A multi-substrate approach for functional metagenomics-based screening for (hemi)cellulases in two wheat straw-degrading microbial consortia unveils novel thermoalkaliphilic enzymes

BMC Genomics
Mukil MaruthamuthuJan Dirk van Elsas

Abstract

Functional metagenomics is a promising strategy for the exploration of the biocatalytic potential of microbiomes in order to uncover novel enzymes for industrial processes (e.g. biorefining or bleaching pulp). Most current methodologies used to screen for enzymes involved in plant biomass degradation are based on the use of single substrates. Moreover, highly diverse environments are used as metagenomic sources. However, such methods suffer from low hit rates of positive clones and hence the discovery of novel enzymatic activities from metagenomes has been hampered. Here, we constructed fosmid libraries from two wheat straw-degrading microbial consortia, denoted RWS (bred on untreated wheat straw) and TWS (bred on heat-treated wheat straw). Approximately 22,000 clones from each library were screened for (hemi)cellulose-degrading enzymes using a multi-chromogenic substrate approach. The screens yielded 71 positive clones for both libraries, giving hit rates of 1:440 and 1:1,047 for RWS and TWS, respectively. Seven clones (NT2-2, T5-5, NT18-17, T4-1, 10BT, NT18-21 and T17-2) were selected for sequence analyses. Their inserts revealed the presence of 18 genes encoding enzymes belonging to twelve different glycosyl hydrolase famili...Continue Reading

References

Sep 10, 2005·Applied and Environmental Microbiology·Sandra W A HinzAlphons G J Voragen
Feb 10, 2007·Science·Michael E HimmelThomas D Foust
Mar 16, 2007·Microbial Cell Factories·Pernilla TurnerEva Nordberg Karlsson
Feb 12, 2008·BMC Genomics·Ramy K AzizOlga Zagnitko
Apr 24, 2008·Current Opinion in Plant Biology·Harry J GilbertHarry Brumer
Sep 18, 2009·Applied Microbiology and Biotechnology·Carola Simon, Rolf Daniel
Oct 24, 2009·Current Opinion in Biotechnology·Taku Uchiyama, Kentaro Miyazaki
Dec 8, 2009·Bioresource Technology·Ralph E H SimsMichael Taylor
May 22, 2010·Chemistry & Biodiversity·Christopher M Gowen, Stephen S Fong
Jul 14, 2010·Applied and Environmental Microbiology·Ana BeloquiPeter N Golyshin
Aug 17, 2010·Applied and Environmental Microbiology·Shengguo ZhaoZhongtang Yu
Sep 16, 2010·Genome Research·Lena TasseGabrielle Potocki-Veronese
Aug 6, 2011·Biotechnology for Biofuels·Luen-Luen LiDaniel van der Lelie
Aug 13, 2011·Bioresource Technology·Weidong WangRuiyong Jing
Dec 23, 2011·Applied Microbiology and Biotechnology·David Matthias EkkersJan Dirk van Elsas
Jan 5, 2012·Applied Biochemistry and Biotechnology·Yu Seok JeongHoon Kim
Jul 14, 2012·Bioscience, Biotechnology, and Biochemistry·Nhung Hong NguyenSomchai Pongpattanakitshote
Jul 19, 2012·World Journal of Microbiology & Biotechnology·Diego Javier JiménezSandra Baena
Feb 6, 2013·Applied Microbiology and Biotechnology·Sarunyou WongwilaiwalinVerawat Champreda
May 16, 2013·Biotechnology for Biofuels·Géraldine BastienMichael O'Donohue
Sep 26, 2013·Methods in Enzymology·Daniel H Huson, Nico Weber
Oct 12, 2013·Applied Microbiology and Biotechnology·Diego Javier JiménezJan Dirk van Elsas
Jun 24, 2014·Biotechnology for Biofuels·Diego Javier JiménezJan Dirk van Elsas
May 15, 2015·Biotechnology for Biofuels·Stjepan Krešimir KračunWilliam George Tycho Willats
Aug 15, 2015·Microbial Biotechnology·Manuel FerrerPeter N Golyshin
Sep 8, 2015·Scientific Reports·Diego Javier JiménezJan Dirk van Elsas

❮ Previous
Next ❯

Citations

Oct 13, 2016·Frontiers in Microbiology·María-Eugenia DeCastroMaría-Isabel González-Siso
Jun 14, 2017·Critical Reviews in Microbiology·Rameshwar TiwariPratyoosh Shukla
Feb 3, 2018·Microbial Ecology·Pilar Eliana Puentes-Téllez, Joana Falcao Salles
Feb 6, 2018·Applied Microbiology and Biotechnology·Larisa Cortes-TolalpaJoana Falcao Salles
Oct 14, 2017·FEMS Microbiology Letters·Francesca BeriniFlavia Marinelli
Feb 8, 2021·Current Opinion in Biotechnology·Evan GlasgowBrian G Fox
Mar 27, 2021·Applied Microbiology and Biotechnology·Antonio García-MoyanoGro Elin Kjæreng Bjerga
Oct 2, 2021·Applied Microbiology and Biotechnology·Yanfang WangJan Dirk van Elsas
May 18, 2017·New Biotechnology·Anna KrügerGarabed Antranikian

❮ Previous
Next ❯

Datasets Mentioned

BETA
KU505133-KU505147

Methods Mentioned

BETA
electrophoresis

Software Mentioned

RAST
Rapid Annotation Subsystems Technology ( RAST )
BLAST
BLASTX
CAZymes Analysis Toolkit ( CAT )
MEGAN

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.