Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural

Feldman, Daria; Kowbel, David J.; Cohen, Adi; Glass, N. Louise; Hadar, Yitzhak; Yarden, Oded

doi:10.1186/s13068-019-1550-4

Title: Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural

Abstract

Background: Biofuels derived from lignocellulosic biomass are a viable alternative to fossil fuels required for transportation. Following plant biomass pretreatment, the furan derivative furfural is present at concentrations which are inhibitory to yeasts. Detoxification of furfural is thus important for efficient fermentation. Here, we searched for new genetic attributes in the fungus Neurospora crassa that may be linked to furfural tolerance. The fact that furfural is involved in the natural process of sexual spore germination of N. crassa and that this fungus is highly amenable to genetic manipulations makes it a rational candidate for this study. Results: Both hypothesis-based and unbiased (random promotor mutagenesis) approaches were performed to identify N. crassa genes associated with the response to furfural. Changes in the transcriptional profile following exposure to furfural revealed that the affected processes were, overall, similar to those observed in Saccharomyces cerevisiae. N. crassa was more tolerant (by ~ 30%) to furfural when carboxymethyl cellulose was the main carbon source as opposed to sucrose, indicative of a link between carbohydrate metabolism and furfural tolerance. We also observed increased tolerance in a Δcre-1 mutant (CRE-1 is a key transcription factor that regulates the ability of fungi to utilize non-preferred carbon sources). Inmore »« less

Authors:

Feldman, Daria ^[1]; Kowbel, David J. ^[2]; Cohen, Adi ^[1]; Glass, N. Louise ^[3]; Hadar, Yitzhak ^[1];

^[1]

Hebrew Univ. of Jerusalem, Rehovot (Israel). Dept. of Plant Pathology and Microbiology
Univ. of California, Berkeley, CA (United States). Dept. of Plant and Microbial Biology
Univ. of California, Berkeley, CA (United States). Dept. of Plant and Microbial Biology; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Environmental Genomics and Systems Biology Division

Publication Date:: 2019-09-04

Research Org.:: Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Sponsoring Org.:: USDOE Office of Science (SC)

OSTI Identifier:: 1571949

Grant/Contract Number:: AC02-05CH11231

Resource Type:: Accepted Manuscript

Journal Name:: Biotechnology for Biofuels

Additional Journal Information:: Journal Volume: 12; Journal Issue: 1; Journal ID: ISSN 1754-6834

Publisher:: BioMed Central

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Feldman, Daria, Kowbel, David J., Cohen, Adi, Glass, N. Louise, Hadar, Yitzhak, and Yarden, Oded. Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural.  United States: N. p., 2019. 
Web.  doi:10.1186/s13068-019-1550-4.

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                    Feldman, Daria, Kowbel, David J., Cohen, Adi, Glass, N. Louise, Hadar, Yitzhak, & Yarden, Oded. Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural.  United States.  https://doi.org/10.1186/s13068-019-1550-4

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                    Feldman, Daria, Kowbel, David J., Cohen, Adi, Glass, N. Louise, Hadar, Yitzhak, and Yarden, Oded. Wed .  
"Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural".  United States.  https://doi.org/10.1186/s13068-019-1550-4.  https://www.osti.gov/servlets/purl/1571949.

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@article{osti_1571949,

  title        = {Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural},

  author       = {Feldman, Daria and Kowbel, David J. and Cohen, Adi and Glass, N. Louise and Hadar, Yitzhak and Yarden, Oded},

  abstractNote = {Background: Biofuels derived from lignocellulosic biomass are a viable alternative to fossil fuels required for transportation. Following plant biomass pretreatment, the furan derivative furfural is present at concentrations which are inhibitory to yeasts. Detoxification of furfural is thus important for efficient fermentation. Here, we searched for new genetic attributes in the fungus Neurospora crassa that may be linked to furfural tolerance. The fact that furfural is involved in the natural process of sexual spore germination of N. crassa and that this fungus is highly amenable to genetic manipulations makes it a rational candidate for this study. Results: Both hypothesis-based and unbiased (random promotor mutagenesis) approaches were performed to identify N. crassa genes associated with the response to furfural. Changes in the transcriptional profile following exposure to furfural revealed that the affected processes were, overall, similar to those observed in Saccharomyces cerevisiae. N. crassa was more tolerant (by ~ 30%) to furfural when carboxymethyl cellulose was the main carbon source as opposed to sucrose, indicative of a link between carbohydrate metabolism and furfural tolerance. We also observed increased tolerance in a Δcre-1 mutant (CRE-1 is a key transcription factor that regulates the ability of fungi to utilize non-preferred carbon sources). In addition, analysis of aldehyde dehydrogenase mutants showed that ahd-2 (NCU00378) was involved in tolerance to furfural as well as the predicted membrane transporter NCU05580 (flr-1), a homolog of FLR1 in S. cerevisiae. Further to the rational screening, an unbiased approach revealed additional genes whose inactivation conferred increased tolerance to furfural: (i) NCU02488, which affected the abundance of the non-anchored cell wall protein NCW-1 (NCU05137), and (ii) the zinc finger protein NCU01407. Conclusions:We identified attributes in N. crassa associated with tolerance or degradation of furfural, using complementary research approaches. The manipulation of the genes involved in furan sensitivity can provide a means for improving the production of biofuel producing strains. Similar research approaches can be utilized in N. crassa and other filamentous fungi to identify additional attributes relevant to other furans or toxic chemicals.},

  doi          = {10.1186/s13068-019-1550-4},

  journal      = {Biotechnology for Biofuels},

  number       = 1,

  volume       = 12,

  place        = {United States},

  year         = {2019},

  month        = {9}

}

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Modig, Tobias; LidÉN, Gunnar; Taherzadeh, Mohammad J.
Biochemical Journal, Vol. 363, Issue 3
DOI: 10.1042/0264-6021:3630769

Genomic insight into diet adaptation in the biological control agent Cryptolaemus montrouzieri
journal, February 2021

Li, Hao-Sen; Huang, Yu-Hao; Chen, Mei-Lan
BMC Genomics, Vol. 22, Issue 1
DOI: 10.1186/s12864-021-07442-3

Differential expression analysis for sequence count data
journal, April 2010

Anders, Simon; Huber, Wolfgang
Nature Precedings
DOI: 10.1038/npre.2010.4282.2

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Pectin is an abundant component in many fruit and vegetable wastes and could therefore be an excellent resource for biorefinery, but is currently underutilized. Fungal pectinases already play a crucial role for industrial purposes, such as for foodstuff processing. However, the regulation of pectinase gene expression is still poorly understood. For an optimal utilization of plant biomass for biorefinery and biofuel production, a detailed analysis of the underlying regulatory mechanisms is warranted. In this study, we applied the genetic resources of the filamentous ascomycete species Neurospora crassa to screen for transcription factors that play a major role in pectinase induction.more »« less
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MOESM1 of Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural
text, January 2019

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figshare
DOI: 10.6084/m9.figshare.9771377.v1
This text is a supplement to the current record

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dataset, January 2019

Feldman, Daria; Kowbel, David; Cohen, Adi
figshare
DOI: 10.6084/m9.figshare.9771386
This dataset is a supplement to the current record

MOESM2 of Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural
dataset, January 2019

Feldman, Daria; Kowbel, David; Cohen, Adi
figshare
DOI: 10.6084/m9.figshare.9771386.v1
This dataset is a supplement to the current record

MOESM3 of Identification and manipulation of Neurospora crassa genes involved in sensitivity to furfural
dataset, January 2019

Feldman, Daria; Kowbel, David; Cohen, Adi
figshare
DOI: 10.6084/m9.figshare.9771398.v1
This dataset is a supplement to the current record