosystems. This work builds on MacArthur's classic …

Application of genetics and genomics to wildlife epidemiology

JA Blanchong, SJ Robinson… - The Journal of …, 2016 - Wiley Online Library
Wildlife diseases can have significant impacts on wildlife conservation and management.
Many of the pathogens that affect wildlife also have important implications for domestic …

Biodiversity and emerging biogeography of the neutrophilic iron-oxidizing Zetaproteobacteria

SM McAllister, RE Davis, JM McBeth… - Applied and …, 2011 - Am Soc Microbiol
Members of the neutrophilic iron-oxidizing candidate class Zetaproteobacteria have
predominantly been found at sites of microbially mediated iron oxidation in marine …

Landscape community genomics: understanding eco-evolutionary processes in complex environments

BK Hand, WH Lowe, RP Kovach, CC Muhlfeld… - Trends in Ecology & …, 2015 - cell.com
Extrinsic factors influencing evolutionary processes are often categorically lumped into
interactions that are environmentally (eg, climate, landscape) or community-driven, with little …

Beyond the genome: community-level analysis of the microbial world

I Zarraonaindia, DP Smith, JA Gilbert - Biology & philosophy, 2013 - Springer
The development of culture-independent strategies to study microbial diversity and function
has led to a revolution in microbial ecology, enabling us to address fundamental questions …