A multiplexed plant-animal SNP array for selective breeding and species conservation applications.

Autor:	Montanari S; The New Zealand Institute for Plant and Food Research Ltd, Motueka 7198, New Zealand., Deng C; The New Zealand Institute for Plant and Food Research Ltd, Auckland 1025, New Zealand., Koot E; The New Zealand Institute for Plant and Food Research Ltd, Palmerston North 4410, New Zealand., Bassil NV; USDA-ARS National Clonal Germplasm Repository, Corvallis, OR 97333, USA., Zurn JD; Department of Plant Pathology, Kansas State University, Manhattan, KS 66506, USA., Morrison-Whittle P; The New Zealand Institute for Plant and Food Research Ltd, Nelson 7010, New Zealand., Worthington ML; University of Arkansas, Fayetteville, AR 72701, USA., Aryal R; Department of Horticultural Science, North Carolina State University, Raleigh, NC 27695, USA., Ashrafi H; Department of Horticultural Science, North Carolina State University, Raleigh, NC 27695, USA., Pradelles J; Labogena, Jouy-en-Josas 78350, France., Wellenreuther M; The New Zealand Institute for Plant and Food Research Ltd, Nelson 7010, New Zealand.; School of Biological Sciences, University of Auckland, Auckland 1010, New Zealand., Chagné D; The New Zealand Institute for Plant and Food Research Ltd, Palmerston North 4410, New Zealand.
Jazyk:	angličtina
Zdroj:	G3 (Bethesda, Md.) [G3 (Bethesda)] 2023 Sep 30; Vol. 13 (10).
DOI:	10.1093/g3journal/jkad170
Abstrakt:	Reliable and high-throughput genotyping platforms are of immense importance for identifying and dissecting genomic regions controlling important phenotypes, supporting selection processes in breeding programs, and managing wild populations and germplasm collections. Amongst available genotyping tools, single nucleotide polymorphism arrays have been shown to be comparatively easy to use and generate highly accurate genotypic data. Single-species arrays are the most commonly used type so far; however, some multi-species arrays have been developed for closely related species that share single nucleotide polymorphism markers, exploiting inter-species cross-amplification. In this study, the suitability of a multiplexed plant-animal single nucleotide polymorphism array, including both closely and distantly related species, was explored. The performance of the single nucleotide polymorphism array across species for diverse applications, ranging from intra-species diversity assessments to parentage analysis, was assessed. Moreover, the value of genotyping pooled DNA of distantly related species on the single nucleotide polymorphism array as a technique to further reduce costs was evaluated. Single nucleotide polymorphism performance was generally high, and species-specific single nucleotide polymorphisms proved suitable for diverse applications. The multi-species single nucleotide polymorphism array approach reported here could be transferred to other species to achieve cost savings resulting from the increased throughput when several projects use the same array, and the pooling technique adds another highly promising advancement to additionally decrease genotyping costs by half. Competing Interests: Conflicts of interest The author(s) declare no conflict of interest. (© The Author(s) 2023. Published by Oxford University Press on behalf of The Genetics Society of America.)
Databáze:	MEDLINE
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