Genomic Regions Associated with Fusarium Wilt Resistance in Flax
Abstract
:1. Introduction
2. Results
2.1. Evaluation Resistance to Fusarium Wilt in Flax
2.2. Association Mapping of Fusarium Wilt Resistance
2.3. Fusarium Wilt Resistance Candidate Genes
3. Discussion
4. Materials and Methods
4.1. Plant Material Collection and Phenotyping
4.2. DNA Sequencing and Variant Calling
4.3. Genetic Data Analyses
4.4. GWAS
4.5. Candidate Genes
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Chromosome | QTN Position | REF/ALT | Average PVE | Average Effect | Year | MAF | QTN Annotation | |
---|---|---|---|---|---|---|---|---|
ID | Number | |||||||
CP027619.1 | 1 | 1213418 | C/T | 0.106 | −0.53 | 2019 2020 2021 | 0.138 | upstream_transcript_variant |
CP027619.1 | 1 | 1288166 | A/G | 0.09 | −0.74 | 2019 2020 2021 | 0.093 | synonymous_variant |
CP027619.1 | 1 | 1288616 | C/A | 0.10 | −0.72 | 2019 2020 2021 | 0.112 | synonymous_variant |
CP027619.1 | 1 | 1288653 | T/C | 0.103 | −0.76 | 2019 2020 2021 | 0.103 | missense_variant |
CP027619.1 | 1 | 1413812 | T/A | 0.102 | −0.69 | 2019 2020 2021 | 0.131 | intergenic_variant |
CP027619.1 | 1 | 1462137 | A/G | 0.082 | −0.66 | 2019 2020 | 0.099 | upstream_transcript_variant |
CP027619.1 | 1 | 1497939 | G/C | 0.075 | −0.62 | 2019 2020 | 0.103 | intergenic_variant |
CP027619.1 | 1 | 1528323 | C/G | 0.078 | −0.64 | 2019 2020 | 0.101 | missense_variant |
CP027619.1 | 1 | 1722812 | C/G | 0.105 | −0.68 | 2019 2020 2021 | 0.131 | intron_variant |
CP027619.1 | 1 | 1854337 | T/C | 0.082 | 0.56 | 2019 2020 | 0.101 | upstream_transcript_variant |
CP027632.1 | 8 | 22560236 | G/A | 0.064 | −0.53 | 2019 2020 | 0.185 | upstream_transcript_variant |
CP027632.1 | 8 | 22560290 | C/A | 0.077 | 0.50 | 2019 2020 2021 | 0.19 | synonymous_variant |
CP027621.1 | 11 | 6013057 | A/G | 0.097 | −0.64 | 2019 2020 2021 | 0.144 | intron_variant |
CP027623 | 13 | 545286 | A/G | 0.07 | 0.52 | 2020 2021 | 0.127 | intergenic_variant |
CP027623 | 13 | 4884610 | T/G | 0.067 | 1.35 | 2020 2021 | 0.457 | intergenic_variant |
QTN | Candidate Gene | Position | A. thaliana Orthologue | Protein |
---|---|---|---|---|
Chr11:288653 | Lus10025717 | Chr1:1285554-1289474 | AT2G22560 | KIP1-like protein |
Chr1:1462137 | Lus10025756 | Chr1:1463118-1465114 | AT2G46950, CYP709B2 | Cytochrome P450, family 709, subfamily B, polypeptide 2 |
Chr1:1528323 | Lus10025773 | Chr1:1527916-1531752 | AT1G53050 | Protein kinase superfamily protein |
Chr1:1722812 | Lus10025823 | Chr1:1722251-1726433 | AT1G79750, NADP-ME4 | NADP-malic enzyme 4 |
Chr1:1854337 | Lus10025852 | Chr1:1851791-1853596 | AT5G17890, CHS3, DAR4 | DA1-related protein 4, nucleotide-binding, leucine-rich repeat protein |
Chr1:1854337 | Lus10025853 | Chr1:1854958-1870647 | AT5G17020, XPO1A | Exportin 1A |
Chr8:22560236 | Lus10015356 | Chr8:22561110-22562338 | AT5G62740, HIR1 | SPFH/Band 7/PHB domain-containing, membrane-associated protein family protein |
Chr8:22560236 | Lus10015357 | Chr8:22562785-22565427 | AT5G62740, VDAC1 | Voltage-dependent anion channel 1 |
Chr8:22560236 | Lus10015344 | Chr8:22554684-22556269 | AT5G40010, AATP1 | AAA-ATPase 1 |
Chr8:22560236 | Lus10015339 | Chr8:22569641-22570539 | AT3G01270 | Pectate lyase family protein |
Chr11:6013057 | Lus10035917 | Chr11:6011724-6014460 | AT1G80230 | Rubredoxin-like superfamily protein |
Chr13:4884610 | Lus10009330 | Chr13:4886276-4888681 | AT1G71400, RLP12 | Receptor-like protein 12, RLK |
Chr13:4884610 | Lus10009332 | Chr13:4890865-4893541 | AT5G66880, SNRK2.3 | Sucrose nonfermenting 1(SNF1)-related protein kinase 2.3 |
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Kanapin, A.; Bankin, M.; Rozhmina, T.; Samsonova, A.; Samsonova, M. Genomic Regions Associated with Fusarium Wilt Resistance in Flax. Int. J. Mol. Sci. 2021, 22, 12383. https://doi.org/10.3390/ijms222212383
Kanapin A, Bankin M, Rozhmina T, Samsonova A, Samsonova M. Genomic Regions Associated with Fusarium Wilt Resistance in Flax. International Journal of Molecular Sciences. 2021; 22(22):12383. https://doi.org/10.3390/ijms222212383
Chicago/Turabian StyleKanapin, Alexander, Mikhail Bankin, Tatyana Rozhmina, Anastasia Samsonova, and Maria Samsonova. 2021. "Genomic Regions Associated with Fusarium Wilt Resistance in Flax" International Journal of Molecular Sciences 22, no. 22: 12383. https://doi.org/10.3390/ijms222212383