Genome-wide association analysis of nutritional composition-related traits and iron bioavailability in cooked dry beans (Phaseolus vulgaris L.)
Seed nutrients in legumes are important for human health, particularly in developing countries with heavy reliance on plant-based diets, and among vegetarians in developed nations. Here, we report on our efforts to uncover the genetic basis underlying the phenotypic variation for protein, zinc, calc...
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| Veröffentlicht in: | Molecular breeding 2018-04, Vol.38 (4), p.1-18, Article 44 |
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| creator | Katuuramu, Dennis N. Hart, John P. Porch, Timothy G. Grusak, Michael A. Glahn, Raymond P. Cichy, Karen A. |
| description | Seed nutrients in legumes are important for human health, particularly in developing countries with heavy reliance on plant-based diets, and among vegetarians in developed nations. Here, we report on our efforts to uncover the genetic basis underlying the phenotypic variation for protein, zinc, calcium concentrations, and iron bioavailability present in 206 accessions of dry bean (
Phaseolus vulgaris
L.) from the Andean Diversity Panel (ADP). We used 8111 single nucleotide polymorphisms (SNPs) generated with genotyping-by-sequencing (GBS) to examine the allelic variants’ associations with seed protein, zinc, and calcium concentrations, and iron bioavailability in the 206 ADP accessions grown over 2 years in Michigan. These efforts identified phenotypic variation among the ADP genotypes for each of the traits, with the highest variation (5.4-fold) found for cooked seed iron bioavailability. In addition, significant SNP-trait associations were found and explained from 6.3 to 13.2% of the phenotypic variation. These results expand the current understanding of the genetic architecture underlying these complex nutritional quality traits and iron bioavailability in dry beans. Furthermore, they have utility for future nutritional quality breeding efforts to better biofortify dry bean through genomics-assisted breeding. |
| doi_str_mv | 10.1007/s11032-018-0798-x |
| format | Article |
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Phaseolus vulgaris
L.) from the Andean Diversity Panel (ADP). We used 8111 single nucleotide polymorphisms (SNPs) generated with genotyping-by-sequencing (GBS) to examine the allelic variants’ associations with seed protein, zinc, and calcium concentrations, and iron bioavailability in the 206 ADP accessions grown over 2 years in Michigan. These efforts identified phenotypic variation among the ADP genotypes for each of the traits, with the highest variation (5.4-fold) found for cooked seed iron bioavailability. In addition, significant SNP-trait associations were found and explained from 6.3 to 13.2% of the phenotypic variation. These results expand the current understanding of the genetic architecture underlying these complex nutritional quality traits and iron bioavailability in dry beans. Furthermore, they have utility for future nutritional quality breeding efforts to better biofortify dry bean through genomics-assisted breeding.</description><identifier>ISSN: 1380-3743</identifier><identifier>EISSN: 1572-9788</identifier><identifier>DOI: 10.1007/s11032-018-0798-x</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Adenosine diphosphate ; Association analysis ; Beans ; Bioavailability ; Biomedical and Life Sciences ; Biotechnology ; Breeding ; Calcium ; Developed countries ; Developing countries ; Genomics ; Genotype & phenotype ; Genotypes ; Genotyping ; Iron ; LDCs ; Legumes ; Life Sciences ; Molecular biology ; Nucleotides ; Nutrients ; Nutritive value ; Phaseolus vulgaris ; Phenotypic variations ; Plant biology ; Plant Genetics and Genomics ; Plant Pathology ; Plant Physiology ; Plant Sciences ; Proteins ; Single-nucleotide polymorphism ; Vegetarianism ; Zinc</subject><ispartof>Molecular breeding, 2018-04, Vol.38 (4), p.1-18, Article 44</ispartof><rights>This is a U.S. government work and its text is not subject to copyright protection in the United States; however, its text may be subject to foreign copyright protection 2018</rights><rights>Copyright Springer Science & Business Media 2018</rights><rights>Molecular Breeding is a copyright of Springer, (2018). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c344t-9dfa9e5620c50871e4b0287360aad1f6d4771f5c1eb8cf8a6de02a32e7410bdc3</citedby><cites>FETCH-LOGICAL-c344t-9dfa9e5620c50871e4b0287360aad1f6d4771f5c1eb8cf8a6de02a32e7410bdc3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11032-018-0798-x$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11032-018-0798-x$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids></links><search><creatorcontrib>Katuuramu, Dennis N.</creatorcontrib><creatorcontrib>Hart, John P.</creatorcontrib><creatorcontrib>Porch, Timothy G.</creatorcontrib><creatorcontrib>Grusak, Michael A.</creatorcontrib><creatorcontrib>Glahn, Raymond P.</creatorcontrib><creatorcontrib>Cichy, Karen A.</creatorcontrib><title>Genome-wide association analysis of nutritional composition-related traits and iron bioavailability in cooked dry beans (Phaseolus vulgaris L.)</title><title>Molecular breeding</title><addtitle>Mol Breeding</addtitle><description>Seed nutrients in legumes are important for human health, particularly in developing countries with heavy reliance on plant-based diets, and among vegetarians in developed nations. Here, we report on our efforts to uncover the genetic basis underlying the phenotypic variation for protein, zinc, calcium concentrations, and iron bioavailability present in 206 accessions of dry bean (
Phaseolus vulgaris
L.) from the Andean Diversity Panel (ADP). We used 8111 single nucleotide polymorphisms (SNPs) generated with genotyping-by-sequencing (GBS) to examine the allelic variants’ associations with seed protein, zinc, and calcium concentrations, and iron bioavailability in the 206 ADP accessions grown over 2 years in Michigan. These efforts identified phenotypic variation among the ADP genotypes for each of the traits, with the highest variation (5.4-fold) found for cooked seed iron bioavailability. In addition, significant SNP-trait associations were found and explained from 6.3 to 13.2% of the phenotypic variation. These results expand the current understanding of the genetic architecture underlying these complex nutritional quality traits and iron bioavailability in dry beans. Furthermore, they have utility for future nutritional quality breeding efforts to better biofortify dry bean through genomics-assisted breeding.</description><subject>Adenosine diphosphate</subject><subject>Association analysis</subject><subject>Beans</subject><subject>Bioavailability</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Breeding</subject><subject>Calcium</subject><subject>Developed countries</subject><subject>Developing countries</subject><subject>Genomics</subject><subject>Genotype & phenotype</subject><subject>Genotypes</subject><subject>Genotyping</subject><subject>Iron</subject><subject>LDCs</subject><subject>Legumes</subject><subject>Life Sciences</subject><subject>Molecular biology</subject><subject>Nucleotides</subject><subject>Nutrients</subject><subject>Nutritive value</subject><subject>Phaseolus vulgaris</subject><subject>Phenotypic variations</subject><subject>Plant biology</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Pathology</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Proteins</subject><subject>Single-nucleotide polymorphism</subject><subject>Vegetarianism</subject><subject>Zinc</subject><issn>1380-3743</issn><issn>1572-9788</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>BENPR</sourceid><recordid>eNp9kc9OxCAQhxujiX8fwBuJFz2gQGmhR2N0NdlED3om00JX1m5ZmVbdp_CVZV0TT3oBhnzfTCa_LDvm7Jwzpi6Qc5YLyrimTFWafmxle7xQglZK6-30zjWjuZL5braPOGfJqcpyL_ucuD4sHH331hFADI2HwYeeQA_dCj2S0JJ-HKJf_0JHmrBYBvyuaHQdDM6SIYIfMCmW-Jjc2gd4A99B7Ts_rIjvkxZeEmnjitQOeiSnD8-ALnQjkrexm0FMo6bnZ4fZTgsduqOf-yB7url-vLql0_vJ3dXllDa5lAOtbAuVK0rBmoJpxZ2smdAqLxmA5W1ppVK8LRruat20GkrrmIBcOCU5q22TH2Qnm77LGF5Hh4OZhzGmBdEIUVSyWp__UoyrUgrJeaL4hmpiQIyuNcvoFxBXhjOzTsds0jEpHbNOx3wkR2wcTGw_c_G389_SFx75lT0</recordid><startdate>20180401</startdate><enddate>20180401</enddate><creator>Katuuramu, Dennis N.</creator><creator>Hart, John P.</creator><creator>Porch, Timothy G.</creator><creator>Grusak, Michael A.</creator><creator>Glahn, Raymond P.</creator><creator>Cichy, Karen A.</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X2</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M0K</scope><scope>M7P</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope></search><sort><creationdate>20180401</creationdate><title>Genome-wide association analysis of nutritional composition-related traits and iron bioavailability in cooked dry beans (Phaseolus vulgaris L.)</title><author>Katuuramu, Dennis N. ; Hart, John P. ; Porch, Timothy G. ; Grusak, Michael A. ; Glahn, Raymond P. ; Cichy, Karen A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c344t-9dfa9e5620c50871e4b0287360aad1f6d4771f5c1eb8cf8a6de02a32e7410bdc3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Adenosine diphosphate</topic><topic>Association analysis</topic><topic>Beans</topic><topic>Bioavailability</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Breeding</topic><topic>Calcium</topic><topic>Developed countries</topic><topic>Developing countries</topic><topic>Genomics</topic><topic>Genotype & phenotype</topic><topic>Genotypes</topic><topic>Genotyping</topic><topic>Iron</topic><topic>LDCs</topic><topic>Legumes</topic><topic>Life Sciences</topic><topic>Molecular biology</topic><topic>Nucleotides</topic><topic>Nutrients</topic><topic>Nutritive value</topic><topic>Phaseolus vulgaris</topic><topic>Phenotypic variations</topic><topic>Plant biology</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Pathology</topic><topic>Plant Physiology</topic><topic>Plant Sciences</topic><topic>Proteins</topic><topic>Single-nucleotide polymorphism</topic><topic>Vegetarianism</topic><topic>Zinc</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Katuuramu, Dennis N.</creatorcontrib><creatorcontrib>Hart, John P.</creatorcontrib><creatorcontrib>Porch, Timothy G.</creatorcontrib><creatorcontrib>Grusak, Michael A.</creatorcontrib><creatorcontrib>Glahn, Raymond P.</creatorcontrib><creatorcontrib>Cichy, Karen A.</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Agricultural Science Collection</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Biological Science Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><jtitle>Molecular breeding</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Katuuramu, Dennis N.</au><au>Hart, John P.</au><au>Porch, Timothy G.</au><au>Grusak, Michael A.</au><au>Glahn, Raymond P.</au><au>Cichy, Karen A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-wide association analysis of nutritional composition-related traits and iron bioavailability in cooked dry beans (Phaseolus vulgaris L.)</atitle><jtitle>Molecular breeding</jtitle><stitle>Mol Breeding</stitle><date>2018-04-01</date><risdate>2018</risdate><volume>38</volume><issue>4</issue><spage>1</spage><epage>18</epage><pages>1-18</pages><artnum>44</artnum><issn>1380-3743</issn><eissn>1572-9788</eissn><abstract>Seed nutrients in legumes are important for human health, particularly in developing countries with heavy reliance on plant-based diets, and among vegetarians in developed nations. Here, we report on our efforts to uncover the genetic basis underlying the phenotypic variation for protein, zinc, calcium concentrations, and iron bioavailability present in 206 accessions of dry bean (
Phaseolus vulgaris
L.) from the Andean Diversity Panel (ADP). We used 8111 single nucleotide polymorphisms (SNPs) generated with genotyping-by-sequencing (GBS) to examine the allelic variants’ associations with seed protein, zinc, and calcium concentrations, and iron bioavailability in the 206 ADP accessions grown over 2 years in Michigan. These efforts identified phenotypic variation among the ADP genotypes for each of the traits, with the highest variation (5.4-fold) found for cooked seed iron bioavailability. In addition, significant SNP-trait associations were found and explained from 6.3 to 13.2% of the phenotypic variation. These results expand the current understanding of the genetic architecture underlying these complex nutritional quality traits and iron bioavailability in dry beans. Furthermore, they have utility for future nutritional quality breeding efforts to better biofortify dry bean through genomics-assisted breeding.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s11032-018-0798-x</doi><tpages>18</tpages></addata></record> |
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| subjects | Adenosine diphosphate Association analysis Beans Bioavailability Biomedical and Life Sciences Biotechnology Breeding Calcium Developed countries Developing countries Genomics Genotype & phenotype Genotypes Genotyping Iron LDCs Legumes Life Sciences Molecular biology Nucleotides Nutrients Nutritive value Phaseolus vulgaris Phenotypic variations Plant biology Plant Genetics and Genomics Plant Pathology Plant Physiology Plant Sciences Proteins Single-nucleotide polymorphism Vegetarianism Zinc |
| title | Genome-wide association analysis of nutritional composition-related traits and iron bioavailability in cooked dry beans (Phaseolus vulgaris L.) |
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