Citation: | ZHANG Y M, XIAO H, LAN X L, et al. Genetic Variations in Southern High-protein Soybean Fudou 234 by Re-sequencing [J]. Fujian Journal of Agricultural Sciences,2024,39(6):652−661 doi: 10.19303/j.issn.1008-0384.2024.06.004 |
[1] |
CAO P, ZHAO Y, WU F J, et al. Multi-omics techniques for soybean molecular breeding [J]. International Journal of Molecular Sciences, 2022, 23(9): 4994. doi: 10.3390/ijms23094994
|
[2] |
XU X Y, BAI G H. Whole-genome resequencing: Changing the paradigms of SNP detection, molecular mapping and gene discovery [J]. Molecular Breeding, 2015, 35(1): 33. doi: 10.1007/s11032-015-0240-6
|
[3] |
HUANG X H, FENG Q, QIAN Q, et al. High-throughput genotyping by whole-genome resequencing [J]. Genome Research, 2009, 19(6): 1068−1076. doi: 10.1101/gr.089516.108
|
[4] |
PETEREIT J, MARSH J I, BAYER P E, et al. Genetic and genomic resources for soybean breeding research [J]. Plants, 2022, 11(9): 1181. doi: 10.3390/plants11091181
|
[5] |
YANG C M, YAN J, JIANG S Q, et al. Resequencing 250 soybean accessions: New insights into genes associated with agronomic traits and genetic networks[J]. Genomics, Proteomics & Bioinformatics, 2022, 20(1): 29-41.
|
[6] |
LIU N, NIU Y C, ZHANG G W, et al. Genome sequencing and population resequencing provide insights into the genetic basis of domestication and diversity of vegetable soybean [J]. Horticulture Research, 2022, 9: uhab052. doi: 10.1093/hr/uhab052
|
[7] |
LEE K J, KIM D S, KIM J B, et al. Identification of candidate genes for an early-maturing soybean mutant by genome resequencing analysis [J]. Molecular Genetics and Genomics, 2016, 291(4): 1561−1571. doi: 10.1007/s00438-016-1183-2
|
[8] |
MALDONADO DOS SANTOS J V, VALLIYODAN B, JOSHI T, et al. Evaluation of genetic variation among Brazilian soybean cultivars through genome resequencing [J]. BMC Genomics, 2016, 17: 110. doi: 10.1186/s12864-016-2431-x
|
[9] |
JIANG H, JIA H Y, HAO X S, et al. Mapping Locus RSC11K and predicting candidate gene resistant to Soybean mosaic virus strain SC11 through linkage analysis combined with genome resequencing of the parents in soybean [J]. Genomics, 2022, 114(4): 110387. doi: 10.1016/j.ygeno.2022.110387
|
[10] |
YUAN Y, YANG Y Q, SHEN Y C, et al. Mapping and functional analysis of candidate genes involved in resistance to soybean (Glycine max) mosaic virus strain SC3 [J]. Plant Breeding, 2020, 139(3): 618−625. doi: 10.1111/pbr.12799
|
[11] |
林国强, 张轼, 滕振勇, 等. 高蛋白大豆福豆234的选育及高产农艺措施数学模型 [J]. 福建农业学报, 2005, 20(2):69−73. doi: 10.3969/j.issn.1008-0384.2005.02.002
LIN G Q, ZHANG S, TENG Z Y, et al. Breeding and mathematical model of agronomic measures for high yield and protein content soybean variety Fudou 234 [J]. Fujian Journal of Agricultural Sciences, 2005, 20(2): 69−73. (in Chinese) doi: 10.3969/j.issn.1008-0384.2005.02.002
|
[12] |
ABOUL-MAATY N A F, ORABY H A S. Extraction of high-quality genomic DNA from different plant orders applying a modified CTAB-based method [J]. Bulletin of the National Research Centre, 2019, 43(1): 25. doi: 10.1186/s42269-019-0066-1
|
[13] |
张彦威, 李伟, 张礼凤, 等. 基于重测序的大豆新品种齐黄34的全基因组变异挖掘 [J]. 中国油料作物学报, 2016, 38(2):150−158. doi: 10.7505/j.issn.1007-9084.2016.02.003
ZHANG Y W, LI W, ZHANG L F, et al. Genome-wide variations of soybean cultivar Qihuang 34 by whole genome re-sequencing [J]. Chinese Journal of Oil Crop Sciences, 2016, 38(2): 150−158. (in Chinese) doi: 10.7505/j.issn.1007-9084.2016.02.003
|
[14] |
郭丹丹, 袁凤杰, 郁晓敏. 基于重测序的籽粒型和鲜食型大豆的全基因组变异分析 [J]. 分子植物育种, 2019, 17(22):7306−7312.
GUO D D, YUAN F J, YU X M. Genome-wide variation analysis of grain and vegetable soybeans based on re-sequencing [J]. Molecular Plant Breeding, 2019, 17(22): 7306−7312. (in Chinese)
|
[15] |
LI H, DURBIN R. Fast and accurate short read alignment with Burrows-Wheeler transform [J]. Bioinformatics, 2009, 25(14): 1754−1760. doi: 10.1093/bioinformatics/btp324
|
[16] |
LI H, HANDSAKER B, WYSOKER A, et al. The Sequence Alignment/Map format and SAMtools [J]. Bioinformatics, 2009, 25(16): 2078−2079. doi: 10.1093/bioinformatics/btp352
|
[17] |
MCKENNA A, HANNA M, BANKS E, et al. The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data [J]. Genome Research, 2010, 20(9): 1297−1303. doi: 10.1101/gr.107524.110
|
[18] |
沈丽丽, 曹斌斌, 杨光耀, 等. 毛竹及其2种竿型变异类型的全基因组重测序分析 [J]. 基因组学与应用生物学, 2023, 42(6):581−592.
SHEN L L, CAO B B, YANG G Y, et al. Whole genome resequencing analysis of moso bamboo(Phyllostachys edulis)and its two culm variants [J]. Genomics and Applied Biology, 2023, 42(6): 581−592. (in Chinese)
|
[19] |
CINGOLANI P, PLATTS A, WANG L L, et al. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3 [J]. Fly, 2012, 6(2): 80−92. doi: 10.4161/fly.19695
|
[20] |
魏荷, 王金社, 卢为国. 大豆籽粒蛋白质含量分子遗传研究进展 [J]. 中国油料作物学报, 2015, 37(3):394−410. doi: 10.7505/j.issn.1007-9084.2015.03.021
WEI H, WANG J S, LU W G. Molecular genetic advances in soybean seed protein [J]. Chinese Journal of Oil Crop Sciences, 2015, 37(3): 394−410. (in Chinese) doi: 10.7505/j.issn.1007-9084.2015.03.021
|
[21] |
BANDILLO N, JARQUIN D, SONG Q J, et al. A population structure and genome-wide association analysis on the USDA soybean germplasm collection[J]. The Plant Genome, 2015, 8(3): eplantgenome2015.04. 0024.
|
[22] |
PATIL G, MIAN R, VUONG T, et al. Molecular mapping and genomics of soybean seed protein: A review and perspective for the future [J]. Theoretical and Applied Genetics, 2017, 130(10): 1975−1991. doi: 10.1007/s00122-017-2955-8
|
[23] |
VAN K, MCHALE L K. Meta-analyses of QTLs associated with protein and oil contents and compositions in soybean[Glycine max (L.) Merr. ]seed [J]. International Journal of Molecular Sciences, 2017, 18(6): 1180. doi: 10.3390/ijms18061180
|
[24] |
LAM H M, XU X, LIU X, et al. Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection [J]. Nature Genetics, 2010, 42: 1053−1059. doi: 10.1038/ng.715
|
[25] |
SCHMUTZ J, CANNON S B, SCHLUETER J, et al. Genome sequence of the palaeopolyploid soybean [J]. Nature, 2010, 463: 178−183. doi: 10.1038/nature08670
|
[26] |
郭茜茜. 大豆子粒蛋白质积累与碳代谢关系的研究[D]. 哈尔滨: 东北农业大学, 2010:16-41.
GUO Q Q. Study on the relationship between protein accumulation and carbon metabolism in soybean seeds[D]. Harbin: Northeast Agricultural University, 2010:16-41. (in Chinese)
|
[27] |
PATIL G, VUONG T D, KALE S, et al. Dissecting genomic hotspots underlying seed protein, oil, and sucrose content in an interspecific mapping population of soybean using high-density linkage mapping [J]. Plant Biotechnology Journal, 2018, 16(11): 1939−1953. doi: 10.1111/pbi.12929
|
[28] |
王嘉, 曾召琼, 梁建秋, 等. 基于全基因组重测序的大豆分子标记开发及籽粒蛋白质含量QTL定位 [J]. 中国农业科学, 2019, 52(16):2743−2757. doi: 10.3864/j.issn.0578-1752.2019.16.001
WANG J, ZENG Z Q, LIANG J Q, et al. Development new molecular markers for quantitative trait locus (QTL) analysis of the seed protein content based on whole genome re-sequencing in soybean [J]. Scientia Agricultura Sinica, 2019, 52(16): 2743−2757. (in Chinese) doi: 10.3864/j.issn.0578-1752.2019.16.001
|
[29] |
FLIEGE C E, WARD R A, VOGEL P, et al. Fine mapping and cloning of the major seed protein quantitative trait loci on soybean chromosome 20 [J]. The Plant Journal: for Cell and Molecular Biology, 2022, 110(1): 114−128. doi: 10.1111/tpj.15658
|
[30] |
MA Q J, SUN M H, LU J, et al. Transcription factor AREB2 is involved in soluble sugar accumulation by activating sugar transporter and amylase genes [J]. Plant Physiology, 2017, 174(4): 2348−2362. doi: 10.1104/pp.17.00502
|
[31] |
张计育, 王刚, 王涛, 等. SWEET蛋白在植物生长发育中的功能作用研究进展[J]. 植物资源与环境学报, 2023, 32(5): 1-15.
ZHANG J Y, WANG G, WANG T, et al. Research progress on functional roles of SWEET proteins in plant growth and development[J]. Journal of Plant Resources and Environment, 2023, 32(5): 1-15. (in Chinese) Development[J]. Journal of Plant Resources and Environment, 2023, 32(5): 1-15. (in Chinese)
|
[32] |
CHEN L Q, QU X Q, HOU B H, et al. Sucrose efflux mediated by SWEET proteins as a key step for phloem transport [J]. Science, 2012, 335(6065): 207−211. doi: 10.1126/science.1213351
|
[33] |
TAKAHASHI F, SATO-NARA K, KOBAYASHI K, et al. Sugar-induced adventitious roots in Arabidopsis seedlings [J]. Journal of Plant Research, 2003, 116(2): 83−91. doi: 10.1007/s10265-002-0074-2
|
[34] |
WANG S D, YOKOSHO K, GUO R Z, et al. The soybean sugar transporter GmSWEET15 mediates sucrose export from endosperm to early embryo [J]. Plant Physiology, 2019, 180(4): 2133−2141. doi: 10.1104/pp.19.00641
|
[35] |
柯博洋, 李文龙, 张彩英. 大豆SWEET基因在荚粒发育过程中与逆境胁迫下的表达 [J]. 中国农业科技导报, 2023, 25(8):33−52.
KE B Y, LI W L, ZHANG C Y. Expressions of SWEET genes during pod and seed developments and under different stress conditions in soybean [J]. Journal of Agricultural Science and Technology, 2023, 25(8): 33−52. (in Chinese)
|
[36] |
PATIL G, VALLIYODAN B, DESHMUKH R, et al. Soybean (Glycine max) SWEET gene family: Insights through comparative genomics, transcriptome profiling and whole genome re-sequence analysis [J]. BMC Genomics, 2015, 16(1): 520. doi: 10.1186/s12864-015-1730-y
|
[37] |
RANOCHA P, DENANCÉ N, VANHOLME R, et al. Walls are thin 1 (WAT1), an Arabidopsis homolog of Medicago truncatula NODULIN21, is a tonoplast-localized protein required for secondary wall formation in fibers [J]. The Plant Journal: for Cell and Molecular Biology, 2010, 63(3): 469−483. doi: 10.1111/j.1365-313X.2010.04256.x
|
[38] |
PAL L, SANDHU S K, BHATIA D, et al. Genome-wide association study for candidate genes controlling seed yield and its components in rapeseed (Brassica napus subsp. napus) [J]. Physiology and Molecular Biology of Plants, 2021, 27(9): 1933−1951. doi: 10.1007/s12298-021-01060-9
|
[39] |
LIU C, ZENG L B, ZHU S Y, et al. Draft genome analysis provides insights into the fiber yield, crude protein biosynthesis, and vegetative growth of domesticated ramie (Boehmeria nivea L. Gaud) [J]. DNA Research: an International Journal for Rapid Publication of Reports on Genes and Genomes, 2018, 25(2): 173−181. doi: 10.1093/dnares/dsx047
|
[40] |
刘顺湖, 周瑞宝, 盖钧镒. 大豆蛋白质有关性状遗传的分离分析 [J]. 作物学报, 2009, 35(11):1958−1966. doi: 10.3724/SP.J.1006.2009.01958
LIU S H, ZHOU R B, GAI J Y. Segregation analysis for inheritance of protein related traits in soybean[Glycine max (L. ) merr. [J]. Acta Agronomica Sinica, 2009, 35(11): 1958−1966. (in Chinese) doi: 10.3724/SP.J.1006.2009.01958
|