Results 61 to 70 of about 36,213 (285)

Metabarcoding a diverse arthropod mock community

Molecular Ecology Resources, 2019
Abstract Although DNA metabarcoding is an attractive approach for monitoring biodiversity, it is often difficult to detect all the species present in a bulk sample. In particular, sequence recovery for a given species depends on its biomass and mitome copy number as well as the primer set employed for PCR.
Thomas W. A. Braukmann, Natalia V. Ivanova, Sean W. J. Prosser, Vasco Elbrecht, Dirk Steinke, Sujeevan Ratnasingham, Jeremy R. de Waard, Jayme E. Sones, Evgeny V. Zakharov, Paul D. N. Hebert   +9 more
openaire   +2 more sources

Metagenomic and biogenic amine changes in cassava fermentation for tucupi production using Pediococcus acidilactici starter culture

Journal of the Science of Food and Agriculture, EarlyView.
Abstract BACKGROUND The use of starter cultures is essential for producing fermented foods with desirable standardized characteristics and for preventing pathogens. Pediococcus acidilactici, isolated from cocoa fermentation, was used in the production of tucupi, a widely appreciated sauce made from the juice of cassava root (manipueira) in the ...
Danielle Gama Brício, Maria Beatriz A Gloria, José Augusto Pires Bitencourt, Leandro Araujo Argôlo, Rafaela de Lima Ribeiro, Ilzane Abreu da Silva, Rosinelson da Silva Pena, Alessandra Santos Lopes, Gilson CA Chagas Junior, Nelson Rosa Ferreira   +9 more
wiley   +1 more source

Escherichia Species Diversity Across Pristine and Impacted Catchments: Evidence for Avian Sources of Escherichia marmotae in Aotearoa/New Zealand. [PDF]

Environ Microbiol Rep
Escherichia spp. were obtained from pristine and impacted environments to define community structure and assess potential human health risks. E. coli was more prevalent from sites affected by livestock or human activities, whereas non‐E. coli Escherichia spp. were more prevalent in avian faeces and native forest with fewer faecal sources.
Cookson AL, Moinet M, Marshall JC, Biggs PJ, Rogers LE, Collis RM, Devane M, Stott R, Muirhead R.   +8 more
europepmc   +2 more sources

Observation Bias in Metabarcoding

Molecular Ecology Resources
ABSTRACTDNA metabarcoding is subject to observation bias associated with PCR and sequencing, which can result in observed read proportions differing from actual species proportions in the DNA extract. Here, we amplify and sequence a mock community of known composition containing marine fishes and cetaceans using four different primer sets and a variety
Megan R. Shaffer, Elizabeth Andruszkiewicz Allan, Amy M. Van Cise, Kim M. Parsons, Andrew Olaf Shelton, Ryan P. Kelly   +5 more
openaire   +2 more sources

Soil microbial communities in restored and unrestored coastal dune ecosystems in California [PDF]

, 2020
Most restoration projects involving invasive plant eradication tend to focus on plant removal with little consideration given to how these invasives change soil microbial communities.
Barberán, A, Ender, C, Parsons, LS, Rodrigues, JLM, Sayre, J   +4 more
core  

A comprehensive survey of Rhinonyssid mites (Mesostigmata: Rhinonyssidae) in Northwest Russia: New mite-host associations and prevalence data [PDF]

, 2020
Background: Rhinonyssid mites are permanent parasites of birds that inhabit their respiratory tract. There are around 600 species described worldwide and almost all species of birds are found to have embedded rhinonyssid mites.
Dimov, Ivan, Doña, Jorge, Rojas Álvarez, Manuel de   +2 more
core   +2 more sources

Improved COI taxonomic assignment workflow enhances detection of invertebrates in environmental DNA

Limnology and Oceanography: Methods, EarlyView.
Abstract Environmental DNA (eDNA) metabarcoding is an increasingly popular and powerful tool in ecology, offering a non‐invasive method to assess biodiversity and monitor ecosystem health across diverse environments. While the mitochondrial cytochrome c oxidase subunit I (COI) gene is one of the most widely used markers for studying eukaryotic ...
Yuanyu Cheng, David Walsh, Joanna Gauthier, Marie‐Eve Monchamp, Daniel T. Selbie, Irene Gregory‐Eaves   +5 more
wiley   +1 more source

Comparison of environmental DNA metabarcoding and bottom trawling for detecting seasonal fish communities and habitat preference in a highly disturbed estuary

Ecological Indicators, 2023
Environmental DNA (eDNA) metabarcoding has been used to study fish diversity in various aquatic ecosystems. However, studies on fish community structure in estuarine ecosystems have not been well corroborated by eDNA metabarcoding, and comparisons with ...
Peiwen Jiang, Shuai Zhang, Shannan Xu, Pengli Xiong, Yiting Cao, Zuozhi Chen, Min Li   +6 more
doaj   +1 more source

Development of a multigenic metabarcoding of prokaryotic microbiota: application to Bacteria and Archaea of agronomical interest encountered in the rice rhizosphere of Camargue [PDF]

, 2017
It is our hypothesis that soil and plant microbiota are playing an eminent role in shaping both natural ecosystems and agricultural production systems. It is now widely admitted that bacterial communities show a great diversity in the rhizosphere and in ...
Blondin, Laurence, Ogier, Jean-Claude, Pieretti, Isabelle, Roumagnac, Philippe   +3 more
core  

Metagenetic analysis of patterns of distribution and diversity of marine meiobenthic eukaryotes [PDF]

, 2014
AimMeiofaunal communities that inhabit the marine benthos offer unique opportunities to simultaneously study the macroecology of numerous phyla that exhibit different life-history strategies.
Carvalho, Gary R., Creer, Simon, Fonseca, Vera G., Johnson, Harriet F., Lambshead, John D., Neill, Simon P., Nichols, Ben, Power, Deborah M., Quince, Christopher, Thomas, W. Kelley   +9 more
core   +4 more sources