Universität zu Köln

Goncalves-Dias, Jose and Stetter, Markus G. (2021). PopAmaranth: a population genetic genome browser for grain amaranths and their wild relatives. G3-Genes Genomes Genet., 11 (7). CARY: OXFORD UNIV PRESS INC. ISSN 2160-1836

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Abstract

The combination of genomic, physiological, and population genetic research has accelerated the understanding and improvement of numerous crops. For nonmodel crops, the lack of interdisciplinary research hinders their improvement. Grain amaranth is an ancient nutritious pseudocereal that has been domesticated three times in different regions of the Americas. We present and employ PopAmaranth, a population genetic genome browser, which provides an accessible representation of the genetic variation of the threegrain amaranth species (Amaranthus hypochondriacus, Amaranthus cruentus, and Amaranthus caudatus) and two wild relatives (Amaranthus hybridus and Amaranthus quitensis) along the A. hypochondriacus reference sequence. We performed population-scale diversity and selection analysis from whole-genome sequencing data of 88 curated genetically and taxonomically unambiguously classified accessions. We employ the platform to show that genetic diversity in the water stress-related MIF1 gene declined during amaranth domestication and provide evidence for convergent saponin reduction between amaranth and quinoa. PopAmaranth is available through amaranthGDB at amaranthgdb.org/popamaranth.html

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Goncalves-Dias, Jose UNSPECIFIED UNSPECIFIED UNSPECIFIED Stetter, Markus G. UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-566289
DOI:	10.1093/g3journal/jkab103
Journal or Publication Title:	G3-Genes Genomes Genet.
Volume:	11
Number:	7
Date:	2021
Publisher:	OXFORD UNIV PRESS INC
Place of Publication:	CARY
ISSN:	2160-1836
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language DOMESTICATION; FORMAT Multiple languages Genetics & Heredity Multiple languages
URI:	http://kups.ub.uni-koeln.de/id/eprint/56628