Evidence map›Paper›PMID 25177315›Full record

ArticleFrontiers in microbiology2014

Aromatic inhibitors derived from ammonia-pretreated lignocellulose hinder bacterial ethanologenesis by activating regulatory circuits controlling inhibitor efflux and detoxification.

David H Keating, Yaoping Zhang, Irene M Ong, Sean McIlwain, Eduardo H Morales, Jeffrey A Grass, Mary Tremaine, William Bothfeld, Alan Higbee, Arne Ulbrich and 11 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Frontiers in microbiology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
2.1field-weighted citation impact, top 13% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

23 citing papers in PubMed, 49 citations in OpenAlex.

  1. Article
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  6. Effect of a Novel Alpha/Beta Hydrolase Domain Protein on Tolerance ofFrontiers in bioengineering and biotechnology · 2020
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  13. Article
  14. Metabolic engineering ofBiotechnology for biofuels · 2017
    Article
  15. Hybridization and adaptive evolution of diverseBiotechnology for biofuels · 2017
    Article
  16. Review
  17. Article
  18. Article
  19. Article
  20. Plant-based biofuels.F1000Research · 2016
    Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

21 authors at 3 institutions in 1 country.

David H KeatingGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Yaoping ZhangGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Irene M OngGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Sean McIlwainGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Eduardo H MoralesGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Biomolecular Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Jeffrey A GrassGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Biochemistry, University of Wisconsin-Madison Madison, WI, USA.
Mary TremaineGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
William BothfeldGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Alan HigbeeGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Arne UlbrichDepartment of Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Allison J BalloonDepartment of Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Michael S WestphallDepartment of Biomolecular Chemistry, University of Wisconsin-Madison Madison, WI, USA ; Department of Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Josh AldrichPacific Northwest National Laboratory Richland, WA, USA.
Mary S LiptonPacific Northwest National Laboratory Richland, WA, USA.
Joonhoon KimGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Chemical and Biological Engineering, University of Wisconsin-Madison Madison, WI, USA.
Oleg V MoskvinGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Yury V BukhmanGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Joshua J CoonGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Biomolecular Chemistry, University of Wisconsin-Madison Madison, WI, USA ; Department of Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Patricia J KileyGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Biomolecular Chemistry, University of Wisconsin-Madison Madison, WI, USA.
Donna M BatesGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA.
Robert LandickGreat Lakes Bioenergy Research Center, University of Wisconsin-Madison Madison, WI, USA ; Department of Biochemistry, University of Wisconsin-Madison Madison, WI, USA ; Department of Bacteriology, University of Wisconsin-Madison Madison, WI, USA.
University of Wisconsin–Madison · USGreat Lakes Bioenergy Research Center · USPacific Northwest National Laboratory · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Efficient microbial conversion of lignocellulosic hydrolysates to biofuels is a key barrier to the economically viable deployment of lignocellulosic biofuels. A chief contributor to this barrier is the impact on microbial processes and energy metabolism of lignocellulose-derived inhibitors, including phenolic carboxylates, phenolic amides (for ammonia-pretreated biomass), phenolic aldehydes, and furfurals. To understand the bacterial pathways induced by inhibitors present in ammonia-pretreated biomass hydrolysates, which are less well studied than acid-pretreated biomass hydrolysates, we developed and exploited synthetic mimics of ammonia-pretreated corn stover hydrolysate (ACSH). To determine regulatory responses to the inhibitors normally present in ACSH, we measured transcript and protein levels in an Escherichia coli ethanologen using RNA-seq and quantitative proteomics during fermentation to ethanol of synthetic hydrolysates containing or lacking the inhibitors. Our study identified four major regulators mediating these responses, the MarA/SoxS/Rob network, AaeR, FrmR, and YqhC. Induction of these regulons was correlated with a reduced rate of ethanol production, buildup of pyruvate, depletion of ATP and NAD(P)H, and an inhibition of xylose conversion. The aromatic aldehyde inhibitor 5-hydroxymethylfurfural appeared to be reduced to its alcohol form by the ethanologen during fermentation, whereas phenolic acid and amide inhibitors were not metabolized. Together, our findings establish that the major regulatory responses to lignocellulose-derived inhibitors are mediated by transcriptional rather than translational regulators, suggest that energy consumed for inhibitor efflux and detoxification may limit biofuel production, and identify a network of regulators for future synthetic biology efforts.

Indexed as

aromatic inhibitorsbiofuelsEscherichia coliethanollignocellulosic hydrolysateproteomicsRNAseqtranscriptomics

Identifiers

PMID25177315
PMCPMC4132294
OpenAlexW2050451954

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.