Search our database by keyword

- or -

Examples

  • Search this entire website. Enter identifiers, names or keywords for genes, pathways, authors, ontology terms, etc. (e.g. eve, embryo, zen, allele)
  • Use OR to search for either of two terms (e.g. fly OR drosophila) or quotation marks to search for phrases (e.g. "dna binding").
  • Boolean search syntax is supported: e.g. dros* for partial matches or fly AND NOT embryo to exclude a term

Search results 1 to 82 out of 82 for seed

Category restricted to DataSet (x)

0.013s

Categories

Category: DataSet
« show all
Type Details Score
Data Set
mixed.gwas.Yan_Hofmann_2017
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Yan_Hofmann_2017/
Description: We selected 166 accessions from the USDA Soybean Germplasm Collection with either large or small seed weight and could typically grow in the same location. The accessions were evaluated for seed weight in the field for two years and genotyped with the SoySNP50K BeadChip containing >42,000 SNPs. Of the 17 SNPs on six chromosomes that were significantly associated with seed weight in two years based on a GWAS of the selective population, eight on chromosome 4 or chromosome 17 had significant Fst values between the large and small seed weight sub-populations. The seed weight difference of the two alleles of these eight significant SNPs varied from 8.1 g to 11.7 g/100 seeds in two years. We also identified haplotypes in three haplotype blocks with significant effects on seed weight. These findings were validated in a panel with 3753 accessions from the USDA Soybean Germplasm Collection.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Li_Zhao_2019
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Li_Zhao_2019/
Description: A GWAS study of seed protein and oil content using a population of 185 soybean (Glycine max) accessions from China and across the northern hemisphere. Specific length amplified fragment sequencing (SLAF-seq) tecyyhnology detected 12,072 SNPs across 20 chromosomes showing a marker density of 78.7 kbp. Thirty-one SNPs, and their 31 beneficial alleles, placed on 12 of the chromosomes represented QTLs associateyd with protein and oil. In both 2015 and 2016, the SNPs rs15774585 and rs15783346 (Chr 7) were correlated with seed oil, and the SNPs rs53140888 (Chr 01), rs19485676 (Chr 13), and rs24787338 (Chr 20) with seed protein.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Wm82.gnm2.mrk.NJAU355K
URL: https://data.legumeinfo.org/Glycine/max/markers/Wm82.gnm2.mrk.NJAU355K/
Description: Domestication of soybeans occurred under the intense human-directed selections aimed at developing high-yielding lines. Tracing the domestication history and identifying the genes underlying soybean domestication require further exploration. Here, we developed a high-throughput NJAU 355K SoySNP array and used this array to study the genetic variation patterns in 367 soybean accessions, including 105 wild soybeans and 262 cultivated soybeans. The population genetic analysis suggests that cultivated soybeans have tended to originate from northern and central China, from where they spread to other regions, accompanied with a gradual increase in seed weight. Genome-wide scanning for evidence of artificial selection revealed signs of selective sweeps involving genes controlling domestication-related agronomic traits including seed weight. To further identify genomic regions related to seed weight, a genome-wide association study (GWAS) was conducted across multiple environments in wild and cultivated soybeans. As a result, a strong linkage disequilibrium region on chromosome 20 was found to be significantly correlated with seed weight in cultivated soybeans. Collectively, these findings should provide an important basis for genomic-enabled breeding and advance the study of functional genomics in soybean.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Wm82.gnm2.mrk.Li_Zhao_2019
URL: https://data.legumeinfo.org/Glycine/max/markers/Wm82.gnm2.mrk.Li_Zhao_2019/
Description: Soybean is globally cultivated primarily for its protein and oil. The protein and oil contents of the seeds are quantitatively inherited traits determined by the interaction of numerous genes. In order to gain a better understanding of the molecular foundation of soybean protein and oil content for the marker-assisted selection (MAS) of high quality traits, a population of 185 soybean germplasms was evaluated to identify the quantitative trait loci (QTLs) associated with the seed protein and oil contents. Using specific length amplified fragment sequencing (SLAF-seq) technology, a total of 12,072 single nucleotide polymorphisms (SNPs) with a minor allele frequency (MAF) ≥ 0.05 were detected across the 20 chromosomes (Chr), with a marker density of 78.7 kbp. A total of 31 SNPs located on 12 of the 20 soybean chromosomes were correlated with seed protein and oil content. Of the 31 SNPs that were associated with the two target traits, 31 beneficial alleles were identified. Two SNP markers, namely rs15774585 and rs15783346 on Chr 07, were determined to be related to seed oil content both in 2015 and 2016. Three SNP markers, rs53140888 on Chr 01, rs19485676 on Chr 13, and rs24787338 on Chr 20 were correlated with seed protein content both in 2015 and 2016. These beneficial alleles may potentially contribute towards the MAS of favorable soybean protein and oil characteristics.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Young_x_PI416937.qtl.Fasoula_Harris_2004
URL: https://data.legumeinfo.org/Glycine/max/qtl/Young_x_PI416937.qtl.Fasoula_Harris_2004/
Description: Further information provided in 10.2135/cropsci2004.1218
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Cao_Li_2017
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Cao_Li_2017/
Description: We used both a linkage and association mapping methodology to dissect the genetic basis of seed oil content of Chinese soybean cultivars in various environments in the Jiang-Huai River Valley. One recombinant inbred line (RIL) population (NJMN-RIL), with 104 lines developed from a cross between M8108 and NN1138-2, was planted in five environments to investigate phenotypic data, and a new genetic map with 2,062 specific-locus amplified fragment markers was constructed to map oil content QTLs. A derived F2 population between MN-5 (a line of NJMN-RIL) and NN1138-2 was also developed to confirm one major QTL. A soybean breeding germplasm population (279 lines) was established to perform a genome-wide association study (GWAS) using 59,845 high-quality single nucleotide polymorphism markers. In the NJMN-RIL population, 8 QTLs were found that explained a range of phenotypic variance from 6.3 to 26.3% in certain planting environments. Among them, qOil-5-1, qOil-10-1, and qOil-14-1 were detected in different environments, and qOil-5-1 was further confirmed using the secondary F2 population. Three loci located on chromosomes 5 and 20 were detected in a 2-year long GWAS, and one locus that overlapped with qOil-5-1 was found repeatedly and treated as the same locus. qOil-5-1 was further localized to a linkage disequilibrium block region of approximately 440 kb. These results will not only increase our understanding of the genetic control of seed oil content in soybean, but will also be helpful in marker-assisted selection for breeding high seed oil content soybean and gene cloning to elucidate the mechanisms of seed oil content.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
N87-984-16_x_TN93-99.qtl.Panthee_Pantalone_2005
URL: https://data.legumeinfo.org/Glycine/max/qtl/N87-984-16_x_TN93-99.qtl.Panthee_Pantalone_2005/
Description: Further information provided in 10.2135/cropsci2004.0720
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Zhang_Song_2016
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Zhang_Song_2016/
Description: Genome-wide association study in a population of 309 soybean germplasm accessions using 31,045 single nucleotide polymorphisms (SNPs), estimating the prediction accuracy of genomic selection (GS) and marker-assisted selection (MAS) for seed weight (SW). Twenty-two loci of minor effect associated with SW were identified, including hotspots on Gm04 and Gm19. The mixed model containing these loci explained 83.4 % of phenotypic variation.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Wang_Chu_2016
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Wang_Chu_2016/
Description: We developed a high-throughput NJAU 355K SoySNP array and used this array to study the genetic variation patterns in 367 soybean accessions, including 105 wild soybeans and 262 cultivated soybeans. The population genetic analysis suggests that cultivated soybeans have tended to originate from northern and central China, from where they spread to other regions, accompanied with a gradual increase in seed weight.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI507531_x_Spencer.qtl.Brzostowski_Pruski_2017
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI507531_x_Spencer.qtl.Brzostowski_Pruski_2017/
Description: Further information provided in 10.1007/s00122-017-2961-x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
N87-984-16_x_TN93-99.qtl.Panthee_Pantalone_2004
URL: https://data.legumeinfo.org/Glycine/max/qtl/N87-984-16_x_TN93-99.qtl.Panthee_Pantalone_2004/
Description: Further information provided in 10.1007/s11746-004-0860-4
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.qtl.Pathan_Vuong_2013
URL: https://data.legumeinfo.org/Glycine/max/qtl/mixed.qtl.Pathan_Vuong_2013/
Description: Further information provided in 10.2135/cropsci2012.03.0153
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
A96-492058_x_A97-775026.qtl.Hoeck_2002
URL: https://data.legumeinfo.org/Glycine/max/qtl/A96-492058_x_A97-775026.qtl.Hoeck_2002/
Description: Further information provided in 10.31274/rtd-180813-9889
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Birsasoya-1_x_JS71-05.qtl.Singh_Raipuria_2008
URL: https://data.legumeinfo.org/Glycine/max/qtl/Birsasoya-1_x_JS71-05.qtl.Singh_Raipuria_2008/
Description: Further information provided in 10.15258/sst.2008.36.1.17
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Essex_x_Williams.qtl.Hyten_Pantalone_2004b
URL: https://data.legumeinfo.org/Glycine/max/qtl/Essex_x_Williams.qtl.Hyten_Pantalone_2004b/
Description: Further information provided in 10.1007/s00122-004-1661-5
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Nasushirome_x_Enrei.qtl.Oyoo_Benitez_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/Nasushirome_x_Enrei.qtl.Oyoo_Benitez_2010/
Description: Further information provided in 10.2135/cropsci2009.08.0440
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI68658_x_Lawrence.qtl.Fox_Cary_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI68658_x_Lawrence.qtl.Fox_Cary_2015/
Description: Further information provided in 10.2135/cropsci2014.10.0688
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACWallace_x_OACGlencoe.qtl.Eskandari_Cober_2013b
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACWallace_x_OACGlencoe.qtl.Eskandari_Cober_2013b/
Description: Further information provided in 10.1007/s00122-013-2083-z
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
A81356022_x_PI468916.qtl.Diers_Keim_1992
URL: https://data.legumeinfo.org/Glycine/max/qtl/A81356022_x_PI468916.qtl.Diers_Keim_1992/
Description: Further information provided in 10.1007/bf00226905
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Harosoy_x_Fukuyutaka.qtl.Benitez_Hajika_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/Harosoy_x_Fukuyutaka.qtl.Benitez_Hajika_2010/
Description: Further information provided in 10.2135/cropsci2009.11.0664
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Minsoy_x_Noir1.qtl.Tischner_Allphin_2003
URL: https://data.legumeinfo.org/Glycine/max/qtl/Minsoy_x_Noir1.qtl.Tischner_Allphin_2003/
Description: Further information provided in 10.2135/cropsci2003.0464
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
SS-516_x_Camp.qtl.Zhang_Chen_2008
URL: https://data.legumeinfo.org/Glycine/max/qtl/SS-516_x_Camp.qtl.Zhang_Chen_2008/
Description: Further information provided in 10.2135/cropsci2007.10.0544
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Uzuramame_x_L67-3469.qtl.Oyoo_Githiri_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/Uzuramame_x_L67-3469.qtl.Oyoo_Githiri_2010/
Description: Further information provided in 10.1270/jsbbs.60.28
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACWallace_x_OACGlencoe.qtl.Eskandari_Cober_2013a
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACWallace_x_OACGlencoe.qtl.Eskandari_Cober_2013a/
Description: Further information provided in 10.1007/s00122-012-1995-3
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Essex_x_Forrest.qtl.Kassem_Meksem_2004a
URL: https://data.legumeinfo.org/Glycine/max/qtl/Essex_x_Forrest.qtl.Kassem_Meksem_2004a/
Description: Further information provided in 10.1155/s1110724304304018
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI97100_x_Coker237.qtl.Mian_Bailey_1996
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI97100_x_Coker237.qtl.Mian_Bailey_1996/
Description: Further information provided in 10.1007/bf00230118
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
X3145-B-B-3-15_x_ACBrant.qtl.Pandurangan_Pajak_2012
URL: https://data.legumeinfo.org/Glycine/max/qtl/X3145-B-B-3-15_x_ACBrant.qtl.Pandurangan_Pajak_2012/
Description: Further information provided in 10.1093/jxb/ers039
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Hefeng25_x_Conrad.qtl.Han_Li_2012
URL: https://data.legumeinfo.org/Glycine/max/qtl/Hefeng25_x_Conrad.qtl.Han_Li_2012/
Description: Further information provided in 10.1007/s00122-012-1859-x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
JP036034_x_Ryuhou.qtl.Wang_Chen_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/JP036034_x_Ryuhou.qtl.Wang_Chen_2015/
Description: Further information provided in 10.2135/cropsci2014.04.0280
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Kitakomachi_x_Koganejiro.qtl.Githiri_Yang_2007
URL: https://data.legumeinfo.org/Glycine/max/qtl/Kitakomachi_x_Koganejiro.qtl.Githiri_Yang_2007/
Description: Further information provided in 10.1093/jhered/esm042
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
MFS-553_x_PI243545.qtl.Zeng_Chen_2014
URL: https://data.legumeinfo.org/Glycine/max/qtl/MFS-553_x_PI243545.qtl.Zeng_Chen_2014/
Description: Further information provided in 10.2135/cropsci2013.01.0036
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Minsoy_x_Archer.qtl.Stombaugh_Orf_2004
URL: https://data.legumeinfo.org/Glycine/max/qtl/Minsoy_x_Archer.qtl.Stombaugh_Orf_2004/
Description: Further information provided in 10.2135/cropsci2004.2101
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
SS-516_x_Camp.qtl.Zhang_Chen_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/SS-516_x_Camp.qtl.Zhang_Chen_2009/
Description: Further information provided in 10.1093/jhered/esn096
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
0518BW-8_x_0734BW-1.qtl.Oyoo_Benitez_2011
URL: https://data.legumeinfo.org/Glycine/max/qtl/0518BW-8_x_0734BW-1.qtl.Oyoo_Benitez_2011/
Description: Further information provided in 10.2135/cropsci2010.02.0121
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
BenningPI595645_x_DanbaekkongPI619083.qtl.Warrington_Abdel-Haleem_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/BenningPI595645_x_DanbaekkongPI619083.qtl.Warrington_Abdel-Haleem_2015/
Description: Further information provided in 10.1007/s00122-015-2474-4
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
KS4303sp_x_PI407818B.qtl.Orazaly_Chen_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/KS4303sp_x_PI407818B.qtl.Orazaly_Chen_2015/
Description: Further information provided in 10.2135/cropsci2014.03.0219
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
M82806_x_HHP.qtl.Brummer_Graef_1997
URL: https://data.legumeinfo.org/Glycine/max/qtl/M82806_x_HHP.qtl.Brummer_Graef_1997/
Description: Further information provided in 10.2135/cropsci1997.0011183x003700020011x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
MaBelle_x_Proto.qtl.Csanádi_Vollmann_2001
URL: https://data.legumeinfo.org/Glycine/max/qtl/MaBelle_x_Proto.qtl.Csanádi_Vollmann_2001/
Description: Further information provided in 10.1007/s001220100621
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
AGSBoggs-RR_x_CX1834-1-2.qtl.Walker_Scaboo_2006
URL: https://data.legumeinfo.org/Glycine/max/qtl/AGSBoggs-RR_x_CX1834-1-2.qtl.Walker_Scaboo_2006/
Description: Further information provided in 10.2135/cropsci2005.0245
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.qtl.Ramamurthy_Jedlicka_2014
URL: https://data.legumeinfo.org/Glycine/max/qtl/mixed.qtl.Ramamurthy_Jedlicka_2014/
Description: Further information provided in 10.1007/s11032-014-0045-z
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACBayfield_x_Hefeng25.qtl.Li_Liu_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACBayfield_x_Hefeng25.qtl.Li_Liu_2010/
Description: Further information provided in 10.1007/s00122-010-1264-2
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Charleston_x_DongNong594.qtl.Teng_Han_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/Charleston_x_DongNong594.qtl.Teng_Han_2009/
Description: Further information provided in 10.1038/hdy.2008.108
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
FiskebyIII_x_Mandarin.qtl.Hacisalihoglu_Burton_2018
URL: https://data.legumeinfo.org/Glycine/max/qtl/FiskebyIII_x_Mandarin.qtl.Hacisalihoglu_Burton_2018/
Description: Further information provided in 10.1111/jipb.12612
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Keunolkong_x_Sinpaldalkong.qtl.Ha_Kim_2012
URL: https://data.legumeinfo.org/Glycine/max/qtl/Keunolkong_x_Sinpaldalkong.qtl.Ha_Kim_2012/
Description: Further information provided in 10.1007/s10681-012-0719-8
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.qtl.Jun_Van_2008
URL: https://data.legumeinfo.org/Glycine/max/qtl/mixed.qtl.Jun_Van_2008/
Description: Further information provided in 10.1007/s10681-007-9491-6
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACBayfield_x_OACShire.qtl.Shaw_Rajcan_2017
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACBayfield_x_OACShire.qtl.Shaw_Rajcan_2017/
Description: Further information provided in 10.1111/pbr.12437
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI417479_x_Williams82.qtl.Berger_Minor_1999
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI417479_x_Williams82.qtl.Berger_Minor_1999/
Description: Further information provided in 10.2135/cropsci1999.0011183x003900030031x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
RG10_x_OX948.qtl.Reinprecht_Poysa_2006
URL: https://data.legumeinfo.org/Glycine/max/qtl/RG10_x_OX948.qtl.Reinprecht_Poysa_2006/
Description: Further information provided in 10.1139/g06-112
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Young_x_PI416937.qtl.Lee_Bailey_1996a
URL: https://data.legumeinfo.org/Glycine/max/qtl/Young_x_PI416937.qtl.Lee_Bailey_1996a/
Description: Further information provided in 10.1007/bf00224058
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Peking_x_Essex.qtl.Qiu_Arelli_1999
URL: https://data.legumeinfo.org/Glycine/max/qtl/Peking_x_Essex.qtl.Qiu_Arelli_1999/
Description: Further information provided in 10.1007/s001220051080
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Essex_x_PI437654.qtl.Gutierrez-Gonzalez_Wu_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/Essex_x_PI437654.qtl.Gutierrez-Gonzalez_Wu_2009/
Description: Further information provided in 10.1007/s00122-009-1109-z
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Pioneer9071_x_Line8902.qtl.Palomeque_Liu_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/Pioneer9071_x_Line8902.qtl.Palomeque_Liu_2010/
Description: Further information provided in 10.1007/s00122-009-1227-7
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Wm82.gnm2.mrk.Meng_He_2016
URL: https://data.legumeinfo.org/Glycine/max/markers/Wm82.gnm2.mrk.Meng_He_2016/
Description: The RAD-seq (restriction-site-association DNA sequencing) was used in the present study. The genomic DNA samples were extracted from the leaves of soybean seedlings using the CTAB method (Murray and Thompson 1980). The sequences of the 366 CSLRP accessions were obtained using Illumina HiSeq2000 instrument through the multiplexed shotgun genotyping method (Andolfatto et al. 2011) with DNA fragments between 400 and 600 bp, generating a total of 1144.56 million paired-end reads of 90 bp (including 6-bp index) in length (110.87 Gb of sequence) × approximately 3.86 in depth and 4.57 % coverage. All sequence reads were aligned against the reference genome Glyma.Wm82.a1.v1.1 (Schmutz et al. 2010) using the SOAP2 software (Li et al. 2009), with parameters that included sequence similarity, pair-end relationships and sequence quality. The RealSFS software (Yi et al. 2010) was used for population SNP calling, based on the Bayesian estimation of site frequency at every site. The SNPs of the 366 accessions were polymorphic with a rate of missing and heterozygous allele calls ≤30 % and minor allele frequency (MAF) ≥0.01 (the third or more alleles were replaced no more than once with the missing alleles, when available). The fastPHASE software (Scheet and Stephens 2006) was used for genotyping SNP imputation after heterozygous alleles were turned into missing alleles.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Wm82.gnm2.mrk.Sonah_ODonoughue_2015
URL: https://data.legumeinfo.org/Glycine/max/markers/Wm82.gnm2.mrk.Sonah_ODonoughue_2015/
Description: Soya bean is a major source of edible oil and protein for human consumption as well as animal feed. Understanding the genetic basis of different traits in soya bean will provide important insights for improving breeding strategies for this crop. A genome-wide association study (GWAS) was conducted to accelerate molecular breeding for the improvement of agronomic traits in soya bean. A genotyping-by-sequencing (GBS) approach was used to provide dense genome-wide marker coverage (>47 000 SNPs) for a panel of 304 short-season soya bean lines. A subset of 139 lines, representative of the diversity among these, was characterized phenotypically for eight traits under six environments (3 sites × 2 years). Marker coverage proved sufficient to ensure highly significant associations between the genes known to control simple traits (flower, hilum and pubescence colour) and flanking SNPs. Between one and eight genomic loci associated with more complex traits (maturity, plant height, seed weight, seed oil and protein) were also identified. Importantly, most of these GWAS loci were located within genomic regions identified by previously reported quantitative trait locus (QTL) for these traits. In some cases, the reported QTLs were also successfully validated by additional QTL mapping in a biparental population. This study demonstrates that integrating GBS and GWAS can be used as a powerful complementary approach to classical biparental mapping for dissecting complex traits in soya bean.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Sonah_ODonoughue_2015
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Sonah_ODonoughue_2015/
Description: Soya bean is a major source of edible oil and protein for human consumption as well as animal feed. Understanding the genetic basis of different traits in soya bean will provide important insights for improving breeding strategies for this crop. A genome-wide association study (GWAS) was conducted to accelerate molecular breeding for the improvement of agronomic traits in soya bean. A genotyping-by-sequencing (GBS) approach was used to provide dense genome-wide marker coverage (>47 000 SNPs) for a panel of 304 short-season soya bean lines. A subset of 139 lines, representative of the diversity among these, was characterized phenotypically for eight traits under six environments (3 sites × 2 years). Marker coverage proved sufficient to ensure highly significant associations between the genes known to control simple traits (flower, hilum and pubescence colour) and flanking SNPs. Between one and eight genomic loci associated with more complex traits (maturity, plant height, seed weight, seed oil and protein) were also identified. Importantly, most of these GWAS loci were located within genomic regions identified by previously reported quantitative trait locus (QTL) for these traits. In some cases, the reported QTLs were also successfully validated by additional QTL mapping in a biparental population. This study demonstrates that integrating GBS and GWAS can be used as a powerful complementary approach to classical biparental mapping for dissecting complex traits in soya bean.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
CX1834-1-2_x_5601T.qtl.Scaboo_Pantalone_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/CX1834-1-2_x_5601T.qtl.Scaboo_Pantalone_2009/
Description: Further information provided in 10.2135/cropsci2007.11.0614
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
N97-3363-3_x_PI423893.qtl.Bachlava_Dewey_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/N97-3363-3_x_PI423893.qtl.Bachlava_Dewey_2009/
Description: Further information provided in 10.2135/cropsci2008.06.0324
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Ohsuzu_x_PI595926.qtl.Kato_Sayama_2014
URL: https://data.legumeinfo.org/Glycine/max/qtl/Ohsuzu_x_PI595926.qtl.Kato_Sayama_2014/
Description: Further information provided in 10.1007/s00122-014-2304-0
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Parker_x_Gsoja.qtl.Sebolt_Shoemaker_2000
URL: https://data.legumeinfo.org/Glycine/max/qtl/Parker_x_Gsoja.qtl.Sebolt_Shoemaker_2000/
Description: Further information provided in 10.2135/cropsci2000.4051438x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
SD02-4-59_x_A02-381100.qtl.Wang_Jiang_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/SD02-4-59_x_A02-381100.qtl.Wang_Jiang_2015/
Description: Further information provided in 10.1007/s10681-014-1223-0
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Taekwangkong_x_SS2-2.qtl.Sun_Kim_2013a
URL: https://data.legumeinfo.org/Glycine/max/qtl/Taekwangkong_x_SS2-2.qtl.Sun_Kim_2013a/
Description: Further information provided in 10.1007/s00122-013-2115-8
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Taekwangkong_x_SS2-2.qtl.Sun_Kim_2013b
URL: https://data.legumeinfo.org/Glycine/max/qtl/Taekwangkong_x_SS2-2.qtl.Sun_Kim_2013b/
Description: Further information provided in 10.1007/s00122-013-2115-8
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Zhongdou27_x_Jiunong20.qtl.Han_Teng_2015
URL: https://data.legumeinfo.org/Glycine/max/qtl/Zhongdou27_x_Jiunong20.qtl.Han_Teng_2015/
Description: Further information provided in 10.1111/pbr.12259
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Kefeng1_x_Nannon1138-2.qtl.Du_Wang_2009
URL: https://data.legumeinfo.org/Glycine/max/qtl/Kefeng1_x_Nannon1138-2.qtl.Du_Wang_2009/
Description: Further information provided in 10.1016/s1673-8527(08)60165-4
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI27890_x_PI290136.qtl.Mansur_Lark_1993
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI27890_x_PI290136.qtl.Mansur_Lark_1993/
Description: Further information provided in 10.1007/BF00211040
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
DongNong46_x_KenJian23.qtl.Mao_Jiang_2013
URL: https://data.legumeinfo.org/Glycine/max/qtl/DongNong46_x_KenJian23.qtl.Mao_Jiang_2013/
Description: Further information provided in 10.1111/pbr.12091
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Hefeng25_x_OACBayfield.qtl.Li_Wang_2016
URL: https://data.legumeinfo.org/Glycine/max/qtl/Hefeng25_x_OACBayfield.qtl.Li_Wang_2016/
Description: Further information provided in 10.1111/pbr.12346
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Noir1_x_Minsoy.qtl.Salas_Oyarzo-Llaipen_2006
URL: https://data.legumeinfo.org/Glycine/max/qtl/Noir1_x_Minsoy.qtl.Salas_Oyarzo-Llaipen_2006/
Description: Further information provided in 10.1007/s00122-006-0392-1
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Keunolkong_x_Iksan10.qtl.Kim_Kim_2010
URL: https://data.legumeinfo.org/Glycine/max/qtl/Keunolkong_x_Iksan10.qtl.Kim_Kim_2010/
Description: Further information provided in 10.5352/jls.2010.20.8.1186
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
M91-212006_x_SZG9652.qtl.Vollmann_Schausberger_2002
URL: https://data.legumeinfo.org/Glycine/max/qtl/M91-212006_x_SZG9652.qtl.Vollmann_Schausberger_2002/
Description: Further information provided in 10.1046/j.1439-0523.2002.00707.x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
PI468916_x_A81-356022.qtl.Nichols_Glover_2006
URL: https://data.legumeinfo.org/Glycine/max/qtl/PI468916_x_A81-356022.qtl.Nichols_Glover_2006/
Description: Further information provided in 10.2135/cropsci2005.05-0168
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Bandillo_Jarquin_2015
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Bandillo_Jarquin_2015/
Description: In this research, we conducted the first comprehensive analysis of population structure on the collection of 14,000 soybean accessions [Glycine max (L.) Merr. and G. soja Siebold & Zucc.] using a 50KSNP chip. Accessions originating from Japan were relatively homogenous and distinct from the Korean accessions. As a whole, both Japanese and Korean accessions diverged from the Chinese accessions. The ancestry of founders of the American accessions derived mostly from two Chinese subpopulations, which reflects the composition of the American accessions as a whole. A 12,000 accession GWAS conducted on seed protein and oil is the largest reported to date in plants and identified single nucleotide polymorphisms (SNPs) with strong signals on chromosomes 20 and 15. A chromosome 20 region previously reported to be important for protein and oil content was further narrowed and now contains only three plausible candidate genes. The haplotype effects show a strong negative relationship between oil and protein at this locus, indicating negative pleiotropic effects or multiple closely linked loci in repulsion phase linkage. The vast majority of accessions carry the haplotype allele conferring lower protein and higher oil.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Kenjian4_x_Fengshou24.qtl.Hu_Zhang_2013
URL: https://data.legumeinfo.org/Glycine/max/qtl/Kenjian4_x_Fengshou24.qtl.Hu_Zhang_2013/
Description: Further information provided in 10.1007/s10709-013-9723-8
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Toyoharuka_x_Toyomusume.qtl.Ohnishi_Funatsuki_2011
URL: https://data.legumeinfo.org/Glycine/max/qtl/Toyoharuka_x_Toyomusume.qtl.Ohnishi_Funatsuki_2011/
Description: Further information provided in 10.1007/s00122-010-1475-6
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
SD02-4-59_x_A02-381100.qtl.Wang_Jiang_2014
URL: https://data.legumeinfo.org/Glycine/max/qtl/SD02-4-59_x_A02-381100.qtl.Wang_Jiang_2014/
Description: Further information provided in 10.1007/s00438-014-0865-x
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Charleston_x_DongNong594.qtl.Yang_Xin_2013
URL: https://data.legumeinfo.org/Glycine/max/qtl/Charleston_x_DongNong594.qtl.Yang_Xin_2013/
Description: Further information provided in 10.1007/s00438-013-0779-z
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
DongNong1068_x_DongNong8004.qtl.Zhao_Wang_2008
URL: https://data.legumeinfo.org/Glycine/max/qtl/DongNong1068_x_DongNong8004.qtl.Zhao_Wang_2008/
Description: Further information provided in 10.1007/s10681-008-9728-z
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACMillennium_x_Heinong38.qtl.Palomeque_Li-Jun_2009a
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACMillennium_x_Heinong38.qtl.Palomeque_Li-Jun_2009a/
Description: Further information provided in 10.1007/s00122-009-1049-7
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Charleston_x_Dongnong594.qtl.Qi_Hou_2014
URL: https://data.legumeinfo.org/Glycine/max/qtl/Charleston_x_Dongnong594.qtl.Qi_Hou_2014/
Description: Further information provided in 10.1111/pbr.12179
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
Williams82_x_PI366121.qtl.Dhungana_Kulkarni_2017
URL: https://data.legumeinfo.org/Glycine/max/qtl/Williams82_x_PI366121.qtl.Dhungana_Kulkarni_2017/
Description: Further information provided in 10.1111/pbr.12480
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
OACMillennium_x_Heinong38.qtl.Palomeque_Li-Jun_2009b
URL: https://data.legumeinfo.org/Glycine/max/qtl/OACMillennium_x_Heinong38.qtl.Palomeque_Li-Jun_2009b/
Description: Further information provided in 10.1007/s00122-009-1048-8
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
Data Set
mixed.gwas.Meng_He_2016
URL: https://data.legumeinfo.org/Glycine/max/gwas/mixed.gwas.Meng_He_2016/
Description: The seed isoflavone content (SIFC) of soybeans is of great importance to health care. The Chinese soybean landrace population (CSLRP) as a genetic reservoir was studied for its whole-genome quantitative trait loci (QTL) system of the SIFC using an innovative restricted twostage multi-locus genome-wide association study procedure (RTM-GWAS). A sample of 366 landraces was tested under four environments and sequenced using RAD-seq (restriction-site-associated DNA sequencing) technique to obtain 116,769 single nucleotide polymorphisms (SNPs) then organized into 29,119 SNP linkage disequilibrium blocks (SNPLDBs) for GWAS. The detected 44 QTL 199 alleles on 16 chromosomes (explaining 72.2 % of the total phenotypic variation) with the allele effects (92 positive and 107 negative) of the CSLRP were organized into a QTL-allele matrix showing the SIFC population genetic structure. Additional differentiation among eco-regions due to the SIFC in addition to that of genome-wide markers was found. All accessions comprised both positive and negative alleles, implying a great potential for recombination within the population. The optimal crosses were predicted from the matrices, showing transgressive potentials in the CSLRP. From the detected QTL system, 55 candidate genes related to 11 biological processes were χ2 -tested as an SIFC candidate gene system. The present study explored the genome-wide SIFC QTL/gene system with the innovative RTM-GWAS and found the potentials of the QTLallele matrix in optimal cross design and population genetic and genomic studies, which may have provided a solution to match the breeding by design strategy at both QTL and gene levels in breeding programs.
Licence: ODC Public Domain Dedication and Licence (PDDL)
DataSource: LIS Datastore
•
•
•
•
•
USDA
InterMine logo
The Legume Information System (LIS) is a research project of the USDA-ARS:Corn Insects and Crop Genetics Research in Ames, IA.
LegumeMine || ArachisMine | CicerMine | GlycineMine | LensMine | LupinusMine | PhaseolusMine | VignaMine | MedicagoMine
InterMine © 2002 - 2022 Department of Genetics, University of Cambridge, Downing Street, Cambridge CB2 3EH, United Kingdom