Detection and diversity of copper containing nitrite reductase genes (nirK) in prokaryotic and fungal communities of agricultural soils

FEMS Microbiology Ecology
Andrew LongAmy Silva

Abstract

Microorganisms are capable of producing N2 and N2O gases as the end products of denitrification. Copper-containing nitrite reductase (NirK), a key enzyme in the microbial N-cycle, has been found in bacteria, archaea and fungi. This study seeks to assess the diversity of nirK genes in the prokaryotic and fungal communities of agricultural soils in the United States. New primers targeting the nirK genes in fungi were developed, while nirK genes in archaea and bacteria were detected using previously published methods. The new primers were able to detect fungal nirK genes as well as bacterial nirK genes from a group that could not be observed with previously published primers. Based on the sequence analyses from three different primer sets, five clades of nirK genes were identified, which were associated with soil archaea, ammonium-oxidizing bacteria, denitrifying bacteria and fungi. The diversity of nirK genes in the two denitrifying bacteria clades was higher than the diversity found in other clades. Using a newly designed primer set, this study showed the detection of fungal nirK genes from environmental samples. The newly designed PCR primers in this study enhance the ability to detect the diversity of nirK-encoding microorgani...Continue Reading

References

Nov 9, 1979·Biochimica Et Biophysica Acta·A B Hooper, K R Terry
Dec 31, 1997·Molecular & General Genetics : MGG·J MelliesT F Meyer
Apr 25, 2001·Applied and Environmental Microbiology·K L Casciotti, B B Ward
Oct 31, 2002·Applied and Environmental Microbiology·Sharon AvrahamiGesche Braker
Apr 7, 2004·Science·J Craig VenterHamilton O Smith
Apr 7, 2005·Applied and Environmental Microbiology·Shilpi SharmaMichael Schloter
Jan 21, 2006·Environmental Microbiology·Liz J ShawElizabeth M Baggs
Apr 7, 2006·Applied and Environmental Microbiology·Kim HeylenPaul De Vos
Feb 15, 2007·Environmental Microbiology·J Jason L Cantera, Lisa Y Stein
Jun 2, 2007·Archives of Microbiology·J Jason L Cantera, Lisa Y Stein
Sep 30, 2008·Nature Biotechnology·Marco A van den BergRoel A L Bovenberg
Oct 24, 2008·Phytopathology·Brian B McSpadden Gardener
Mar 10, 2009·Applied and Environmental Microbiology·Sang-Wan KimHirofumi Shoun
Apr 1, 2003·FEMS Microbiology Ecology·Bongkeun Song, Bess B Ward
Oct 6, 2009·Applied and Environmental Microbiology·Sophie WertzCheryl L Patten
Feb 6, 2010·Environmental Microbiology·Rita BartossekChrista Schleper
Mar 26, 2010·Nature·Katharina F EttwigMarc Strous
Apr 20, 2010·Research in Microbiology·Emily A DellWei Shi
Dec 28, 2010·Methods in Enzymology·Lisa Y Stein
Jun 1, 2011·Environmental Science and Pollution Research International·Zhi-Feng ZhouJi-Zheng He
Jul 30, 2011·Science·Alyson E SantoroKaren L Casciotti
Oct 4, 2011·Nature·Boran KartalMarc Strous
Nov 19, 2011·FEMS Microbiology Ecology·Gesche BrakerLars R Bakken
Mar 28, 2012·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Hirofumi ShounTakayoshi Wakagi
Mar 28, 2012·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Ian M ClarkPenny R Hirsch
Jun 5, 2012·Applied and Environmental Microbiology·Katharina Palmer, Marcus A Horn
Jul 31, 2012·Journal of Bacteriology·Jørg SchuldesWolfgang R Streit
Sep 14, 2012·Microbes and Environments·Megumi YoshidaKeishi Senoo

❮ Previous
Next ❯

Citations

Jan 7, 2016·Frontiers in Microbiology·Anja KampPeter Stief
May 13, 2015·FEMS Microbiology Ecology·Myrto TsikniaNikolaos P Nikolaidis
Jul 6, 2016·Water Research·Nikolaos V ParanychianakisNicolas Kalogerakis
Mar 13, 2016·Applied and Environmental Microbiology·Steven A HigginsFrank E Löffler
May 22, 2016·Applied and Environmental Microbiology·Amy NovinscakMartin Filion
Feb 7, 2019·Environmental Microbiology·Yanjun MaAngela D Kent
Apr 26, 2019·International Journal of Molecular Sciences·Nicholas RaffaNancy P Keller
Jul 14, 2020·Environmental Science & Technology·Lan WuBing-Jie Ni

❮ Previous
Next ❯

Related Concepts

Related Feeds

Archaeogenetics

Recent advances in genomic sequencing has led to the discovery of new strains of Archaea and shed light on their evolutionary history. Discover the latest research on Archaeogenetics here.