User:Andrew J. Alverson

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# Sloan, D. B., <strong>A. J. Alverson</strong>, M. Wu, J. D. Palmer, and D. R. Taylor. Recent acceleration of plastid sequence and structural evolution coincides with extreme mitochondrial divergence within the angiosperm genus ''Silene''. Genome Biology and Evolution 4, 294-306. [http://dx.doi.org/10.1093/gbe/evs006 doi: 10.1093/gbe/evs006]
# Sloan, D. B., <strong>A. J. Alverson</strong>, M. Wu, J. D. Palmer, and D. R. Taylor. Recent acceleration of plastid sequence and structural evolution coincides with extreme mitochondrial divergence within the angiosperm genus ''Silene''. Genome Biology and Evolution 4, 294-306. [http://dx.doi.org/10.1093/gbe/evs006 doi: 10.1093/gbe/evs006]
# Sloan, D. B., <strong>A. J. Alverson</strong>, J. P. Chuckalovcak, M. Wu, D. E. McCauley, J. D. Palmer, and D. R. Taylor. Rapid evolution of enormous, multichromosomal genomes in flowering plants. PLoS Biology 10(1): e1001241 [http://dx.doi.org/10.1371/journal.pbio.1001241 doi: 10.1371/journal.pbio.1001241] [http://f1000.com/13755957 F1000]
# Sloan, D. B., <strong>A. J. Alverson</strong>, J. P. Chuckalovcak, M. Wu, D. E. McCauley, J. D. Palmer, and D. R. Taylor. Rapid evolution of enormous, multichromosomal genomes in flowering plants. PLoS Biology 10(1): e1001241 [http://dx.doi.org/10.1371/journal.pbio.1001241 doi: 10.1371/journal.pbio.1001241] [http://f1000.com/13755957 F1000]
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# <strong>Alverson, A. J., Rice, D. W., Dickinson, S., Barry, K., and J. D. Palmer. 2011. Origins and recombination of the bacterial-sized multichromosomal mitochondrial genome of cucumber (''Cucumis sativus''). The Plant Cell 23, 2499-2513. [http://dx.doi.org/10.1105/tpc.111.087189 doi: 10.1105/tpc.111.087189]  [http://dx.doi.org/10.1105/tpc.111.230711 Featured article]
+
# <strong>Alverson, A. J.</strong>, D. W. Rice, S. Dickinson, Barry, K., and J. D. Palmer. 2011. Origins and recombination of the bacterial-sized multichromosomal mitochondrial genome of cucumber (''Cucumis sativus''). The Plant Cell 23, 2499-2513. [http://dx.doi.org/10.1105/tpc.111.087189 doi: 10.1105/tpc.111.087189]  [http://dx.doi.org/10.1105/tpc.111.230711 Featured article]
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# <strong>Alverson, A. J., B. Beszteri, M. L. Julius, and E. C. Theriot. 2011. The model marine diatom ''Thalassiosira pseudonana'' likely descended from a freshwater ancestor in the genus ''Cyclotella''. BMC Evol Biol 11, 125. [http://dx.doi.org/10.1186/1471-2148-11-125 doi: 10.1186/1471-2148-11-125]
+
# <strong>Alverson, A. J.</strong>, B. Beszteri, M. L. Julius, and E. C. Theriot. 2011. The model marine diatom ''Thalassiosira pseudonana'' likely descended from a freshwater ancestor in the genus ''Cyclotella''. BMC Evol Biol 11, 125. [http://dx.doi.org/10.1186/1471-2148-11-125 doi: 10.1186/1471-2148-11-125]
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# <strong>A. J. Alverson, S. Zhuo, D. W. Rice, D. B. Sloan, and J. D. Palmer. 2011. The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats. PLoS ONE 6(1): e16404.
+
# <strong>A. J. Alverson</strong>, S. Zhuo, D. W. Rice, D. B. Sloan, and J. D. Palmer. 2011. The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats. PLoS ONE 6(1): e16404.
# <strong>Alverson, A. J.</strong>, X. X. Wei, D. W. Rice, D. B. Stern, K. Barry, and J. D. Palmer. 2010. Insights into the evolution of mitochondrial genome size from complete sequences of ''Citrullus lanatus'' and ''Cucurbita pepo'' (Cucurbitaceae). Mol Biol Evol 27, 1436-1448. [http://dx.doi.org/10.1093/molbev/msq029 doi: 10.1093/molbev/msq029]
# <strong>Alverson, A. J.</strong>, X. X. Wei, D. W. Rice, D. B. Stern, K. Barry, and J. D. Palmer. 2010. Insights into the evolution of mitochondrial genome size from complete sequences of ''Citrullus lanatus'' and ''Cucurbita pepo'' (Cucurbitaceae). Mol Biol Evol 27, 1436-1448. [http://dx.doi.org/10.1093/molbev/msq029 doi: 10.1093/molbev/msq029]
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# Sloan, D. B., MacQueen, A. H., <strong>Alverson, A. J.</strong>, Palmer, J. D., and Taylor, D. R. 2010. Extensive loss of RNA editing sites in rapidly evolving ''Silene'' mitochondrial genomes: selection vs. retroprocessing as the driving force. Genetics 185, 1369-1380. [http://dx.doi.org/10.1534/genetics.110.118000 doi: 10.1534/genetics.110.118000]
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# Sloan, D. B., A. H. MacQueen, <strong>A. J. Alverson</strong>, J. D. Palmer, and D. R. Taylor. 2010. Extensive loss of RNA editing sites in rapidly evolving ''Silene'' mitochondrial genomes: selection vs. retroprocessing as the driving force. Genetics 185, 1369-1380. [http://dx.doi.org/10.1534/genetics.110.118000 doi: 10.1534/genetics.110.118000]
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# Sloan, D. B., <strong>Alverson, A. J.</strong>, Storchova, H., Palmer, J. D., and Taylor, D. R. 2010. Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm ''Silene latifolia''. BMC Evol Biol 10, 274. [http://dx.doi.org/10.1186/1471-2148-10-274 doi: 10.1186/1471-2148-10-274]
+
# Sloan, D. B., <strong>A. J. Alverson</strong>, H. Storchova, J. D. Palmer, and D. R. Taylor. 2010. Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm ''Silene latifolia''. BMC Evol Biol 10, 274. [http://dx.doi.org/10.1186/1471-2148-10-274 doi: 10.1186/1471-2148-10-274]
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# Theriot, E. C., Cannone, J. J., Gutell, R. R., and <strong>A. J. Alverson</strong> 2009. The limits of nuclear-encoded SSU rDNA for resolving the diatom phylogeny. Eur J Phycol 44, 277-290. [http://dx.doi.org/10.1080/09670260902749159 doi: 10.1080/09670260902749159]
+
# Theriot, E. C., J. J. Cannone, R. R. Gutell, and <strong>A. J. Alverson</strong> 2009. The limits of nuclear-encoded SSU rDNA for resolving the diatom phylogeny. Eur J Phycol 44, 277-290. [http://dx.doi.org/10.1080/09670260902749159 doi: 10.1080/09670260902749159]
# <strong>Alverson, A. J.</strong> 2008. Molecular systematics and the diatom species. Protist 159, 339-353. [http://dx.doi.org/10.1016/j.protis.2008.04.001 doi: 10.1016/j.protis.2008.04.001]
# <strong>Alverson, A. J.</strong> 2008. Molecular systematics and the diatom species. Protist 159, 339-353. [http://dx.doi.org/10.1016/j.protis.2008.04.001 doi: 10.1016/j.protis.2008.04.001]
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# Sanchez-Puerta, M. V., Cho, Y., Mower, J. P., Alverson, A. J., and Palmer, J. D. 2008. Frequent, phylogenetically local horizontal transfer of the cox1 group I intron in flowering plant mitochondria. Mol Biol Evol 25, 1762-1777. [http://dx.doi.org/10.1093/molbev/msn129 doi: 10.1093/molbev/msn129]
+
# Sanchez-Puerta, M. V., Y. Cho, J. P. Mower, <strong>A. J. Alverson</strong>, and J. D. Palmer. 2008. Frequent, phylogenetically local horizontal transfer of the cox1 group I intron in flowering plant mitochondria. Mol Biol Evol 25, 1762-1777. [http://dx.doi.org/10.1093/molbev/msn129 doi: 10.1093/molbev/msn129]
# <strong>Alverson, A. J.</strong> 2007. Strong purifying selection in the silicon transporters of marine and freshwater diatoms. Limnol Oceanogr 52, 1420-1429. [http://dx.doi.org/10.4319/lo.2007.52.4.1420 doi: 10.4319/lo.2007.52.4.1420]
# <strong>Alverson, A. J.</strong> 2007. Strong purifying selection in the silicon transporters of marine and freshwater diatoms. Limnol Oceanogr 52, 1420-1429. [http://dx.doi.org/10.4319/lo.2007.52.4.1420 doi: 10.4319/lo.2007.52.4.1420]
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# <strong>Alverson, A. J.</strong>, Jansen, R. K., and Theriot, E. C. 2007. Bridging the Rubicon: Phylogenetic analysis reveals repeated colonizations of marine and fresh waters by thalassiosiroid diatoms. Mol Phylogenet Evol 45, 193-210. [http://dx.doi.org/10.1016/j.ympev.2007.03.024 doi: 10.1016/j.ympev.2007.03.024]
+
# <strong>Alverson, A. J.</strong>, R. K. Jansen, and E. C. Theriot. 2007. Bridging the Rubicon: Phylogenetic analysis reveals repeated colonizations of marine and fresh waters by thalassiosiroid diatoms. Mol Phylogenet Evol 45, 193-210. [http://dx.doi.org/10.1016/j.ympev.2007.03.024 doi: 10.1016/j.ympev.2007.03.024]
-
# <strong>Alverson, A. J.</strong>, Cannone, J. J., Gutell, R. R., and Theriot, E. C. 2006. The evolution of elongate shape in diatoms. J Phycol 42, 655-668. [http://dx.doi.org/10.1111/j.1529-8817.2006.00228.x doi: 10.1111/j.1529-8817.2006.00228.x]
+
# <strong>Alverson, A. J.</strong>, J. J. Cannone, R. R. Gutell, and E. C. Theriot. 2006. The evolution of elongate shape in diatoms. J Phycol 42, 655-668. [http://dx.doi.org/10.1111/j.1529-8817.2006.00228.x doi: 10.1111/j.1529-8817.2006.00228.x]
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# <strong>Alverson, A. J.</strong>, Kang, S.-H., and Theriot, E. C. 2006. Cell wall morphology and systematic importance of ''Thalassiosira ritscheri'' (Hustedt) Hasle, with a description of ''Shionodiscus'' gen. nov. Diatom Res 21, 251-262. [http://dx.doi.org/10.1080/0269249X.2006.9705667 doi: 10.1080/0269249X.2006.9705667]
+
# <strong>Alverson, A. J.</strong>, S-H. Kang, and E. C. Theriot. 2006. Cell wall morphology and systematic importance of ''Thalassiosira ritscheri'' (Hustedt) Hasle, with a description of ''Shionodiscus'' gen. nov. Diatom Res 21, 251-262. [http://dx.doi.org/10.1080/0269249X.2006.9705667 doi: 10.1080/0269249X.2006.9705667]
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# Jansen, R. K., Kaittanis, C., Saski, C., Lee, S. B., Tomkins, J., <strong>Alverson, A. J.</strong>, and Daniell, H. 2006. Phylogenetic analyses of ''Vitis'' (Vitaceae) based on complete chloroplast genome sequences: effects of taxon sampling and phylogenetic methods on resolving relationships among rosids. BMC Evol Biol 6. [http://dx.doi.org/10.1186/1471-2148-6-32 doi: 10.1186/1471-2148-6-32]
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# Jansen, R. K., C. Kaittanis, C. Saski, S. B. Lee, J. Tomkins, <strong>A. J. Alverson</strong>, and H. Daniell. 2006. Phylogenetic analyses of ''Vitis'' (Vitaceae) based on complete chloroplast genome sequences: effects of taxon sampling and phylogenetic methods on resolving relationships among rosids. BMC Evol Biol 6. [http://dx.doi.org/10.1186/1471-2148-6-32 doi: 10.1186/1471-2148-6-32]
# Thamatrakoln, K., <strong>Alverson, A. J.</strong>, and Hildebrand, M. 2006. Comparative sequence analysis of diatom silicon transporters: Toward a mechanistic model of silicon transport. J Phycol 42, 822-834. [http://dx.doi.org/10.1111/j.1529-8817.2006.00233.x doi: 10.1111/j.1529-8817.2006.00233.x]
# Thamatrakoln, K., <strong>Alverson, A. J.</strong>, and Hildebrand, M. 2006. Comparative sequence analysis of diatom silicon transporters: Toward a mechanistic model of silicon transport. J Phycol 42, 822-834. [http://dx.doi.org/10.1111/j.1529-8817.2006.00233.x doi: 10.1111/j.1529-8817.2006.00233.x]
# <strong>Alverson, A. J.</strong>, and Kolnick, L. 2005. Intragenomic nucleotide polymorphism among small subunit (18S) rDNA paralogs in the diatom genus ''Skeletonema'' (Bacillariophyta). J Phycol 41, 1248-1257. [http://dx.doi.org/10.1111/j.1529-8817.2005.00136.x doi: 10.1111/j.1529-8817.2005.00136.x]
# <strong>Alverson, A. J.</strong>, and Kolnick, L. 2005. Intragenomic nucleotide polymorphism among small subunit (18S) rDNA paralogs in the diatom genus ''Skeletonema'' (Bacillariophyta). J Phycol 41, 1248-1257. [http://dx.doi.org/10.1111/j.1529-8817.2005.00136.x doi: 10.1111/j.1529-8817.2005.00136.x]

Revision as of 10:28, 29 April 2013

Contents

Contact Info

Education

  • 2006, PhD, The University of Texas at Austin
  • 2000, MS, Iowa State University
  • 1997, BS, Grand Valley State University

Research interests

  1. Diatom comparative genomics
  2. Angiosperm organelle genomes

Publications

  1. Richardson, A. O., D. W. Rice, G. J. Young, A. J. Alverson, and J. D. Palmer. The "fossilized" mitochondrial genome of Liriodendron tulipifera: Ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate. BMC Biology. 11:29. doi: doi:10.1186/1741-7007-11-29
  2. Sloan, D. B., A. J. Alverson, M. Wu, J. D. Palmer, and D. R. Taylor. Recent acceleration of plastid sequence and structural evolution coincides with extreme mitochondrial divergence within the angiosperm genus Silene. Genome Biology and Evolution 4, 294-306. doi: 10.1093/gbe/evs006
  3. Sloan, D. B., A. J. Alverson, J. P. Chuckalovcak, M. Wu, D. E. McCauley, J. D. Palmer, and D. R. Taylor. Rapid evolution of enormous, multichromosomal genomes in flowering plants. PLoS Biology 10(1): e1001241 doi: 10.1371/journal.pbio.1001241 F1000
  4. Alverson, A. J., D. W. Rice, S. Dickinson, Barry, K., and J. D. Palmer. 2011. Origins and recombination of the bacterial-sized multichromosomal mitochondrial genome of cucumber (Cucumis sativus). The Plant Cell 23, 2499-2513. doi: 10.1105/tpc.111.087189 Featured article
  5. Alverson, A. J., B. Beszteri, M. L. Julius, and E. C. Theriot. 2011. The model marine diatom Thalassiosira pseudonana likely descended from a freshwater ancestor in the genus Cyclotella. BMC Evol Biol 11, 125. doi: 10.1186/1471-2148-11-125
  6. A. J. Alverson, S. Zhuo, D. W. Rice, D. B. Sloan, and J. D. Palmer. 2011. The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats. PLoS ONE 6(1): e16404.
  7. Alverson, A. J., X. X. Wei, D. W. Rice, D. B. Stern, K. Barry, and J. D. Palmer. 2010. Insights into the evolution of mitochondrial genome size from complete sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae). Mol Biol Evol 27, 1436-1448. doi: 10.1093/molbev/msq029
  8. Sloan, D. B., A. H. MacQueen, A. J. Alverson, J. D. Palmer, and D. R. Taylor. 2010. Extensive loss of RNA editing sites in rapidly evolving Silene mitochondrial genomes: selection vs. retroprocessing as the driving force. Genetics 185, 1369-1380. doi: 10.1534/genetics.110.118000
  9. Sloan, D. B., A. J. Alverson, H. Storchova, J. D. Palmer, and D. R. Taylor. 2010. Extensive loss of translational genes in the structurally dynamic mitochondrial genome of the angiosperm Silene latifolia. BMC Evol Biol 10, 274. doi: 10.1186/1471-2148-10-274
  10. Theriot, E. C., J. J. Cannone, R. R. Gutell, and A. J. Alverson 2009. The limits of nuclear-encoded SSU rDNA for resolving the diatom phylogeny. Eur J Phycol 44, 277-290. doi: 10.1080/09670260902749159
  11. Alverson, A. J. 2008. Molecular systematics and the diatom species. Protist 159, 339-353. doi: 10.1016/j.protis.2008.04.001
  12. Sanchez-Puerta, M. V., Y. Cho, J. P. Mower, A. J. Alverson, and J. D. Palmer. 2008. Frequent, phylogenetically local horizontal transfer of the cox1 group I intron in flowering plant mitochondria. Mol Biol Evol 25, 1762-1777. doi: 10.1093/molbev/msn129
  13. Alverson, A. J. 2007. Strong purifying selection in the silicon transporters of marine and freshwater diatoms. Limnol Oceanogr 52, 1420-1429. doi: 10.4319/lo.2007.52.4.1420
  14. Alverson, A. J., R. K. Jansen, and E. C. Theriot. 2007. Bridging the Rubicon: Phylogenetic analysis reveals repeated colonizations of marine and fresh waters by thalassiosiroid diatoms. Mol Phylogenet Evol 45, 193-210. doi: 10.1016/j.ympev.2007.03.024
  15. Alverson, A. J., J. J. Cannone, R. R. Gutell, and E. C. Theriot. 2006. The evolution of elongate shape in diatoms. J Phycol 42, 655-668. doi: 10.1111/j.1529-8817.2006.00228.x
  16. Alverson, A. J., S-H. Kang, and E. C. Theriot. 2006. Cell wall morphology and systematic importance of Thalassiosira ritscheri (Hustedt) Hasle, with a description of Shionodiscus gen. nov. Diatom Res 21, 251-262. doi: 10.1080/0269249X.2006.9705667
  17. Jansen, R. K., C. Kaittanis, C. Saski, S. B. Lee, J. Tomkins, A. J. Alverson, and H. Daniell. 2006. Phylogenetic analyses of Vitis (Vitaceae) based on complete chloroplast genome sequences: effects of taxon sampling and phylogenetic methods on resolving relationships among rosids. BMC Evol Biol 6. doi: 10.1186/1471-2148-6-32
  18. Thamatrakoln, K., Alverson, A. J., and Hildebrand, M. 2006. Comparative sequence analysis of diatom silicon transporters: Toward a mechanistic model of silicon transport. J Phycol 42, 822-834. doi: 10.1111/j.1529-8817.2006.00233.x
  19. Alverson, A. J., and Kolnick, L. 2005. Intragenomic nucleotide polymorphism among small subunit (18S) rDNA paralogs in the diatom genus Skeletonema (Bacillariophyta). J Phycol 41, 1248-1257. doi: 10.1111/j.1529-8817.2005.00136.x
  20. Alverson, A. J., and Theriot, E. C. 2005. Comments on recent progress toward reconstructing the diatom phylogeny. J Nanosci Nanotechno 5, 57-62. doi: 10.1166/jnn.2005.007
  21. Jansen, R. K., Raubeson, L. A., Boore, J. L., DePamphilis, C. W., Chumley, T. W., Haberle, R. C., Wyman, S. K., Alverson, A. J., Peery, R., Herman, S. J., Fourcade, H. M., Kuehl, J. V., McNeal, J. R., Leebens-Mack, J., and Cui, L. 2005. Methods for obtaining and analyzing whole chloroplast genome sequences. In Molecular Evolution: Producing the Biochemical Data, Part B, pp. 348-384. doi: 10.1016/S0076-6879(05)95020-9

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