Phytochip: development of a DNA-microarray for rapid and accurate identification of Pseudo-nitzschia spp and other harmful algal species

Journal of Microbiological Methods
Charlotte NoyerCatherine Dreanno

Abstract

Detection of harmful algal blooms has become a challenging concern because of the direct impacts on public health and economy. The identification of toxic dinoflagellates and diatoms in monitoring programs requires an extensive taxonomic expertise and is time consuming. Advances in molecular biology have allowed the development of new approaches, more rapid, accurate and cost-effective for detecting these microorganisms. In this context, we developed a new DNA microarray (called, Phytochip) for the simultaneous detection of multiple HAB species with a particular emphasis on Pseudo-nitzschia species. Oligonucleotide probes were designed along the rRNA operon. After DNA extraction, the target rDNA genes were amplified and labeled using an asymmetric PCR; then, the amplicons were hybridized to the oligonucleotide probes present on the chips. The total assay from seawater sampling to data acquisition can be performed within a working day. Specificity and sensitivity were assessed by using monoclonal cultures, mixtures of species and field samples spiked with a known amount of cultured cells. The Phytochip with its 81 validated oligonucleotide probes was able to detect 12 species of Pseudo-nitzschia and 11 species of dinoflagellates...Continue Reading

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Oct 10, 1980·Nucleic Acids Research·M G Murray, W F Thompson
Jul 10, 2003·Trends in Genetics : TIG·Annette W Coleman
Aug 9, 2003·Nucleic Acids Research·Véronique Le BerreJean François
Feb 27, 2004·Nucleic Acids Research·Wolfgang LudwigKarl-Heinz Schleifer
Jul 9, 2004·Applied and Environmental Microbiology·Adelaide E WarsenDouglas R Call
Jun 29, 2005·Clinical Biochemistry·Anikó SzilvásiAttila Tordai
Nov 10, 2005·Journal of Agricultural and Food Chemistry·Sissel Beate RønningArne Holst-Jensen
Aug 10, 2006·Microbial Ecology·T J GentryJ Zhou
May 9, 2007·Nucleic Acids Research·Andreas UntergasserJack A M Leunissen
Mar 18, 2008·Applied and Environmental Microbiology·Zhili He, Jizhong Zhou
Jul 16, 2008·Applied and Environmental Microbiology·Christine GescherLinda K Medlin
Aug 14, 2009·Protist·Mónica B J Moniz, Irena Kaczmarska
Oct 6, 2009·Journal of Microbiological Methods·Ingrid H Franke-WhittleHeribert Insam
Dec 1, 2009·Marine Biotechnology·Siobhán KavanaghMajella Maher
Dec 9, 2010·Journal of Microbiological Methods·Luca GalluzziMauro Magnani
May 17, 2011·Genomics·Ruslan KalendarAlan H Schulman
Nov 28, 2012·Environmental Science and Pollution Research International·Gary R McCoyRobin Raine
Dec 19, 2012·Environmental Science and Pollution Research International·Antonella Penna, Luca Galluzzi
Dec 25, 2012·Environmental Science and Pollution Research International·Bente EdvardsenLinda K Medlin
Jun 1, 2008·Journal of Phycology·Katherine A HubbardE Virginia Armbrust
Apr 15, 2014·Expert Review of Molecular Diagnostics·Ott SchelerAnts Kurg

❮ Previous
Next ❯

Citations

May 7, 2019·Frontiers in Microbiology·Thi Ngoc Anh NguyenThi Van Anh Nguyen
Nov 4, 2020·Forensic Science International : Synergy·Lin JiangWeiwen Cai
Aug 23, 2020·The Science of the Total Environment·Anna ToldràMònica Campàs
Nov 14, 2018·Harmful Algae·Stephen S BatesChui Pin Leaw

❮ 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.