Combining culture-dependent and -independent methodologies for estimation of richness of estuarine bacterioplankton consuming riverine dissolved organic matter.

Applied and Environmental Microbiology
Veljo Kisand, Johan Wikner

Abstract

Three different methods for analyzing natural microbial community diversity were combined to maximize an estimate of the richness of bacterioplankton catabolizing riverine dissolved organic matter (RDOM). We also evaluated the ability of culture-dependent quantitative DNA-DNA hybridization, a 16S rRNA gene clone library, and denaturing gradient gel electrophoresis (DGGE) to detect bacterial taxa in the same sample. Forty-two different cultivatable strains were isolated from rich and poor solid media. In addition, 50 unique clones were obtained by cloning of the bacterial 16S rDNA gene amplified by PCR from the community DNA into an Escherichia coli vector. Twenty-three unique bands were sequenced from 12 DGGE profiles, excluding a composite fuzzy band of the Cytophaga-Flavobacterium group. The different methods gave similar distributions of taxa at the genus level and higher. However, the match at the species level among the methods was poor, and only one species was identified by all three methods. Consequently, all three methods identified unique subsets of bacterial species, amounting to a total richness of 97 operational taxonomic units in the experimental system. The confidence in the results was, however, dependent on the...Continue Reading

References

Jul 1, 1990·Journal of Bacteriology·R DevereuxW B Whitman
Oct 1, 1993·International Journal of Systematic Bacteriology·S J DobsonP D Franzmann
Sep 18, 1997·Applied and Environmental Microbiology·J PinhassiA Hagström
Feb 6, 1998·FEMS Microbiology Reviews·F von WintzingerodeE Stackebrandt
Jul 6, 2000·Applied and Environmental Microbiology·H EilersR Amann
Aug 5, 2000·Applied and Environmental Microbiology·I DahllöfS Kjelleberg
Jan 3, 2001·Applied and Environmental Microbiology·A G SpeksnijderH J Laanbroek
Jan 5, 2002·Applied and Environmental Microbiology·Veljo KisandJohan Wikner
Jun 5, 2003·Journal of Microbiological Methods·Veljo Kisand, Johan Wikner
Feb 12, 2008·Current Protocols in Molecular Biology·K Wilson

❮ Previous
Next ❯

Citations

May 1, 2009·Die Naturwissenschaften·Fabiola BastianCesareo Saiz-Jimenez
Nov 28, 2007·Applied and Environmental Microbiology·L RiemannA Hagström
Nov 27, 2009·The Journal of General and Applied Microbiology·Hajime HonmaYutaka Nakai
Jan 5, 2014·International Journal of Food Microbiology·Dapeng WangXianming Shi
Dec 26, 2012·Systematic and Applied Microbiology·Sarah HahnkeThorsten Brinkhoff
Nov 18, 2015·Journal of Basic Microbiology·Marinella RodolfiAnna Maria Picco
May 3, 2007·Environmental Microbiology·Cecilia AlonsoJakob Pernthaler
Mar 6, 2010·Journal of Applied Microbiology·N Udiković-KolićF Martin-Laurent
May 10, 2005·Water Research·Márta VarghaKároly Márialigeti
Jan 22, 2013·FEMS Microbiology Ecology·Juliana S N AzevedoIsabel Henriques
Jul 30, 2021·World Journal of Microbiology & Biotechnology·Gabriela GarmendiaSilvana Vero

❮ 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.