Primer Sets Developed for Functional Genes Reveal Shifts in Functionality of Fungal Community in Soils

Frontiers in Microbiology
S Emilia Hannula, Johannes A van Veen


Phylogenetic diversity of soil microbes is a hot topic at the moment. However, the molecular tools for the assessment of functional diversity in the fungal community are less developed than tools based on genes encoding the ribosomal operon. Here 20 sets of primers targeting genes involved mainly in carbon cycling were designed and/or validated and the functioning of soil fungal communities along a chronosequence of land abandonment from agriculture was evaluated using them. We hypothesized that changes in fungal community structure during secondary succession would lead to difference in the types of genes present in soils and that these changes would be directional. We expected an increase in genes involved in degradation of recalcitrant organic matter in time since agriculture. Out of the investigated genes, the richness of the genes related to carbon cycling was significantly higher in fields abandoned for longer time. The composition of six of the genes analyzed revealed significant differences between fields abandoned for shorter and longer time. However, all genes revealed significant variance over the fields studied, and this could be related to other parameters than the time since agriculture such as pH, organic matter,...Continue Reading


Sep 5, 2002·Microbiology and Molecular Biology Reviews : MMBR·Lee R LyndIsak S Pretorius
Aug 17, 2005·FEMS Microbiology Reviews·Wietse de BoerLynne Boddy
Dec 8, 2005·Applied and Environmental Microbiology·Catherine Lozupone, Rob Knight
Feb 14, 2006·FEMS Microbiology Reviews·Petr Baldrian
May 10, 2007·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Sep 12, 2007·Bioinformatics·M A LarkinD G Higgins
Apr 15, 2008·Applied and Environmental Microbiology·Ivan P EdwardsDonald R Zak
Jun 27, 2008·Applied Biochemistry and Biotechnology·Dominic W S Wong
Oct 24, 2008·Phytopathology·D L Hawksworth, A Y Rossman
Feb 6, 2009·Proceedings of the National Academy of Sciences of the United States of America·Diego MartinezDan Cullen
Apr 14, 2010·Microbial Ecology·Robert A BlanchetteRoberta L Farrell
Jan 11, 2011·Bioinformatics·Oliver KellerStephan Waack
Jan 11, 2011·Applied and Environmental Microbiology·Wolfgang HarreitherRoland Ludwig
Aug 9, 2011·Applied and Environmental Microbiology·James A LangstonMatt D Sweeney
Dec 3, 2011·Applied Microbiology and Biotechnology·Lukas HartlVerena Seidl-Seiboth
Mar 29, 2013·The New Phytologist·Björn D LindahlHåvard Kauserud
Nov 26, 2013·Nucleic Acids Research·Vincent LombardBernard Henrissat
Nov 29, 2014·Science·Leho TedersooKessy Abarenkov
May 18, 2016·Nature Reviews. Genetics·Sara GoodwinW Richard McCombie

❮ Previous
Next ❯


May 15, 2018·Frontiers in Microbiology·Magdalena FrącMałgorzata Jędryczka
Oct 1, 2018·Applied Microbiology and Biotechnology·Qicheng XuQirong Shen

❮ Previous
Next ❯

Datasets Mentioned


Methods Mentioned

amplicon sequencing
genetic modification

Software Mentioned


Related Concepts

Trending Feeds


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 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.


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.