Publications

Publications

  1. Stein JC, Yu Y, Copetti D, Zwickl D, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, Becker C, Kudrna D, Zhang J, Londono CEM, Song X, Lee S, Sanchez P, Zuccolo A, Ammiraju JSS, Talag J, Danowitz A, Rivera LF, Gschwend AR, Noutsos C, Wu CC, Kao SM, Zeng JW, Wei FJ, Zhao Q, Feng Q, El Baidouri M, Carpentier MC, Lasserre E, Cooke R, Farias DR, da Maia LC, dos Santos RS, Nyberg KG,  McNally KL, Mauleon R, Alexandrov N, Schmutz J, Flowers D, Fan C, Weigel D, Jena KK, Wicker T, Chen M, Han B, Henry R, Hsing YC, Kurata N, Costa de Oliveira A, Panaud O, Jackson SA, Machado CA, Sanderson MJ, Long M, Ware D, Wing RA. (2018) Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza.  Nature Genetics  50: 285-296. 
  2. Zhang W, Landback P, Gschwend AR, Shen B, Long M (2015) New genes drive the evolution of gene interaction networks in the human and mouse genomesGenome Biol 16: 202.
  3. VanBuren R*, Zeng F*, Chen C*, Zhang J*, Wai CM, Han J, Aryal R, Gschwend AR, Wang J, Na J-K, Huang L, Zhang L, Miao W, Gou J, Arro J, Guyot R, Moore RC, Wang M-L, Zee F, Charlesworth D, Moore PH, Yu Q, Ming R (2015) Origin and domestication of papaya Yh chromosomeGenome Res 25(4): 524-53.
  4. Zhang C, Gschwend AR, Ouyang Y, Long M (2014) Evolution of gene structural complexity: an alternative-splicing-based model accounts for intron-containing retrogenesPlant Phys 165(1): 412-423.
  5. Ming R*, VanBuren R*, Liu Y*, Yang M*, Han Y, Li L-T, Zhang Q, Kim M-J, Schatz MC, Campbell M, Li J, Bowers JE, Tang H, Lyons E, Ferguson AA, Narzisi G, Nelson DR, Blaby-Haas CE, Gschwend AR, Jiao Y, Der JP, Zeng F, Han J, Min X, Hudson KA, Singh R, Grennan AK, Karpowicz SJ, Watling JR, Ito K, Robinson SA, Hudson ME, Yu Q, Mockler TC, Carroll A, Zheng Y, Sunkar R, Jia R, Chen N, Arro J, Wai CM, Wafula E, Spence A, Han Y, Xu L, Zhang J, Peery R, Haus MJ, Xiong W, Walsh JA, Wu J, Wang M-L, Zhu YJ, Paull RE, Britt AB, Du C, Downie SR, Schuler MA, Michael TP, Long SP, Ort DR, Schopf JW, Gang DR, Jiang N, Yandell M, dePamphilis CW, Merchant SS, Paterson AH, Buchanan BB, Li S, Shen-Miller J (2013) Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.) Genome Biol 14(5): DOI: 10.1186/gb-2013-14-5-r41.
  6. Gschwend AR, Wai CM, Zee F, Arumuganathan AK, Ming R (2013) Genome size variation among sex types in dioecious and trioecious Caricaceae species. Euphytica 189(3):461-469.
  7. Gschwend AR, Yu Q, Tong EJ, Zeng F, Han J, VanBuren R, Aryal R, Charlesworth D, Moore PH, Paterson AH, Ming R (2012)  Rapid divergence and expansion of the X chromosome in papayaProc Natl Acad Sci USA 109 (34): 13716-13721. (cover story)
  8. Wang J*, Na J-K*, Yu Q*, Gschwend AR*, Han J, Zeng F, Aryal R, VanBuren R, Murray JE, Zhang W, Navajas-Pérez R, Feltus FA, Lemke C, Tong EJ, Chen C, Wai CM, Singh R, Wang M-L, Min X, Alam M, Charlesworth D, Moore PH, Jiang J, Paterson AH, Ming R (2012)  Sequencing papaya X and Yh chromosomes reveals molecular basis of incipient sex chromosome evolution. Proc Natl Acad Sci USA 109 (34): 13710-13715.  
  9. Gschwend AR, Weingartner LA, Moore RC, Ming R (2012)  The sex-specific region of sex chromosomes in animals and plantsChromosome Res 20: 57-69.
  10. Na J-K, Wang J, Murray JE, Gschwend AR, Zhang W, Yu Q, Navajas-Pérez R, Chen C, Kubat Z, Moore PH, Jiang J, Paterson AH, Ming R (2012)  Construction of physical maps for sex-specific regions of papaya sex chromosomesBMC Genomics 13: 176.
  11. Gschwend AR, Ming R  Papaya sex chromosomes, In: New insights on plant sex chromosomes, ed Navajas-Pérez, R. (Nova Science Publishers, Hauppauge, NY, 2011).  
  12.  Diggle PK, Di Stillo VS, Gschwend AR, Golenberg EM, Moore RC, Russell JRW, Sinclair JP (2011)  Multiple developmental processes underlie sex differentiation in angiospermsTrends Genet 27(9): 368-376.  (Authors listed alphabetically).
  13. Gschwend AR, Yu Q, Moore P, Saski C, Chen C, Wang J, Na J-K, Ming R (2011)  Construction of papaya male and female BAC libraries and application in physical mapping of the sex chromosomes.  J Biomed Biotechnol DOI: 10.1155/2011/929472.
  14. Paull RE, Irikura B, Wu P, Turano H, Chen NJ, Blas A, Fellman JK, Gschwend AR, Wai CM, Yu Q, Presting G, Alam M, Ming R (2008)  Fruit development, ripening and quality related genes in the papaya genomeTrop Plant Biol 1: 246-277.
  15. Ming R*, Hou S*, Feng Y*, Yu Q*, Dionne-Laporte A, Saw JH, Senin P, WangW, Ly BV, Lweis KLT, Salzberg SL, Feng L, Jones MR, Skelton RL, Murray JE, Chen C, Qian W, Shen J, Du P, Eustice M, Tong E, Tang H, Lyons E, Paull RE, Michael TP, Wall K, Rice D, Albert H, Wang ML, Zhu YJ, Schatz M, Nagarajan N, Acob RA, Guan P, Blas A, Wai CM, Ackerman CM, Ren Y, Liu C, Wang J, Na JK, Shakirov EV, Haas B, Thimmapuram J, Nelson D, Wang X, Bowers JE, Gschwend AR, Delcher AL, Singh R, Suzuki JY, Tripathi S, Neupane K, Wei H, Irikura B, Paidi M, Jiang N, Zhang W, Presting G, Windsor A, Navajas-Pérez R, Torres MJ, Feltus FA, Porter B, Li Y, Burroughs M, Luo MC, Liu L, Christopher DA, Mount SM, Moore PH, Sugimura T, Jiang J, Schuler MA, Friedman V, Mitchell-Olds T, Shippen DE, dePamphilis C,  Palmer JD, Freeling M, Paterson AH, Gonsalves D, Wang L, and Alam M (2008)  The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)Nature 452: 991-997. (cover story)