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A semi-automated SNP-based approach for contaminant identification in biparental Polyploid Populations of tropical forage grasses. Repositório Alice
MARTINS, F. B.; SOUZA, A. P. DE; VIGNA, B. B. Z.; VALLE, C. B. do; JANK, L.; SANTOS, M. F.; BARRIOS, S. C. L.; SIMEÃO, R. M.; CHIARI, L.; FERREIRA, R. C. U.; AONO, A. H.; MORAES, A. C. L..
Artificial hybridization plays a fundamental role in plant breeding programs since it generates new genotypic combinations that can result in desirable phenotypes. Depending on the species and mode of reproduction, controlled crosses may be challenging, and contaminating individuals can be introduced accidentally. In this context, the identification of such contaminants is important to avoid compromising further selection cycles, as well as genetic and genomic studies. The main objective of this work was to propose an automated multivariate methodology for the detection and classification of putative contaminants, including apomictic clones (ACs), self-fertilized individuals, half-siblings (HSs), and full contaminants (FCs), in biparental polyploid...
Tipo: Artigo de periódico Palavras-chave: GBS; Apomictic clones; Self fertilization; Half sibling; Allele dosage; Clustering analysis; Shiny; Principal component analysis.
Ano: 2021 URL: http://www.alice.cnptia.embrapa.br/alice/handle/doc/1137227
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GAPeDNA: Assessing and mapping global species gaps in genetic databases for eDNA metabarcoding ArchiMer
Marques, Virginie; Milhau, Tristan; Albouy, Camille; Dejean, Tony; Manel, Stéphanie; Mouillot, David; Juhel, Jean‐baptiste; Dutta, Trishna.
Aim Environmental DNA metabarcoding has recently emerged as a non‐invasive tool for aquatic biodiversity inventories, frequently surpassing traditional methods for detecting a wide range of taxa in most habitats. The major limitation currently impairing the large‐scale application of eDNA‐based inventories is the lack of species sequences available in public genetic databases. Unfortunately, these gaps are still unknown spatially and taxonomically, hindering targeted future sequencing efforts. Innovation We propose GAPeDNA, a user‐friendly web interface that provides a global overview of genetic database completeness for a given taxon across space and conservation status. As an application, we synthetized data from regional checklists for marine and...
Tipo: Text Palavras-chave: Environmental DNA; Genetic markers; IUCN; Marine and freshwater fish; Non‐indigenous species; Reference database; Shiny; Threatened species.
Ano: 2021 URL: https://archimer.ifremer.fr/doc/00688/79976/82921.pdf
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