Literature DB >> 12902377

Comparative DNA sequence analysis of wheat and rice genomes.

Mark E Sorrells1, Mauricio La Rota, Catherine E Bermudez-Kandianis, Robert A Greene, Ramesh Kantety, Jesse D Munkvold, Ahmed Mahmoud, Xuefeng Ma, Perry J Gustafson, Lili L Qi, Benjamin Echalier, Bikram S Gill, David E Matthews, Gerard R Lazo, Shiaoman Chao, Olin D Anderson, Hugh Edwards, Anna M Linkiewicz, Jorge Dubcovsky, Eduard D Akhunov, Jan Dvorak, Deshui Zhang, Henry T Nguyen, Junhua Peng, Nora L V Lapitan, Jose L Gonzalez-Hernandez, James A Anderson, Khwaja Hossain, Venu Kalavacharla, Shahryar F Kianian, Dong-Woog Choi, Timothy J Close, Muharrem Dilbirligi, Kulvinder S Gill, Camille Steber, Mary K Walker-Simmons, Patrick E McGuire, Calvin O Qualset.   

Abstract

The use of DNA sequence-based comparative genomics for evolutionary studies and for transferring information from model species to crop species has revolutionized molecular genetics and crop improvement strategies. This study compared 4485 expressed sequence tags (ESTs) that were physically mapped in wheat chromosome bins, to the public rice genome sequence data from 2251 ordered BAC/PAC clones using BLAST. A rice genome view of homologous wheat genome locations based on comparative sequence analysis revealed numerous chromosomal rearrangements that will significantly complicate the use of rice as a model for cross-species transfer of information in nonconserved regions.

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Year:  2003        PMID: 12902377      PMCID: PMC403773          DOI: 10.1101/gr.1113003

Source DB:  PubMed          Journal:  Genome Res        ISSN: 1088-9051            Impact factor:   9.043


  38 in total

1.  Physical characterization of the homoeologous group 5 chromosomes of wheat in terms of rice linkage blocks, and physical mapping of some important genes.

Authors:  R N Sarma; L Fish; B S Gill; J W Snape
Journal:  Genome       Date:  2000-02       Impact factor: 2.166

2.  Intraspecific violation of genetic colinearity and its implications in maize.

Authors:  Huihua Fu; Hugo K Dooner
Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-11       Impact factor: 11.205

3.  Development of a chromosomal arm map for wheat based on RFLP markers.

Authors:  J A Anderson; Y Ogihara; M E Sorrells; S D Tanksley
Journal:  Theor Appl Genet       Date:  1992-05       Impact factor: 5.699

4.  Rapid reorganization of resistance gene homologues in cereal genomes.

Authors:  D Leister; J Kurth; D A Laurie; M Yano; T Sasaki; K Devos; A Graner; P Schulze-Lefert
Journal:  Proc Natl Acad Sci U S A       Date:  1998-01-06       Impact factor: 11.205

Review 5.  Centromeric sites and cereal chromosome evolution.

Authors:  G Moore; M Roberts; L Aragon-Alcaide; T Foote
Journal:  Chromosoma       Date:  1997-04       Impact factor: 4.316

6.  Genetic map of diploid wheat, Triticum monococcum L., and its comparison with maps of Hordeum vulgare L.

Authors:  J Dubcovsky; M C Luo; G Y Zhong; R Bransteitter; A Desai; A Kilian; A Kleinhofs; J Dvorák
Journal:  Genetics       Date:  1996-06       Impact factor: 4.562

7.  The colinearity of the Sh2/A1 orthologous region in rice, sorghum and maize is interrupted and accompanied by genome expansion in the triticeae.

Authors:  Wanlong Li; Bikram S Gill
Journal:  Genetics       Date:  2002-03       Impact factor: 4.562

8.  An ordered comparative map of the cattle and human genomes.

Authors:  M R Band; J H Larson; M Rebeiz; C A Green; D W Heyen; J Donovan; R Windish; C Steining; P Mahyuddin; J E Womack; H A Lewin
Journal:  Genome Res       Date:  2000-09       Impact factor: 9.043

9.  Inferences on the genome structure of progenitor maize through comparative analysis of rice, maize and the domesticated panicoids.

Authors:  W A Wilson; S E Harrington; W L Woodman; M Lee; M E Sorrells; S R McCouch
Journal:  Genetics       Date:  1999-09       Impact factor: 4.562

10.  A draft sequence of the rice genome (Oryza sativa L. ssp. japonica).

Authors:  Stephen A Goff; Darrell Ricke; Tien-Hung Lan; Gernot Presting; Ronglin Wang; Molly Dunn; Jane Glazebrook; Allen Sessions; Paul Oeller; Hemant Varma; David Hadley; Don Hutchison; Chris Martin; Fumiaki Katagiri; B Markus Lange; Todd Moughamer; Yu Xia; Paul Budworth; Jingping Zhong; Trini Miguel; Uta Paszkowski; Shiping Zhang; Michelle Colbert; Wei-lin Sun; Lili Chen; Bret Cooper; Sylvia Park; Todd Charles Wood; Long Mao; Peter Quail; Rod Wing; Ralph Dean; Yeisoo Yu; Andrey Zharkikh; Richard Shen; Sudhir Sahasrabudhe; Alun Thomas; Rob Cannings; Alexander Gutin; Dmitry Pruss; Julia Reid; Sean Tavtigian; Jeff Mitchell; Glenn Eldredge; Terri Scholl; Rose Mary Miller; Satish Bhatnagar; Nils Adey; Todd Rubano; Nadeem Tusneem; Rosann Robinson; Jane Feldhaus; Teresita Macalma; Arnold Oliphant; Steven Briggs
Journal:  Science       Date:  2002-04-05       Impact factor: 47.728

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  187 in total

1.  Microcolinearity between a 2-cM region encompassing the grain protein content locus Gpc-6B1 on wheat chromosome 6B and a 350-kb region on rice chromosome 2.

Authors:  Assaf Distelfeld; Cristobal Uauy; Sofia Olmos; Ana R Schlatter; Jorge Dubcovsky; Tzion Fahima
Journal:  Funct Integr Genomics       Date:  2004-01-30       Impact factor: 3.410

2.  In silico comparative analysis reveals a mosaic conservation of genes within a novel colinear region in wheat chromosome 1AS and rice chromosome 5S.

Authors:  Romain Guyot; Nabila Yahiaoui; Catherine Feuillet; Beat Keller
Journal:  Funct Integr Genomics       Date:  2004-02-06       Impact factor: 3.410

3.  Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates.

Authors:  Eduard D Akhunov; Alina R Akhunova; Anna M Linkiewicz; Jorge Dubcovsky; David Hummel; Gerry Lazo; Shiaoman Chao; Olin D Anderson; Jacques David; Lili Qi; Benjamin Echalier; Bikram S Gill; J Perry Gustafson; Mauricio La Rota; Mark E Sorrells; Deshui Zhang; Henry T Nguyen; Venugopal Kalavacharla; Khwaja Hossain; Shahryar F Kianian; Junhua Peng; Nora L V Lapitan; Emily J Wennerlind; Vivienne Nduati; James A Anderson; Deepak Sidhu; Kulvinder S Gill; Patrick E McGuire; Calvin O Qualset; Jan Dvorak
Journal:  Proc Natl Acad Sci U S A       Date:  2003-09-05       Impact factor: 11.205

Review 4.  Comparative genomics: methods and applications.

Authors:  Bernhard Haubold; Thomas Wiehe
Journal:  Naturwissenschaften       Date:  2004-06-25

5.  Leaf-rust resistance in rye (Secale cereale L.). 2. Genetic analysis and mapping of resistance genes Pr3, Pr4, and Pr5.

Authors:  S R Roux; B Hackauf; A Linz; B Ruge; B Klocke; P Wehling
Journal:  Theor Appl Genet       Date:  2004-09-18       Impact factor: 5.699

6.  Comparative organization of wheat homoeologous group 3S and 7L using wheat-rice synteny and identification of potential markers for genes controlling xanthophyll content in wheat.

Authors:  Michael Francki; Meredith Carter; Karon Ryan; Adam Hunter; Matthew Bellgard; Rudi Appels
Journal:  Funct Integr Genomics       Date:  2004-04-23       Impact factor: 3.410

Review 7.  Molecular markers from the transcribed/expressed region of the genome in higher plants.

Authors:  P K Gupta; S Rustgi
Journal:  Funct Integr Genomics       Date:  2004-04-17       Impact factor: 3.410

8.  Comparative mapping of wheat chromosome 1AS which contains the tiller inhibition gene (tin) with rice chromosome 5S.

Authors:  W Spielmeyer; R A Richards
Journal:  Theor Appl Genet       Date:  2004-09-22       Impact factor: 5.699

9.  Genomic associations for drought tolerance on the short arm of wheat chromosome 4B.

Authors:  Suhas Kadam; Kalpana Singh; Sanyukta Shukla; Sonia Goel; Prashant Vikram; Vasantrao Pawar; Kishor Gaikwad; Renu Khanna-Chopra; Nagendra Singh
Journal:  Funct Integr Genomics       Date:  2012-04-05       Impact factor: 3.410

10.  Association between seed dormancy and pericarp color is controlled by a pleiotropic gene that regulates abscisic acid and flavonoid synthesis in weedy red rice.

Authors:  Xing-You Gu; Michael E Foley; David P Horvath; James V Anderson; Jiuhuan Feng; Lihua Zhang; Chase R Mowry; Heng Ye; Jeffrey C Suttle; Koh-ichi Kadowaki; Zongxiang Chen
Journal:  Genetics       Date:  2011-09-27       Impact factor: 4.562

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