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Presence does not imply activity : DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion

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Abstract
Background: The microbial community in anaerobic digestion is mainly monitored by means of DNA-based methods. This may lead to incorrect interpretation of the community parameters, because microbial abundance does not necessarily reflect activity. In this research, the difference between microbial community response on DNA (total community) and RNA (active community) based on the 16S rRNA (gene) with respect to salt concentration and response time was evaluated. Results: The application of higher NaCl concentrations resulted in a decrease in methane production. A stronger and faster response to salt concentration was observed on RNA level. This was reflected in terms of microbial community composition and organization, as richness, evenness, and overall diversity were differentially impacted. A higher divergence of community structure was observed on RNA level as well, indicating that total community composition depends on deterministic processes, while the active community is determined by stochastic processes. Methanosaeta was identified as the most abundant methanogen on DNA level, but its relative abundance decreased on RNA level, related to salt perturbation. Conclusions: This research demonstrated the need for RNA-based community screening to obtain reliable information on actual community parameters and to identify key species that determine process stability.
Keywords
Archaea, Biogas, Illumina sequencing, Methanogenesis, Salinity, MICROBIAL COMMUNITY STRUCTURE, RIBOSOMAL-RNA, BACTERIAL COMMUNITY, DIVERSITY, AMMONIA, MICROORGANISMS, FUNCTIONALITY, INHIBITION, REACTOR, SLUDGE

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MLA
De Vrieze, Jo et al. “Presence Does Not Imply Activity : DNA and RNA Patterns Differ in Response to Salt Perturbation in Anaerobic Digestion.” BIOTECHNOLOGY FOR BIOFUELS 9 (2016): n. pag. Print.
APA
De Vrieze, J., Regueiro, L., Props, R., Vilchez Vargas, R., Jáuregui, R., Pieper, D. H., Lema, J. M., et al. (2016). Presence does not imply activity : DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion. BIOTECHNOLOGY FOR BIOFUELS, 9.
Chicago author-date
De Vrieze, Jo, Leticia Regueiro, Ruben Props, Ramiro Vilchez Vargas, Ruy Jáuregui, Dietmar H Pieper, Juan M Lema, and Marta Carballa. 2016. “Presence Does Not Imply Activity : DNA and RNA Patterns Differ in Response to Salt Perturbation in Anaerobic Digestion.” Biotechnology for Biofuels 9.
Chicago author-date (all authors)
De Vrieze, Jo, Leticia Regueiro, Ruben Props, Ramiro Vilchez Vargas, Ruy Jáuregui, Dietmar H Pieper, Juan M Lema, and Marta Carballa. 2016. “Presence Does Not Imply Activity : DNA and RNA Patterns Differ in Response to Salt Perturbation in Anaerobic Digestion.” Biotechnology for Biofuels 9.
Vancouver
1.
De Vrieze J, Regueiro L, Props R, Vilchez Vargas R, Jáuregui R, Pieper DH, et al. Presence does not imply activity : DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion. BIOTECHNOLOGY FOR BIOFUELS. 2016;9.
IEEE
[1]
J. De Vrieze et al., “Presence does not imply activity : DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion,” BIOTECHNOLOGY FOR BIOFUELS, vol. 9, 2016.
@article{8520396,
  abstract     = {Background: The microbial community in anaerobic digestion is mainly monitored by means of DNA-based methods. This may lead to incorrect interpretation of the community parameters, because microbial abundance does not necessarily reflect activity. In this research, the difference between microbial community response on DNA (total community) and RNA (active community) based on the 16S rRNA (gene) with respect to salt concentration and response time was evaluated. 
Results: The application of higher NaCl concentrations resulted in a decrease in methane production. A stronger and faster response to salt concentration was observed on RNA level. This was reflected in terms of microbial community composition and organization, as richness, evenness, and overall diversity were differentially impacted. A higher divergence of community structure was observed on RNA level as well, indicating that total community composition depends on deterministic processes, while the active community is determined by stochastic processes. Methanosaeta was identified as the most abundant methanogen on DNA level, but its relative abundance decreased on RNA level, related to salt perturbation. 
Conclusions: This research demonstrated the need for RNA-based community screening to obtain reliable information on actual community parameters and to identify key species that determine process stability.},
  articleno    = {244},
  author       = {De Vrieze, Jo and Regueiro, Leticia and Props, Ruben and Vilchez Vargas, Ramiro and Jáuregui, Ruy and Pieper, Dietmar H and Lema, Juan M and Carballa, Marta},
  issn         = {1754-6834},
  journal      = {BIOTECHNOLOGY FOR BIOFUELS},
  keywords     = {Archaea,Biogas,Illumina sequencing,Methanogenesis,Salinity,MICROBIAL COMMUNITY STRUCTURE,RIBOSOMAL-RNA,BACTERIAL COMMUNITY,DIVERSITY,AMMONIA,MICROORGANISMS,FUNCTIONALITY,INHIBITION,REACTOR,SLUDGE},
  language     = {eng},
  pages        = {13},
  title        = {Presence does not imply activity : DNA and RNA patterns differ in response to salt perturbation in anaerobic digestion},
  url          = {http://dx.doi.org/10.1186/s13068-016-0652-5},
  volume       = {9},
  year         = {2016},
}

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