In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi

Lignocellulose is an abundant and renewable resource that holds great promise for sustainable bioprocessing. However, unpretreated lignocellulose is recalcitrant to direct utilization by most microbes. Current methods to overcome this barrier include expensive pretreatment steps to liberate cellulos...
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Autor*in:	St. Elmo Wilken [verfasserIn] Mohan Saxena [verfasserIn] Linda R. Petzold [verfasserIn] Michelle A. O’Malley [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2018

Schlagwörter:	anaerobic fungi in silico modeling microbial consortia dynamic flux balance analysis non-model organism lignocellulose

Übergeordnetes Werk:	In: Processes - MDPI AG, 2013, 6(2018), 1, p 7
Übergeordnetes Werk:	volume:6 ; year:2018 ; number:1, p 7

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.3390/pr6010007

Katalog-ID:	DOAJ025587013

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language	English
source	In Processes 6(2018), 1, p 7 volume:6 year:2018 number:1, p 7
sourceStr	In Processes 6(2018), 1, p 7 volume:6 year:2018 number:1, p 7
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institution	findex.gbv.de
topic_facet	anaerobic fungi in silico modeling microbial consortia dynamic flux balance analysis non-model organism lignocellulose Chemical technology Chemistry
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container_title	Processes
authorswithroles_txt_mv	St. Elmo Wilken @@aut@@ Mohan Saxena @@aut@@ Linda R. Petzold @@aut@@ Michelle A. O’Malley @@aut@@
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callnumber-first	T - Technology
author	St. Elmo Wilken
spellingShingle	St. Elmo Wilken misc TP1-1185 misc QD1-999 misc anaerobic fungi misc in silico modeling misc microbial consortia misc dynamic flux balance analysis misc non-model organism misc lignocellulose misc Chemical technology misc Chemistry In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
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topic_title	TP1-1185 QD1-999 In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi anaerobic fungi in silico modeling microbial consortia dynamic flux balance analysis non-model organism lignocellulose
topic	misc TP1-1185 misc QD1-999 misc anaerobic fungi misc in silico modeling misc microbial consortia misc dynamic flux balance analysis misc non-model organism misc lignocellulose misc Chemical technology misc Chemistry
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title	In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
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title_full	In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
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title_sort	in silico identification of microbial partners to form consortia with anaerobic fungi
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title_auth	In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
abstract	Lignocellulose is an abundant and renewable resource that holds great promise for sustainable bioprocessing. However, unpretreated lignocellulose is recalcitrant to direct utilization by most microbes. Current methods to overcome this barrier include expensive pretreatment steps to liberate cellulose and hemicellulose from lignin. Anaerobic gut fungi possess complex cellulolytic machinery specifically evolved to decompose crude lignocellulose, but they are not yet genetically tractable and have not been employed in industrial bioprocesses. Here, we aim to exploit the biomass-degrading abilities of anaerobic fungi by pairing them with another organism that can convert the fermentable sugars generated from hydrolysis into bioproducts. By combining experiments measuring the amount of excess fermentable sugars released by the fungal enzymes acting on crude lignocellulose, and a novel dynamic flux balance analysis algorithm, we screened potential consortia partners by qualitative suitability. Microbial growth simulations reveal that the fungus Anaeromyces robustus is most suited to pair with either the bacterium Clostridia ljungdahlii or the methanogen Methanosarcina barkeri—both organisms also found in the rumen microbiome. By capitalizing on simulations to screen six alternative organisms, valuable experimental time is saved towards identifying stable consortium members. This approach is also readily generalizable to larger systems and allows one to rationally select partner microbes for formation of stable consortia with non-model microbes like anaerobic fungi.
abstractGer	Lignocellulose is an abundant and renewable resource that holds great promise for sustainable bioprocessing. However, unpretreated lignocellulose is recalcitrant to direct utilization by most microbes. Current methods to overcome this barrier include expensive pretreatment steps to liberate cellulose and hemicellulose from lignin. Anaerobic gut fungi possess complex cellulolytic machinery specifically evolved to decompose crude lignocellulose, but they are not yet genetically tractable and have not been employed in industrial bioprocesses. Here, we aim to exploit the biomass-degrading abilities of anaerobic fungi by pairing them with another organism that can convert the fermentable sugars generated from hydrolysis into bioproducts. By combining experiments measuring the amount of excess fermentable sugars released by the fungal enzymes acting on crude lignocellulose, and a novel dynamic flux balance analysis algorithm, we screened potential consortia partners by qualitative suitability. Microbial growth simulations reveal that the fungus Anaeromyces robustus is most suited to pair with either the bacterium Clostridia ljungdahlii or the methanogen Methanosarcina barkeri—both organisms also found in the rumen microbiome. By capitalizing on simulations to screen six alternative organisms, valuable experimental time is saved towards identifying stable consortium members. This approach is also readily generalizable to larger systems and allows one to rationally select partner microbes for formation of stable consortia with non-model microbes like anaerobic fungi.
abstract_unstemmed	Lignocellulose is an abundant and renewable resource that holds great promise for sustainable bioprocessing. However, unpretreated lignocellulose is recalcitrant to direct utilization by most microbes. Current methods to overcome this barrier include expensive pretreatment steps to liberate cellulose and hemicellulose from lignin. Anaerobic gut fungi possess complex cellulolytic machinery specifically evolved to decompose crude lignocellulose, but they are not yet genetically tractable and have not been employed in industrial bioprocesses. Here, we aim to exploit the biomass-degrading abilities of anaerobic fungi by pairing them with another organism that can convert the fermentable sugars generated from hydrolysis into bioproducts. By combining experiments measuring the amount of excess fermentable sugars released by the fungal enzymes acting on crude lignocellulose, and a novel dynamic flux balance analysis algorithm, we screened potential consortia partners by qualitative suitability. Microbial growth simulations reveal that the fungus Anaeromyces robustus is most suited to pair with either the bacterium Clostridia ljungdahlii or the methanogen Methanosarcina barkeri—both organisms also found in the rumen microbiome. By capitalizing on simulations to screen six alternative organisms, valuable experimental time is saved towards identifying stable consortium members. This approach is also readily generalizable to larger systems and allows one to rationally select partner microbes for formation of stable consortia with non-model microbes like anaerobic fungi.
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title_short	In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
url	https://doi.org/10.3390/pr6010007 https://doaj.org/article/24ec4160d0014de5b1c007ae48d124cb http://www.mdpi.com/2227-9717/6/1/7 https://doaj.org/toc/2227-9717
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author2	Mohan Saxena Linda R. Petzold Michelle A. O’Malley
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