Table 4.
The candidate selective sweep regions around the most significant single nucleotide polymorphisms, identified using integrated extended haplotype homozygosity and cross-population extended haplotype homozygosity analyses, which are associated with biotic or abiotic stress tolerances.
| Top significant SNP | Selective sweep region | Candidate gene | Putative function |
|---|---|---|---|
| solcap_snp_c1_5209 | chr04:43,730,218–43,937,038 (206.82 Kb) | Soltu.DM.04G019240 | Nuclear factor Y, subunit B1 |
|
solcap_snp_c2_16722, solcap_snp_c2_16712 |
chr04:47,061,351–47,267,899 (206.55 Kb) | Soltu.DM.04G020470 | GTP-binding family protein |
| solcap_snp_c2_16718 | chr04:47,428,515–47,632,604 (204.09 Kb) | Soltu.DM.04G020570 | Cytochrome C1 family |
| Soltu.DM.04G020580 | LRR and NB-ARC domains-containing disease resistance protein | ||
| Soltu.DM.04G020590 | DUF4228 domain-containing protein | ||
| Soltu.DM.04G020610 | Cytochrome P450, family 71, subfamily A, polypeptide | ||
| solcap_snp_c2_16744 | chr04:47,735,961–47,943,799 (207.84 Kb) | Soltu.DM.04G020730 | Non-intrinsic ABC protein |
| Soltu.DM.04G020740 | Leucine-rich repeat (LRR) family protein | ||
| Soltu.DM.04G020750 | Cystathionine-β-synthase (CBS) family protein | ||
| Soltu.DM.04G020760 | Auxin efflux carrier family protein | ||
| Soltu.DM.04G021140 | WRKY DNA-binding protein | ||
| Soltu.DM.04G021150 | Zinc finger (C2H2 type) family protein | ||
| Soltu.DM.04G021160 |
Phosphotyrosine protein phosphatases superfamily protein |
||
| Soltu.DM.04G021160 | Tyrosine phosphatase family protein | ||
| solcap_snp_c1_16534 | chr04:48,682,426–48,885,011 (202.59 Kb) | Soltu.DM.04G021170 | AIG2-like (avirulence induced gene) family protein |
| Soltu.DM.04G021190 | C2H2 and C2HC zinc fingers superfamily protein | ||
| Soltu.DM.04G021200 | Myb domain protein | ||
| Soltu.DM.04G021220 | Ubiquitin-specific protease | ||
| Soltu.DM.04G021240 | Calmodulin-binding transcription activator protein with CG-1 and ankyrin domains | ||
| Soltu.DM.09G006200 | PLAC8 family protein | ||
| Soltu.DM.09G006320 | Chaperone DnaJ-domain superfamily protein | ||
| Soltu.DM.09G006330 | Alpha/beta-hydrolases superfamily protein | ||
| Soltu.DM.09G006410 | Ascorbic acid mannose pathway regulator | ||
| Soltu.DM.09G006420 | F-box family protein with a domain of unknown function (DUF295) | ||
| Soltu.DM.09G006440 | ROP interactive partner | ||
| Soltu.DM.09G006490 | Minichromosome maintenance | ||
| Soltu.DM.09G006530 | Nuclear factor Y subunit B10 | ||
| Soltu.DM.09G006540 | Leucine-rich repeat protein kinase family protein | ||
| Soltu.DM.09G006560 | Ascorbate peroxidase | ||
| Soltu.DM.09G006620 | Zinc finger CCCH-type family protein, an effective role in stress tolerance | ||
| Soltu.DM.09G006630 | Tetratricopeptide repeat (TPR)-like superfamily protein, involved in plant hormone signaling | ||
| solcap_snp_c1_4076 | chr09:52,445,372–52,651,048 (205.68 Kb) | Soltu.DM.09G018750 | pfkB-like carbohydrate kinase family protein, involved in the pathway starch biosynthesis |
| Soltu.DM.09G018760 | Protein kinase superfamily protein | ||
| Soltu.DM.09G018770 | Transducin family protein/WD-40 repeat family protein | ||
| Soltu.DM.09G018820 | GroES-like zinc-binding dehydrogenase family protein | ||
| Soltu.DM.09G018830 | Tetratricopeptide repeat (TPR)-like superfamily protein | ||
| Soltu.DM.09G018840 | RPM1 interacting protein, essential regulator of plant defense |