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The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication

The genetics of domestication has been extensively studied ever since the rediscovery of Mendel’s law of inheritance and much has been learned about the genetic control of trait differences between crops and their ancestors. Here, we ask how domestication has altered genetic architecture by comparin...

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Autores principales: Chen, Qiuyue, Samayoa, Luis Fernando, Yang, Chin Jian, Bradbury, Peter J., Olukolu, Bode A., Neumeyer, Michael A., Romay, Maria Cinta, Sun, Qi, Lorant, Anne, Buckler, Edward S., Ross-Ibarra, Jeffrey, Holland, James B., Doebley, John F.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7266358/
https://www.ncbi.nlm.nih.gov/pubmed/32407310
http://dx.doi.org/10.1371/journal.pgen.1008791
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author Chen, Qiuyue
Samayoa, Luis Fernando
Yang, Chin Jian
Bradbury, Peter J.
Olukolu, Bode A.
Neumeyer, Michael A.
Romay, Maria Cinta
Sun, Qi
Lorant, Anne
Buckler, Edward S.
Ross-Ibarra, Jeffrey
Holland, James B.
Doebley, John F.
author_facet Chen, Qiuyue
Samayoa, Luis Fernando
Yang, Chin Jian
Bradbury, Peter J.
Olukolu, Bode A.
Neumeyer, Michael A.
Romay, Maria Cinta
Sun, Qi
Lorant, Anne
Buckler, Edward S.
Ross-Ibarra, Jeffrey
Holland, James B.
Doebley, John F.
author_sort Chen, Qiuyue
collection PubMed
description The genetics of domestication has been extensively studied ever since the rediscovery of Mendel’s law of inheritance and much has been learned about the genetic control of trait differences between crops and their ancestors. Here, we ask how domestication has altered genetic architecture by comparing the genetic architecture of 18 domestication traits in maize and its ancestor teosinte using matched populations. We observed a strongly reduced number of QTL for domestication traits in maize relative to teosinte, which is consistent with the previously reported depletion of additive variance by selection during domestication. We also observed more dominance in maize than teosinte, likely a consequence of selective removal of additive variants. We observed that large effect QTL have low minor allele frequency (MAF) in both maize and teosinte. Regions of the genome that are strongly differentiated between teosinte and maize (high F(ST)) explain less quantitative variation in maize than teosinte, suggesting that, in these regions, allelic variants were brought to (or near) fixation during domestication. We also observed that genomic regions of high recombination explain a disproportionately large proportion of heritable variance both before and after domestication. Finally, we observed that about 75% of the additive variance in both teosinte and maize is “missing” in the sense that it cannot be ascribed to detectable QTL and only 25% of variance maps to specific QTL. This latter result suggests that morphological evolution during domestication is largely attributable to very large numbers of QTL of very small effect.
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spelling pubmed-72663582020-06-10 The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication Chen, Qiuyue Samayoa, Luis Fernando Yang, Chin Jian Bradbury, Peter J. Olukolu, Bode A. Neumeyer, Michael A. Romay, Maria Cinta Sun, Qi Lorant, Anne Buckler, Edward S. Ross-Ibarra, Jeffrey Holland, James B. Doebley, John F. PLoS Genet Research Article The genetics of domestication has been extensively studied ever since the rediscovery of Mendel’s law of inheritance and much has been learned about the genetic control of trait differences between crops and their ancestors. Here, we ask how domestication has altered genetic architecture by comparing the genetic architecture of 18 domestication traits in maize and its ancestor teosinte using matched populations. We observed a strongly reduced number of QTL for domestication traits in maize relative to teosinte, which is consistent with the previously reported depletion of additive variance by selection during domestication. We also observed more dominance in maize than teosinte, likely a consequence of selective removal of additive variants. We observed that large effect QTL have low minor allele frequency (MAF) in both maize and teosinte. Regions of the genome that are strongly differentiated between teosinte and maize (high F(ST)) explain less quantitative variation in maize than teosinte, suggesting that, in these regions, allelic variants were brought to (or near) fixation during domestication. We also observed that genomic regions of high recombination explain a disproportionately large proportion of heritable variance both before and after domestication. Finally, we observed that about 75% of the additive variance in both teosinte and maize is “missing” in the sense that it cannot be ascribed to detectable QTL and only 25% of variance maps to specific QTL. This latter result suggests that morphological evolution during domestication is largely attributable to very large numbers of QTL of very small effect. Public Library of Science 2020-05-14 /pmc/articles/PMC7266358/ /pubmed/32407310 http://dx.doi.org/10.1371/journal.pgen.1008791 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication.
spellingShingle Research Article
Chen, Qiuyue
Samayoa, Luis Fernando
Yang, Chin Jian
Bradbury, Peter J.
Olukolu, Bode A.
Neumeyer, Michael A.
Romay, Maria Cinta
Sun, Qi
Lorant, Anne
Buckler, Edward S.
Ross-Ibarra, Jeffrey
Holland, James B.
Doebley, John F.
The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title_full The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title_fullStr The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title_full_unstemmed The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title_short The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
title_sort genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7266358/
https://www.ncbi.nlm.nih.gov/pubmed/32407310
http://dx.doi.org/10.1371/journal.pgen.1008791
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