197 Publications (Page 1 of 8)
2017
Comparative mitogenomics indicates respiratory competence in parasitic Viscum despite loss of complex I and extreme sequence divergence, and reveals horizontal gene transfer and remarkable variation in genome size
Skippington, Elizabeth⋅Barkman, Todd J⋅Rice, Danny W and Palmer, Jeffrey D
BMC plant biology, vol. 17, (no. 1), pp. 49, 2017-02-21. | Journal Article
2015
Homologous recombination and retention of a single form of most genes shape the highly chimeric mitochondrial genome of a cybrid plant.
Sanchez-Puerta, M Virginia⋅Zubko, Mikhajlo K and Palmer, Jeffrey D
The New phytologist, vol. 206, (no. 1), pp. 381-396, April 2015. | Journal Article
 
The Complete Moss Mitochondrial Genome in the Angiosperm Amborella Is a Chimera Derived from Two Moss Whole-Genome Transfers
Taylor, Z Nathan⋅Rice, Danny W and Palmer, Jeffrey D
PloS one, vol. 10, (no. 11), pp. e0137532, 2015-00-00. | Journal Article
2013
Horizontal Transfer of Entire Genomes via Mitochondrial Fusion in the Angiosperm Amborella
Rice, Danny⋅Alverson, Andrew⋅Richardson, Aaron O⋅Young, Gregory J⋅Sanchez-Puerta, M. V⋅Munzinger, Jérôme⋅Barry, Kerrie⋅Boore, Jeffrey L⋅Zhang, Yan⋅De Pamphilis, Claude W⋅Knox, Eric B and Palmer, Jeffrey D
Science, vol. 342, (no. 6165), pp. 1468-1473, Dec 20, 2013. | Journal Article
 
The Amborella Genome and the Evolution of Flowering Plants
Albert, Victor A⋅Albert, Victor A⋅DePamphilis, C.W.⋅Barbazuk, W Bradley⋅Palmer, J.D.⋅Barbazuk, W. B⋅Rounsley, S.⋅De Pamphilis, Claude W⋅Depamphilis, Claude W⋅Der, Joshua P⋅Sankoff, D.⋅Der, Joshua P⋅Leebens Mack, James⋅Schuster, S.C.⋅Leebens-Mack, James⋅Ammiraju, J.S.S.⋅Ma, Hong⋅Ma, Hong⋅Palmer, Jeffrey D⋅Palmer, Jeffrey D⋅Barbazuk, W.B.⋅Chamala, S.⋅Rounsley, Steve⋅Rounsley, Steve⋅Sankoff, David⋅Chanderbali, A.S.⋅Sankoff, David⋅Schuster, Stephan⋅Determann, R.⋅Schuster, Stephan C⋅Hong, M.⋅others⋅Soltis, Douglas E⋅Soltis, P.⋅Ralph, P.⋅Talag, J.⋅Wessler, Susan R⋅Wing, Rod A⋅Tomsho, L.⋅Walts, B.⋅Wanke, S.⋅Wing, R.A.⋅Chang, T.-H.⋅Lan, T.⋅Soltis, D.E.⋅Arikit, S.⋅Axtell, M.J.⋅Ayyampalayam, S.⋅Burnette III, J.M.⋅De Paoli, E.⋅Farrell, N.P.⋅Harkess, A.⋅Jiao, Y.⋅Leebens-Mack, J.⋅Liu, K.⋅Mei, W.⋅Meyers, B.C.⋅Shahid, S.⋅Wafula, E.⋅Wessler, S.R.⋅Zhai, J.⋅Zhang, X.⋅Albert, V.A.⋅Carretero-Paulet, L.⋅Lyons, E.⋅Tang, H.⋅Zheng, C.⋅Altman, N.S.⋅Chen, F.⋅Chen, J.-Q.⋅Chiang, V.⋅Der, J.P.⋅Fogliani, B.⋅Guo, C.⋅Harholt, J.⋅Job, C.⋅Job, D.⋅Kim, S.⋅Kong, H.⋅Li, G.⋅Li, N.⋅Liu, J.⋅Park, J.⋅Qi, X.⋅Rajjou, L.⋅Burtet-Sarramegna, V.⋅Sederoff, R.⋅Sun, Y.-H.⋅Ulvskov, P.⋅Villegente, M.⋅Xue, J.-Y.⋅Yeh, T.-F.⋅Yu, X.⋅Acosta, J.J.⋅Bruenn, R.A.⋅De Kochko, A.⋅Herrera-Estrella, L.R.⋅Ibarra-Laclette, E.⋅Kirst, M.⋅Pissis, S.P.⋅Poncet, V. and Soltis, P.S.
Science, vol. 342, (no. 6165), pp. n/a, Dec 20, 2013. | Journal Article
 
The "fossilized" mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate.
Richardson, Aaron O⋅Richardson, Aaron O⋅Rice, Danny W⋅Rice, Danny⋅Young, Gregory J⋅Young, Gregory J⋅Alverson, Andrew J⋅Alverson, Andrew⋅Palmer, Jeffrey D and Palmer, Jeffrey D
BMC biology, vol. 11, pp. 29, 2013. | Journal Article
 
Unique role for translation initiation factor 3 in the light color regulation of photosynthetic gene expression
Gutu, Andrian⋅Gutu, Andrian⋅Nesbit, April D⋅Nesbit, April⋅Alverson, Andrew⋅Alverson, Andrew⋅Palmer, Jeffrey⋅Palmer, Jeffrey D⋅Kehoe, David and Kehoe, David M
Proceedings of the National Academy of Sciences of the United States of America, vol. 110, (no. 40), Oct 1, 2013. | Journal Article
2012
Rapid evolution of enormous, multichromosomal genomes in flowering plant mitochondria with exceptionally high mutation rates.
Sloan, Daniel B⋅Sloan, Daniel B⋅Alverson, Andrew⋅Alverson, Andrew J⋅Chuckalovcak, John P⋅Chuckalovcak, John P⋅Wu, Martin⋅Wu, Martin⋅Mc Cauley, David E⋅McCauley, David E⋅Palmer, Jeffrey D⋅Palmer, Jeffrey D⋅Taylor, Douglas R and Taylor, Douglas R
PLoS biology, vol. 10, (no. 1), pp. e1001241, 2012/Jan. | Journal Article
 
Recent acceleration of plastid sequence and structural evolution coincides with extreme mitochondrial divergence in the angiosperm genus Silene.
Sloan, Daniel B⋅Alverson, Andrew⋅Wu, Martin⋅Palmer, Jeffrey D and Taylor, Douglas R
Genome biology and evolution, vol. 4, (no. 3), pp. 294-306, 2012. | Journal Article
2011
Origins and Recombination of the Bacterial-Sized Multichromosomal Mitochondrial Genome of Cucumber
Alverson, Andrew⋅Alverson, Andrew⋅Rice, Danny⋅Rice, Danny⋅Dickinson, Stephanie⋅Dickinson, Stephanie⋅Barry, Kerrie⋅Barry, Kerrie⋅Palmer, Jeffrey D and Palmer, Jeffrey
Plant Cell, vol. 23, (no. 7), pp. 2499-2513, 2011. | Journal Article
 
Origins and Recombination of the Bacterial-Sized Multichromosomal Mitochondrial Genome of Cucumber(C)(W)
Alverson, Andrew⋅Rice, Danny W⋅Dickinson, Stephanie⋅Barry, Kerrie and Palmer, Jeffrey D
Plant Cell, vol. 23, (no. 7), pp. 2499-2513A, Jul 2011. | Journal Article
 
The Mitochondrial Genome of the Legume Vigna radiata and the Analysis of Recombination across Short Mitochondrial Repeats
Alverson, Andrew⋅Alverson, Andrew J⋅Shi, Zhuo⋅Zhuo, Shi⋅Rice, Danny W⋅Rice, Danny⋅Sloan, Daniel B⋅Sloan, Daniel B⋅Palmer, Jeffrey D and Palmer, Jeffrey D
PLoS ONE, vol. 6, (no. 1), 2011. | Journal Article
2010
Extensive loss of RNA editing sites in rapidly evolving Silene mitochondrial genomes: selection vs. retroprocessing as the driving force.
Sloan, Daniel B⋅Sloan, Daniel B⋅MacQueen, Alice H⋅MacQueen, Alice H⋅Alverson, Andrew⋅Alverson, Andrew J⋅Palmer, Jeffrey D⋅Palmer, Jeffrey D⋅Taylor, Douglas R and Taylor, Douglas R
Genetics, vol. 185, (no. 4), pp. 1369-80, 2010/Aug. | Journal Article
 
Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm Silene latifolia
Sloan, Daniel B⋅Sloan, Daniel B⋅Alverson, Andrew⋅Alverson, Andrew J⋅Storchová, Helena⋅Storchová, Helena⋅Storchova, Helena⋅Palmer, Jeffrey D⋅Palmer, Jeffrey D⋅Taylor, Douglas R and Taylor, Douglas R
BMC Evolutionary Biology, vol. 10, pp. 274-274, 2010. | Journal Article
 
Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm Silene latifolia.
Sloan, Daniel B⋅Alverson, Andrew⋅Storchová, Helena⋅Palmer, Jeffrey D and Taylor, Douglas R
BMC evolutionary biology, vol. 10, pp. 274, 2010. | Journal Article
 
Gorgeous mosaic of mitochondrial genes created by horizontal transfer and gene conversion.
Hao, Weilong⋅Richardson, Aaron O⋅Zheng, Yihong and Palmer, Jeffrey D
Proceedings of the National Academy of Sciences of the United States of America, vol. 107, (no. 50), pp. 21576-81, 2010/Dec/14. | Journal Article
 
Horizontal acquisition of multiple mitochondrial genes from a parasitic plant followed by gene conversion with host mitochondrial genes.
Mower, Jeffrey P⋅Stefanovic, Sasa⋅Hao, Weilong⋅Gummow, Julie S⋅Jain, Kanika⋅Ahmed, Dana and Palmer, Jeffrey D
BMC biology, vol. 8, pp. 150, 2010. | Journal Article
 
Insights into the evolution of mitochondrial genome size from complete sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae).
Alverson, Andrew⋅Wei, XiaoXin⋅Rice, Danny⋅Stern, David B⋅Barry, Kerrie and Palmer, Jeffrey D
Molecular biology and evolution, vol. 27, (no. 6), pp. 1436-48, 2010/Jun. | Journal Article
 
Localized hypermutation and associated gene losses in legume chloroplast genomes.
Magee, Alan M⋅Aspinall, Sue⋅Rice, Danny⋅Cusack, Brian P⋅Sémon, Marie⋅Perry, Antoinette S⋅Stefanovic, Sasa⋅Milbourne, Dan⋅Barth, Susanne⋅Palmer, Jeffrey D⋅Gray, John⋅Kavanagh, Tony A and Wolfe, Kenneth
Genome research, vol. 20, (no. 12), pp. 1700-10, 2010/Dec. | Journal Article
2009
Fine-scale mergers of chloroplast and mitochondrial genes create functional, transcompartmentally chimeric mitochondrial genes
Hao, Weilong and Palmer, Jeffrey D
Proceedings of the National Academy of Sciences, USA, vol. 106, (no. 39), pp. 16728-16733, 2009. | Journal Article
 
Relationships Among Phaseoloid Legumes Based on Sequences from Eight Chloroplast Regions.
Stefanovic, Sasa⋅Pfeil, Bernard⋅Palmer, Jeffrey D and Doyle, Jeff J
Systematic botany., vol. 34, (no. 1), pp. 115-128, 2009. | Journal Article
2008
Frequent, Phylogenetically Local Horizontal Transfer of the cox1 Group I Intron in Flowering Plant Mitochondria
Sanchez-Puerta, M. V⋅Cho, Yangrae⋅Mower, Jeffrey P⋅Alverson, Andrew and Palmer, Jeffrey D
Molecular Biology and Evolution, vol. 25, (no. 8), pp. 1762-77, Aug 2008. | Journal Article
 
Horizontal gene transfer in eukaryotic evolution
Keeling, Patrick J and Palmer, Jeffrey D
Nature Reviews: Drug Discovery, vol. 7, (no. 8), pp. 605-618, 2008. | Journal Article
 
The Amborella genome: an evolutionary reference for plant biology
Soltis, Douglas E⋅Albert, Victor A⋅Leebens Mack, Jim⋅Palmer, Jeffrey D⋅Wing, Rod A⋅De Pamphilis, Claude W⋅Ma, Hong⋅Carlson, John⋅Altman, Naomi S⋅Kim, Sangtae⋅Wall, P. K⋅Zuccolo, Andrea and Soltis, P.
Genome Biology, vol. 9, (no. 3), pp. 402-402, 2008. | Journal Article
 
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
Ming, R.⋅Ming, Ray⋅Hou, Shaobin⋅Hou, S.⋅Feng, Y.⋅Feng, Yun⋅Yu, Qingyi⋅Yu, Q.⋅Dionne-Laporte, Alexandre⋅Dionne-Laporte, A.⋅Saw, Jimmy H⋅Saw, J.H.⋅Senin, P.⋅Senin, Pavel⋅Wang, Wei⋅Wang, W.⋅Ly, B.V.⋅Ly, Benjamin V⋅Lewis, K.L.T.⋅Lewis, Kanako L⋅Salzberg, Steven L⋅Salzberg, S.L.⋅Feng, L.⋅Feng, Lu⋅Jones, M.R.⋅Jones, Meghan R⋅Skelton, R.L.⋅Skelton, Rachel L⋅Murray, J.E.⋅Murray, Jan E⋅Chen, C.⋅Chen, Cuixia⋅Qian, Wubin⋅Qian, W.⋅Shen, J.⋅Shen, Junguo⋅Du, P.⋅Du, Peng⋅Eustice, Moriah⋅Eustice, M.⋅Tong, E.⋅Tong, Eric⋅Tang, H.⋅Tang, Haibao⋅Lyons, Eric⋅Lyons, E.⋅Paull, Robert E⋅Paull, R.E.⋅Michael, Todd P⋅Michael, T.P.⋅Wall, Kerr⋅Wall, K.⋅Rice, Danny⋅Rice, D.W.⋅Albert, H.⋅Albert, Henrik H⋅Wang, M.-L.⋅Wang, Ming Li⋅Zhu, Y.J.⋅Zhu, Judy⋅Schatz, Michael⋅Schatz, M.⋅Nagarajan, Niranjan⋅Nagarajan, N.⋅Acob, Ricelle A⋅Acob, R.A.⋅Guan, P.⋅Guan, Peizhu⋅Blas, A.⋅Blas, Andrea⋅Wai, Ching M⋅Wai, C.M.⋅Ackerman, Christine M⋅Ackerman, C.M.⋅Ren, Yan⋅Ren, Y.⋅Liu, C.⋅Liu, Chao⋅Wang, J.⋅Wang, Jianmei⋅Wang, Jianping⋅Wang, J.⋅Na, J.-K.⋅Na, Jong-Kuk⋅Shakirov, Eugene V⋅Shakirov, E.V.⋅Haas, Brian⋅Haas, B.⋅Thimmapuram, J.⋅Thimmapuram, Jyothi⋅Nelson, D.⋅Nelson, David L⋅Wang, Xiyin⋅Wang, X.⋅Bowers, John E⋅Bowers, J.E.⋅Gschwend, A.R.⋅Gschwend, Andrea R⋅Delcher, Arthur L⋅Delcher, A.L.⋅Singh, R.⋅Singh, Ratnesh⋅Suzuki, J.Y.⋅Suzuki, Jon Y⋅Tripathi, S.⋅Tripathi, Savarni⋅Neupane, K.⋅Neupane, Kabi⋅Wei, H.⋅Wei, Hairong⋅Irikura, Beth⋅Irikura, B.⋅Paidi, Maya⋅Paidi, M.⋅Jiang, Ning⋅Jiang, N.⋅Zhang, Wenli⋅Zhang, W.⋅Presting, Gernot⋅Presting, G.⋅Windsor, Aaron⋅Windsor, A.⋅Navajas-Pérez, R.⋅Navajas-Perez, Rafael⋅Torres, Manuel J⋅Torres, M.J.⋅Feltus, FAlex⋅Feltus, F.A.⋅Porter, B.⋅Porter, Brad⋅Li, Y.⋅Li, Yingjun⋅Burroughs, A.M.⋅Burroughs, AMax⋅Luo, Mingcheng⋅Luo, M.-C.⋅Liu, L.⋅Liu, Lei⋅Christopher, David A⋅Christopher, D.A.⋅Mount, Stephen M⋅Mount, S.M.⋅Moore, Paul H⋅Moore, P.H.⋅Sugimura, T.⋅Sugimura, Tak⋅Jiang, J.⋅Jiang, Jiming⋅Schuler, Mary A⋅Schuler, M.A.⋅Friedman, Vikki⋅Friedman, V.⋅Mitchell Olds, Thomas⋅Mitchell-Olds, T.⋅Shippen, Dorothy E⋅Shippen, D.E.⋅De Pamphilis, Claude W⋅Depamphilis, C.W.⋅Palmer, Jeffrey D⋅Palmer, J.D.⋅Freeling, M.⋅Freeling, Michael⋅Paterson, Andrew⋅Paterson, A.H.⋅Gonsalves, Dennis⋅Gonsalves, D.⋅Wang, Lei⋅Wang, L.⋅Alam, Maqsudul and Alam, M.
Nature, vol. 452, (no. 7190), pp. 991-996, 2008. | Journal Article