A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses.

Autor: Hakimzadeh, Ali, Abdala Asbun, Alejandro, Albanese, Davide, Bernard, Maria, Buchner, Dominik, Callahan, Benjamin, Caporaso, J. Gregory, Curd, Emily, Djemiel, Christophe, Brandström Durling, Mikael, Elbrecht, Vasco, Gold, Zachary, Gweon, Hyun S., Hajibabaei, Mehrdad, Hildebrand, Falk, Mikryukov, Vladimir, Normandeau, Eric, Özkurt, Ezgi, M. Palmer, Jonathan, Pascal, Géraldine

Publikováno v: Molecular Ecology Resources; Jul2024, Vol. 24 Issue 5, p1-17, 17p

Cascabel: A Scalable and Versatile Amplicon Sequence Data Analysis Pipeline Delivering Reproducible and Documented Results

Autor: Alejandro Abdala Asbun, Marc A. Besseling, Sergio Balzano, Judith D. L. van Bleijswijk, Harry J. Witte, Laura Villanueva, Julia C. Engelmann

Publikováno v: Frontiers in Genetics, Vol 11 (2020)

Marker gene sequencing of the rRNA operon (16S, 18S, ITS) or cytochrome c oxidase I (CO1) is a popular means to assess microbial communities of the environment, microbiomes associated with plants and animals, as well as communities of multicellular o

Externí odkaz: https://doaj.org/article/a2b9fce98c7c40e1be4c13ea713bfdcb

A pile of pipelines: an overview of the bioinformatics software for metabarcoding data analyses

Autor: Ali Hakimzadeh, Alejandro Abdala Asbun, Davide Albanese, Maria Bernard, Dominik Buchner, Benjamin Callahan, Gregory Caporaso, Emily Curd, Christophe DJEMIEL, Mikael Brandström Durling, Vasco Elbrecht, Zachary Gold, Hyun Gweon, Mehrdad Hajibabaei, Falk Hildebrand, Vladimir Mikryukov, Eric Normandeau, Ezgi Ozkurt, Jonathan M. Palmer, Géraldine Pascal, Teresita Porter, Daniel Straub, Martti Vasar, Tomáš Větrovský, Haris Zafeiropoulos, Sten Anslan

Environmental DNA (eDNA) metabarcoding has gained growing attention as a strategy for monitoring biodiversity in ecology. However, taxa identifications produced through metabarcoding require sophisticated processing of high-throughput sequencing data

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::ef5a5babf4ba55ec4d4e3cc40def7c07
https://doi.org/10.22541/au.167610608.87815963/v1

Microbial communities on plastic particles in surface waters differ from subsurface waters of the North Pacific Subtropical Gyre

Autor: Annika Vaksmaa, Matthias Egger, Claudia Lüke, Paula Dalcin Martins, Riccardo Rosselli, Alejandro Abdala Asbun, Helge Niemann

Publikováno v: Marine Pollution Bulletin, 182, 1-13
RUA. Repositorio Institucional de la Universidad de Alicante
Universidad de Alicante (UA)
Marine Pollution Bulletin, 182, pp. 1-13

The long-term fate of plastics in the ocean and their interactions with marine microorganisms remain poorly understood. In particular, the role of sinking plastic particles as a transport vector for surface microbes towards the deep sea has not been

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::31d23c71da3f68bd771ea0551d83497d
https://doi.org/10.1016/j.marpolbul.2022.113949

Differential microbial colonization on microplastic in the Mediterranean Sea coastal zone

Autor: Harry J. Witte, Maaike Goudriaan, Annika Vaksmaa, Katrin Knittel, Helge Niemann, Andreas Ellrott, Alejandro Abdala Asbun

Ocean plastic debris poses a large threat to the marine environment. Millions of tons of plastic end up in the ocean each year and the Mediterranean Sea is one of the most plastic polluted sea. Ocean plastic particles are typically covered with micro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::0df84ef19b1c662ff3caa81b0b4548d8
https://doi.org/10.5194/egusphere-egu2020-7975