000			03197nab|a22004097a|4500
001			66232
003			MX-TxCIM
005			20230818155500.0
008			20234s2023||||mx |||p|op||||00||0|eng|d
022			_a0040-5752
022			_a1432-2242 (Online)
024	8		_ahttps://doi.org/10.1007/s00122-023-04352-8
040			_aMX-TxCIM
041			_aeng
100	1		_aAlemu, A. _911491
245	1	0	_aHaplotype-tagged SNPs improve genomic prediction accuracy for Fusarium head blight resistance and yield-related traits in wheat
260			_bSpringer Verlag, _c2023. _aBerlin (Germany) :
500			_aPeer review
500			_aOpen Access
520			_aGenomic prediction is a powerful tool to enhance genetic gain in plant breeding. However, the method is accompanied by various complications leading to low prediction accuracy. One of the major challenges arises from the complex dimensionality of marker data. To overcome this issue, we applied two pre-selection methods for SNP markers viz. LD-based haplotype-tagging and GWAS-based trait-linked marker identification. Six different models were tested with preselected SNPs to predict the genomic estimated breeding values (GEBVs) of four traits measured in 419 winter wheat genotypes. Ten different sets of haplotype-tagged SNPs were selected by adjusting the level of LD thresholds. In addition, various sets of trait-linked SNPs were identified with different scenarios from the training-test combined and only from the training populations. The BRR and RR-BLUP models developed from haplotype-tagged SNPs had a higher prediction accuracy for FHB and SPW by 0.07 and 0.092, respectively, compared to the corresponding models developed without marker pre-selection. The highest prediction accuracy for SPW and FHB was achieved with tagged SNPs pruned at weak LD thresholds (r2 < 0.5), while stringent LD was required for spike length (SPL) and flag leaf area (FLA). Trait-linked SNPs identified only from training populations failed to improve the prediction accuracy of the four studied traits. Pre-selection of SNPs via LD-based haplotype-tagging could play a vital role in optimizing genomic selection and reducing genotyping costs. Furthermore, the method could pave the way for developing low-cost genotyping methods through customized genotyping platforms targeting key SNP markers tagged to essential haplotype blocks.
546			_aText in English
650		7	_aBreeding _2AGROVOC _91029
650		7	_aFusarium _2AGROVOC _92705
650		7	_aGenetic linkage _2AGROVOC _910050
650		7	_aGenetic markers _2AGROVOC _91848
650		7	_aGenotypes _2AGROVOC _91134
650		7	_aLeaf area _2AGROVOC _927935
650		0	_aSingle nucleotide polymorphisms _gAGROVOC _910805
650		7	_aWheat _2AGROVOC _91310
700	1		_aBatista, L. _930680
700	1		_aPawan Kumar Singh _gGlobal Wheat Program _8INT2868 _9868
700	1		_aCeplitis, A. _930681
700	1		_aChawade, A. _97735
773	0		_tTheoretical and Applied Genetics _gv. 136, no. 4, art. 92 _dBerlin (Germany) : Springer Verlag, 2023 _wG444762 _x0040-5752
856	4		_yOpen Access through DSpace _uhttps://hdl.handle.net/10883/22571
942			_cJA _n0 _2ddc
999			_c66232 _d66224