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Dixit et al. (2012) reported the fine-mapping of qDTY 2.2 and qDTY 12.1 regions and found that introgression of the fine-mapped region could minimize the undesirable linkage of the qDTY in future MAB programs.
The yield superiority of lines with two or more QTLs under both NS and RS drought stress over the five high-yielding backgrounds clearly indicated that qDTY QTLs identified at IRRI are free from undesirable linkage drag and can be successfully used in MAB programs targeting yield improvement under RS drought stress.
The positive identification of introgressed genes within crop species such as S. lycopersicum will help inform conservation and utilization of crop germplasm diversity, for example, facilitating the purging of undesirable linkage drag or the exploitation of novel, favorable alleles.
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The QTLs for grain yield under drought have shown undesirable linkages with low yield potential, very early maturity duration, tall plant height (Vikram et al. 2015).
To make use of the diversity, an efficient mating design is needed to break the undesirable linkages and to convert landraces to breeding-ready genetic resources.
At IRRI, studies were undertaken to break the undesirable linkages of QTLs with tall plant height, very early maturity duration and low yield potential (Vikram et al. 2015).
The transgene approach can minimize, to a greater extent, the risk of undesirable gene combination and linkage drags.
It is important that the genes to be employed in marker-assisted breeding and gene pyramiding should not bring in undesirable traits due to linkage drag (Peng et al. 2014a, b; Sun and Mumm 2015; Wang et al. 2015).
Breeding for increased ear mold tolerance and reduced mycotoxin levels is being practiced today in both commercial and public programs, but the amount of resistance achievable may be limited due to complicated genetics and/or linkage to undesirable agronomic traits.
However, they carry many undesirable alleles that may show strong linkage to favorable alleles, linkages that usually are very difficult to break up by conventional crossing.
Comparisons between Aphanomyces resistance QTL and QTL controlling other agronomic traits will aid selection for positive associations and avoid selection of negative linkages between resistance and undesirable alleles.
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