@article{Sun2023, 
author = {Shichao Sun and Yumin Wang and He Wei and David E. Hufnagel and Ya Wang and Shiyu Guo and Yinghui Li and Li Wang and Li-juan Qiu},
title = {The prevalence of deleterious mutations during the domestication and improvement of soybean},
year = {2023},
journal = {The Crop Journal},
volume = {11},
number = {2},
pages = {523-530},
keywords = {Deleterious mutations, Domestication cost, Expansion load, BAD_Mutations, Soybean cyst nematode},
url = {https://www.sciopen.com/article/10.1016/j.cj.2022.10.008},
doi = {10.1016/j.cj.2022.10.008},
abstract = {Soybean (Glycine max L.) is a protein and oil crop grown worldwide. Its fitness may be reduced by deleterious mutations, whose identification and purging is desirable for crop breeding. In the published whole-genome re-sequenced data of 2214 soybean accessions, including 221 wild soybean, 1132 landrace cultivars and 861 improved soybean lines, we identified 115,275 deleterious single-nucleotide polymorphisms (SNPs). Numbers of deleterious alleles increased from wild soybeans to landraces and decreased from landraces to modern improved lines. Genes in selective-sweep regions showed fewer deleterious mutations than the remaining genes. Deleterious mutations explained 4.3%–48% more phenotypic variation than randomly selected SNPs for resistance to soybean cyst nematode race 2 (SCN2), soybean cyst nematode race 3 (SCN3) and soybean mosaic virus race 3 (SMV3). These findings illustrate how mutation load has shifted during soybean domestication, expansion and improvement and provide candidate sites for breeding out deleterious mutations in soybean by genome editing and/or conventional breeding focused on the selection of progeny with fewer deleterious alleles.}
}