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Items: 13

1.

A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure.

Zuccolo A, Bowers JE, Estill JC, Xiong Z, Luo M, Sebastian A, Goicoechea JL, Collura K, Yu Y, Jiao Y, Duarte J, Tang H, Ayyampalayam S, Rounsley S, Kudrna D, Paterson AH, Pires JC, Chanderbali A, Soltis DE, Chamala S, Barbazuk B, Soltis PS, Albert VA, Ma H, Mandoli D, Banks J, Carlson JE, Tomkins J, dePamphilis CW, Wing RA, Leebens-Mack J.

Genome Biol. 2011;12(5):R48. doi: 10.1186/gb-2011-12-5-r48. Epub 2011 May 27.

2.

A draft physical map of a D-genome cotton species (Gossypium raimondii).

Lin L, Pierce GJ, Bowers JE, Estill JC, Compton RO, Rainville LK, Kim C, Lemke C, Rong J, Tang H, Wang X, Braidotti M, Chen AH, Chicola K, Collura K, Epps E, Golser W, Grover C, Ingles J, Karunakaran S, Kudrna D, Olive J, Tabassum N, Um E, Wissotski M, Yu Y, Zuccolo A, ur Rahman M, Peterson DG, Wing RA, Wendel JF, Paterson AH.

BMC Genomics. 2010 Jun 22;11:395. doi: 10.1186/1471-2164-11-395.

3.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

4.

Exceptional diversity, non-random distribution, and rapid evolution of retroelements in the B73 maize genome.

Baucom RS, Estill JC, Chaparro C, Upshaw N, Jogi A, Deragon JM, Westerman RP, Sanmiguel PJ, Bennetzen JL.

PLoS Genet. 2009 Nov;5(11):e1000732. doi: 10.1371/journal.pgen.1000732. Epub 2009 Nov 20.

5.

The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes.

Estill JC, Bennetzen JL.

Plant Methods. 2009 Jun 19;5:8. doi: 10.1186/1746-4811-5-8.

6.

Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome.

Baucom RS, Estill JC, Leebens-Mack J, Bennetzen JL.

Genome Res. 2009 Feb;19(2):243-54. doi: 10.1101/gr.083360.108. Epub 2008 Nov 24.

7.

Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon.

Paterson AH, Chapman BA, Kissinger JC, Bowers JE, Feltus FA, Estill JC.

Trends Genet. 2006 Nov;22(11):597-602. Epub 2006 Sep 18. Review.

PMID:
16979781
8.

A framework linkage map of bermudagrass (Cynodon dactylon x transvaalensis) based on single-dose restriction fragments.

Bethel CM, Sciara EB, Estill JC, Bowers JE, Hanna W, Paterson AH.

Theor Appl Genet. 2006 Feb;112(4):727-37. Epub 2006 Jan 5.

PMID:
16395568
9.

Organization and evolution of resistance gene analogs in peanut.

Yuksel B, Estill JC, Schulze SR, Paterson AH.

Mol Genet Genomics. 2005 Oct;274(3):248-63. Epub 2005 Oct 20.

PMID:
16179993
10.

Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses.

Bowers JE, Arias MA, Asher R, Avise JA, Ball RT, Brewer GA, Buss RW, Chen AH, Edwards TM, Estill JC, Exum HE, Goff VH, Herrick KL, Steele CL, Karunakaran S, Lafayette GK, Lemke C, Marler BS, Masters SL, McMillan JM, Nelson LK, Newsome GA, Nwakanma CC, Odeh RN, Phelps CA, Rarick EA, Rogers CJ, Ryan SP, Slaughter KA, Soderlund CA, Tang H, Wing RA, Paterson AH.

Proc Natl Acad Sci U S A. 2005 Sep 13;102(37):13206-11. Epub 2005 Sep 2.

11.

Comparative genomics of Gossypium and Arabidopsis: unraveling the consequences of both ancient and recent polyploidy.

Rong J, Bowers JE, Schulze SR, Waghmare VN, Rogers CJ, Pierce GJ, Zhang H, Estill JC, Paterson AH.

Genome Res. 2005 Sep;15(9):1198-210. Epub 2005 Aug 18.

12.

An SNP resource for rice genetics and breeding based on subspecies indica and japonica genome alignments.

Feltus FA, Wan J, Schulze SR, Estill JC, Jiang N, Paterson AH.

Genome Res. 2004 Sep;14(9):1812-9.

13.

Structure and evolution of cereal genomes.

Paterson AH, Bowers JE, Peterson DG, Estill JC, Chapman BA.

Curr Opin Genet Dev. 2003 Dec;13(6):644-50. Review.

PMID:
14638328

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