Literature DB >> 30285496

On the Road to Breeding 4.0: Unraveling the Good, the Bad, and the Boring of Crop Quantitative Genomics.

Jason G Wallace1, Eli Rodgers-Melnick2, Edward S Buckler3,4.   

Abstract

Understanding the quantitative genetics of crops has been and will continue to be central to maintaining and improving global food security. We outline four stages that plant breeding either has already achieved or will probably soon achieve. Top-of-the-line breeding programs are currently in Breeding 3.0, where inexpensive, genome-wide data coupled with powerful algorithms allow us to start breeding on predicted instead of measured phenotypes. We focus on three major questions that must be answered to move from current Breeding 3.0 practices to Breeding 4.0: ( a) How do we adapt crops to better fit agricultural environments? ( b) What is the nature of the diversity upon which breeding can act? ( c) How do we deal with deleterious variants? Answering these questions and then translating them to actual gains for farmers will be a significant part of achieving global food security in the twenty-first century.

Keywords:  adaptation; agriculture; breeding; deleterious alleles; heterosis; quantitative genetics

Mesh:

Year:  2018        PMID: 30285496     DOI: 10.1146/annurev-genet-120116-024846

Source DB:  PubMed          Journal:  Annu Rev Genet        ISSN: 0066-4197            Impact factor:   16.830


  32 in total

1.  A quantitative genomics map of rice provides genetic insights and guides breeding.

Authors:  Xin Wei; Jie Qiu; Kaicheng Yong; Jiongjiong Fan; Qi Zhang; Hua Hua; Jie Liu; Qin Wang; Kenneth M Olsen; Bin Han; Xuehui Huang
Journal:  Nat Genet       Date:  2021-02-01       Impact factor: 38.330

2.  Scripting Analyses of Genomes in Ensembl Plants.

Authors:  Bruno Contreras-Moreira; Guy Naamati; Marc Rosello; James E Allen; Sarah E Hunt; Matthieu Muffato; Astrid Gall; Paul Flicek
Journal:  Methods Mol Biol       Date:  2022

Review 3.  Perspectives for integrated insect pest protection in oilseed rape breeding.

Authors:  Christian Obermeier; Annaliese S Mason; Torsten Meiners; Georg Petschenka; Michael Rostás; Torsten Will; Benjamin Wittkop; Nadine Austel
Journal:  Theor Appl Genet       Date:  2022-03-16       Impact factor: 5.699

4.  Quantitative Extraction and Evaluation of Tomato Fruit Phenotypes Based on Image Recognition.

Authors:  Yihang Zhu; Qing Gu; Yiying Zhao; Hongjian Wan; Rongqing Wang; Xiaobin Zhang; Yuan Cheng
Journal:  Front Plant Sci       Date:  2022-04-13       Impact factor: 6.627

Review 5.  From Summary Statistics to Gene Trees: Methods for Inferring Positive Selection.

Authors:  Hussein A Hejase; Noah Dukler; Adam Siepel
Journal:  Trends Genet       Date:  2020-01-15       Impact factor: 11.639

Review 6.  Advancing crop genomics from lab to field.

Authors:  Michael D Purugganan; Scott A Jackson
Journal:  Nat Genet       Date:  2021-05-06       Impact factor: 38.330

7.  Differential chromatin accessibility landscape reveals structural and functional features of the allopolyploid wheat chromosomes.

Authors:  Katherine W Jordan; Fei He; Monica Fernandez de Soto; Alina Akhunova; Eduard Akhunov
Journal:  Genome Biol       Date:  2020-07-19       Impact factor: 13.583

8.  ZEAMAP, a Comprehensive Database Adapted to the Maize Multi-Omics Era.

Authors:  Songtao Gui; Linfeng Yang; Jianbo Li; Jingyun Luo; Xiaokai Xu; Jianyu Yuan; Lu Chen; Wenqiang Li; Xin Yang; Shenshen Wu; Shuyan Li; Yuebin Wang; Yabing Zhu; Qiang Gao; Ning Yang; Jianbing Yan
Journal:  iScience       Date:  2020-06-06

9.  An inferred fitness consequence map of the rice genome.

Authors:  Zoé Joly-Lopez; Adrian E Platts; Brad Gulko; Jae Young Choi; Simon C Groen; Xuehua Zhong; Adam Siepel; Michael D Purugganan
Journal:  Nat Plants       Date:  2020-02-10       Impact factor: 15.793

10.  Genetic diversity and evolutionary patterns of Taraxacum kok-saghyz Rodin.

Authors:  Yan Zhang; Hailong Ren; Xuechao Zhang; Li Wang; Qiang Gao; Abudukeyoumu Abudurezike; Qingqing Yan; Zifeng Lu; Yonggang Wang; Qiuhai Nie; Lin Xu; Zhibin Zhang
Journal:  Ecol Evol       Date:  2021-05-07       Impact factor: 2.912

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