Zooplankton Community Profiling in a Eutrophic Freshwater Ecosystem-Lake Tai Basin by DNA Metabarcoding

Scientific Reports
Jianghua YangG Allen Burton

Abstract

Communities of zooplankton, a critical portion of aquatic ecosystems, can be adversely affected by contamination resulting from human activities. Understanding the influence of environmental change on zooplankton communities under field-conditions is hindered by traditional labor-intensive approaches that are prone to taxonomic and enumeration mistakes. Here, metabarcoding of cytochrome c oxidase I (COI) region of mitochondrial DNA was used to characterize the genetic diversity of zooplankton. The species composition of zooplankton communities determined by metabarcoding was consistent with the results based on the traditional morphological approach. The spatial distribution of common species (frequency of occurrence >10 samples) by metabarcoding exhibited good agreement with morphological data. Furthermore, metabarcoding can clearly distinguish the composition of the zooplankton community between lake and river ecosystems. In general, rotifers were more abundant in riverine environments than lakes and reservoirs. Finally, the sequence read number of different taxonomic groups using metabarcoding was positively correlated with the zooplankton biomass inferred by density and body length of zooplankton. Overall, the utility of me...Continue Reading

References

Oct 6, 1998·Applied and Environmental Microbiology·M F Polz, C M Cavanaugh
May 3, 2002·Nature·James F GilloolyJames H Brown
Jun 1, 2002·Science·Grégory BeaugrandMartin Edwards
Oct 6, 2004·Genome Biology·Robert C GentlemanJianhua Zhang
Dec 8, 2005·Applied and Environmental Microbiology·Catherine Lozupone, Rob Knight
Jul 15, 2006·Nature Biotechnology·Dawn FieldMilo Thurston
Sep 26, 2006·Ecology·Matthew E S Bracken, John J Stachowicz
Oct 27, 2006·Nature·Bradley J CardinaleClaire Jouseau
Oct 15, 2008·Systematic Biology·Kasper MunchRasmus Nielsen
Jul 18, 2009·Science·Adrian W BriggsSvante Pääbo
Sep 18, 2009·BMC Genomics·Ryuji J MachidaShuhei Nishida
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
Feb 15, 2011·International Journal of Environmental Research and Public Health·Chen ZengXiaoyu Yang
Jun 28, 2011·Bioinformatics·Robert C EdgarRob Knight
Feb 23, 2012·Scientific Reports·María C Avila-ArcosM Thomas P Gilbert
Apr 11, 2012·Molecular Ecology·Eric CoissacNicolas Puillandre
Apr 11, 2012·Molecular Ecology·Pierre TaberletEske Willerslev
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Nov 19, 2013·PloS One·Penelope K LindequeAngus Atkinson
Jan 5, 2014·Genetics and Molecular Biology·José Alexandre F Diniz-FilhoLuis Mauricio Bini
Feb 19, 2015·Nucleic Acids Research·Philippe EslingJan Pawlowski
May 23, 2015·Science·Colomban de VargasEric Karsenti
Jun 9, 2015·Environmental Science & Technology·Joana Amorim ViscoJan Pawlowski
Oct 1, 2015·Marine Pollution Bulletin·Anastasija ZaikoEva Garcia-Vazquez
Aug 31, 2016·Nature Communications·Kristy DeinerFlorian Altermatt
Oct 1, 2001·Oecologia·Pierre Legendre, Eugene D Gallagher

❮ Previous
Next ❯

Citations

Jan 3, 2018·Molecular Ecology·Teresita M Porter, Mehrdad Hajibabaei
Feb 27, 2018·Environmental Science & Technology·Xiaowei ZhangDonald J Baird
Feb 14, 2017·Environmental Science & Technology·Jianghua YangHongxia Yu
Sep 24, 2021·Molecular Ecology Resources·Mark Louie D LopezRyuji J Machida

❮ Previous
Next ❯

Datasets Mentioned

BETA
SRR4241102

Methods Mentioned

BETA
PCR

Software Mentioned

USEARCH
Metabarcoding
R
SAP
Treebase
Biostrings
Vegan
NMDS
Linux
Mega

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.