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Background: Mineral nutrients play a crucial role in the biochemical and physiological functions of biological systems. The enhancement of seed mineral content via genetic improvement is considered as the most promising and cost-effective approach compared alternative means for meeting the dietary needs. The overall objective of this study was to perform a GWAS of mineral content (Ca, K, P and S) in seeds of a core set of 137 soybean lines that are representative of the diversity of early maturing soybeans cultivated in Canada (maturity groups 000-II).
Results: This panel of 137 soybean lines was grown in five environments (in total) and the seed mineral content was measured using a portable x-ray fluorescence (XRF) spectrometer. The association analyses were carried out using three statistical models and a set of 2.2 million SNPs obtained from a combined dataset of genotyping-by-sequencing and whole-genome sequencing. Eight QTLs significantly associated with the Ca, K, P and S content were identified by at least two of the three statistical models used (in two environments) contributing each from 17 to 31% of the phenotypic variation. A strong reproducibility of the effect of seven out these eight QTLs was observed in three other environments. In total, three candidate genes were identified involved in transport and assimilation of these mineral elements.
Conclusions: There have been very few GWAS studies to identify QTLs associated with the mineral element content of soybean seeds. In addition to being new, the QTLs identified in this study and candidate genes will be useful for the genetic improvement of soybean nutritional quality through marker-assisted selection. Moreover, this study also provides details on the range of phenotypic variation encountered within the Canadian soybean germplasm.
Keywords
Soybean, minerals, XRF, GWAS, QTL
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CURRENT STATUS: Published
View the published article at BMC Plant Biology.
Version 2
Posted 05 Aug, 2020
No community comments so far
Editorial decision: Accept
On 28 Aug, 2020
Review #2 received
Received 24 Aug, 2020
Review #1 received
Received 21 Aug, 2020
Reviewer #2 agreed
On 09 Aug, 2020
Reviewers invited
Invitations sent on 04 Aug, 2020
Reviewer #1 agreed
On 04 Aug, 2020
Editor assigned
On 03 Aug, 2020
Editor invited
On 02 Aug, 2020
Submission checks complete
On 30 Jul, 2020
No comments provided
Review #2 received
Received 31 May, 2020
Editorial decision: Minor revision
On 31 May, 2020
Review #1 received
Received 29 May, 2020
Review #3 received
Received 28 May, 2020
Reviewer #3 agreed
On 14 May, 2020
Reviewer #4 agreed
On 14 May, 2020
Reviewer #2 agreed
On 13 May, 2020
Reviewers invited
Invitations sent on 11 May, 2020
Reviewer #1 agreed
On 11 May, 2020
Editor assigned
On 24 Apr, 2020
First submitted
On 23 Apr, 2020
Submission checks complete
On 23 Apr, 2020
Editor invited
On 23 Apr, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Plant Physiology and Morphology
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See the published version of this preprint at BMC Plant Biology.
This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research article
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Published
View the published article at BMC Plant Biology.
Version 2
Posted 05 Aug, 2020
No community comments so far
Editorial decision: Accept
On 28 Aug, 2020
Review #2 received
Received 24 Aug, 2020
Review #1 received
Received 21 Aug, 2020
Reviewer #2 agreed
On 09 Aug, 2020
Reviewers invited
Invitations sent on 04 Aug, 2020
Reviewer #1 agreed
On 04 Aug, 2020
Editor assigned
On 03 Aug, 2020
Editor invited
On 02 Aug, 2020
Submission checks complete
On 30 Jul, 2020
No comments provided
Review #2 received
Received 31 May, 2020
Editorial decision: Minor revision
On 31 May, 2020
Review #1 received
Received 29 May, 2020
Review #3 received
Received 28 May, 2020
Reviewer #3 agreed
On 14 May, 2020
Reviewer #4 agreed
On 14 May, 2020
Reviewer #2 agreed
On 13 May, 2020
Reviewers invited
Invitations sent on 11 May, 2020
Reviewer #1 agreed
On 11 May, 2020
Editor assigned
On 24 Apr, 2020
First submitted
On 23 Apr, 2020
Submission checks complete
On 23 Apr, 2020
Editor invited
On 23 Apr, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Plant Physiology and Morphology
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at BMC Plant Biology.
Background: Mineral nutrients play a crucial role in the biochemical and physiological functions of biological systems. The enhancement of seed mineral content via genetic improvement is considered as the most promising and cost-effective approach compared alternative means for meeting the dietary needs. The overall objective of this study was to perform a GWAS of mineral content (Ca, K, P and S) in seeds of a core set of 137 soybean lines that are representative of the diversity of early maturing soybeans cultivated in Canada (maturity groups 000-II).
Results: This panel of 137 soybean lines was grown in five environments (in total) and the seed mineral content was measured using a portable x-ray fluorescence (XRF) spectrometer. The association analyses were carried out using three statistical models and a set of 2.2 million SNPs obtained from a combined dataset of genotyping-by-sequencing and whole-genome sequencing. Eight QTLs significantly associated with the Ca, K, P and S content were identified by at least two of the three statistical models used (in two environments) contributing each from 17 to 31% of the phenotypic variation. A strong reproducibility of the effect of seven out these eight QTLs was observed in three other environments. In total, three candidate genes were identified involved in transport and assimilation of these mineral elements.
Conclusions: There have been very few GWAS studies to identify QTLs associated with the mineral element content of soybean seeds. In addition to being new, the QTLs identified in this study and candidate genes will be useful for the genetic improvement of soybean nutritional quality through marker-assisted selection. Moreover, this study also provides details on the range of phenotypic variation encountered within the Canadian soybean germplasm.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5
Figure 6
Figure 7
This is a list of supplementary files associated with this preprint. Click to download.
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