Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments
Abstract
A set of 96 winter wheat accessions sampled from a variety of geographic origins, including cultivars and breeding lines, were characterized with 46 genome-wide SSR loci for genetic diversity and population structure. The genetic diversity within these accessions was examined using a genetic distance-based and a model-based clustering method. The model-based analysis identified an underlying population structure comprising of four distinct sub-populations which corresponded well with distance-based groupings. Information on the population structure is taken into account in an association mapping study of grain yield from a 3-years field trial incorporating fully irrigated, rainfed and drought stress treatments. A total of 21 marker-grain yield associations (P lt 0.01) were identified with nine SSR markers. Most associations were detected only in one to three environments (treatment/year combination), with an average R (2) value around 13 %. However, marker gwm484 (on chromosome 2D) w...as associated with yield in six environments, including irrigated, rainfed and drought stress treatments, suggesting it could be used to improve grain yield across a range of environments. Variation in grain yield at this locus was associated with earliness, early vigour, kernels per spikelet and harvest index. Microsatellite locus psp3200 (on chromosome 6D) was associated with yield in dry and hot environments, which was related to earliness, early vigour, productive tillering and total biomass per plant. Partial least squares regression, with nine environmental factors, showed that precipitation from tillering to maturity was the main environmental factor causing marker x environment associations for grain yield.
Keywords:
Wheat / Genetic diversity / Population structure / Association mapping / Grain yield / Environmental factorsSource:
Genetica, 2012, 140, 4-6, 259-275Publisher:
- Springer, Dordrecht
Funding / projects:
- CAREBREED: Modern approaches for career development in small-grain cereal breeding (EU-254064)
- Biotechnological approaches for overcoming effects of drought on agricultural production in Serbia (RS-31005)
- Modern breeding of small grains for present and future needs (RS-31066)
DOI: 10.1007/s10709-012-9677-2
ISSN: 0016-6707
PubMed: 22968391
WoS: 000308968300016
Scopus: 2-s2.0-84866536815
Collections
Institution/Community
FiVeRTY - JOUR AU - Zorić, Miroslav AU - Dodig, Dejan AU - Kobiljski, Borislav AU - Quarrie, Steve AU - Barnes, Jeremy PY - 2012 UR - http://fiver.ifvcns.rs/handle/123456789/1090 AB - A set of 96 winter wheat accessions sampled from a variety of geographic origins, including cultivars and breeding lines, were characterized with 46 genome-wide SSR loci for genetic diversity and population structure. The genetic diversity within these accessions was examined using a genetic distance-based and a model-based clustering method. The model-based analysis identified an underlying population structure comprising of four distinct sub-populations which corresponded well with distance-based groupings. Information on the population structure is taken into account in an association mapping study of grain yield from a 3-years field trial incorporating fully irrigated, rainfed and drought stress treatments. A total of 21 marker-grain yield associations (P lt 0.01) were identified with nine SSR markers. Most associations were detected only in one to three environments (treatment/year combination), with an average R (2) value around 13 %. However, marker gwm484 (on chromosome 2D) was associated with yield in six environments, including irrigated, rainfed and drought stress treatments, suggesting it could be used to improve grain yield across a range of environments. Variation in grain yield at this locus was associated with earliness, early vigour, kernels per spikelet and harvest index. Microsatellite locus psp3200 (on chromosome 6D) was associated with yield in dry and hot environments, which was related to earliness, early vigour, productive tillering and total biomass per plant. Partial least squares regression, with nine environmental factors, showed that precipitation from tillering to maturity was the main environmental factor causing marker x environment associations for grain yield. PB - Springer, Dordrecht T2 - Genetica T1 - Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments EP - 275 IS - 4-6 SP - 259 VL - 140 DO - 10.1007/s10709-012-9677-2 ER -
@article{ author = "Zorić, Miroslav and Dodig, Dejan and Kobiljski, Borislav and Quarrie, Steve and Barnes, Jeremy", year = "2012", abstract = "A set of 96 winter wheat accessions sampled from a variety of geographic origins, including cultivars and breeding lines, were characterized with 46 genome-wide SSR loci for genetic diversity and population structure. The genetic diversity within these accessions was examined using a genetic distance-based and a model-based clustering method. The model-based analysis identified an underlying population structure comprising of four distinct sub-populations which corresponded well with distance-based groupings. Information on the population structure is taken into account in an association mapping study of grain yield from a 3-years field trial incorporating fully irrigated, rainfed and drought stress treatments. A total of 21 marker-grain yield associations (P lt 0.01) were identified with nine SSR markers. Most associations were detected only in one to three environments (treatment/year combination), with an average R (2) value around 13 %. However, marker gwm484 (on chromosome 2D) was associated with yield in six environments, including irrigated, rainfed and drought stress treatments, suggesting it could be used to improve grain yield across a range of environments. Variation in grain yield at this locus was associated with earliness, early vigour, kernels per spikelet and harvest index. Microsatellite locus psp3200 (on chromosome 6D) was associated with yield in dry and hot environments, which was related to earliness, early vigour, productive tillering and total biomass per plant. Partial least squares regression, with nine environmental factors, showed that precipitation from tillering to maturity was the main environmental factor causing marker x environment associations for grain yield.", publisher = "Springer, Dordrecht", journal = "Genetica", title = "Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments", pages = "275-259", number = "4-6", volume = "140", doi = "10.1007/s10709-012-9677-2" }
Zorić, M., Dodig, D., Kobiljski, B., Quarrie, S.,& Barnes, J.. (2012). Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments. in Genetica Springer, Dordrecht., 140(4-6), 259-275. https://doi.org/10.1007/s10709-012-9677-2
Zorić M, Dodig D, Kobiljski B, Quarrie S, Barnes J. Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments. in Genetica. 2012;140(4-6):259-275. doi:10.1007/s10709-012-9677-2 .
Zorić, Miroslav, Dodig, Dejan, Kobiljski, Borislav, Quarrie, Steve, Barnes, Jeremy, "Population structure in a wheat core collection and genomic loci associated with yield under contrasting environments" in Genetica, 140, no. 4-6 (2012):259-275, https://doi.org/10.1007/s10709-012-9677-2 . .