The improved assembly of 7DL chromosome provides insight into the structure and evolution of bread wheat

Feng, K.; Cui, L.; Wang, L.; Shan, D.; Tong, W.; Deng, P.; Yan, Z.; Wang, M.; Zhan, H.; Wu, X.; He, W.; Zhou, X.; Ji, J.; Zhang, G.; Mao, L.; Karafiátová, Miroslava; Šimková, Hana; Doležel, Jaroslav; Du, X.; Zhao, S.; Luo, M. C.; Han, D.; Zhang, C.; Kang, Z.; Appels, R.; Edwards, D.; Nie, X.; Weining, S.

doi:https://dx.doi.org/10.1111/pbi.13240

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The improved assembly of 7DL chromosome provides insight into the structure and evolution of bread wheat

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SYSNO ASEP	0523511
Document Type	J - Journal Article
R&D Document Type	Journal Article
Subsidiary J	Článek ve WOS
Title	The improved assembly of 7DL chromosome provides insight into the structure and evolution of bread wheat
Author(s)	Feng, K. (CN) Cui, L. (CN) Wang, L. (CN) Shan, D. (CN) Tong, W. (CN) Deng, P. (CN) Yan, Z. (CN) Wang, M. (DE) Zhan, H. (CN) Wu, X. (CN) He, W. (CN) Zhou, X. (CN) Ji, J. (CN) Zhang, G. (CN) Mao, L. (CN) Karafiátová, Miroslava (UEB-Q)_{RID, ORCID} Šimková, Hana (UEB-Q)_{RID, ORCID} Doležel, Jaroslav (UEB-Q)_{RID, ORCID} Du, X. (CN) Zhao, S. (CA) Luo, M. C. (US) Han, D. (CN) Zhang, C. (US) Kang, Z. (CN) Appels, R. (AU) Edwards, D. (AU) Nie, X. (CN) Weining, S. (CN)
Number of authors	28
Source Title	Plant Biotechnology Journal. - : Wiley - ISSN 1467-7644 Roč. 18, č. 3 (2020), s. 732-742
Number of pages	11 s.
Language	eng - English
Country	US - United States
Keywords	7DL chromosome arm ; BAC by BAC ; domestication ; gene loss ; physical mapping ; wheat
Subject RIV	EB - Genetics ; Molecular Biology
OECD category	Biochemistry and molecular biology
R&D Projects	GBP501/12/G090 GA ČR - Czech Science Foundation (CSF)
	LO1204 GA MŠMT - Ministry of Education, Youth and Sports (MEYS)
Method of publishing	Open access
Institutional support	UEB-Q - RVO:61389030
UT WOS	000486762100001
EID SCOPUS	85073918693
DOI	10.1111/pbi.13240
Annotation	Wheat is one of the most important staple crops worldwide and also an excellent model species for crop evolution and polyploidization studies. The breakthrough of sequencing the bread wheat genome and progenitor genomes lays the foundation to decipher the complexity of wheat origin and evolutionary process as well as the genetic consequences of polyploidization. In this study, we sequenced 3286 BACs from chromosome 7DL of bread wheat cv. Chinese Spring and integrated the unmapped contigs from IWGSC v1 and available PacBio sequences to close gaps present in the 7DL assembly. In total, 8043 out of 12 825 gaps, representing 3 491 264 bp, were closed. We then used the improved assembly of 7DL to perform comparative genomic analysis of bread wheat (Ta7DL) and its D donor, Aegilops tauschii (At7DL), to identify domestication signatures. Results showed a strong syntenic relationship between Ta7DL and At7DL, although some small rearrangements were detected at the distal regions. A total of 53 genes appear to be lost genes during wheat polyploidization, with 23% (12 genes) as RGA (disease resistance gene analogue). Furthermore, 86 positively selected genes (PSGs) were identified, considered to be domestication-related candidates. Finally, overlapping of QTLs obtained from GWAS analysis and PSGs indicated that TraesCS7D02G321000 may be one of the domestication genes involved in grain morphology. This study provides comparative information on the sequence, structure and organization between bread wheat and Ae. tauschii from the perspective of the 7DL chromosome, which contribute to better understanding of the evolution of wheat, and supports wheat crop improvement.
Workplace	Institute of Experimental Botany
Contact	David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469
Year of Publishing	2020
Electronic address	http://doi.org/10.1111/pbi.13240

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