Dataset Information

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.

ABSTRACT: Microbial communities are complex and dynamic systems that are primarily structured according to their members' ecological niches. To investigate how niche breadth (generalist versus specialist lifestyle strategies) relates to ecological success, we develop and apply an integrative workflow for the multi-omic analysis of oleaginous mixed microbial communities from a biological wastewater treatment plant. Time- and space-resolved coupled metabolomic and taxonomic analyses demonstrate that the community-wide lipid accumulation phenotype is associated with the dominance of the generalist bacterium Candidatus Microthrix spp. By integrating population-level genomic reconstructions (reflecting fundamental niches) with transcriptomic and proteomic data (realised niches), we identify finely tuned gene expression governing resource usage by Candidatus Microthrix parvicella over time. Moreover, our results indicate that the fluctuating environmental conditions constrain the accumulation of genetic variation in Candidatus Microthrix parvicella likely due to fitness trade-offs. Based on our observations, niche breadth has to be considered as an important factor for understanding the evolutionary processes governing (microbial) population sizes and structures in situ.

SUBMITTER: Muller EE

PROVIDER: S-EPMC4263124 | biostudies-literature | 2014 Nov

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.

Muller Emilie E L EE Pinel Nicolás N Laczny Cédric C CC Hoopmann Michael R MR Narayanasamy Shaman S Lebrun Laura A LA Roume Hugo H Lin Jake J May Patrick P Hicks Nathan D ND Heintz-Buschart Anna A Wampach Linda L Liu Cindy M CM Price Lance B LB Gillece John D JD Guignard Cédric C Schupp James M JM Vlassis Nikos N Baliga Nitin S NS Moritz Robert L RL Keim Paul S PS Wilmes Paul P

Nature communications 20141126

Microbial communities are complex and dynamic systems that are primarily structured according to their members' ecological niches. To investigate how niche breadth (generalist versus specialist lifestyle strategies) relates to ecological success, we develop and apply an integrative workflow for the multi-omic analysis of oleaginous mixed microbial communities from a biological wastewater treatment plant. Time- and space-resolved coupled metabolomic and taxonomic analyses demonstrate that the com ...[more]

PMID: 25424998

Similar Datasets

Project description:Quantifying resource selection (an organism's disproportionate use of available resources) is essential to infer habitat requirements of a species, develop management recommendations, predict species responses to changing conditions, and improve our understanding of the processes that underlie ecological patterns. Because study sites, even within the same region, can differ in both the amount and the arrangement of cover types, our objective was to determine whether proximal sites can yield markedly different resource selection results for a generalist bird, northern bobwhite (Colinus virginianus). We used 5 years of telemetry locations and newly developed land cover data at two, geographically distinct but relatively close sites in the south-central semi-arid prairies of North America. We fit a series of generalized linear mixed models and used an information-theoretic model comparison approach to identify and compare resource selection patterns at each site. We determined that the importance of different cover types to northern bobwhite is site-dependent on relatively similar and nearby sites. Specifically, whether bobwhite selected for shrub cover and whether they strongly avoided trees, depended on the study site in focus. Additionally, the spatial scale of selection was nearly an order of magnitude different between the cover types. Our study demonstrates that-even for one of the most intensively studied species in the world-we may oversimplify resource selection by using a single study site approach. Managing the trade-offs between practical, generalized conclusions and precise but complex conclusions is one of the central challenges in applied ecology. However, we caution against setting recommendations for broad extents based on information gathered at small extents, even for a generalist species at adjacent sites. Before extrapolating information to areas beyond the data collected, managers should account for local differences in the availability, arrangement, and scaling of resources.

Project description:A diversity of arthropods (myrmecophiles) thrives within ant nests, many of them unmolested though some, such as the specialized Eucharitidae parasitoids, may cause direct damage to their hosts. Ants are known to discriminate between nestmates and non-nestmates, but whether they recognize the strength of a threat and their capacity to adjust their behavior accordingly have not been fully explored. We aimed to determine whether Ectatomma tuberculatum ants exhibited specific behavioral responses to potential or actual intruders posing different threats to the host colony and to contribute to an understanding of complex ant-eucharitid interactions. Behavioral responses differed significantly according to intruder type. Ants evicted intruders that represented a threat to the colony's health (dead ants) or were not suitable as prey items (filter paper, eucharitid parasitoid wasps, non myrmecophilous adult weevils), but killed potential prey (weevil larvae, termites). The timing of detection was in accordance with the nature and size of the intruder: corpses (a potential source of contamination) were detected faster than any other intruder and transported to the refuse piles within 15 min. The structure and complexity of behavioral sequences differed among those intruders that were discarded. Workers not only recognized and discriminated between several distinct intruders but also adjusted their behavior to the type of intruder encountered. Our results confirm the previously documented recognition capabilities of E. tuberculatum workers and reveal a very fine-tuned intruder discrimination response. Colony-level prophylactic and hygienic behavioral responses through effective removal of inedible intruders appears to be the most general and flexible form of defense in ants against a diverse array of intruders. However, this generalized response to both potentially lethal and harmless intruders might have driven the evolution of ant-eucharitid interactions, opening a window for parasitoid attack and allowing adult parasitoid wasps to quickly leave the natal nest unharmed.

Dataset Information

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.

Publications

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets