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Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)

BACKGROUND: Grain weight is a grain yield component, which is an integrated index of grain length, width and thickness. They are controlled by a large number of quantitative trait loci (QTLs). Besides major QTLs, minor QTLs play an essential role. In our previous studies, QTL analysis for grain leng...

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Autores principales: Zhang, Hui, Zhu, Yu-Jun, Zhu, An-Dong, Fan, Ye-Yang, Huang, Ting-Xu, Zhang, Jian-Fu, Xie, Hua-An, Zhuang, Jie-Yun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7060756/
https://www.ncbi.nlm.nih.gov/pubmed/32181056
http://dx.doi.org/10.7717/peerj.8679
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author Zhang, Hui
Zhu, Yu-Jun
Zhu, An-Dong
Fan, Ye-Yang
Huang, Ting-Xu
Zhang, Jian-Fu
Xie, Hua-An
Zhuang, Jie-Yun
author_facet Zhang, Hui
Zhu, Yu-Jun
Zhu, An-Dong
Fan, Ye-Yang
Huang, Ting-Xu
Zhang, Jian-Fu
Xie, Hua-An
Zhuang, Jie-Yun
author_sort Zhang, Hui
collection PubMed
description BACKGROUND: Grain weight is a grain yield component, which is an integrated index of grain length, width and thickness. They are controlled by a large number of quantitative trait loci (QTLs). Besides major QTLs, minor QTLs play an essential role. In our previous studies, QTL analysis for grain length and width was performed using a recombinant inbred line population derived from rice cross TQ/IRBB lines. Two major QTLs were detected, which were located in proximity to GS3 and GW5 that have been cloned. In the present study, QTLs for grain weight and shape were identified using rice populations that were homozygous at GS3 and GW5. METHOD: Nine populations derived from the indica rice cross TQ/IRBB52 were used. An F(10:11)population named W1, consisting of 250 families and covering 16 segregating regions, was developed from one residual heterozygote (RH) in the F(7)generation of Teqing/IRBB52. Three near isogenic line (NIL)-F(2) populations, ZH1, ZH2 and ZH3 that comprised 205, 239 and 234 plants, respectively, were derived from three RHs in F(10:11). They segregated the target QTL region in an isogenic background. Two NIL populations, HY2 and HY3, were respectively produced from homozygous progeny of the ZH2 and ZH3 populations. Three other NIL-F(2) populations, Z1, Z2 and Z3, were established using three RHs having smaller heterozygous segments. QTL analysis for 1000-grain weight (TGW), grain length (GL), grain width (GW), and length/width ratio (LWR) was conducted using QTL IciMapping and SAS procedure with GLM model. RESULT: A total of 27 QTLs distributed on 12 chromosomes were identified. One QTL cluster, qTGW2/qGL2/qGW2 located in the terminal region of chromosome 2, were selected for further analysis. Two linked QTLs were separated in region Tw31911−RM266. qGL2 was located in Tw31911−Tw32437 and mainly controlled GL and GW. The effects were larger on GL than on GW and the allelic directions were opposite. qTGW2 was located in Tw35293−RM266 and affected TGW, GL and GW with the same allelic direction. Finally, qTGW2 was delimited within a 103-kb region flanked by Tw35293 and Tw35395. CONCLUSION: qTGW2 with significant effects on TGW, GL and GW was validated and fine-mapped using NIL and NIL-F(2) populations. These results provide a basis for map-based cloning of qTGW2 and utilization of qTGW2 in the breeding of high-yielding rice varieties.
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spelling pubmed-70607562020-03-16 Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.) Zhang, Hui Zhu, Yu-Jun Zhu, An-Dong Fan, Ye-Yang Huang, Ting-Xu Zhang, Jian-Fu Xie, Hua-An Zhuang, Jie-Yun PeerJ Agricultural Science BACKGROUND: Grain weight is a grain yield component, which is an integrated index of grain length, width and thickness. They are controlled by a large number of quantitative trait loci (QTLs). Besides major QTLs, minor QTLs play an essential role. In our previous studies, QTL analysis for grain length and width was performed using a recombinant inbred line population derived from rice cross TQ/IRBB lines. Two major QTLs were detected, which were located in proximity to GS3 and GW5 that have been cloned. In the present study, QTLs for grain weight and shape were identified using rice populations that were homozygous at GS3 and GW5. METHOD: Nine populations derived from the indica rice cross TQ/IRBB52 were used. An F(10:11)population named W1, consisting of 250 families and covering 16 segregating regions, was developed from one residual heterozygote (RH) in the F(7)generation of Teqing/IRBB52. Three near isogenic line (NIL)-F(2) populations, ZH1, ZH2 and ZH3 that comprised 205, 239 and 234 plants, respectively, were derived from three RHs in F(10:11). They segregated the target QTL region in an isogenic background. Two NIL populations, HY2 and HY3, were respectively produced from homozygous progeny of the ZH2 and ZH3 populations. Three other NIL-F(2) populations, Z1, Z2 and Z3, were established using three RHs having smaller heterozygous segments. QTL analysis for 1000-grain weight (TGW), grain length (GL), grain width (GW), and length/width ratio (LWR) was conducted using QTL IciMapping and SAS procedure with GLM model. RESULT: A total of 27 QTLs distributed on 12 chromosomes were identified. One QTL cluster, qTGW2/qGL2/qGW2 located in the terminal region of chromosome 2, were selected for further analysis. Two linked QTLs were separated in region Tw31911−RM266. qGL2 was located in Tw31911−Tw32437 and mainly controlled GL and GW. The effects were larger on GL than on GW and the allelic directions were opposite. qTGW2 was located in Tw35293−RM266 and affected TGW, GL and GW with the same allelic direction. Finally, qTGW2 was delimited within a 103-kb region flanked by Tw35293 and Tw35395. CONCLUSION: qTGW2 with significant effects on TGW, GL and GW was validated and fine-mapped using NIL and NIL-F(2) populations. These results provide a basis for map-based cloning of qTGW2 and utilization of qTGW2 in the breeding of high-yielding rice varieties. PeerJ Inc. 2020-03-04 /pmc/articles/PMC7060756/ /pubmed/32181056 http://dx.doi.org/10.7717/peerj.8679 Text en ©2020 Zhang et al. https://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Agricultural Science
Zhang, Hui
Zhu, Yu-Jun
Zhu, An-Dong
Fan, Ye-Yang
Huang, Ting-Xu
Zhang, Jian-Fu
Xie, Hua-An
Zhuang, Jie-Yun
Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title_full Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title_fullStr Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title_full_unstemmed Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title_short Fine-mapping of qTGW2, a quantitative trait locus for grain weight in rice (Oryza sativa L.)
title_sort fine-mapping of qtgw2, a quantitative trait locus for grain weight in rice (oryza sativa l.)
topic Agricultural Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7060756/
https://www.ncbi.nlm.nih.gov/pubmed/32181056
http://dx.doi.org/10.7717/peerj.8679
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