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Nat Genet. 2016 Apr;48(4):438-46. doi: 10.1038/ng.3517. Epub 2016 Feb 22.

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut.

Author information

1
Institute of Biological Sciences, University of Brasília, Brasília, Brazil.
2
Center for Applied Genetic Technologies, University of Georgia, Athens, Georgia, USA.
3
Corn Insects and Crop Genetics Research Unit, US Department of Agriculture-Agricultural Research Service, Ames, Iowa, USA.
4
Genome Center, University of California, Davis, Davis, California, USA.
5
Department of Plant Sciences, University of California, Davis, Davis, California, USA.
6
BGI-Shenzhen, Shenzhen, China.
7
National Center for Genome Resources, Santa Fe, New Mexico, USA.
8
Department of Computer Science, Iowa State University, Ames, Iowa, USA.
9
Institute of Plant Breeding, Genetics and Genomics, University of Georgia, Tifton, Georgia, USA.
10
Interdepartmental Genetics Graduate Program, Iowa State University, Ames, Iowa, USA.
11
Embrapa Genetic Resources and Biotechnology, Brasília, Brazil.
12
Kazusa DNA Research Institute, Department of Frontier Research, Kisarazu, Japan.
13
Department of Agronomy, Iowa State University, Ames, Iowa, USA.
14
Department of Horticulture, University of Georgia, Tifton, Georgia, USA.
15
Department of Genetics, University of Georgia, Athens, Georgia, USA.
16
Texas A&M AgriLife Research, Lubbock, Texas, USA.
17
Department of Plant and Soil Science, Texas Tech University, Lubbock, Texas, USA.
18
International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India.
19
Shandong Academy of Agricultural Sciences, Biotechnology Research Center, Jinan, China.
20
Henan Academy of Agricultural Sciences, Zhengzhou, China.
21
Plant Genetic Resources Conservation Unit, US Department of Agriculture-Agricultural Research Service, Griffin, Georgia, USA.
22
International Potato Center, Lima, Peru.
23
Crop Protection and Management Research Unit, US Department of Agriculture-Agricultural Research Service, Tifton, Georgia, USA.
24
Chinese Academy of Agricultural Sciences, Oil Crops Research Institute, Wuhan, China.
25
Department of Crop Science, North Carolina State University, Raleigh, North Carolina, USA.
26
Middle Southern Area Genomics Laboratory, US Department of Agriculture-Agricultural Research Service, Stoneville, Mississippi, USA.

Abstract

Cultivated peanut (Arachis hypogaea) is an allotetraploid with closely related subgenomes of a total size of ∼2.7 Gb. This makes the assembly of chromosomal pseudomolecules very challenging. As a foundation to understanding the genome of cultivated peanut, we report the genome sequences of its diploid ancestors (Arachis duranensis and Arachis ipaensis). We show that these genomes are similar to cultivated peanut's A and B subgenomes and use them to identify candidate disease resistance genes, to guide tetraploid transcript assemblies and to detect genetic exchange between cultivated peanut's subgenomes. On the basis of remarkably high DNA identity of the A. ipaensis genome and the B subgenome of cultivated peanut and biogeographic evidence, we conclude that A. ipaensis may be a direct descendant of the same population that contributed the B subgenome to cultivated peanut.

PMID:
26901068
DOI:
10.1038/ng.3517
[Indexed for MEDLINE]

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