Table 4.
In-silico identification of genes/proteins underlying QTLs linked to Fusarium crown rot and their putative functions under growth room and greenhouse.
| a) growthroom | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| SN | QTL | CHR | Allele | Blast annoation | Acce. no. | Genes/proteins | Amino acid change | Types of change (I) | Types of change (II) | Putative functions |
| 1 | Kukri_c57491_156 | 2AL | T/C | Triticum aestivum genome assembly, chromosome: 2A | LS992083.1 | Traes_2AL_3F9271302 (W5ARG8) | L- > L | Transition | synonymous | Lipid transport and metabolism, and signal transduction mechanisms |
| 2 | wsnp_Ra_c16278_24893033 | 3AS | A/G | Triticum aestivum mRNA, clone: tplb0013i15, cv. chinese spring | AK456680.1 | Traes_3AS_EBD285F1A (W5CNP7) | S- > S | Transition | synonymous | Cell cycle control, translation, posttranslational modification, protein turnover, and transcription |
| 3 | wsnp_Ku_c12399_20037334 | 4BS | T/G | Triticum aestivum genome assembly, chromosome: 4B | LS992090.1 | Putative uncharacterized protein | T- > A | Transition | nonsynonymous | . |
| 4 | wsnp_Ku_c17875_27051169 | 5BS | T/C | Triticum aestivum genome assembly, chromosome: 5B | LS992093.1 | Traes_5BL_BE78D7104 (W5FHE1) | T- > T | Transition | synonymous | Response to stress |
| 5 | RAC875_rep_c111521_246 | 5DS | T/G | Triticum aestivum genome assembly, chromosome: 5D | LS992094.1 | Traes_5DS_ED246C623 (W5G4N2) | no_hit | Transversion | . | Carbohydrate transport and metabolism |
| 6 | Excalibur_c2795_1518 | 5DL | T/C | Triticum aestivum genome assembly, chromosome: 5D | LS992094.1 | Traes_5DL_DB93C2CFF (W5FZH6) | no_hit | Transition | . | Protein phosphatase type 2A regulator activity and signal transduction |
| 7 | BS00021881_51 | 6DS | A/G | Triticum aestivum cultivar Chara chromosome: 6D alpha-amylase 1 gene, complete cds | KY368733.1 | Traes_6DL_E31AB6EED (W5H0C4)/Traes_6DL_5BE701A64 (W5GWI8) | M- > T | Transition | nonsynonymous | Alpha-amylase activity; calcium ion binding; carbohydrate metabolism |
| b) greenhouse | ||||||||||
| 1 | CAP8_c1393_327 | 3AS | A/G | Triticum aestivum genome assembly, chromosome: 3A | LS992086.1 | Putative uncharacterized protein | no_hit | Transition | . | . |
| 2 | CAP12_rep_c3868_270 | 3BS | T/G | Triticum aestivum genome assembly, chromosome: 3B | LS992087.1 | Traes_3B_1396EA938.2 | no_hit | Transversion | . | NADPH binding protein, 1-deoxy-D-xylulose-5-phosphate reductoisomerase activity; isoprenoid biosynthetic process; metal ion binding; |
| 3 | wsnp_Ex_c14027_21925404 | 3DL | T/C | Triticum aestivum genome assembly, chromosome: 3D | LS992088.1 | Traes_3DL_0421BBCE9 (W5D7G9) | N- > N | Transition | synonymous | Cell wall/membrane/envelope biogenesis, carbohydrate transport and metabolism |
| 4 | tplb0045c06_1675 | 4BS | T/C | Triticum aestivum genome assembly, chromosome: 4B | LS992090.1 | Traes_4BS_4E68C8E47 (W5EAP7) | N- > N | Transition | synonymous | Signal transduction mechanisms, carbohydrate transport and metabolism, translation, ribosomal structure and biogenesis |
| 5 | RAC875_rep_c72961_977 | 4BS | T/C | Triticum aestivum genome assembly, chromosome: 4B | LS992090.1 | Traes_4BL_1A04707C5 (W5E1P8) | I- > V | Transition | nonsynonymous | Transcription, translation, ribosomal structure and biogenesis, and posttranslational modification |
| 6 | Excalibur_c23304_353 | 5BS | T/G | Triticum aestivum genome assembly, chromosome: 5B | LS992093.1 | Putative uncharacterized protein | no_hit | Transversion | . | . |
| 7 | RAC875_c17297_341 | 6BS | T/C | Triticum aestivum genome assembly, chromosome: 6 A | LS992095.1 | Traes_6AS_33690B236 (W5GCQ4) | Q- > Q | Transition | synonymous | Amino acid transport and metabolism, mannan synthase activity, nucleotide-diphospho-sugar transferases |
| 8 | BobWhite_c19298_97 | 6BL | T/C | Triticum aestivum genome assembly, chromosome: 6B | LS992096.1 | Traes_6BL_9CFA54D4A (W5GLE7) | A- > A | Transition | synonymous | Transcription, translation, ribosomal structure and biogenesis, and posttranslational modification |
*SN serial numbers, QTL quantitative trait loci, CHR chromosomes, A adenine, T thymine, G guanine, C cytosine, Acce. no accession number, L leucine, S serine, T threonine, A alanine, M methionine, N asparagine, Q glutamine, NADPH nicotinamide adenine dinucleotide phosphate, annotations were considered positive when the database sequence was lower than e-value0.0e-15.