Literature DB >> 24753573

Archaeological and genetic insights into the origins of domesticated rice.

Briana L Gross1, Zhijun Zhao.   

Abstract

Rice (Oryza sativa) is one of the most important cereal grains in the world today and serves as a staple food source for more than half of the world's population. Research into when, where, and how rice was brought into cultivation and eventually domesticated, along with its development into a staple food source, is thus essential. These questions have been a point of nearly continuous research in both archaeology and genetics, and new information has continually come to light as theory, data acquisition, and analytical techniques have advanced over time. Here, we review the broad history of our scientific understanding of the rice domestication process from both an archaeological and genetic perspective and examine in detail the information that has come to light in both of these fields in the last 10 y. Current findings from genetics and archaeology are consistent with the domestication of O. sativa japonica in the Yangtze River valley of southern China. Interestingly, although it appears rice was cultivated in the area by as early 8000 BP, the key domestication trait of nonshattering was not fixed for another 1,000 y or perhaps longer. Rice was also cultivated in India as early as 5000 BP, but the domesticated indica subspecies currently appears to be a product of the introgression of favorable alleles from japonica. These findings are reshaping our understanding of rice domestication and also have implications for understanding the complex evolutionary process of plant domestication.

Entities:  

Keywords:  Oryza nivara; Oryza rufipogon; domestication gene

Mesh:

Year:  2014        PMID: 24753573      PMCID: PMC4035933          DOI: 10.1073/pnas.1308942110

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  47 in total

1.  A single domestication for maize shown by multilocus microsatellite genotyping.

Authors:  Yoshihiro Matsuoka; Yves Vigouroux; Major M Goodman; Jesus Sanchez G; Edward Buckler; John Doebley
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-30       Impact factor: 11.205

2.  Phylogenetic relationships among A-genome species of the genus Oryza revealed by intron sequences of four nuclear genes.

Authors:  Qihui Zhu; Song Ge
Journal:  New Phytol       Date:  2005-07       Impact factor: 10.151

3.  An SNP caused loss of seed shattering during rice domestication.

Authors:  Saeko Konishi; Takeshi Izawa; Shao Yang Lin; Kaworu Ebana; Yoshimichi Fukuta; Takuji Sasaki; Masahiro Yano
Journal:  Science       Date:  2006-04-13       Impact factor: 47.728

Review 4.  Genetics and phylogenetics of rice domestication.

Authors:  Tao Sang; Song Ge
Journal:  Curr Opin Genet Dev       Date:  2007-11-07       Impact factor: 5.578

5.  Deletion in a gene associated with grain size increased yields during rice domestication.

Authors:  Ayahiko Shomura; Takeshi Izawa; Kaworu Ebana; Takeshi Ebitani; Hiromi Kanegae; Saeko Konishi; Masahiro Yano
Journal:  Nat Genet       Date:  2008-07-06       Impact factor: 38.330

6.  Japonica rice carried to, not from, Southeast Asia.

Authors:  Dorian Q Fuller; Yo-Ichiro Sato
Journal:  Nat Genet       Date:  2008-11       Impact factor: 38.330

7.  The amylose content in rice endosperm is related to the post-transcriptional regulation of the waxy gene.

Authors:  Z Y Wang; F Q Zheng; G Z Shen; J P Gao; D P Snustad; M G Li; J L Zhang; M M Hong
Journal:  Plant J       Date:  1995-04       Impact factor: 6.417

8.  A single base change altered the regulation of the Waxy gene at the posttranscriptional level during the domestication of rice.

Authors:  H Y Hirano; M Eiguchi; Y Sano
Journal:  Mol Biol Evol       Date:  1998-08       Impact factor: 16.240

9.  Evolutionary history of GS3, a gene conferring grain length in rice.

Authors:  Noriko Takano-Kai; Hui Jiang; Takahiko Kubo; Megan Sweeney; Takashi Matsumoto; Hiroyuki Kanamori; Badri Padhukasahasram; Carlos Bustamante; Atsushi Yoshimura; Kazuyuki Doi; Susan McCouch
Journal:  Genetics       Date:  2009-06-08       Impact factor: 4.562

10.  A map of rice genome variation reveals the origin of cultivated rice.

Authors:  Xuehui Huang; Nori Kurata; Xinghua Wei; Zi-Xuan Wang; Ahong Wang; Qiang Zhao; Yan Zhao; Kunyan Liu; Hengyun Lu; Wenjun Li; Yunli Guo; Yiqi Lu; Congcong Zhou; Danlin Fan; Qijun Weng; Chuanrang Zhu; Tao Huang; Lei Zhang; Yongchun Wang; Lei Feng; Hiroyasu Furuumi; Takahiko Kubo; Toshie Miyabayashi; Xiaoping Yuan; Qun Xu; Guojun Dong; Qilin Zhan; Canyang Li; Asao Fujiyama; Atsushi Toyoda; Tingting Lu; Qi Feng; Qian Qian; Jiayang Li; Bin Han
Journal:  Nature       Date:  2012-10-03       Impact factor: 49.962

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  67 in total

1.  Multiple Origin but Single Domestication Led to Oryza sativa.

Authors:  Jae Young Choi; Michael D Purugganan
Journal:  G3 (Bethesda)       Date:  2018-03-02       Impact factor: 3.154

2.  Domestication: The birth of rice.

Authors:  Ewen Callaway
Journal:  Nature       Date:  2014-10-30       Impact factor: 49.962

3.  NGS sequencing reveals that many of the genetic variations in transgenic rice plants match the variations found in natural rice population.

Authors:  Doori Park; Su-Hyun Park; Youn Shic Kim; Beom-Soon Choi; Ju-Kon Kim; Nam-Soo Kim; Ik-Young Choi
Journal:  Genes Genomics       Date:  2018-11-07       Impact factor: 1.839

4.  Current perspectives and the future of domestication studies.

Authors:  Greger Larson; Dolores R Piperno; Robin G Allaby; Michael D Purugganan; Leif Andersson; Manuel Arroyo-Kalin; Loukas Barton; Cynthia Climer Vigueira; Tim Denham; Keith Dobney; Andrew N Doust; Paul Gepts; M Thomas P Gilbert; Kristen J Gremillion; Leilani Lucas; Lewis Lukens; Fiona B Marshall; Kenneth M Olsen; J Chris Pires; Peter J Richerson; Rafael Rubio de Casas; Oris I Sanjur; Mark G Thomas; Dorian Q Fuller
Journal:  Proc Natl Acad Sci U S A       Date:  2014-04-22       Impact factor: 11.205

5.  Genomics of the origin and evolution of Citrus.

Authors:  Guohong Albert Wu; Javier Terol; Victoria Ibanez; Antonio López-García; Estela Pérez-Román; Carles Borredá; Concha Domingo; Francisco R Tadeo; Jose Carbonell-Caballero; Roberto Alonso; Franck Curk; Dongliang Du; Patrick Ollitrault; Mikeal L Roose; Joaquin Dopazo; Frederick G Gmitter; Daniel S Rokhsar; Manuel Talon
Journal:  Nature       Date:  2018-02-07       Impact factor: 49.962

6.  The complex geography of domestication of the African rice Oryza glaberrima.

Authors:  Jae Young Choi; Maricris Zaidem; Rafal Gutaker; Katherine Dorph; Rakesh Kumar Singh; Michael D Purugganan
Journal:  PLoS Genet       Date:  2019-03-07       Impact factor: 5.917

7.  Dating rice remains through phytolith carbon-14 study reveals domestication at the beginning of the Holocene.

Authors:  Xinxin Zuo; Houyuan Lu; Leping Jiang; Jianping Zhang; Xiaoyan Yang; Xiujia Huan; Keyang He; Can Wang; Naiqin Wu
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-30       Impact factor: 11.205

8.  The Sequences of 1504 Mutants in the Model Rice Variety Kitaake Facilitate Rapid Functional Genomic Studies.

Authors:  Guotian Li; Rashmi Jain; Mawsheng Chern; Nikki T Pham; Joel A Martin; Tong Wei; Wendy S Schackwitz; Anna M Lipzen; Phat Q Duong; Kyle C Jones; Liangrong Jiang; Deling Ruan; Diane Bauer; Yi Peng; Kerrie W Barry; Jeremy Schmutz; Pamela C Ronald
Journal:  Plant Cell       Date:  2017-06-02       Impact factor: 11.277

9.  C4 Photosynthesis in the Rice Paddy: Insights from the Noxious Weed Echinochloa glabrescens.

Authors:  Sarah Covshoff; Marek Szecowka; Thomas E Hughes; Richard Smith-Unna; Steven Kelly; Karen J Bailey; Tammy L Sage; Justin A Pachebat; Richard Leegood; Julian M Hibberd
Journal:  Plant Physiol       Date:  2015-11-02       Impact factor: 8.340

10.  DEAD-Box RNA Helicase 42 Plays a Critical Role in Pre-mRNA Splicing under Cold Stress.

Authors:  Chung-An Lu; Chun-Kai Huang; Wen-Shan Huang; Tian-Sheng Huang; Hsin-Yi Liu; Yu-Fu Chen
Journal:  Plant Physiol       Date:  2019-11-21       Impact factor: 8.340

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