Home Research Publications Facilities Events Courses Opportunities Links
UTA logo

UTA LIBRARY
The UTA Libraries

acrobat

GBG'S PUBLICATIONS

2010

15. Meik, J.M., Lawing, M, and Pires-daSilva, A. (2010) Phenotypic evolution in insular speckled rattlesnakes (Viperidae: Crotalus mitchellii). PLoS ONE, 5: e9524.

14. Thomas J, Schaack S, & Pritham EJ Pervasive horizontal transfer of rolling-circle transposons among animals. [Genome Biology and Evolution, in press]

13. Marquez CP & Pritham EJ (2010) Phantom, a New Subclass of Mutator DNA Transposons Found in Insect Viruses and Widely Distributed in Animals. Genetics, May 2010 (Epub ahead of print).

12. Schaack S, Choi E, Lynch M, Pritham EJ (2010) DNA transposons and the role of recombination in mutation accumulation in Daphnia pulex. Genome Biol. 2010 Apr 30;11(4) (Epub ahead of print).

11. Schaack S, Pritham EJ, Wolf A & Lynch M (2010) DNA transposon dynamics in populations of Daphnia pulex with and without sex. Proc Biol Sci. March 31 (Epub ahead of print).

10. J. E. Quezada-Diaz, Taniya, M., J. Río, and E. Betrán. 2010. Genetica. Drcd-1 related: a positively selected spermatogenesis retrogene in Drosophila. DOI: 10.1007/s10709-010-9474-8.

9. Prince, E.G., D. Kirkland, and J.P. Demuth. 2010. Hyperexpression of the X-chromosome in both sexes results in extensive female-bias of X-linked genes in the flour beetle. Genome Biology & Evolution 2:336-346.PDF file

8. Makowsky, R., C.L. Cox, C. Roelke, and P.T. Chippindale. 2010. Analyzing the relationship between sequence divergence and nodal support using Bayesian phylogenetic analyses. Molecular Phylogenetics and Evolution (accepted).

7. Makowsky, R., J.C. Marshall Jr., J. McVay, P.T. Chippindale, and L.J. Rissler. 2010. Phylogeographic analysis and environmental niche modeling of the plain-bellied watersnake (Nerodia erythrogaster) reveals low levels of genetic and ecological differentiation. Molecular Phylogenetics and Evolution. PDF file

6. Tracy, C., J. Río, M. Motiwale, S. Christensen, and E. Betrán. 2010. Convergently Recruited Nuclear Transport Retrogenes are Male Biased in Expression and Evolving Under Positive Selection in Drosophila . Genetics. PDF file

5. Sorourian, M. and E. Betrán. 2010. Turnover and lineage specific broadening of transcription start site in a testis specific retrogene. Fly. Volume 4, Issue 1, 3-11.PDF file

4. Jesus, EC, E Susilawati, S Smith, Q Wang, B Chai, R Farris, JLM Rodrigues, K Telen, JM Tiedje. 2010. Bacterial communities in the rhizosphere of biofuel crops. Biofuel Res. PDF file

3. The International Brachypodium Initiative (Ellen Pritham,member) (2010) Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463, 763-768.PDF file

2. Gilbert C*, Schaack S*, Pace JK II, Brindley PD & Feschotte C (2010) A role for host-parasite interactions in the horizontal transfer of transposons across phyla. Nature. PDF file

1. Feschotte C (2010) Bornavirus enters the genome. Nature 463: 39-40. PDF file

2009

26. Feschotte C & Pritham EJ (2009) A cornucopia of Helitrons shapes the maize genome. PNAS vol 106 (47), 19747–19748.PDF file

25. Han, M.V., J.P. Demuth, C.L. McGrath, C. Casola, and M.W. Hahn (2009) Adaptive evolution of young gene duplicates in mammals. Genome Research. 19:859-867.PDF file

24. Demuth, J.P. and M.W. Hahn (2009) The life and death of gene families. BioEssays. 31:29-39PDF file

23. Noor M.R., Goyal S., Christensen S.M., and Iqbal S.M. (2009). Electrical detection of single-base DNA mutation using functionalized nanoparticles. Applied Physics Letters. 95, 073003.PDF file

22. Ramachandran P.P., Christensen S.M., and Iqbal S.M. (2009). Electronic detection of selective proteins using non antibody-based CMOS chip. Proceedings of IEEE-NIH Life Science Systems and Applications Workshop 2009. LiSSA'09, 1-4.PDF file

21. Kierzek E., Christensen S.M., Eickbush T.H., Kierzek R., Turner D.H., and Moss W.N. (2009). Secondary structures for 5' regions of R2 retrotransposon RNAs reveal a novel conserved pseudoknot and regions that evolve under different constraints. J Mol Biol. 390, 428-442.PDF file

20. Konstantinidis, KT, MH Serres, M Romine, JLM Rodrigues, L-A McCue, MS Lipton, A Obraztsova, CS Giometti, KH Nealson, JF Fredrikson, JM Tiedje. 2009. Comparative systems biology across an evolutionary gradient within the Shewanella genus. Proc. Acad. Nat. Sci. U.S.A. 106:15909-15914.PDF file

19. WJ Sul, J Park, JF Quensen III, JLM Rodrigues, L Seliger, TV Tsoi, GJ Zylstra, JM Tiedje. 2009. Novel biphenyl dioxygenase subunits retrieved from River Raisin sediment using stable isotope probing-derived metagenomic libraries. Appl. Environ. Microbiol. 75:5501-5506.PDF file

18. Silva-Stenico ME, FTH Pacheco, ER Pereira-Filho, JLM Rodrigues, AN Souza, A Etchegaray, JE Gomes, SM Tsai. 2009. Nutritional deficiency in citrus with symptoms of citrus variegated chlorosis disease. Braz. J. Biol. 69:631-637.PDF file

17. Yang G, Holligan-Nagel D, Feschotte C, Hancock NH, Wessler SR (2009) Tuned for transposition: molecular determinants underlying the hyperactivity of a Stowaway MITE. Science 325:1391-1394PDF file

16. Feschotte C, Keswani U, Ranganathan N, Guibotsy ML & Levine D (2009) Exploring repetitive DNA landscapes using REPCLASS, a tool that automates the classification of transposable elements in eukaryotic genomes. Genome Biology and Evolution 1 :205-220. PDF File

15. Venner S, Feschotte C and Biemont C (2009) Dynamics of transposable elements: toward a community ecology of the genome. Trends in Genetics 25:317-323 .PDF file

14. Pace JK, II, Sen SK, Batzer MA and Feschotte C (2009) Repair-mediated duplication by capture of proximal chromosomal DNA has shaped vertebrate genome evolution. PLoS Genetics 5(5):e1000469. Epub 2009 May 8.PDF file

13. Ellen J. Pritham. 2009. Transposable Elements and Factors Influencing their Success in Eukaryotes. Journal of Heredity 100: 648-655. PDF file

12. Bonett, R.M., P.T. Chippindale, P.E. Moler, R.W. Van Devender, and D.B. Wake. 2009. Evolution of gigantism in amphiumid salamanders. PLoS one 4(5) (open access).PDF file

11. Castoe, T.A., J.M. Daza, E.N. Smith, M.M. Sasa, U. Kuch, J.A. Campbell, P.T. Chippindale, and C. L. Parkinson. 2009. Comparative phylogeography of pitvipers suggests a consensus of ancient Middle American highland biogeography. Journal of Biogeography 36:88-103.PDF file

10. Bustos, O., Naik, S., Ayers, G., Casola, C., Perez-Lamigueiro, M.A., Chippindale, P., Pritham, E. and de la Casa-Esperon, E. Evolution of the Schlafen genes, a gene family associated to embryonic lethality, meiotic drive, immune processes and orthopoxvirus virulence. Gene. Volume 447, Issue 1, 1 November 2009, Pages 1-11 PDF file

9. de la Casa Esperon, E., Roy, A., (2009), Mammalian gametogenesis to implantation, in Reproduction and Development Biology,[Ed.Andre Pires da Silva],in Encyclopedia of Life Support Systems(EOLSS), Developed under the Auspices of the UNESCO, Eolss Publishers, Oxford ,UK, [http://www.eolss.net]

8. Triplett L, Melotto M, Sundin GW. 2009. Functional analysis of the N-terminus of the Erwinia amylovora secreted effector DspA/E reveals features required for secretion, translocation, and binding to the chaperone DspB/F. Molecular Plant-Microbe Interactions. October 2009, Volume 22, Number 10 Pages 1282-1292.PDF File

7. Bray-Speth E, Melotto M, Zhang W, Assmann SM, He SY. 2009. Crosstalk in pathogen and hormonal regulation of guard cell signaling. In: Yoshioka K, Shinozaki K. (eds) Signal Crosstalk in Plant Stress Response, Wiley-Blackwell, John Wiley and Sons, Ltd: pp. 96-112.

6. Click, A., Savaliya, C.H., Kienle, S., Herrmann, M., and Pires-daSilva. Natural variation of outcrossing in the hermaphroditic nematode Pristionchus pacificus. BMC Evolutionary Biology 2009, 9:75PDF file

5. Meik, J. M., and Pires-daSilva, A. Evolutionary morphology of the rattlesnake style. BMC Evolutionary Biology 2009, 9:35 (doi:10.1186/1471-2148-9-35)PDF file

4. Gilbert C, Maxfield DG, Goodman SM, Feschotte C (2009) Parallel Germline Infiltration of a Lentivirus in Two Malagasy Lemurs. PLoS Genet 5(3): e1000425. doi:10.1371/journal.pgen.1000425. PDF file

3. Gilbert C, Pace JK, II, & Feschotte C (2009) Horizontal SPINning of transposons. Communicative and Integrative Biology 2: 1-3. PDF file

2. Barot, G., Roner, M. R., Naoshima, Y., Nagao, K., Shahi, K. and Carraher, C.E. 2009. Synthesis, Structural Characterization, and Preliminary Biological Characterization of Organotin Polyethers Derived from Hydroquinone and Substituted Hydroquinones. J. Inorganic & Organometallic Polymers and Materials. (2009)19:12-27. DOI 10.1007/s10904-008-9220-1. pdf file

1. Bai, Y, C. Casola, and E. Betrán. 2009. Quality of regulatory elements in Drosophila retrogenes. Genomics. Volume 93,Issue 1, January 2009, Pages 83-89.PDF file

2008

25. Balastik, M., Ferraguti, F., Pires-daSilva, A., Lee, T. H., Alvarez-Bolado, G., Lu, K. P. and Gruss, P. (2008). Deficiency in ubiquitin ligase TRIM2 causes accumulation of neurofilament light chain and neurodegeneration. Proc Natl Acad Sci U S A 105, 12016-21.PDF file

24. Chitra Chandrasekaran and Esther Betrán. 2008. Origins of new genes and pseudogenes. Nature Education 1(1), (2008). HTML.

23. Carraher, C.E., Jr., Roner, M.R. and Barot, G. 2009. Organotin-containing polyethers as potential anticancer drugs. Cancer Research Journal. In press.

22. Melotto M, Mecey C, Niu Y, Cheng HS, Katsir L, Yao J, Zeng W, Thines B, Staswick P, Browse J, Howe GA, He SY. 2008. A critical role of two positively charged amino acids in the Jaz motif of Arabidopsis JAZ proteins in mediating coronatine- and jasmonoyl isoleucine-dependent interactions with the COI1 F-box protein. Plant J. DOI:10.1111/J.1365-313X.2008.03566.X

21. He SY, Bray-Speth E, Imboden L, Huang WN, Lee YN, Melotto M, Mecey C, Nomura K, Underwood W, Uribe F, Yao J, Zeng W. 2008. Suppression of host defense by Pseudomonas syringae in Arabidopsis. In: Lorito M, Woo S, and Scala F.(eds) Biology of Plant-Microbe Interactions, Vol 6, International Society of Molecular Plant-Microbe Interactions, St. Paul, Minnesota, in press.

20. Melotto M, Underwood W, He SY. 2008. Role of stomata in plant innate immunity and foliar bacterial diseases. Annu. Rev. Phytopathol. 46: 101-122.PDF file

19. Gepts P, Aragão F, Barros E de, Blair MW, Brondani R, Broughton W, Galasso I, Hernández G, Kami J, Lariguet P, McClean P, Melotto M, Miklas P, Pauls P, Pedrosa-Harand A, Porch T, Sánchez F, Sparvoli F, Yu K. 2008. Genomics of Phaseolus beans, a major source of dietary protein and micronutrient in the Tropics. In: Moore PH, Ming R (eds) Genomics of Tropical Crop Plants, Springer, Berlin: pp. 113-143.

18. Fredrickson, JK, MF Romine, AS Believ, JM Auchtung, ME Driscoll, TS Gardner, KH Nealson, AL Osterman, G Pinchuk, JL Reed, DA Rodionov, JLM Rodrigues, DA Saffarini, MH Serres, AM Spormann, IB Zhulin, and JM Tiedje. 2008. Towards environmental systems biology of Shewanella. Nature Reviews Microbiology. . 6:592-603. PDF file

17. Rodrigues JLM, MA Duffy, AJ Tesser, D Ebert, L Mouton, and TM Schmidt. 2008. Phylogenetic characterization and prevalence of Spirobacillus cienkowskii: a red-pigmented, spiral-shaped bacterial pathogen of the freshwater Daphnia species. Appl. Environ. Microbiol. 74:1575-1582. PDF file

16. Roner, M.R., and Joklik, W.J. 2008. Structure and Molecular Biology of Segmented Double-Stranded RNA Viruses. John T. Patton and Max L. Nibert, eds. Springer Sci. Publisher. Chapter 19, 335-349.

15. Zhao, A., Shahi, K.R., Roner, M.R., Barot, G., Fiore, T., Pellerito, C., Scopelliti, Pellerito, L., and Carraher, C.E., Jr. 2008. Ciprofloxacin Polymers Derived from Diallyltin and Divinyltin Dihalides. J. Polymer Mater. Vol. 25, No. 2, 87-109.PDF

14. Roner, M. R., Carraher, C.E., Jr., Dhanji, S. and Barot, G. 2008. Antiviral and Anticancer Activity of Cisplatin Derivatives of Tilorone. J. Inorganic & Organometallic Polymers and Materials. June 24, 2008 published online first at http://dx.doi.org/10.1007/s10904-008-9219-7 DOI 10.1007/s10904-008-9219-7.PDF file

13. Carraher, C.E., Jr., Roner, M.R., Shahi, K., Ashida, Y., and Barot, G. 2008. Synthesis and Initial Cell Line results of Organotin Polyethers containing Diethylstilbestrol. J. Inorganic & Organometallic Polymers and Materials.18:180-188.PDF file

12. Kierzek E., Kierzek R., Moss W.N., Christensen S.M., Eickbush T.H., and Turner D.H. (2008). Isoenergetic penta- and hexanucleotide microarray probing and chemical mapping provide a secondary structure model for an RNA element orchestrating R2 retrotransposon protein function. Nucleic Acids Res., April 2008; 36: 1770 - 1782. PDF file

11. Michalak P. 2008. Epigenetic, transposon, and small RNA determinants of hybrid dysfunctions. Heredity, advance online publication 11 June 2008; doi: 10.1038/hdy.2008.48

10.Yongsheng Bai, Claudio Casola, and Esther Betrán. 2008. Evolutionary origin of regulatory regions of retrogenes in Drosophila. BMC Genomics, 9:241. PDF file

9. Feschotte C. 2008 Transposable elements and the evolution of regulatory networks. Nature Reviews Genetics 9:397-405. PDF file

8. Ray DA, Feschotte C, Smith JD, Pagan HJT, Pritham EJ, Arensburger P, Atkinson PW & Craig NL (2008) Multiple waves of recent DNA transposon activity in the bat Myotis lucifugus. Genome Research 18:717-728. PDF file

7. Esther Betrán. 2008. Gene Fusion. Encyclopedia of Life Sciences. John Wiley & Sons, Inc.PDF file

6. Michalak P. & Ma D. 2008. The acylphosphatase (Acyp) alleles associate with male hybrid sterility in Drosophila. Gene, Volume 416, Issues 1-2, 15 June 2008, Pages 61-65. PDF file

5. Malone J.H. & Michalak P. 2008. Gene expression analysis of the ovary of hybrid females of Xenopus laevis and X. muelleri. BMC Evolutionary Biology 2008, 8:82.PDF file

4. Michalak P. 2008. Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes. Volume 91, Issue 3, March 2008, Pages 243-248.PDF file

3. Casola C, Hucks DV Feschotte C (2008) Convergent domestication of pogo-like transposases into centro&mere-binding proteins in mammals and fission yeast. Molecular Biology and Evolution., January 2008; 25: 29 - 41 .PDF file

2. Malone J.H. & Michalak P. 2008. Physiological sex predicts hybrid sterility regardless of genotype.Science 4 January 2008 319: 59. PDF file

1. Michalak P. & Malone J.H. 2008. Testis-derived microRNA profiles of African Clawed Frogs (Xenopus) and their sterile hybrids. Genomics. Volume 91, Issue 2, February 2008, Pages 158-164.PDF file

2007

36. de la Casa-Esperón, E. Book review of: Epigenetics. C.D. Allis, T. Jenuwein and D. Reinberg. In: Twenty-seven books and an open preface for a new Biology. ADEBIR press, 2007 (Emilio Cervantes, ed.) ISBN: 978-84-935141-7-4

35. Hahn, M. W., J. P. Demuth, and Sang-Gook Han. 2007. Accelerated rate of gene gain and loss in primates. Genetics 177:1941-1949.

34. Rhesus Macaque Genome Sequencing and Analysis Consortium (...JP Demuth...et al.) 2007. Evolutionary and biomedical insights from the Rhesus Macaque genome sequence. Science 316: 222-234.

33. Demuth, J. P. and M.J. Wade. 2007. Population differentiation in the beetle Tribolium castaneum I: Genetic architecture. Evolution 61: 494-509.

32. Demuth, J. P. and M.J. Wade. 2007. Population differentiation in the beetle Tribolium castaneum II: Haldane’s rule and incipient speciation. Evolution 61: 694-699.

31.Demuth, J. P., D. W. Drury, M. L. Peters, J. D. Van Dyken, N. K. Priest, M. J. Wade. 2007. Genome-wide survey of Tribolium castaneum microsatellites and description of 542 polymorphic markers. Molecular Ecology Notes 7: 1189-1195.

30. Demuth, J. P. and M. J. Wade. 2007. Maternal expression increases the rate of bicoid evolution by relaxing constraint. Genetica 129: 37-43.

29. Rasika Dias, Lorraine van Waasbergen, and Jaime Flores. Patent pending on “Poly-halgenated Triazapentadiene Compositions” including their antimicrobial properties. Filed 10/3/07.

28. Lin R, Ding L, Casola C, Ripoll DR, Feschotte C & Wang H. Transposase-domesticated transcription factors mediate feedback regulation of Phytochrome A signaling. Science. November 2007 318: 1302-1305. PDF file

27. Feschotte C. (2007) Evolutionary history and impact of human DNA transposons. In: Handbook of Human Molecular Evolution (D. Cooper, ed.), Encyclopedia of Life Sciences, Wiley and Sons. Also published online Mar 14 in Encyclopedia of Life Sciences

26. Pires-daSilva, A. (2007) Evolution of the control of sexual identity in nematodes. Seminars in Cell & Developmental Biology Volume 18, Issue 3, June 2007, Pages 362-370. PDF file

25. Malone J.H., Chrzanowski T.H. & Michalak P. 2007. Sterility and gene expression in hybrid males of Xenopus laevis and X. muelleri. PLoS ONE 2(8): e781. PDF file

24. Michalak P., Kim Y.B. & Gao J. 2007. Computational challenges of microarray analysis. In: Computational Genomics: Current Methods (Ed. Stojanovic N.), Horizon Scientific Press, Norwich, UK, pp. 121-142.

23. Li M, Fernando G, van Waasbergen LG, Cheng X, Ratner BD, Kinsel GR. 2007. Thermoresponsive MALDI probe surfaces as a tool for protein on-probe purification. Anal. Chem. 79:6840-4. PDF file

22. van Waasbergen LG, Fajdetic I, Fianchini M, Rasika Dias HV. 2007.Antimicrobial properties of highly fluorinated tris(pyrazolyl)borates. J. Inorg. Biochem. 101:1180-3. PDF file

21. Kappell AD, van Waasbergen LG. 2007. The response regulator RpaB binds the high light regulatory 1 sequence upstream of the high-light-inducible hliB gene from the cyanobacterium Synechocystis PCC 6803. Arch. Microbiol. 187:337-42. PDF file

20. Roner, M.R., Steele, B.G. 2007. Features of the Mammalian orthoreovirus 3 Dearing l1 ssRNA that direct packaging and serotype restriction. J. Gen. Virology. 88: 3401 - 3412. PDF file

19. Carraher, C.E., Jr., Battin, A., Shahi, K., and Roner, M.R. 2007. Synthesis, Structural Characterization, and initial Evaluation as Anticancer Drugs of Dibutyltin Polyamines derived from various 4,6-Diaminopyrimidines. J. Inorganic & Organometallic Polymers and Materials. Vol 14, 4. 631-639. PDF file

18. Braden, A.,Roner, M., Ganter, J., and Nelson, K. 2007. Transport of Biologically Active Molecules to Intracellular Environments Utilizing a Lyzosomally Cleavable Random Block Copolymer of Polyethylenimine J. Biomedical Nanotechnology. June., 3(2):120-130. PDF file

17. Singh A., Feschotte C. & Stojanovic N. Micro-repetitive structure of genomic sequences and the identification of ancient repeat elements. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2007).

16. Braden, A.,Roner, M., Ganter, J., and Nelson, K. 2007. Enhanced delivery of bioactive molecules to intracellular environments utilizing a cytosolically reducable grafted analog of polyethylenimine. J. Nanosci. Nanotechnol. Mar., 7(3):925-36.PDF file

15. Barot, G., Shahi, K., Roner, M.R., and Carraher, C.E., Jr. 2007. Synthesis, Structural Characterization, and Ability to Inhibit Cancer Growth of a Series of Organotin Poly(ethylene glycols). J. Inorganic & Organometallic Polymers and Materials. Vol 17, 4, 595-603. PDF file

14. Feschotte C & Pritham EJ (2007) Computational Analysis and Paleogenomics of Interspersed Repeats in Eukaryotes. in Computational Genomics: Current Methods Ed: N. Stojanovic. Horizon Scientific Press Pp. 31-53.

13. Feschotte C & Pritham EJ (2007) DNA Transposons and the Evolution of Eukaryotic Genomes. in Annual Review of Genetics Vol. 41:331-338 . PDF file

12. Casola, C, Lawing M., Betrán, E.,C. Feschotte PIF-like transposons are common in Drosophila and have been repeatedly domesticated to generate new host genes. Molecular Biology and Evolution 2007 24(8):1872-1888.pdf file

11. Michalak P., Malone J.H., Lee I.T., Hoshino D. & Ma D. 2006. Gene expression polymorphism in Drosophila populations. Molecular Ecology 16: 1179-1189.PDF file

10. Xuhua Xia, Huang Huang, Malisa Carullo, Esther Betrán and Etsuko Moriyama. 2007. Conflict between translation initiation and elongation in vertebrate mitochondrial genomes. PLoS ONE 2(2): e227.pdf file

9. Singh A., Feschotte C. & Stojanovic N. (2007) A study of the repetitive structure and distribution of short motifs in human genomic sequences. Int. J. Bioinformatics Research and Applications 3: 523-535

8. Sharakhova MV, Hammond MP, Lobo NF, Krzywinski J, Unger MF, Hillenmeyer ME, Bruggner RV, Birney E, Collins FH. 2007. Anopheles genome assembly update. Genome Biology 2007, 8:R5 doi:10.1186/gb-2007-8-1-r5. PDF file

7. Roner, M. R., and Mutsoli, C. 2007. The use of monoreassortants and reverse genetics to map reovirus lysis of a ras-transformed cell line . Journal of Virological Methods. Vol. 139/2 pp 132-142.PDF file

6. Pritham EJ & C Feschotte (2007) Massive amplification of rolling-circle transposons in the lineage of the bat Myotis lucifugus: PNAS, vol.104 (6),1895–1900.PDF file

5. Pace JK, II & Feschotte C. 2007. The evolutionary history of human DNA transposons: evidence for intense activity in the primate lineage. Genome Research, 17: 422-432. pdf file

4. Roner, M.R., Steele, B.G. 2007. Localizing the reovirus packaging signals using an engineered m1 and s2 ssRNA. Virology. Vol 358/1:89-97. doi:10.1016/j.virol.2006.08.017.PDF file

3. Bai Y, Casola C, Feschotte C and Betrán E. 2007. Comparative Genomics reveals a constant rate of origination and convergent acquisition of functional retrogenes in Drosophila. Genome Biology 8:R11 doi:10.1186/gb-2007-8-1-r11.PDF file

2. Roner, M.R., Sprayberry, J., Spinks, M., Dhanji, S. 2007 Antiviral activity obtained from aqueous extracts of the Chilean soap bark tree - Quillaja Saponaria Molina. J. Gen Virology. 88:275-285.PDF file

1. Pritham EJ, Putliwala T & Feschotte C. 2007. Maverick, a new class of giant transposable elements widespread in eukaryotes and related to DNA viruses. Gene 390:3-17. Pdf file

2006

32. Wiens, J.J., T.N. Engstrom, and P.T. Chippindale. 2007. Rapid diversification, incomplete isolation, and the "speciation clock" in eastern North American salamanders (genus Plethodon). Evolution Evolution, Volume 60, Issue 12, Page 2585-2603, Dec 2006.PDF file

31. Dias HV, Batdorf KH, Fianchini M, Diyabalanage HV, Carnahan S, Mulcahy R, Rabiee A, Nelson K, van Waasbergen LG. 2006. Antimicrobial properties of highly fluorinated silver(I) tris(pyrazolyl) borates. J. Inorg. Biochem. 100:158-60. PDF file

30. Noonan, B.P., and P.T. Chippindale. 2006. Dispersal and vicariance: the complex biogeographic history of boid snakes. Molecular Phylogenetics and Evolution 40:347-358. PDF file

29. Noonan, B.P., and P.T. Chippindale. 2006. Vicariant origin of Malagasy reptiles supports late Cretaceous Antarctic landbridge. American Naturalist 168:730-741.PDF file

28. Bonett, R.M., and P. T. Chippindale. 2006. Streambed microstructure predicts evolution of life history in plethodontid salamanders. BMC Biology 2006 4:6.PDF file

27. de la Casa-Esperón, E. and Sapienza, C. (2006) Epigenetic variation: amount, causes and consequences. In: Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. Wiley InterScience.PDF file

26. Krzywinski, J., Chrystal, M. A., Besansky, N. J., Gene finding on the Y: fruitful strategy in Drosophila does not deliver in Anopheles. Genetica, (2006) 126: 369–375.PDF file

25. Feschotte, C (2006) The piggyBac transposon holds promises for human gene therapy. Proc. Natl. Acad. Sci. USA. PDF file

24. Carvalho, S., Barriere, A., Pires-daSilva, A. (2006) The world of a worm: a framework for Caenorhabditis evolution. EMBO Reports 7, 10, 981–984.PDF file

23. Pires-daSilva, A. (2006) Pristionchus pacificus genetic protocols (July 17, 2006), WormBook, ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.114.1, http://www.wormbook.org. [WormBook is a peer-reviewed, online book].

22. Christensen, S.M., Ye, J., and Eichbush, T.H. (2006) RNA from the 5' end of the R2 retrotransposon controls R2 protein binding to and cleavage of its DNA target site. PNAS 2006 103: 17602-17607PDF file

21. Holligan D, Zhang X, Jiang N, Pritham EJ & Wessler SR (2006) The transposable element landscape of the model legume Lotus japonicus. Genetics, Vol. 174, 2215-2228.PDF file

20. Pritham EJ (2006) The Battle Within. American Journal of Human Biology. 18:727-728.pdf file

19. Roner, M.R., and Joklik, W.J. 2006. Structure and Molecular Biology of Segmented Double-Stranded RNA Viruses. The Infectious reovirus RNA- reverse genetics system: The assembly of the reovirus genome. John T. Patton and Max L. Nibert, eds. Springer Sci. Publisher.PDF file

18. Carraher, C. E., Jr., Sabir, T.E., Roner, M. R., Shahi, K., Bleicher, R. E., Roehr,J. E., and Bassett, K. E. 2006. Synthesis of Organotin Polyamine Ethers Containing Acyclovir and Their Preliminary Anticancer and Antiviral Activity. J. Inorganic & Organometallic Polymers. 10.1007/s10904-006-9050-yPDF file

17. Roner, M. R., Charles E. Carraher, Jr. 2006. Cisplatin Derivatives as Antiviral Agents. Main Group and Transition Macromolecules-Springer Books. .PDF file

16. Roner, M.R., Carraher, Jr. C. E., Sabir, S. Theodore, Shahi, Kimberely, Roehr, J. L., and Bassett, K. D. 2006. Anticancer and Antiviral Activities of Organotin Polyether Amines Derived From the Antiviral Acyclovir. Polymeric Materials: Science and Engineering. 95.PDF file

15. Roner, M. R., Charles E. Carraher, Jr., Joanne L. Roehr, and Kelly D. Bassett. 2006. Antiviral and Anticancer Activity of Organotin Polymers and Reactants Derived From Norfloxacin And Ampicillin. J. Polym. Mater. 23:153-159.PDF file

14. Shahi, K., Roner, M. R., Carraher, C.E. Jr. and Barot, G. 2006. Selected Organotin Polyethers As Potential Anti-Cancer Drugs. Polymeric Materials: Science and Engineering. 94:466-468.PDF file

13. A.D. Kappell, D. Bhaya, and L.G. van Waasbergen. 2006. Negative control of the high light-inducible hliA gene and implications for the activities of the NblS sensor kinase in the cyanobacterium Synechococcus elongatus strain PSS 7942. Arch. Microbiol. (published online first: Aug. 9, 2006)PDF file

12. Betrán E., Bai Y. and M. Motiwale . 2006. Fast protein evolution and germline expression of a Drosophila parental gene and its young retroposed paralog. Molecular Biology and Evolution, 23 (11): 2191.PDF file

11. Malone J.H., Hawkins D.L, Michalak P. 2006. Sex-biased gene expression in a ZW sex determination system, Journal of Molecular Evolution, 63: 427-43.PDF file

10. Feschotte C & Pritham EJ (2006) Mobile DNA: genomes under the influence. Genome Biology 7:320-324PDF

9. Cordaux R, Udit S, Batzer MA & Feschotte.2006. Birth of a chimeric primate gene by capture of the transposase gene from a mobile element. PNAS, vol. 103, 21, (8101–8106) pdf file

8. Michalak P. 2006. RNA world - the dark matter of evolutionary genomics. Journal of Evolutionary Biology, 19: 1768-1774.PDF file

7. Rashkovetsky E., Iliadi K., Michalak P., Nevo E., Feder M., Korol A. 2006. Differentiation of thermotolerance in Drosophila along a microclimatic gradient. Heredity 96: 5 353-359.PDF file

6. Michalak P. & Noor M.A.F. 2006. Genetics of reproductive isolation and species differences in model systems. In: Evolutionary Genetics: Concepts and Case Studies (Eds. C. Fox & J.B. Wolf), Oxford University Press, pp. 387-398.

5. Roner, M. R., and Roehr, J. 2006. The 3’ sequences required for incorporation of an engineered ssRNA into the Reovirus genome. Virology Journal, 2006, 3:1.PDF file

4. Huestis, D.L. and J.L. Marshall. 2006. Is natural selection a plausible explanation for the distribution of Idh-1 alleles in the cricket Allonemobius socius? Ecological Entomology (2006) 31, 91–98.pdf file

3. Marshall, J. L. and C.D. Camp. 2006. Environmental correlates of species and genetic richness in lungless salamanders (family Plethodontidae). Acta Oecologica 29 (2006) 33–44pdf file

2. Timothy A Bell, Elena de la Casa-Esperon, Heather E Doherty, Folami Ideraabdullah, Kuikwon Kim, Yunfei Wang, Leslie A Lange, Kirk Wilhemsen, Ethan M Lange, Carmen Sapienza and Fernando Pardo-Manuel de Villena. 2006. The paternal gene of the DDK syndrome maps to the Schlafen gene cluster on mouse chromosome 11. Genetics, Vol. 172, 411-423PDF file

1. Huestis, D.L. and J.L. Marshall. 2006. Interaction between maternal effects and temperature affects diapause occurrence in the cricket Allonemobius socius. Oecologia, Vol 146, 4, 513 - 520.PDF FILE

2005

9. Roner, M.R., Carraher, Jr. C. E., and Dhanji, S. 2005. Antiviral Activity of Cisplatin Derivatives of Tilorone Against Reovirus ST3, Vaccinia Virus, Varicella Zoster Virus (VZV), and Herpes Simplex Virus (HSV-1). Polymeric Materials: Science and Engineering. 92:499-501.PDF file

8. Roner, M.R., Carraher, Jr. C. E., and Dhanji, S. 2005. Antiviral Activity of Cisplatin Derivatives of Methotrexate Against Vaccinia Virus, Varicella Zoster Virus (VZV), Reovirus ST3, and Herpes Simplex Virus (HSV-1). Polymeric Materials: Science and Engineering. 93:410-413.PDF file

7. Gao, S., Wu, G., Han, Z., de la Casa-Esperon, E., Sapienza, C. and Latham, K.E. (2005) Recapitulation of the Ovum mutant (Om) phenotype and loss of Om locus polarity in cloned mouse embryos. Biology of Reproduction 72, 487-491.

6. Cedric Feschotte and Ellen J. Pritham.2005. Non-mammalian c-integrases are encoded by giant transposable elements. Trends in Genetics 21(10): 551-552PDF file

5. Chippindale, P.T. and A.H. Price. 2005. Diversity and conservation of plethodontid salamanders of the genus Eurycea in the Edwards Plateau region of central Texas. In: M. Lannoo (ed.), Status and Conservation of North American Amphibians Vol. 1. University of California Press (in press).

4. Chippindale, P.T., and J.J. Wiens. 2005. Re-evolution of the larval stage in plethodontid salamanders of the genus Desmognathus. Herpetological Review. 36 (2):113-117.

3. Pritham EJ, Feschotte C & Wessler SR. 2005. Unexpected diversity and differential success of DNA transposons in four species of Entamoeba protozoans. Molecular Biology and Evolution Mol. 22(9):1751–1763. pdf file

2. Feschotte C, Osterlund MT, Peeler R & Wessler SR. 2005. DNA binding specificity of rice mariner-like transposases and interactions with Stowaway MITEs. Nucleic Acids Res. 33:2153-2165pdf file

1. Wiens, J.J., R.M. Bonett, and P.T. Chippindale. 2005. Ontogeny discombobulates phylogeny: paedomorphosis and higher-level salamander relationships. Systematic Biology 54: 98-110.pdf file

2004

20. International Chicken Genome Sequencing Consortium (Betrán, E. one of 175 authors) 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432, 695 - 716.pdf file

19. Betrán E., J.J. Emerson, H. Kaessmann, and M. Long. 2004. Sex Chromosomes and male functions: Where Do New Genes Go? Cell Cycle. 3(7). 873-75.pdf fiule

18. Emerson, J. J., H. Kaessmann, E. Betrán, and M. Long. 2004. Extensive gene traffic on the mammalian X chromosome. Science 303: 537-540. pdf file

17. Bonett, R.M., and P.T. Chippindale. 2004. Speciation, phylogeography and evolution of life history and morphology in plethodontid salamanders of the Eurycea multiplicata complex. Molecular Ecology 13:1189-1203pdf

16. Chippindale, P.T., R.M. Bonett, A.S. Baldwin, and J.J. Wiens. 2004. Phylogenetic evidence for a major reversal of life history evolution in plethodontid salamanders. Evolution 58:2809-2822.

15. Zhang X, Jiang N, Feschotte C & Wessler SR (2004) PIF- and Pong-like transposable elements: distribution, evolution and relationships with Tourist-like MITEs. Genetics 166:971-986pdf file

14. Jiang N, Feschotte C, Zhang X & Wessler SR (2004) Using rice to understand the origin and amplification of MITEs. Current Opinion in Plant Biology 7:115-119pdf file

13. Feschotte C (2004) Merlin, a new superfamily of DNA transposons identified in diverse animal genomes and related to bacterial IS1016 insertion sequences. Mol. Biol. Evol. 21:1769-1780pdf file

12. Howard, D. J., S.C. Britch, W. E. Braswell, and J.L. Marshall. 2004. Evolution in hybrid zones. In The Evolution of Population Biology (Singh and Uyenoyama, Eds.), Pg. 297-314. Cambridge University Press, Cambridge.pdf file

11. Marshall, J. L., C.D. Camp, and R.G. Jaeger. 2004. Potential interference competition between a patchily distributed salamander (Plethodon petraeus) and a sympatric congener (Plethodon glutinosus). Copeia 2004: 488-495.pdf file

10. Marshall, J. L. 2004. The Allonemobius-Wolbachia host-endosymbiont system: evidence for rapid speciation and against reproductive isolation driven by cytoplasmic incompatibility. Evolution 58: 2409-2425. pdf file

9. Michalak P. & Noor M.A.F. 2004. Association of misexpression with sterility in hybrids of D. simulans and D. mauritiana. Journal of Molecular Evolutionpdf file

8. Roner, M. R. and Joklik, W. K. 2004. Structure and Molecular Biology of Segmented Double-Stranded RNA Viruses. Horizon Scientific Press.

7. Roner, M. R., Roehr, J. L., Bassett, K. D. 2004. Identification of the 5’ sequences required for incorporation of an engineered ssRNA into the Reovirus genome. Virology 329 (2), 348-360.pdf file

6. Roner, M. R., Carraher, Jr. C. E., Roehr, J. L., Bassett, K. D., and Siegmann-Louda, D. W. 2004. Anti-Viral Activity of Norfloxacin and Ampicillin and Dibutyltin Polymers Derived From Norfloxacin And Ampicillin Against Reovirus ST3, Vaccinia Virus, Herpes Simplex Virus (HSV-1) And Varicella Zoster Virus (VZV). Polymeric Materials: Science and Engineering. 91:744-746.

5. Roner, M. R., Carraher, Jr. C. E., Zhao, A., Roehr, J. L., Bassett, K. D., and Siegmann-Louda, D. W. 2004. Activity of Acyclovir, Ciprofloxacin and Organotin Polymers Derived from Acyclovir and Ciprofloxacin against Herpes Simplex Virus (HSV-1) and Varicella Zoster Virus (VZV) Polymeric Materials: Science and Engineering. 90:515-518.

4. Salem, K. and L.G. van Waasbergen. 2004. Photosynthetic electron transport controls expression of the high light inducible gene in the cyanobacterium Synechococcus elongatus strain PCC 7942. Plant Cell Physiol. 45 (5):651-658.pdf file

3. Salem, K. and L.G. van Waasbergen. 2004. Light control of hliA transcription and transcript stability in the cyanobacterium Synechococcus elongatus strain PCC 7942. J. Bacteriol. 186 (6): 1729-1736.pdf file

2. Hsiao, H.-Y. , Q. He, L.G. van Waasbergen, and A.R. Grossman. 2004. Control of photosynthetic and high light-responsive genes by the histidine kinase DspA: negative and positive regulation and interactions between signal transduction pathways. J. Bacteriol. 186: 3882-3888.pdf file

1. van Waasbergen, L.G. 2004. What makes a bacterial species? Is rRNA enough? In M. Day and R.V. Miller (eds.), Mechanisms of Genomic Evolution in Bacteria. ASM Press, Washington, DC.

Attention: To update this information, please send an e-mail with the modifications to javier@uta.edu
Links to Journals