A new method for the detection of alkane-monooxygenase homologous genes (alkB) in soils based on PCR-hybridization

Journal of Microbiological Methods
Karin KloosMichael Schloter

Abstract

An improved method was developed that allowed the specific detection of the gene alkB (coding for the rubredoxin dependent alkane monooxygenase) from bacteria without any obvious strain specific discrimination using a combination of PCR and hybridization. This approach enabled a fast culture-independent monitoring of environmental samples for the occurrence of alkB, and an estimation of the gene copy number and the genetic diversity. Both parameters provide useful informations for an assessment of the intrinsic biodegradation potential that is present at a site. The method was applied to soil samples from different uncontaminated sites. alkB was highly abundant and redundant in all soils tested. Potential biodegradation of n-alkanes was also demonstrated for these soils with substrate utilization assays. Cell numbers of hydrocarbon degraders estimated as MPN varied from 10(3) to 10(6)g(-1) soil (dry weight) for the different soils. Gene copy numbers estimated with MPN-PCR ranged within 1-40*10(4)ng(-1) soil DNA. Analysis of the diversity of the alkB sequences obtained from a grassland and an agricultural soil indicated that the alkane degrading microbial populations occurring at these sites were rather diverse. Compared on prot...Continue Reading

References

Nov 24, 1979·Nucleic Acids Research·H C Birnboim, J Doly
Oct 1, 1975·Proceedings of the National Academy of Sciences of the United States of America·M Grunstein, D S Hogness
Jan 1, 1990·Biodegradation·R J Watkinson, P Morgan
Apr 1, 1973·Proceedings of the National Academy of Sciences of the United States of America·A M ChakrabartyI C Gunsalus
Dec 1, 1994·Biodegradation·J B van BeilenB Witholt
Jan 1, 1994·Critical Reviews in Biotechnology·A M Warhurst, C A Fewson
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Apr 10, 1999·Journal of Applied Microbiology·M Bouchez-NaïtaliJ P Vandecasteele
Sep 6, 2000·Journal of Applied Microbiology·A Vomberg, U Klinner
Feb 24, 2001·Environmental Microbiology·T H SmitsJ B van Beilen
Mar 10, 2001·Environmental Microbiology·V AndreoniL Cavalca
Jun 19, 2001·Current Opinion in Biotechnology·F Widdel, R Rabus
Aug 21, 2001·Biochemical and Biophysical Research Communications·T MaierU Hahn
Oct 27, 2001·Applied and Environmental Microbiology·N HamamuraD J Arp
Dec 4, 2002·Environmental Microbiology·Jan B van BeilenBernard Witholt
May 6, 2003·Journal of Bacteriology·Mercedes M MarínFernando Rojo
Nov 30, 2005·Journal of Applied Microbiology·S Heiss-BlanquetF Monot

❮ Previous
Next ❯

Citations

Apr 9, 2009·Applied Microbiology and Biotechnology·Farrakh MehboobAlfons J M Stams
Jun 11, 2011·Applied Microbiology and Biotechnology·Sandrine PaisseMarisol Goñi-Urriza
Dec 31, 2011·Applied Microbiology and Biotechnology·Wanpeng Wang, Zongze Shao
Oct 12, 2012·Biodegradation·Wannarak NopcharoenkulOnruthai Pinyakong
May 19, 2012·Biofouling·Jason S LeeJoseph M Suflita
Oct 13, 2009·Applied and Environmental Microbiology·Kenneth WasmundDavid G Bourne
Apr 21, 2009·Applied and Environmental Microbiology·Jorge Alonso-GutiérrezBeatriz Novoa
Nov 13, 2012·Applied and Environmental Microbiology·Nora B SuttonHauke Smidt
Mar 5, 2013·Applied and Environmental Microbiology·Julia GieblerAntonis Chatzinotas
Dec 10, 2013·Antonie van Leeuwenhoek·Ji-Quan SunXiao-Lei Wu
Oct 5, 2013·Applied Microbiology and Biotechnology·Nora B SuttonHuub H M Rijnaarts
Nov 14, 2014·SpringerPlus·Alexander LikhoshvayMihail Grachev
May 23, 2012·3 Biotech·Chioma Blaise ChikereBlaise Ositadinma Chikere
Mar 31, 2015·Environmental Science and Pollution Research International·A Guermouche M'rassiR Duran
Apr 15, 2015·Environmental Science and Pollution Research International·Alejandro Acosta-GonzálezSilvia Marqués
Sep 22, 2012·Angewandte Chemie·Mélanie BordeauxJullien Drone
Nov 14, 2012·International Journal of Systematic and Evolutionary Microbiology·Ahyoung Choi, Jang-Cheon Cho
Aug 4, 2011·Enzyme Research·R S PeixotoA S Rosado
Sep 4, 2012·Bioresource Technology·Ji-Quan SunXiao-Lei Wu
Jul 1, 2011·Bioresource Technology·Xing-Biao WangXiao-Lei Wu
Apr 11, 2015·Systematic and Applied Microbiology·Marino KorlevićSandi Orlić
Aug 16, 2016·The Science of the Total Environment·Matthew LewisKung-Hui Chu
Oct 7, 2016·Frontiers in Microbiology·Jayeeta SarkarPinaki Sar
Aug 28, 2016·International Journal of Systematic and Evolutionary Microbiology·Yanan WangXiao-Hua Zhang

❮ Previous
Next ❯

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.