QTL Mapping in Three Rice Populations Uncovers Major Genomic Regions Associated with African Rice Gall Midge Resistance.

dc.contributor.author

Yao, Nasser

dc.contributor.author

Lee, Cheng-Ruei

dc.contributor.author

Semagn, Kassa

dc.contributor.author

Sow, Mounirou

dc.contributor.author

Nwilene, Francis

dc.contributor.author

Kolade, Olufisayo

dc.contributor.author

Bocco, Roland

dc.contributor.author

Oyetunji, Olumoye

dc.contributor.author

Mitchell-Olds, Thomas

dc.contributor.author

Ndjiondjop, Marie-Noëlle

dc.coverage.spatial

United States

dc.date.accessioned

2017-07-05T16:20:26Z

dc.date.available

2017-07-05T16:20:26Z

dc.date.issued

2016

dc.description.abstract

African rice gall midge (AfRGM) is one of the most destructive pests of irrigated and lowland African ecologies. This study aimed to identify the quantitative trait loci (QTL) associated with AfRGM pest incidence and resistance in three independent bi-parental rice populations (ITA306xBW348-1, ITA306xTOG7106 and ITA306xTOS14519), and to conduct meta QTL (mQTL) analysis to explore whether any genomic regions are conserved across different genetic backgrounds. Composite interval mapping (CIM) conducted on the three populations independently uncovered a total of 28 QTLs associated with pest incidence (12) and pest severity (16). The number of QTLs per population associated with AfRGM resistance varied from three in the ITA306xBW348-1 population to eight in the ITA306xTOG7106 population. Each QTL individually explained 1.3 to 34.1% of the phenotypic variance. The major genomic region for AfRGM resistance had a LOD score and R2 of 60.0 and 34.1% respectively, and mapped at 111 cM on chromosome 4 (qAfrGM4) in the ITA306xTOS14519 population. The meta-analysis reduced the number of QTLs from 28 to 17 mQTLs, each explaining 1.3 to 24.5% of phenotypic variance, and narrowed the confidence intervals by 2.2 cM. There was only one minor effect mQTL on chromosome 1 that was common in the TOS14519 and TOG7106 genetic backgrounds; all other mQTLs were background specific. We are currently fine-mapping and validating the major effect genomic region on chromosome 4 (qAfRGM4). This is the first report in mapping the genomic regions associated with the AfRGM resistance, and will be highly useful for rice breeders.

dc.identifier

https://www.ncbi.nlm.nih.gov/pubmed/27508500

dc.identifier

PONE-D-15-50294

dc.identifier.eissn

1932-6203

dc.identifier.uri

https://hdl.handle.net/10161/14984

dc.language

eng

dc.publisher

Public Library of Science (PLoS)

dc.relation.ispartof

PLoS One

dc.relation.isversionof

10.1371/journal.pone.0160749

dc.title

QTL Mapping in Three Rice Populations Uncovers Major Genomic Regions Associated with African Rice Gall Midge Resistance.

dc.type

Journal article

duke.contributor.orcid

Mitchell-Olds, Thomas|0000-0003-3439-9921

pubs.author-url

https://www.ncbi.nlm.nih.gov/pubmed/27508500

pubs.begin-page

e0160749

pubs.issue

8

pubs.organisational-group

Biology

pubs.organisational-group

Duke

pubs.organisational-group

Trinity College of Arts & Sciences

pubs.publication-status

Published online

pubs.volume

11

Files

Original bundle

Now showing 1 - 1 of 1
Loading...
Thumbnail Image
Name:
QTL Mapping in Three Rice Populations Uncovers Major Genomic Regions Associated with African Rice Gall Midge Resistance.pdf
Size:
1.18 MB
Format:
Adobe Portable Document Format