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Abstract Detail


Meyer, Rachel [1].

Domestication history and geographic adaptation inferred from a SNP map of African rice.

African rice (Oryza glaberrima Steud.) is a cereal crop species that shares a common ancestor with Asian rice (O. sativa L.) but was independently domesticated in West Africa. African rice is rarely grown outside sub-Saharan Africa, and is of interest because of its tolerance to abiotic stresses.Here we describe a map of 2.32 million single nucleotide polymorphisms (SNPs) of African rice from whole genome re-sequencing of 93 landraces. Population genomic analysis reveals a population bottleneck in this species that began ~13-15 thousand years ago (kya), with effective population size reaching its minimum value ~3.5 kya, suggesting a protracted period of population size reduction likely commencing with pre-domestication management and/or cultivation. Genome-wide association studies (GWAS) with 6 salt tolerance traits also identify 11 significant loci, four of which overlap or are within ~300 kb of genomic regions that possess signatures of positive selection, suggesting adaptive geographic divergence for salt tolerance in this species. Arid coastal regions, where many tolerant lines originated, are exposed to high salinity, and people continue to select and maintain salt tolerant landraces.

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Related Links:
African rice fieldwork blog
African rice data JBrowse

1 - New York University, 12 Waverly Place, New York, NY, 10003, USA

Abiotic Stress
subsistence farm
local adaptation.

Presentation Type: Oral Paper
Session: 11, Genetics
Location: 105/Savannah International Trade and Convention Center
Date: Monday, August 1st, 2016
Time: 1:30 PM
Number: 11001
Abstract ID:927
Candidate for Awards:Margaret Menzel Award

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