Alfred L. Roca, Ph.D. - Publications

Animal Sciences University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
mammalian evolution, retroviruses

71 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Perrin-Stowe TIN, Ishida Y, Terrill EE, Hamlin BC, Penfold L, Cusack LM, Novakofski J, Mateus-Pinilla NE, Roca AL. Prion protein gene (PRNP) sequences suggest differing vulnerability to chronic wasting disease for Florida Key deer (Odocoileus virginianus clavium) and Columbian white-tailed deer (O. v. leucurus). The Journal of Heredity. PMID 32945850 DOI: 10.1093/jhered/esaa040  0.48
2020 Ishida Y, Tian T, Brandt AL, Kelly AC, Shelton P, Roca AL, Novakofski J, Mateus-Pinilla NE. Association of chronic wasting disease susceptibility with prion protein variation in white-tailed deer (). Prion. 14: 214-225. PMID 32835598 DOI: 10.1080/19336896.2020.1805288  0.48
2019 Zhao K, Ishida Y, Green CE, Davidson AG, Sitam FAT, Donnelly CL, De Flamingh A, Perrin-Stowe TIN, Bourgeois S, Brandt AL, Mundis SJ, Van Aarde RJ, Greenberg JA, Malhi RS, Georgiadis NJ, ... ... Roca AL, et al. Loxodonta Localizer: A Software Tool for Inferring the Provenance of African Elephants and Their Ivory Using Mitochondrial DNA. The Journal of Heredity. PMID 31674643 DOI: 10.1093/jhered/esz058  0.48
2018 Löber U, Hobbs M, Dayaram A, Tsangaras K, Jones K, Alquezar-Planas DE, Ishida Y, Meers J, Mayer J, Quedenau C, Chen W, Johnson RN, Timms P, Young PR, Roca AL, et al. Degradation and remobilization of endogenous retroviruses by recombination during the earliest stages of a germ-line invasion. Proceedings of the National Academy of Sciences of the United States of America. PMID 30082403 DOI: 10.1073/pnas.1807598115  0.48
2018 Brandt AL, Green ML, Ishida Y, Roca AL, Novakofski J, Mateus-Pinilla NE. Influence of the geographic distribution of prion protein gene sequence variation on patterns of chronic wasting disease spread in white-tailed deer (Odocoileus virginianus). Prion. 1-12. PMID 30041562 DOI: 10.1080/19336896.2018.1474671  0.48
2018 Ishida Y, Gugala NA, Georgiadis NJ, Roca AL. Evolutionary and demographic processes shaping geographic patterns of genetic diversity in a keystone species, the African forest elephant (). Ecology and Evolution. 8: 4919-4931. PMID 29876070 DOI: 10.1002/ece3.4062  0.48
2018 Brandt JR, Van Coeverden de Groot PJ, Witt KE, Engelbrektsson PK, Helgen KM, Malhi RS, Ryder OA, Roca AL. Genetic structure and diversity among historic and modern populations of the Sumatran rhinoceros (Dicerorhinus sumatrensis). The Journal of Heredity. PMID 29684146 DOI: 10.1093/jhered/esy019  0.48
2018 Greenwood AD, Ishida Y, O'Brien SP, Roca AL, Eiden MV. Transmission, Evolution, and Endogenization: Lessons Learned from Recent Retroviral Invasions. Microbiology and Molecular Biology Reviews : Mmbr. 82. PMID 29237726 DOI: 10.1128/MMBR.00044-17  0.48
2017 Meyer M, Palkopoulou E, Baleka S, Stiller M, Penkman KEH, Alt KW, Ishida Y, Mania D, Mallick S, Meijer T, Meller H, Nagel S, Nickel B, Ostritz S, Rohland N, ... ... Roca AL, et al. Palaeogenomes of Eurasian straight-tusked elephants challenge the current view of elephant evolution. Elife. 6. PMID 28585920 DOI: 10.7554/eLife.25413  0.48
2016 Ruiz-Rodriguez CT, Brandt JR, Oliverio R, Ishida Y, Guedj N, Garrett EF, Kahila Bar-Gal G, Nikolaidis N, Cardoso FC, Roca AL. Polymorphisms of the Toll-Like Receptor 2 of Goats (Capra hircus) may be Associated with Somatic Cell Count in Milk. Animal Biotechnology. 1-8. PMID 27791476 DOI: 10.1080/10495398.2016.1232267  0.48
2016 Ishida Y, Van Coeverden de Groot PJ, Leggett KE, Putnam AS, Fox VE, Lai J, Boag PT, Georgiadis NJ, Roca AL. Genetic connectivity across marginal habitats: the elephants of the Namib Desert. Ecology and Evolution. 6: 6189-6201. PMID 27648236 DOI: 10.1002/ece3.2352  0.48
2016 Ruiz-Rodriguez CT, Ishida Y, Murray ND, O'Brien SJ, Graves JA, Greenwood AD, Roca AL. Koalas (Phascolarctos cinereus) from Queensland are genetically distinct from two populations in Victoria. The Journal of Heredity. PMID 27515769 DOI: 10.1093/jhered/esw049  0.48
2016 Gugala NA, Ishida Y, Georgiadis NJ, Roca AL. Development and characterization of microsatellite markers in the African forest elephant (Loxodonta cyclotis). Bmc Research Notes. 9: 364. PMID 27456228 DOI: 10.1186/s13104-016-2167-3  0.48
2016 Alfano N, Michaux J, Morand S, Aplin K, Tsangaras K, Löber U, Fabre PH, Fitriana Y, Semiadi G, Ishida Y, Helgen KM, Roca AL, Eiden MV, Greenwood AD. An endogenous gibbon ape leukemia virus (GALV) identified in a rodent (Melomys burtoni subsp.) from Wallacea (Indonesia). Journal of Virology. PMID 27384662 DOI: 10.1128/JVI.00723-16  0.48
2016 Cui P, Löber U, Alquezar-Planas DE, Ishida Y, Courtiol A, Timms P, Johnson RN, Lenz D, Helgen KM, Roca AL, Hartman S, Greenwood AD. Comprehensive profiling of retroviral integration sites using target enrichment methods from historical koala samples without an assembled reference genome. Peerj. 4: e1847. PMID 27069793 DOI: 10.7717/peerj.1847  0.48
2016 Alfano N, Kolokotronis SO, Tsangaras K, Roca AL, Xu W, Eiden MV, Greenwood AD. Erratum for Alfano et al., Episodic Diversifying Selection Shaped the Genomes of Gibbon Ape Leukemia Virus and Related Gammaretroviruses. Journal of Virology. 90: 4254. PMID 27022099 DOI: 10.1128/JVI.00210-16  0.48
2016 Darfour-Oduro KA, Megens HJ, Roca AL, Groenen MA, Schook LB. Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae. Bmc Evolutionary Biology. 16: 33. PMID 26860534 DOI: 10.1186/s12862-016-0602-7  0.48
2015 Alfano N, Kolokotronis SO, Tsangaras K, Roca AL, Xu W, Eiden MV, Greenwood AD. Episodic diversifying selection shaped the genomes of gibbon ape leukemia virus and related gammaretroviruses. Journal of Virology. PMID 26637454 DOI: 10.1128/JVI.02745-15  0.48
2015 Jacobs CE, Main MB. A Conservation-Based Approach to Compensation for Livestock Depredation: The Florida Panther Case Study. Plos One. 10: e0139203. PMID 26421433 DOI: 10.1371/journal.pone.0139203  0.48
2015 Hartmann S, Hasenkamp N, Mayer J, Michaux J, Morand S, Mazzoni CJ, Roca AL, Greenwood AD. Endogenous murine leukemia retroviral variation across wild European and inbred strains of house mouse. Bmc Genomics. 16: 613. PMID 26282858 DOI: 10.1186/s12864-015-1766-z  0.48
2015 Ganu RS, Ishida Y, Koutmos M, Kolokotronis SO, Roca AL, Garrow TA, Schook LB. Evolutionary Analyses and Natural Selection of Betaine-Homocysteine S-Methyltransferase (BHMT) and BHMT2 Genes. Plos One. 10: e0134084. PMID 26213999 DOI: 10.1371/journal.pone.0134084  0.48
2015 Roca AL. Evolution: The Island of Misfit Mammoths. Current Biology : Cb. 25: R549-51. PMID 26126277 DOI: 10.1016/j.cub.2015.05.006  0.48
2015 Alfano N, Courtiol A, Vielgrader H, Timms P, Roca AL, Greenwood AD. Variation in koala microbiomes within and between individuals: effect of body region and captivity status. Scientific Reports. 5: 10189. PMID 25960327 DOI: 10.1038/srep10189  0.48
2015 Darfour-Oduro KA, Megens HJ, Roca AL, Groenen MA, Schook LB. Adaptive Evolution of Toll-Like Receptors (TLRs) in the Family Suidae. Plos One. 10: e0124069. PMID 25894218 DOI: 10.1371/journal.pone.0124069  0.48
2015 Guiblet WM, Zhao K, O'Brien SJ, Massey SE, Roca AL, Oleksyk TK. SmileFinder: a resampling-based approach to evaluate signatures of selection from genome-wide sets of matching allele frequency data in two or more diploid populations. Gigascience. 4: 1. PMID 25838885 DOI: 10.1186/2047-217X-4-1  0.48
2015 Roca AL, Ishida Y, Brandt AL, Benjamin NR, Zhao K, Georgiadis NJ. Elephant natural history: a genomic perspective. Annual Review of Animal Biosciences. 3: 139-67. PMID 25493538 DOI: 10.1146/annurev-animal-022114-110838  0.48
2015 Ishida Y, McCallister C, Nikolaidis N, Tsangaras K, Helgen KM, Greenwood AD, Roca AL. Sequence variation of koala retrovirus transmembrane protein p15E among koalas from different geographic regions. Virology. 475: 28-36. PMID 25462343 DOI: 10.1016/j.virol.2014.10.036  0.48
2015 Ishida Y, Zhao K, Greenwood AD, Roca AL. Proliferation of endogenous retroviruses in the early stages of a host germ line invasion. Molecular Biology and Evolution. 32: 109-20. PMID 25261407 DOI: 10.1093/molbev/msu275  0.48
2014 Ruiz-Rodriguez CT, Ishida Y, Greenwood AD, Roca AL. Development of 14 microsatellite markers in the Queensland koala (Phascolarctos cinereus adustus) using next generation sequencing technology. Conservation Genetics Resources. 6: 429-431. PMID 25067980 DOI: 10.1007/s12686-013-0115-2  0.48
2014 Tsangaras K, Siracusa MC, Nikolaidis N, Ishida Y, Cui P, Vielgrader H, Helgen KM, Roca AL, Greenwood AD. Hybridization capture reveals evolution and conservation across the entire Koala retrovirus genome. Plos One. 9: e95633. PMID 24752422 DOI: 10.1371/journal.pone.0095633  0.48
2014 Brandt AL, Hagos Y, Yacob Y, David VA, Georgiadis NJ, Shoshani J, Roca AL. The elephants of Gash-Barka, Eritrea: nuclear and mitochondrial genetic patterns. The Journal of Heredity. 105: 82-90. PMID 24285829 DOI: 10.1093/jhered/est078  0.48
2014 Brandt JR, Brandt AL, Ammer FK, Roca AL, Serfass TL. Impact of population expansion on genetic diversity and structure of river otters (Lontra canadensis) in Central North America. The Journal of Heredity. 105: 39-47. PMID 24154534 DOI: 10.1093/jhered/est069  0.48
2014 Cappellini E, Gentry A, Palkopoulou E, Ishida Y, Cram D, Roos AM, Watson M, Johansson US, Fernholm B, Agnelli P, Barbagli F, Littlewood DTJ, Kelstrup CD, Olsen JV, Lister AM, ... Roca AL, et al. Resolution of the type material of the Asian elephant, Elephas maximus Linnaeus, 1758 (Proboscidea, Elephantidae) Zoological Journal of the Linnean Society. 170: 222-232. DOI: 10.1111/zoj.12084  0.48
2014 Brandt JR, Van Coeverden de Groot PJ, Zhao K, Dyck MG, Boag PT, Roca AL. Development of nineteen polymorphic microsatellite loci in the threatened polar bear (Ursus maritimus) using next generation sequencing Conservation Genetics Resources. 6: 59-61. DOI: 10.1007/s12686-013-0003-9  0.48
2013 Ishida Y, Georgiadis NJ, Hondo T, Roca AL. Triangulating the provenance of African elephants using mitochondrial DNA. Evolutionary Applications. 6: 253-65. PMID 23798975 DOI: 10.1111/j.1752-4571.2012.00286.x  0.48
2013 Ávila-Arcos MC, Ho SY, Ishida Y, Nikolaidis N, Tsangaras K, Hönig K, Medina R, Rasmussen M, Fordyce SL, Calvignac-Spencer S, Willerslev E, Gilbert MT, Helgen KM, Roca AL, Greenwood AD. One hundred twenty years of koala retrovirus evolution determined from museum skins. Molecular Biology and Evolution. 30: 299-304. PMID 22983950 DOI: 10.1093/molbev/mst015  0.48
2012 Zhao K, Ishida Y, Oleksyk TK, Winkler CA, Roca AL. Evidence for selection at HIV host susceptibility genes in a West Central African human population. Bmc Evolutionary Biology. 12: 237. PMID 23217182 DOI: 10.1186/1471-2148-12-237  0.48
2012 Tsangaras K, Ávila-Arcos MC, Ishida Y, Helgen KM, Roca AL, Greenwood AD. Historically low mitochondrial DNA diversity in koalas (Phascolarctos cinereus). Bmc Genetics. 13: 92. PMID 23095716 DOI: 10.1186/1471-2156-13-92  0.48
2012 Brandt AL, Ishida Y, Georgiadis NJ, Roca AL. Forest elephant mitochondrial genomes reveal that elephantid diversification in Africa tracked climate transitions. Molecular Ecology. 21: 1175-89. PMID 22260276 DOI: 10.1111/j.1365-294X.2012.05461.x  0.48
2012 Ishida Y, Roca AL, Fratpietro S, Greenwood AD. Successful genotyping of microsatellites in the woolly mammoth. The Journal of Heredity. 103: 459-64. PMID 22235141 DOI: 10.1093/jhered/esr139  0.48
2012 Ishida Y, Demeke Y, van Coeverden de Groot PJ, Georgiadis NJ, Leggett KEA, Fox VE, Roca AL. Short amplicon microsatellite markers for low quality elephant DNA Conservation Genetics Resources. 4: 491-494. DOI: 10.1007/s12686-011-9582-5  0.48
2011 Ishida Y, Demeke Y, van Coeverden de Groot PJ, Georgiadis NJ, Leggett KE, Fox VE, Roca AL. Distinguishing forest and savanna African elephants using short nuclear DNA sequences. The Journal of Heredity. 102: 610-6. PMID 21775678 DOI: 10.1093/jhered/esr073  0.48
2011 Roca AL. 10th International Feline Retrovirus Research Symposium 2010. Preface. Veterinary Immunology and Immunopathology. 143: 177-8. PMID 21752475 DOI: 10.1016/j.vetimm.2011.06.001  0.48
2011 Ishida Y, Oleksyk TK, Georgiadis NJ, David VA, Zhao K, Stephens RM, Kolokotronis SO, Roca AL. Reconciling apparent conflicts between mitochondrial and nuclear phylogenies in African elephants. Plos One. 6: e20642. PMID 21701575 DOI: 10.1371/journal.pone.0020642  0.48
2010 Rohland N, Reich D, Mallick S, Meyer M, Green RE, Georgiadis NJ, Roca AL, Hofreiter M. Genomic DNA sequences from mastodon and woolly mammoth reveal deep speciation of forest and savanna elephants. Plos Biology. 8: e1000564. PMID 21203580 DOI: 10.1371/journal.pbio.1000564  0.48
2010 Polani S, Roca AL, Rosensteel BB, Kolokotronis SO, Bar-Gal GK. Evolutionary dynamics of endogenous feline leukemia virus proliferation among species of the domestic cat lineage. Virology. 405: 397-407. PMID 20615520 DOI: 10.1016/j.virol.2010.06.010  0.48
2009 Roca AL, Ishida Y, Nikolaidis N, Kolokotronis SO, Fratpietro S, Stewardson K, Hensley S, Tisdale M, Boeskorov G, Greenwood AD. Genetic variation at hair length candidate genes in elephants and the extinct woolly mammoth. Bmc Evolutionary Biology. 9: 232. PMID 19747392 DOI: 10.1186/1471-2148-9-232  0.48
2009 Roelke ME, Brown MA, Troyer JL, Winterbach H, Winterbach C, Hemson G, Smith D, Johnson RC, Pecon-Slattery J, Roca AL, Alexander KA, Klein L, Martelli P, Krishnasamy K, O'Brien SJ. Pathological manifestations of feline immunodeficiency virus (FIV) infection in wild African lions. Virology. 390: 1-12. PMID 19464039 DOI: 10.1016/j.virol.2009.04.011  0.48
2009 Driscoll CA, Yamaguchi N, Bar-Gal GK, Roca AL, Luo S, Macdonald DW, O'Brien SJ. Mitochondrial phylogeography illuminates the origin of the extinct caspian tiger and its relationship to the amur tiger. Plos One. 4: e4125. PMID 19142238 DOI: 10.1371/journal.pone.0004125  0.48
2008 Brown MA, Cunningham MW, Roca AL, Troyer JL, Johnson WE, O'Brien SJ. Genetic characterization of feline leukemia virus from Florida panthers. Emerging Infectious Diseases. 14: 252-9. PMID 18258118 DOI: 10.3201/eid1402.070981  0.48
2008 Roca AL. The mastodon mitochondrial genome: a mammoth accomplishment. Trends in Genetics : Tig. 24: 49-52. PMID 18192067 DOI: 10.1016/j.tig.2007.11.005  0.48
2007 Roca AL, Georgiadis N, O'Brien SJ. Cyto-nuclear genomic dissociation and the African elephant species question. Quaternary International : the Journal of the International Union For Quaternary Research. 169: 4-16. PMID 18591997 DOI: 10.1016/j.quaint.2006.08.008  0.48
2007 Pontius JU, Mullikin JC, Smith DR, Lindblad-Toh K, Gnerre S, Clamp M, Chang J, Stephens R, Neelam B, Volfovsky N, Schäffer AA, Agarwala R, Narfström K, Murphy WJ, ... ... Roca AL, et al. Initial sequence and comparative analysis of the cat genome. Genome Research. 17: 1675-89. PMID 17975172 DOI: 10.1101/gr.6380007  0.48
2007 Driscoll CA, Menotti-Raymond M, Roca AL, Hupe K, Johnson WE, Geffen E, Harley EH, Delibes M, Pontier D, Kitchener AC, Yamaguchi N, O'brien SJ, Macdonald DW. The Near Eastern origin of cat domestication. Science (New York, N.Y.). 317: 519-23. PMID 17600185 DOI: 10.1126/science.1139518  0.48
2006 Capelli C, MacPhee RD, Roca AL, Brisighelli F, Georgiadis N, O'Brien SJ, Greenwood AD. A nuclear DNA phylogeny of the woolly mammoth (Mammuthus primigenius). Molecular Phylogenetics and Evolution. 40: 620-7. PMID 16631387 DOI: 10.1016/j.ympev.2006.03.015  0.48
2005 Roca AL, O'Brien SJ. Genomic inferences from Afrotheria and the evolution of elephants. Current Opinion in Genetics & Development. 15: 652-9. PMID 16226885 DOI: 10.1016/j.gde.2005.09.014  0.48
2005 Roca AL, Nash WG, Menninger JC, Murphy WJ, O'Brien SJ. Insertional polymorphisms of endogenous feline leukemia viruses. Journal of Virology. 79: 3979-86. PMID 15767400 DOI: 10.1128/JVI.79.7.3979-3986.2005  0.48
2005 Roca AL, Georgiadis N, O'Brien SJ. Cytonuclear genomic dissociation in African elephant species. Nature Genetics. 37: 96-100. PMID 15592471 DOI: 10.1038/ng1485  0.48
2004 Roca AL, Bar-Gal GK, Eizirik E, Helgen KM, Maria R, Springer MS, O'Brien SJ, Murphy WJ. Mesozoic origin for West Indian insectivores. Nature. 429: 649-51. PMID 15190349 DOI: 10.1038/nature02597  0.48
2004 Roca AL, Pecon-Slattery J, O'Brien SJ. Genomically intact endogenous feline leukemia viruses of recent origin. Journal of Virology. 78: 4370-5. PMID 15047851 DOI: 10.1128/JVI.78.8.4370-4375.2004  0.48
2002 Comstock KE, Georgiadis N, Pecon-Slattery J, Roca AL, Ostrander EA, O'Brien SJ, Wasser SK. Patterns of molecular genetic variation among African elephant populations. Molecular Ecology. 11: 2489-98. PMID 12453234 DOI: 10.1046/j.1365-294X.2002.01615.x  0.48
2001 Roca AL, Georgiadis N, Pecon-Slattery J, O'Brien SJ. Genetic evidence for two species of elephant in Africa. Science (New York, N.Y.). 293: 1473-7. PMID 11520983 DOI: 10.1126/science.1059936  0.48
1996 Sauman I, Tsai T, Roca AL, Reppert SM. Period protein is necessary for circadian control of egg hatching behavior in the silkmoth Antheraea pernyi. Neuron. 17: 901-9. PMID 8938122 DOI: 10.1016/S0896-6273(00)80221-4  0.48
1996 Roca AL, Godson C, Weaver DR, Reppert SM. Structure, characterization, and expression of the gene encoding the mouse Mel1a melatonin receptor. Endocrinology. 137: 3469-77. PMID 8754776 DOI: 10.1210/endo.137.8.8754776  0.48
1995 Weaver DR, Roca AL, Reppert SM. c-fos and jun-B mRNAs are transiently expressed in fetal rodent suprachiasmatic nucleus following dopaminergic stimulation. Brain Research. Developmental Brain Research. 85: 293-7. PMID 7600678 DOI: 10.1016/0165-3806(95)00016-7  0.48
1995 Slaugenhaupt SA, Roca AL, Liebert CB, Altherr MR, Gusella JF, Reppert SM. Mapping of the gene for the Mel1a-melatonin receptor to human chromosome 4 (MTNR1A) and mouse chromosome 8 (Mtnr1a). Genomics. 27: 355-7. PMID 7558006 DOI: 10.1006/geno.1995.1056  0.48
1994 Davar G, Kramer MF, Garber D, Roca AL, Andersen JK, Bebrin W, Coen DM, Kosz-Vnenchak M, Knipe DM, Breakefield XO. Gene transfer to sensory neurons using herpes virus vectors. Gene Therapy. 1: S24. PMID 8542387  0.48
1994 Davar G, Kramer MF, Garber D, Roca AL, Andersen JK, Bebrin W, Coen DM, Kosz-Vnenchak M, Knipe DM, Breakefield XO. Comparative efficacy of expression of genes delivered to mouse sensory neurons with herpes virus vectors. The Journal of Comparative Neurology. 339: 3-11. PMID 8106660 DOI: 10.1002/cne.903390103  0.48
1994 Reppert SM, Tsai T, Roca AL, Sauman I. Cloning of a structural and functional homolog of the circadian clock gene period from the giant silkmoth Antheraea pernyi. Neuron. 13: 1167-76. PMID 7946353 DOI: 10.1016/0896-6273(94)90054-X  0.48
1993 Tobet SA, Roca AL, Crandall JE. Cellular organization in rat somatosensory cortex: effects of sex and laterality. Experimental Neurology. 121: 65-76. PMID 8495712 DOI: 10.1006/exnr.1993.1072  0.48
1993 Roca AL, Weaver DR, Reppert SM. Serotonin receptor gene expression in the rat suprachiasmatic nuclei. Brain Research. 608: 159-65. PMID 8495340 DOI: 10.1016/0006-8993(93)90789-P  0.48
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