Literature DB >> 23518283

The International Oryza Map Alignment Project: development of a genus-wide comparative genomics platform to help solve the 9 billion-people question.

Julie Jacquemin1, Dharminder Bhatia, Kuldeep Singh, Rod A Wing.   

Abstract

The wild relatives of rice contain a virtually untapped reservoir of traits that can be used help drive the 21st century green revolution aimed at solving world food security issues by 2050. To better understand and exploit the 23 species of the Oryza genus the rice research community is developing foundational resources composed of: 1) reference genomes and transcriptomes for all 23 species; 2) advanced mapping populations for functional and breeding studies; and 3) in situ conservation sites for ecological, evolutionary and population genomics. To this end, 16 genome sequencing projects are currently underway, and all completed assemblies have been annotated; and several advanced mapping populations have been developed, and more will be generated, mapped, and phenotyped, to uncover useful alleles. As wild Oryza populations are threatened by human activity and climate change, we also discuss the urgent need for sustainable in situ conservation of the genus.
Copyright © 2013 Elsevier Ltd. All rights reserved.

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Year:  2013        PMID: 23518283     DOI: 10.1016/j.pbi.2013.02.014

Source DB:  PubMed          Journal:  Curr Opin Plant Biol        ISSN: 1369-5266            Impact factor:   7.834


  39 in total

1.  The potentiality of rice microsatellite markers in assessment of cross-species transferability and genetic diversity of rice and its wild relatives.

Authors:  Umakanta Ngangkham; Sofini Dash; Madhuchhanda Parida; Sanghamitra Samantaray; Devachandra Nongthombam; Manoj Kumar Yadav; Awadhesh Kumar; Parameswaran Chidambaranathan; Jawahar L Katara; Bhaskar C Patra; Lotan K Bose
Journal:  3 Biotech       Date:  2019-05-20       Impact factor: 2.406

Review 2.  pENCODE: a plant encyclopedia of DNA elements.

Authors:  Amanda K Lane; Chad E Niederhuth; Lexiang Ji; Robert J Schmitz
Journal:  Annu Rev Genet       Date:  2014-08-15       Impact factor: 16.830

3.  SSR characterization of Oryza glumaepatula populations from the Brazilian Amazon and Cerrado biomes.

Authors:  Aluana Gonçalves Abreu; Thalita Marra Rosa; Tereza Cristina de Oliveira Borba; Rosana Pereira Vianello; Paulo Hideo Nakano Rangel; Claudio Brondani
Journal:  Genetica       Date:  2015-05-06       Impact factor: 1.082

4.  The first long-read nuclear genome assembly of Oryza australiensis, a wild rice from northern Australia.

Authors:  Aaron L Phillips; Scott Ferguson; Nathan S Watson-Haigh; Ashley W Jones; Justin O Borevitz; Rachel A Burton; Brian J Atwell
Journal:  Sci Rep       Date:  2022-06-25       Impact factor: 4.996

5.  Global genomic diversity of Oryza sativa varieties revealed by comparative physical mapping.

Authors:  Xiaoming Wang; David A Kudrna; Yonglong Pan; Hao Wang; Lin Liu; Haiyan Lin; Jianwei Zhang; Xiang Song; Jose Luis Goicoechea; Rod A Wing; Qifa Zhang; Meizhong Luo
Journal:  Genetics       Date:  2014-01-14       Impact factor: 4.562

Review 6.  Development and use of chromosome segment substitution lines as a genetic resource for crop improvement.

Authors:  Divya Balakrishnan; Malathi Surapaneni; Sukumar Mesapogu; Sarla Neelamraju
Journal:  Theor Appl Genet       Date:  2018-11-27       Impact factor: 5.699

7.  Genome-Wide Analysis Identified a Set of Conserved lncRNAs Associated with Domestication-Related Traits in Rice.

Authors:  Huang He; Yan-Fei Zhou; Yu-Wei Yang; Zhi Zhang; Meng-Qi Lei; Yan-Zhao Feng; Yu-Chan Zhang; Yue-Qin Chen; Jian-Ping Lian; Yang Yu
Journal:  Int J Mol Sci       Date:  2021-04-29       Impact factor: 5.923

8.  RiTE database: a resource database for genus-wide rice genomics and evolutionary biology.

Authors:  Dario Copetti; Jianwei Zhang; Moaine El Baidouri; Dongying Gao; Jun Wang; Elena Barghini; Rosa M Cossu; Angelina Angelova; Carlos E Maldonado L; Stefan Roffler; Hajime Ohyanagi; Thomas Wicker; Chuanzhu Fan; Andrea Zuccolo; Mingsheng Chen; Antonio Costa de Oliveira; Bin Han; Robert Henry; Yue-Ie Hsing; Nori Kurata; Wen Wang; Scott A Jackson; Olivier Panaud; Rod A Wing
Journal:  BMC Genomics       Date:  2015-07-22       Impact factor: 3.969

9.  Multiple origins of BBCC allopolyploid species in the rice genus (Oryza).

Authors:  Xin-Hui Zou; Yu-Su Du; Liang Tang; Xin-Wei Xu; Jeff J Doyle; Tao Sang; Song Ge
Journal:  Sci Rep       Date:  2015-10-13       Impact factor: 4.379

Review 10.  Genetic anchoring of whole-genome shotgun assemblies.

Authors:  Martin Mascher; Nils Stein
Journal:  Front Genet       Date:  2014-07-07       Impact factor: 4.599

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