Literature DB >> 32561470

The Battle to Sequence the Bread Wheat Genome: A Tale of the Three Kingdoms.

Jiantao Guan1, Diego F Garcia1, Yun Zhou2, Rudi Appels3, Aili Li1, Long Mao4.   

Abstract

In the year 2018, the world witnessed the finale of the race to sequence the genome of the world's most widely grown crop, the common wheat. Wheat has been known to bear a notoriously large and complicated genome of a polyploidy nature. A decade competition to sequence the wheat genome initiated with a single consortium of multiple countries, taking a conventional strategy similar to that for sequencing Arabidopsis and rice, became ferocious over time as both sequencing technologies and genome assembling methodologies advanced. At different stages, multiple versions of genome sequences of the same variety (e.g., Chinese Spring) were produced by several groups with their special strategies. Finally, 16 years after the rice genome was finished and 9 years after that of maize, the wheat research community now possesses its own reference genome. Armed with these genomics tools, wheat will reestablish itself as a model for polyploid plants in studying the mechanisms of polyploidy evolution, domestication, genetic and epigenetic regulation of homoeolog expression, as well as defining its genetic diversity and breeding on the genome level. The enhanced resolution of the wheat genome should also help accelerate development of wheat cultivars that are more tolerant to biotic and/or abiotic stresses with better quality and higher yield.
Copyright © 2020 The Authors. Published by Elsevier B.V. All rights reserved.

Entities:  

Keywords:  Common wheat; Homoeologous genomes; Polyploid; Sequencing; Triticum aestivum

Mesh:

Year:  2020        PMID: 32561470      PMCID: PMC7801200          DOI: 10.1016/j.gpb.2019.09.005

Source DB:  PubMed          Journal:  Genomics Proteomics Bioinformatics        ISSN: 1672-0229            Impact factor:   7.691


  73 in total

1.  Natural variation in GS5 plays an important role in regulating grain size and yield in rice.

Authors:  Yibo Li; Chuchuan Fan; Yongzhong Xing; Yunhe Jiang; Lijun Luo; Liang Sun; Di Shao; Chunjue Xu; Xianghua Li; Jinghua Xiao; Yuqing He; Qifa Zhang
Journal:  Nat Genet       Date:  2011-10-23       Impact factor: 38.330

2.  Genome sequencing reveals agronomically important loci in rice using MutMap.

Authors:  Akira Abe; Shunichi Kosugi; Kentaro Yoshida; Satoshi Natsume; Hiroki Takagi; Hiroyuki Kanzaki; Hideo Matsumura; Kakoto Yoshida; Chikako Mitsuoka; Muluneh Tamiru; Hideki Innan; Liliana Cano; Sophien Kamoun; Ryohei Terauchi
Journal:  Nat Biotechnol       Date:  2012-01-22       Impact factor: 54.908

3.  Development of chromosome-specific BAC resources for genomics of bread wheat.

Authors:  J Safár; H Simková; M Kubaláková; J Cíhalíková; P Suchánková; J Bartos; J Dolezel
Journal:  Cytogenet Genome Res       Date:  2010-05-26       Impact factor: 1.636

4.  BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.

Authors:  Felipe A Simão; Robert M Waterhouse; Panagiotis Ioannidis; Evgenia V Kriventseva; Evgeny M Zdobnov
Journal:  Bioinformatics       Date:  2015-06-09       Impact factor: 6.937

5.  Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.

Authors: 
Journal:  Nature       Date:  2000-12-14       Impact factor: 49.962

6.  Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation.

Authors:  Jizeng Jia; Shancen Zhao; Xiuying Kong; Yingrui Li; Guangyao Zhao; Weiming He; Rudi Appels; Matthias Pfeifer; Yong Tao; Xueyong Zhang; Ruilian Jing; Chi Zhang; Youzhi Ma; Lifeng Gao; Chuan Gao; Manuel Spannagl; Klaus F X Mayer; Dong Li; Shengkai Pan; Fengya Zheng; Qun Hu; Xianchun Xia; Jianwen Li; Qinsi Liang; Jie Chen; Thomas Wicker; Caiyun Gou; Hanhui Kuang; Genyun He; Yadan Luo; Beat Keller; Qiuju Xia; Peng Lu; Junyi Wang; Hongfeng Zou; Rongzhi Zhang; Junyang Xu; Jinlong Gao; Christopher Middleton; Zhiwu Quan; Guangming Liu; Jian Wang; Huanming Yang; Xu Liu; Zhonghu He; Long Mao; Jun Wang
Journal:  Nature       Date:  2013-03-24       Impact factor: 49.962

7.  The Aegilops tauschii genome reveals multiple impacts of transposons.

Authors:  Guangyao Zhao; Cheng Zou; Kui Li; Kai Wang; Tianbao Li; Lifeng Gao; Xiaoxia Zhang; Hongjin Wang; Zujun Yang; Xu Liu; Wenkai Jiang; Long Mao; Xiuying Kong; Yuannian Jiao; Jizeng Jia
Journal:  Nat Plants       Date:  2017-11-20       Impact factor: 15.793

Review 8.  Genomics as the key to unlocking the polyploid potential of wheat.

Authors:  Philippa Borrill; Nikolai Adamski; Cristobal Uauy
Journal:  New Phytol       Date:  2015-06-24       Impact factor: 10.151

9.  Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ).

Authors:  Martin Mascher; Gary J Muehlbauer; Daniel S Rokhsar; Jarrod Chapman; Jeremy Schmutz; Kerrie Barry; María Muñoz-Amatriaín; Timothy J Close; Roger P Wise; Alan H Schulman; Axel Himmelbach; Klaus F X Mayer; Uwe Scholz; Jesse A Poland; Nils Stein; Robbie Waugh
Journal:  Plant J       Date:  2013-10-10       Impact factor: 6.417

10.  An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations.

Authors:  Bernardo J Clavijo; Luca Venturini; Christian Schudoma; Gonzalo Garcia Accinelli; Gemy Kaithakottil; Jonathan Wright; Philippa Borrill; George Kettleborough; Darren Heavens; Helen Chapman; James Lipscombe; Tom Barker; Fu-Hao Lu; Neil McKenzie; Dina Raats; Ricardo H Ramirez-Gonzalez; Aurore Coince; Ned Peel; Lawrence Percival-Alwyn; Owen Duncan; Josua Trösch; Guotai Yu; Dan M Bolser; Guy Namaati; Arnaud Kerhornou; Manuel Spannagl; Heidrun Gundlach; Georg Haberer; Robert P Davey; Christine Fosker; Federica Di Palma; Andrew L Phillips; A Harvey Millar; Paul J Kersey; Cristobal Uauy; Ksenia V Krasileva; David Swarbreck; Michael W Bevan; Matthew D Clark
Journal:  Genome Res       Date:  2017-05       Impact factor: 9.043

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  5 in total

Review 1.  Genomic resources in plant breeding for sustainable agriculture.

Authors:  Mahendar Thudi; Ramesh Palakurthi; James C Schnable; Annapurna Chitikineni; Susanne Dreisigacker; Emma Mace; Rakesh K Srivastava; C Tara Satyavathi; Damaris Odeny; Vijay K Tiwari; Hon-Ming Lam; Yan Bin Hong; Vikas K Singh; Guowei Li; Yunbi Xu; Xiaoping Chen; Sanjay Kaila; Henry Nguyen; Sobhana Sivasankar; Scott A Jackson; Timothy J Close; Wan Shubo; Rajeev K Varshney
Journal:  J Plant Physiol       Date:  2020-12-17       Impact factor: 3.549

2.  Long-read and chromosome-scale assembly of the hexaploid wheat genome achieves high resolution for research and breeding.

Authors:  Jean-Marc Aury; Stefan Engelen; Benjamin Istace; Cécile Monat; Pauline Lasserre-Zuber; Caroline Belser; Corinne Cruaud; Hélène Rimbert; Philippe Leroy; Sandrine Arribat; Isabelle Dufau; Arnaud Bellec; David Grimbichler; Nathan Papon; Etienne Paux; Marion Ranoux; Adriana Alberti; Patrick Wincker; Frédéric Choulet
Journal:  Gigascience       Date:  2022-04-28       Impact factor: 7.658

3.  Wheat Varietal Response to Tilletia controversa J. G. Kühn Using qRT-PCR and Laser Confocal Microscopy.

Authors:  Delai Chen; Ghulam Muhae-Ud-Din; Taiguo Liu; Wanquan Chen; Changzhong Liu; Li Gao
Journal:  Genes (Basel)       Date:  2021-03-16       Impact factor: 4.096

Review 4.  Breeding for Economically and Environmentally Sustainable Wheat Varieties: An Integrated Approach from Genomics to Selection.

Authors:  Etienne Paux; Stéphane Lafarge; François Balfourier; Jérémy Derory; Gilles Charmet; Michael Alaux; Geoffrey Perchet; Marion Bondoux; Frédéric Baret; Romain Barillot; Catherine Ravel; Pierre Sourdille; Jacques Le Gouis
Journal:  Biology (Basel)       Date:  2022-01-17

5.  Mining the Wheat Grain Proteome.

Authors:  Delphine Vincent; AnhDuyen Bui; Doris Ram; Vilnis Ezernieks; Frank Bedon; Joe Panozzo; Pankaj Maharjan; Simone Rochfort; Hans Daetwyler; Matthew Hayden
Journal:  Int J Mol Sci       Date:  2022-01-10       Impact factor: 5.923

  5 in total

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