Keith A. Crandall - Publications

Affiliations: 
1996-2012 Biology Brigham Young University, Provo, UT, United States 
 2012- Computational Biology Institute George Washington University, Washington, DC, United States 
Area:
Population genetics, evolutionary biology, bioinformatics, crustacean systematics

236 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
2019 Gibson KM, Nguyen BN, Neumann LM, Miller M, Buss P, Daniels S, Ahn MJ, Crandall KA, Pukazhenthi B. Gut microbiome differences between wild and captive black rhinoceros - implications for rhino health. Scientific Reports. 9: 7570. PMID 31138833 DOI: 10.1038/s41598-019-43875-3  0.4
2019 Wolfe JM, Breinholt JW, Crandall KA, Lemmon AR, Lemmon EM, Timm LE, Siddall ME, Bracken-Grissom HD. A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans. Proceedings. Biological Sciences. 286: 20190079. PMID 31014217 DOI: 10.1098/rspb.2019.0079  0.88
2019 Gibson KM, Steiner MC, Kassaye S, Maldarelli F, Grossman Z, Pérez-Losada M, Crandall KA. A 28-Year History of HIV-1 Drug Resistance and Transmission in Washington, DC. Frontiers in Microbiology. 10: 369. PMID 30906285 DOI: 10.3389/fmicb.2019.00369  0.72
2018 Pérez-Losada M, Authelet KJ, Hoptay CE, Kwak C, Crandall KA, Freishtat RJ. Pediatric asthma comprises different phenotypic clusters with unique nasal microbiotas. Microbiome. 6: 179. PMID 30286807 DOI: 10.1186/s40168-018-0564-7  0.72
2018 Hahn A, Bendall ML, Gibson KM, Chaney H, Sami I, Perez GF, Koumbourlis AC, McCaffrey TA, Freishtat RJ, Crandall KA. Benchmark Evaluation of True Single Molecular Sequencing to Determine Cystic Fibrosis Airway Microbiome Diversity. Frontiers in Microbiology. 9: 1069. PMID 29887843 DOI: 10.3389/fmicb.2018.01069  0.4
2018 Haynsen MS, Vatanparast M, Mahadwar G, Zhu D, Moger-Reischer RZ, Doyle JJ, Crandall KA, Egan AN. De novo transcriptome assembly of Pueraria montana var. lobata and Neustanthus phaseoloides for the development of eSSR and SNP markers: narrowing the US origin(s) of the invasive kudzu. Bmc Genomics. 19: 439. PMID 29871589 DOI: 10.1186/s12864-018-4798-3  0.88
2018 Houzet L, Pérez-Losada M, Matusali G, Deleage C, Dereuddre-Bosquet N, Satie AP, Aubry F, Becker E, Jégou B, Le Grand R, Keele BF, Crandall KA, Dejucq-Rainsford N. Seminal SIV in chronically-infected cynomolgus macaques is dominated by virus originating from multiple genital organs. Journal of Virology. PMID 29720516 DOI: 10.1128/JVI.00133-18  0.72
2017 Hahn A, Warnken S, Pérez-Losada M, Freishtat RJ, Crandall KA. Microbial diversity within the airway microbiome in chronic pediatric lung diseases. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. PMID 29225146 DOI: 10.1016/j.meegid.2017.12.006  0.72
2017 Pérez-Losada M, Castel AD, Lewis B, Kharfen M, Cartwright CP, Huang B, Maxwell T, Greenberg AE, Crandall KA. Characterization of HIV diversity, phylodynamics and drug resistance in Washington, DC. Plos One. 12: e0185644. PMID 28961263 DOI: 10.1371/journal.pone.0185644  0.72
2017 Pérez-Losada M, Alamri L, Crandall KA, Freishtat RJ. Nasopharyngeal Microbiome Diversity Changes over Time in Children with Asthma. Plos One. 12: e0170543. PMID 28107528 DOI: 10.1371/journal.pone.0170543  0.72
2016 Pérez-Losada M, Crandall KA, Freishtat RJ. Two sampling methods yield distinct microbial signatures in the nasopharynges of asthmatic children. Microbiome. 4: 25. PMID 27306800 DOI: 10.1186/s40168-016-0170-5  0.72
2016 Hilton SK, Castro-Nallar E, Pérez-Losada M, Toma I, McCaffrey TA, Hoffman EP, Siegel MO, Simon GL, Johnson WE, Crandall KA. Metataxonomic and Metagenomic Approaches vs. Culture-Based Techniques for Clinical Pathology. Frontiers in Microbiology. 7: 484. PMID 27092134 DOI: 10.3389/fmicb.2016.00484  1
2015 Sproul JS, Houston DD, Nelson CR, Evans RP, Crandall KA, Shiozawa DK. Climate oscillations, glacial refugia, and dispersal ability: factors influencing the genetic structure of the least salmonfly, Pteronarcella badia (Plecoptera), in Western North America. Bmc Evolutionary Biology. 15: 279. PMID 26653183 DOI: 10.1186/s12862-015-0553-4  1
2015 Hinchliff CE, Smith SA, Allman JF, Burleigh JG, Chaudhary R, Coghill LM, Crandall KA, Deng J, Drew BT, Gazis R, Gude K, Hibbett DS, Katz LA, Laughinghouse HD, McTavish EJ, et al. Synthesis of phylogeny and taxonomy into a comprehensive tree of life. Proceedings of the National Academy of Sciences of the United States of America. PMID 26385966 DOI: 10.1073/pnas.1423041112  1
2015 Castro-Nallar E, Bendall ML, Pérez-Losada M, Sabuncyan S, Severance EG, Dickerson FB, Schroeder JR, Yolken RH, Crandall KA. Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls. Peerj. 3: e1140. PMID 26336637 DOI: 10.7717/peerj.1140  1
2015 Castro-Nallar E, Shen Y, Freishtat RJ, Pérez-Losada M, Manimaran S, Liu G, Johnson WE, Crandall KA. Integrating microbial and host transcriptomics to characterize asthma-associated microbial communities. Bmc Medical Genomics. 8: 50. PMID 26277095 DOI: 10.1186/s12920-015-0121-1  1
2015 Pérez-Losada M, Castro-Nallar E, Bendall ML, Freishtat RJ, Crandall KA. Dual Transcriptomic Profiling of Host and Microbiota during Health and Disease in Pediatric Asthma. Plos One. 10: e0131819. PMID 26125632 DOI: 10.1371/journal.pone.0131819  1
2015 Castro-Nallar E, Hasan NA, Cebula TA, Colwell RR, Robison RA, Johnson WE, Crandall KA. Concordance and discordance of sequence survey methods for molecular epidemiology. Peerj. 3: e761. PMID 25737810 DOI: 10.7717/peerj.761  1
2015 Richman NI, Böhm M, Adams SB, Alvarez F, Bergey EA, Bunn JJ, Burnham Q, Cordeiro J, Coughran J, Crandall KA, Dawkins KL, DiStefano RJ, Doran NE, Edsman L, Eversole AG, et al. Multiple drivers of decline in the global status of freshwater crayfish (Decapoda: Astacidea). Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 370: 20140060. PMID 25561679 DOI: 10.1098/rstb.2014.0060  1
2015 Owen CL, Bracken-Grissom H, Stern D, Crandall KA. A synthetic phylogeny of freshwater crayfish: insights for conservation. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 370: 20140009. PMID 25561670 DOI: 10.1098/rstb.2014.0009  1
2015 Santos S, Bond-Buckup G, Buckup L, Bartholomei-Santos ML, Pérez-Losada M, Jara CG, Crandall KA. Three new species of Aeglidae (Aegla leach, 1820) from Paraná State, Brazil Journal of Crustacean Biology. 35: 839-849. DOI: 10.1163/1937240X-00002376  1
2015 Buhay JE, Crandall KA, Posada D. Nested clade phylogeographic analysis for conservation genetics Population Genetics For Animal Conservation. 80-103. DOI: 10.1017/CBO9780511626920.005  1
2015 Almerão MP, Rudolph E, Souty-Grosset C, Crandall K, Buckup L, Amouret J, Verdi A, Santos S, Araujo PBD. The native South American crayfishes (Crustacea, Parastacidae): State of knowledge and conservation status Aquatic Conservation: Marine and Freshwater Ecosystems. 25: 288-301. DOI: 10.1002/aqc.2488  1
2014 Speiser DI, Pankey MS, Zaharoff AK, Battelle BA, Bracken-Grissom HD, Breinholt JW, Bybee SM, Cronin TW, Garm A, Lindgren AR, Patel NH, Porter ML, Protas ME, Rivera AS, Serb JM, ... ... Crandall KA, et al. Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms. Bmc Bioinformatics. 15: 350. PMID 25407802 DOI: 10.1186/s12859-014-0350-x  1
2014 Li H, Zhu D, Zhang C, Han H, Crandall KA. Characteristics of equipartition for RNA structure. Bmc Proceedings. 8: S3. PMID 25374612 DOI: 10.1186/1753-6561-8-S6-S3  0.48
2014 Pérez-Losada M, Høeg JT, Simon-Blecher N, Achituv Y, Jones D, Crandall KA. Molecular phylogeny, systematics and morphological evolution of the acorn barnacles (Thoracica: Sessilia: Balanomorpha). Molecular Phylogenetics and Evolution. 81: 147-58. PMID 25261121 DOI: 10.1016/j.ympev.2014.09.013  1
2014 Hong C, Manimaran S, Shen Y, Perez-Rogers JF, Byrd AL, Castro-Nallar E, Crandall KA, Johnson WE. PathoScope 2.0: a complete computational framework for strain identification in environmental or clinical sequencing samples. Microbiome. 2: 33. PMID 25225611 DOI: 10.1186/2049-2618-2-33  1
2014 Toma I, Siegel MO, Keiser J, Yakovleva A, Kim A, Davenport L, Devaney J, Hoffman EP, Alsubail R, Crandall KA, Castro-Nallar E, Pérez-Losada M, Hilton SK, Chawla LS, McCaffrey TA, et al. Single-molecule long-read 16S sequencing to characterize the lung microbiome from mechanically ventilated patients with suspected pneumonia. Journal of Clinical Microbiology. 52: 3913-21. PMID 25143582 DOI: 10.1128/JCM.01678-14  1
2014 Li H, Zhu D, Zhang C, Han H, Crandall KA. Characteristics and prediction of RNA structure. Biomed Research International. 2014: 690340. PMID 25110687 DOI: 10.1155/2014/690340  0.48
2014 Byrd AL, Perez-Rogers JF, Manimaran S, Castro-Nallar E, Toma I, McCaffrey T, Siegel M, Benson G, Crandall KA, Johnson WE. Clinical PathoScope: rapid alignment and filtration for accurate pathogen identification in clinical samples using unassembled sequencing data. Bmc Bioinformatics. 15: 262. PMID 25091138 DOI: 10.1186/1471-2105-15-262  1
2014 Faison WJ, Rostovtsev A, Castro-Nallar E, Crandall KA, Chumakov K, Simonyan V, Mazumder R. Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes. Genomics. 104: 1-7. PMID 24930720 DOI: 10.1016/j.ygeno.2014.06.001  1
2014 Geeta R, Lohmann LG, Magallon S, Faith DP, Hendry A, Crandall K, De Meester L, Webb CO, Prieur-Richard AH, Mimura M, Conti E, Cracraft J, Forest F, Jaramillo C, Donoghue M, et al. Biodiversity only makes sense in the light of evolution. Journal of Biosciences. 39: 333-7. PMID 24845496 DOI: 10.1007/s12038-014-9427-y  1
2014 Tazi L, Breakwell DP, Harker AR, Crandall KA. Life in extreme environments: microbial diversity in Great Salt Lake, Utah. Extremophiles : Life Under Extreme Conditions. 18: 525-35. PMID 24682608 DOI: 10.1007/s00792-014-0637-x  1
2014 Bracken-Grissom HD, Ahyong ST, Wilkinson RD, Feldmann RM, Schweitzer CE, Breinholt JW, Bendall M, Palero F, Chan TY, Felder DL, Robles R, Chu KH, Tsang LM, Kim D, Martin JW, ... Crandall KA, et al. The emergence of lobsters: phylogenetic relationships, morphological evolution and divergence time comparisons of an ancient group (decapoda: achelata, astacidea, glypheidea, polychelida). Systematic Biology. 63: 457-79. PMID 24562813 DOI: 10.1093/sysbio/syu008  1
2014 Robison HW, Mcallister CT, Breinholt JW, Crandall KA. Status, distribution, and genetics of Blair's fencing crayfish, Faxonella blairi (Decapoda: Cambaridae) Southwestern Naturalist. 59: 244-250. DOI: 10.1894/F12-JHK-09.1  1
2014 Robison HW, Mcallister CT, Breinholt JW, Crandall KA. Status, distribution, and genetics of Blair's fencing crayfish, Faxonella blairi (Decapoda: Cambaridae) Southwestern Naturalist. 59: 244-250. DOI: 10.1894/F12-JHK-09.1  0.88
2014 Poore GCB, Ahyong ST, Bracken-Grissom HD, Chan TY, Chu KH, Crandall KA, Dworschak PC, Felder DL, Feldmann RM, Hyžný M, Karasawa H, Lemaitre R, Komai T, Li X, Mantelatto FL, et al. On stabilising the names of the infraorders of thalassinidean shrimps, axiidea de saint laurent, 1979 and gebiidea de saint laurent, 1979 (decapoda) Crustaceana. 87: 1258-1272. DOI: 10.1163/15685403-00003354  1
2013 Drew BT, Gazis R, Cabezas P, Swithers KS, Deng J, Rodriguez R, Katz LA, Crandall KA, Hibbett DS, Soltis DE. Lost branches on the tree of life. Plos Biology. 11: e1001636. PMID 24019756 DOI: 10.1371/journal.pbio.1001636  1
2013 Francis OE, Bendall M, Manimaran S, Hong C, Clement NL, Castro-Nallar E, Snell Q, Schaalje GB, Clement MJ, Crandall KA, Johnson WE. Pathoscope: species identification and strain attribution with unassembled sequencing data. Genome Research. 23: 1721-9. PMID 23843222 DOI: 10.1101/gr.150151.112  1
2013 Bracken-Grissom HD, Cannon ME, Cabezas P, Feldmann RM, Schweitzer CE, Ahyong ST, Felder DL, Lemaitre R, Crandall KA. A comprehensive and integrative reconstruction of evolutionary history for Anomura (Crustacea: Decapoda). Bmc Evolutionary Biology. 13: 128. PMID 23786343 DOI: 10.1186/1471-2148-13-128  1
2013 Pérez-Losada M, Cabezas P, Castro-Nallar E, Crandall KA. Pathogen typing in the genomics era: MLST and the future of molecular epidemiology. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 16: 38-53. PMID 23357583 DOI: 10.1016/j.meegid.2013.01.009  1
2013 Ainscough BJ, Breinholt JW, Robison HW, Crandall KA. Molecular phylogenetics of the burrowing crayfish genus Fallicambarus (Decapoda: Cambaridae) Zoologica Scripta. 42: 306-316. DOI: 10.1111/zsc.12006  1
2013 Ainscough BJ, Breinholt JW, Robison HW, Crandall KA. Molecular phylogenetics of the burrowing crayfish genus Fallicambarus (Decapoda: Cambaridae) Zoologica Scripta. 42: 306-316. DOI: 10.1111/zsc.12006  0.88
2013 Tilley SG, Bernardo J, Katz LA, López L, Devon Roll J, Eriksen RL, Kratovil J, Bittner NKJ, Crandall KA. Failed species, innominate forms, and the vain search for species limits: Cryptic diversity in dusky salamanders (desmognathus) of eastern tennessee Ecology and Evolution. 3: 2547-2567. DOI: 10.1002/ece3.636  1
2013 Tilley SG, Bernardo J, Katz LA, López L, Devon Roll J, Eriksen RL, Kratovil J, Bittner NKJ, Crandall KA. Failed species, innominate forms, and the vain search for species limits: Cryptic diversity in dusky salamanders (desmognathus) of eastern tennessee Ecology and Evolution. 3: 2547-2567. DOI: 10.1002/ece3.636  0.64
2012 Sundberg K, Clement M, Snell Q, Ventura D, Whiting M, Crandall K. Phylogenetic search through partial tree mixing Bmc Bioinformatics. 13: S8. PMID 23320449  1
2012 Pedraza-Lara C, Doadrio I, Breinholt JW, Crandall KA. Phylogeny and evolutionary patterns in the Dwarf crayfish subfamily (Decapoda: Cambarellinae). Plos One. 7: e48233. PMID 23155379 DOI: 10.1371/journal.pone.0048233  1
2012 Bracken-Grissom HD, Felder DL, Vollmer NL, Martin JW, Crandall KA. Phylogenetics links monster larva to deep-sea shrimp. Ecology and Evolution. 2: 2367-73. PMID 23145324 DOI: 10.1002/ece3.347  1
2012 Breinholt JW, Porter ML, Crandall KA. Testing phylogenetic hypotheses of the subgenera of the freshwater crayfish genus Cambarus (Decapoda: Cambaridae). Plos One. 7: e46105. PMID 23049950 DOI: 10.1371/journal.pone.0046105  1
2012 Andonov A, Coulthart MB, Pérez-Losada M, Crandall KA, Posada D, Padmore R, Giulivi A, Oger JJ, Peters AA, Dekaban GA. Insights into origins of Human T-cell Lymphotropic Virus Type 1 based on new strains from aboriginal people of Canada. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 12: 1822-30. PMID 22921499 DOI: 10.1016/j.meegid.2012.07.015  1
2012 Chandry PS, Gladman S, Moore SC, Seemann T, Crandall KA, Fegan N. A Genomic Island in Salmonella enterica ssp. salamae provides new insights on the genealogy of the locus of enterocyte effacement. Plos One. 7: e41615. PMID 22860002 DOI: 10.1371/journal.pone.0041615  1
2012 Pérez-Losada M, Høeg JT, Crandall KA, Achituv Y. Molecular phylogeny and character evolution of the chthamaloid barnacles (Cirripedia: Thoracica). Molecular Phylogenetics and Evolution. 65: 329-34. PMID 22728169 DOI: 10.1016/j.ympev.2012.06.004  1
2012 Barber BR, Xu J, Pérez-Losada M, Jara CG, Crandall KA. Conflicting evolutionary patterns due to mitochondrial introgression and multilocus phylogeography of the Patagonian freshwater crab Aegla neuquensis. Plos One. 7: e37105. PMID 22685541 DOI: 10.1371/journal.pone.0037105  1
2012 Pérez-Losada M, Høeg JT, Crandall KA. Deep phylogeny and character evolution in Thecostraca (Crustacea: Maxillopoda). Integrative and Comparative Biology. 52: 430-42. PMID 22532607 DOI: 10.1093/icb/ics051  1
2012 Castro-Nallar E, Chen H, Gladman S, Moore SC, Seemann T, Powell IB, Hillier A, Crandall KA, Chandry PS. Population genomics and phylogeography of an Australian dairy factory derived lytic bacteriophage. Genome Biology and Evolution. 4: 382-93. PMID 22355195 DOI: 10.1093/gbe/evs017  1
2012 Castro-Nallar E, Pérez-Losada M, Burton GF, Crandall KA. The evolution of HIV: inferences using phylogenetics. Molecular Phylogenetics and Evolution. 62: 777-92. PMID 22138161 DOI: 10.1016/j.ympev.2011.11.019  1
2012 Yang CH, Bracken-Grissom H, Kim D, Crandall KA, Chan TY. Phylogenetic relationships, character evolution, and taxonomic implications within the slipper lobsters (Crustacea: Decapoda: Scyllaridae). Molecular Phylogenetics and Evolution. 62: 237-50. PMID 22008407 DOI: 10.1016/j.ympev.2011.09.019  1
2012 Rudolph EH, Crandall KA. A new species of burrowing crayfish, Virilastacus jarai (Crustacea, Decapoda, Parastacidae) from central-southern Chile Proceedings of the Biological Society of Washington. 125: 258-275. DOI: 10.2988/11-39.1  1
2012 Castro-Nallar E, Crandall KA, Pérez-Losada M. Genetic diversity and molecular epidemiology of HIV transmission Future Virology. 7: 239-252. DOI: 10.2217/fvl.12.4  1
2012 Castro-Nallar E, Crandall KA, Pérez-Losada M. Genetic diversity and molecular epidemiology of HIV transmission Future Virology. 7: 239-252. DOI: 10.2217/fvl.12.4  0.72
2012 Santos S, Bond-Buckup G, Buckup L, Pérez-Losada M, Finley M, Crandall KA. Three new species of aegla (Anomura) freshwater crabs from the upper uruguay river hydrographic basin in Brazil Journal of Crustacean Biology. 32: 529-540. DOI: 10.1163/193724012X635935  1
2012 Santos S, Bond-Buckup G, Buckup L, Pérez-Losada M, Finley M, Crandall KA. Three new species of aegla (Anomura) freshwater crabs from the upper uruguay river hydrographic basin in Brazil Journal of Crustacean Biology. 32: 529-540. DOI: 10.1163/193724012X635935  0.72
2012 Bybee SM, Johnson KK, Gering EJ, Whiting MF, Crandall KA. All the better to see you with: A review of odonate color vision with transcriptomic insight into the odonate eye Organisms Diversity and Evolution. 12: 241-250. DOI: 10.1007/s13127-012-0090-6  1
2012 Bybee SM, Johnson KK, Gering EJ, Whiting MF, Crandall KA. All the better to see you with: A review of odonate color vision with transcriptomic insight into the odonate eye Organisms Diversity and Evolution. 12: 241-250. DOI: 10.1007/s13127-012-0090-6  0.4
2011 Castro-Nallar E, Cortez-San Martín M, Mascayano C, Molina C, Crandall KA. Molecular phylodynamics and protein modeling of infectious salmon anemia virus (ISAV). Bmc Evolutionary Biology. 11: 349. PMID 22132866 DOI: 10.1186/1471-2148-11-349  1
2011 Barber BR, Unmack PJ, Pérez-Losada M, Johnson JB, Crandall KA. Different processes lead to similar patterns: a test of codivergence and the role of sea level and climate changes in shaping a southern temperate freshwater assemblage. Bmc Evolutionary Biology. 11: 343. PMID 22118288 DOI: 10.1186/1471-2148-11-343  1
2011 Bybee SM, Bracken-Grissom H, Haynes BD, Hermansen RA, Byers RL, Clement MJ, Udall JA, Wilcox ER, Crandall KA. Targeted amplicon sequencing (TAS): a scalable next-gen approach to multilocus, multitaxa phylogenetics. Genome Biology and Evolution. 3: 1312-23. PMID 22002916 DOI: 10.1093/gbe/evr106  1
2011 Pérez-Losada M, Jobes DV, Sinangil F, Crandall KA, Arenas M, Posada D, Berman PW. Phylodynamics of HIV-1 from a phase III AIDS vaccine trial in Bangkok, Thailand. Plos One. 6: e16902. PMID 21423744 DOI: 10.1371/journal.pone.0016902  1
2011 Tazi L, Imamichi H, Hirschfeld S, Metcalf JA, Orsega S, Pérez-Losada M, Posada D, Lane HC, Crandall KA. HIV-1 infected monozygotic twins: a tale of two outcomes. Bmc Evolutionary Biology. 11: 62. PMID 21385447 DOI: 10.1186/1471-2148-11-62  1
2011 Sinclair EA, Madsen A, Walsh T, Nelson J, Crandall KA. Cryptic genetic divergence in the giant Tasmanian freshwater crayfish Astacopsis gouldi (Decapoda: Parastacidae): Implications for conservation Animal Conservation. 14: 87-97. DOI: 10.1111/j.1469-1795.2010.00395.x  1
2011 Bybee SM, Bracken-Grissom HD, Hermansen RA, Clement MJ, Crandall KA, Felder DL. Directed next generation sequencing for phylogenetics: An example using Decapoda (Crustacea) Zoologischer Anzeiger. 250: 497-506. DOI: 10.1016/j.jcz.2011.05.010  1
2011 Bybee SM, Bracken-Grissom HD, Hermansen RA, Clement MJ, Crandall KA, Felder DL. Directed next generation sequencing for phylogenetics: An example using Decapoda (Crustacea) Zoologischer Anzeiger. 250: 497-506. DOI: 10.1016/j.jcz.2011.05.010  0.68
2011 Pérez-Losada M, Porter ML, Viscidi RP, Crandall KA. Multilocus sequence typing of Pathogens Genetics and Evolution of Infectious Diseases. 503-521. DOI: 10.1016/B978-0-12-384890-1.00017-0  1
2011 Pérez-Losada M, Porter ML, Viscidi RP, Crandall KA. Multilocus sequence typing of Pathogens Genetics and Evolution of Infectious Diseases. 503-521. DOI: 10.1016/B978-0-12-384890-1.00017-0  1
2010 Maxwell TJ, Bendall ML, Staples J, Jarvis T, Crandall KA. Phylogenetics applied to genotype/phenotype association and selection analyses with sequence data from angptl4 in humans. International Journal of Molecular Sciences. 11: 370-85. PMID 20162021 DOI: 10.3390/ijms11010370  1
2010 Tazi L, Pérez-Losada M, Gu W, Yang Y, Xue L, Crandall KA, Viscidi RP. Population dynamics of Neisseria gonorrhoeae in Shanghai, China: a comparative study. Bmc Infectious Diseases. 10: 13. PMID 20092631 DOI: 10.1186/1471-2334-10-13  1
2010 Hendry AP, Lohmann LG, Conti E, Cracraft J, Crandall KA, Faith DP, Häuser C, Joly CA, Kogure K, Larigauderie A, Magallón S, Moritz C, Tillier S, Zardoya R, Prieur-Richard AH, et al. Evolutionary biology in biodiversity science, conservation, and policy: a call to action. Evolution; International Journal of Organic Evolution. 64: 1517-28. PMID 20067518 DOI: 10.1111/j.1558-5646.2010.00947.x  1
2010 Sinclair EA, Pramuk JB, Bezy RL, Crandall KA, Sites JW. DNA evidence for nonhybrid origins of parthenogenesis in natural populations of vertebrates. Evolution; International Journal of Organic Evolution. 64: 1346-57. PMID 19922448 DOI: 10.1111/j.1558-5646.2009.00893.x  1
2010 Pérez-Losada M, Jobes DV, Sinangil F, Crandall KA, Posada D, Berman PW. Phylodynamics of HIV-1 from a phase-III AIDS vaccine trial in North America. Molecular Biology and Evolution. 27: 417-25. PMID 19864468 DOI: 10.1093/molbev/msp254  1
2010 Lewis-Rogers N, Crandall KA. Evolution of Picornaviridae: an examination of phylogenetic relationships and cophylogeny. Molecular Phylogenetics and Evolution. 54: 995-1005. PMID 19835964 DOI: 10.1016/j.ympev.2009.10.015  1
2010 Hickerson MJ, Carstens BC, Cavender-Bares J, Crandall KA, Graham CH, Johnson JB, Rissler L, Victoriano PF, Yoder AD. Phylogeography's past, present, and future: 10 years after Avise, 2000. Molecular Phylogenetics and Evolution. 54: 291-301. PMID 19755165 DOI: 10.1016/j.ympev.2009.09.016  1
2010 Bond-Buckup G, Jara CG, Buckup L, Prez-Losada M, Bueno AAP, Crandall KA, Santos S. New species and new records of endemic freshwater crabs from the atlantic forest in southern brazil (anomura: Aeglidae) Journal of Crustacean Biology. 30: 495-502. DOI: 10.1651/09-3186.1  1
2010 Bond-Buckup G, Jara CG, Buckup L, Prez-Losada M, Bueno AAP, Crandall KA, Santos S. New species and new records of endemic freshwater crabs from the atlantic forest in southern brazil (anomura: Aeglidae) Journal of Crustacean Biology. 30: 495-502. DOI: 10.1651/09-3186.1  0.32
2010 Bracken HD, De Grave S, Toon A, Felder DL, Crandall KA. Phylogenetic position, systematic status, and divergence time of the Procarididea (Crustacea: Decapoda) Zoologica Scripta. 39: 198-212. DOI: 10.1111/j.1463-6409.2009.00410.x  1
2010 Bracken HD, De Grave S, Toon A, Felder DL, Crandall KA. Phylogenetic position, systematic status, and divergence time of the Procarididea (Crustacea: Decapoda) Zoologica Scripta. 39: 198-212. DOI: 10.1111/j.1463-6409.2009.00410.x  0.36
2010 Toon A, Pérez-Losada M, Schweitzer CE, Feldmann RM, Carlson M, Crandall KA. Gondwanan radiation of the Southern Hemisphere crayfishes (Decapoda: Parastacidae): Evidence from fossils and molecules Journal of Biogeography. 37: 2275-2290. DOI: 10.1111/j.1365-2699.2010.02374.x  1
2010 Toon A, Pérez-Losada M, Schweitzer CE, Feldmann RM, Carlson M, Crandall KA. Gondwanan radiation of the Southern Hemisphere crayfishes (Decapoda: Parastacidae): Evidence from fossils and molecules Journal of Biogeography. 37: 2275-2290. DOI: 10.1111/j.1365-2699.2010.02374.x  0.72
2010 Schubart CD, Weil T, Stenderup JT, Crandall KA, Santl T. Ongoing phenotypic and genotypic diversification in adaptively radiated freshwater crabs from Jamaica Evolution in Action: Case Studies in Adaptive Radiation, Speciation and the Origin of Biodiversity. 323-349. DOI: 10.1007/978-3-642-12425-9_16  1
2010 Bond-Buckup G, Jara CG, Buckup L, Bueno AAP, Pérez-Losada M, Crandall KA. Description of a new species of Aeglidae, and new records of related species from river basins in Argentina (Crustacea, Anomura) Zootaxa. 18-30.  1
2010 Bond-Buckup G, Jara CG, Buckup L, Bueno AAP, Pérez-Losada M, Crandall KA. Description of a new species of Aeglidae, and new records of related species from river basins in Argentina (Crustacea, Anomura) Zootaxa. 18-30.  0.72
2009 Johnson JB, Crandall KA. Expanding the toolbox for phylogeographic analysis. Molecular Ecology. 18: 4137-9. PMID 19857227 DOI: 10.1111/j.1365-294X.2009.04328.x  1
2009 Pérez-Losada M, Posada D, Arenas M, Jobes DV, Sinangil F, Berman PW, Crandall KA. Ethnic differences in the adaptation rate of HIV gp120 from a vaccine trial. Retrovirology. 6: 67. PMID 19604405 DOI: 10.1186/1742-4690-6-67  1
2009 Menlove KJ, Clement M, Crandall KA. Similarity searching using BLAST. Methods in Molecular Biology (Clifton, N.J.). 537: 1-22. PMID 19378137 DOI: 10.1007/978-1-59745-251-9_1  1
2009 Pérez-Losada M, Høeg JT, Crandall KA. Remarkable convergent evolution in specialized parasitic Thecostraca (Crustacea). Bmc Biology. 7: 15. PMID 19374762 DOI: 10.1186/1741-7007-7-15  1
2009 Pérez-Losada M, Bond-Buckup G, Jara CG, Crandall KA. Conservation assessment of southern South American freshwater ecoregions on the basis of the distribution and genetic diversity of crabs from the genus Aegla. Conservation Biology : the Journal of the Society For Conservation Biology. 23: 692-702. PMID 19236451 DOI: 10.1111/j.1523-1739.2008.01161.x  1
2009 Xu J, Pérez-Losada M, Jara CG, Crandall KA. Pleistocene glaciation leaves deep signature on the freshwater crab Aegla alacalufi in Chilean Patagonia. Molecular Ecology. 18: 904-18. PMID 19207249 DOI: 10.1111/j.1365-294X.2008.04070.x  1
2009 Lewis-Rogers N, Bendall ML, Crandall KA. Phylogenetic relationships and molecular adaptation dynamics of human rhinoviruses. Molecular Biology and Evolution. 26: 969-81. PMID 19182223 DOI: 10.1093/molbev/msp009  1
2009 Schultz MB, Smith SA, Horwitz P, Richardson AM, Crandall KA, Austin CM. Evolution underground: a molecular phylogenetic investigation of Australian burrowing freshwater crayfish (Decapoda: Parastacidae) with particular focus on Engaeus Erichson. Molecular Phylogenetics and Evolution. 50: 580-98. PMID 19118635 DOI: 10.1016/j.ympev.2008.11.025  1
2009 Palero F, Crandall KA, Abelló P, Macpherson E, Pascual M. Phylogenetic relationships between spiny, slipper and coral lobsters (Crustacea, Decapoda, Achelata). Molecular Phylogenetics and Evolution. 50: 152-62. PMID 18957325 DOI: 10.1016/j.ympev.2008.10.003  1
2009 Buhay JE, Crandall KA. Taxonomic revision of cave crayfish in the genus Cambarus, subgenus Aviticambarus (Decapoda: Cambaridae) with descriptions of two new species, C. speleocoopi and C. laconensis, endemic to alabama, U.S.A. Journal of Crustacean Biology. 29: 121-134. DOI: 10.1651/08-3089.1  1
2009 Buhay JE, Crandall KA. Taxonomic revision of cave crayfish in the genus Cambarus, subgenus Aviticambarus (Decapoda: Cambaridae) with descriptions of two new species, C. speleocoopi and C. laconensis, endemic to alabama, U.S.A. Journal of Crustacean Biology. 29: 121-134. DOI: 10.1651/08-3089.1  1
2009 Crandall KA. A multifaceted approach to species conservation Animal Conservation. 12: 105-106. DOI: 10.1111/j.1469-1795.2009.00254.x  1
2009 Crandall KA, Robison HW, Buhay JE. Avoidance of extinction through nonexistence: The use of museum specimens and molecular genetics to determine the taxonomic status of an endangered freshwater crayfish Conservation Genetics. 10: 177-189. DOI: 10.1007/s10592-008-9546-9  1
2009 Crandall KA, Robison HW, Buhay JE. Avoidance of extinction through nonexistence: The use of museum specimens and molecular genetics to determine the taxonomic status of an endangered freshwater crayfish Conservation Genetics. 10: 177-189. DOI: 10.1007/s10592-008-9546-9  1
2009 Bracken HD, Toon A, Felder DL, Martin JW, Finley M, Rasmussen J, Palero F, Crandall KA. The decapod tree of life: Compiling the Data and Moving toward a Consensus of Decapod Evolution Arthropod Systematics and Phylogeny. 67: 99-116.  1
2008 Schultz MB, Ierodiaconou DA, Smith SA, Horwitz P, Richardson AM, Crandall KA, Austin CM. Sea-level changes and palaeo-ranges: reconstruction of ancient shorelines and river drainages and the phylogeography of the Australian land crayfish Engaeus sericatus Clark (Decapoda: Parastacidae). Molecular Ecology. 17: 5291-314. PMID 19120999 DOI: 10.1111/j.1365-294X.2008.03996.x  1
2008 Egan AN, Crandall KA. Divergence and diversification in North American Psoraleeae (Fabaceae) due to climate change. Bmc Biology. 6: 55. PMID 19091055 DOI: 10.1186/1741-7007-6-55  1
2008 Stacey A, Sheffield NC, Crandall KA. Calculating expected DNA remnants from ancient founding events in human population genetics. Bmc Genetics. 9: 66. PMID 18928554 DOI: 10.1186/1471-2156-9-66  1
2008 Song H, Buhay JE, Whiting MF, Crandall KA. Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proceedings of the National Academy of Sciences of the United States of America. 105: 13486-91. PMID 18757756 DOI: 10.1073/pnas.0803076105  1
2008 Lewis-Rogers N, McClellan DA, Crandall KA. The evolution of foot-and-mouth disease virus: impacts of recombination and selection. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 8: 786-98. PMID 18718559 DOI: 10.1016/j.meegid.2008.07.009  1
2008 Woolley SM, Posada D, Crandall KA. A comparison of phylogenetic network methods using computer simulation. Plos One. 3: e1913. PMID 18398452 DOI: 10.1371/journal.pone.0001913  1
2008 Keele BF, Tazi L, Gartner S, Liu Y, Burgon TB, Estes JD, Thacker TC, Crandall KA, McArthur JC, Burton GF. Characterization of the follicular dendritic cell reservoir of human immunodeficiency virus type 1. Journal of Virology. 82: 5548-61. PMID 18385252 DOI: 10.1128/JVI.00124-08  1
2008 Carvajal-Rodríguez A, Posada D, Pérez-Losada M, Keller E, Abrams EJ, Viscidi RP, Crandall KA. Disease progression and evolution of the HIV-1 env gene in 24 infected infants. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 8: 110-20. PMID 18249158 DOI: 10.1016/j.meegid.2007.10.009  1
2008 Egan AN, Crandall KA. Incorporating gaps as phylogenetic characters across eight DNA regions: ramifications for North American Psoraleeae (Leguminosae). Molecular Phylogenetics and Evolution. 46: 532-46. PMID 18039582 DOI: 10.1016/j.ympev.2007.10.006  1
2008 Pérez-Losada M, Harp M, Høeg JT, Achituv Y, Jones D, Watanabe H, Crandall KA. The tempo and mode of barnacle evolution. Molecular Phylogenetics and Evolution. 46: 328-46. PMID 18032070 DOI: 10.1016/j.ympev.2007.10.004  1
2008 Buhay JE, Crandall KA. Taxonomic revision of cave crayfishes in the genus Orconectes, subgenus Orconectes (Decapoda: Cambaridae) along the Cumberland Plateau, including a description of a new species, Orconectes barri Journal of Crustacean Biology. 28: 57-67. DOI: 10.1651/07-2827R.1  1
2008 Buhay JE, Crandall KA. Taxonomic revision of cave crayfishes in the genus Orconectes, subgenus Orconectes (Decapoda: Cambaridae) along the Cumberland Plateau, including a description of a new species, Orconectes barri Journal of Crustacean Biology. 28: 57-67. DOI: 10.1651/07-2827R.1  1
2008 Schram FR, Ahyong ST, Crandall KA, Gherardi F, Grygier MJ, Lavalli KL, Poore G, Rogers DC, Scholtz G, Simon T, Tamone S, Wicksten M. Publication in the Journal of Crustacean Biology Journal of Crustacean Biology. 28: 197-202. DOI: 10.1651/0278-0372(2008)028[0197:PITJOC]2.0.CO;2  1
2008 Crandall KA, Buhay JE. Global diversity of crayfish (Astacidae, Cambaridae, and Parastacidae - Decapoda) in freshwater Hydrobiologia. 595: 295-301. DOI: 10.1007/s10750-007-9120-3  1
2008 Crandall KA, Buhay JE. Global diversity of crayfish (Astacidae, Cambaridae, and Parastacidae - Decapoda) in freshwater Hydrobiologia. 595: 295-301. DOI: 10.1007/s10750-007-9120-3  1
2008 Bond-Buckup G, Jara CG, Pérez-Losada M, Buckup L, Crandall KA. Global diversity of crabs (Aeglidae: Anomura: Decapoda) in freshwater Hydrobiologia. 595: 267-273. DOI: 10.1007/s10750-007-9022-4  1
2008 Bond-Buckup G, Jara CG, Pérez-Losada M, Buckup L, Crandall KA. Global diversity of crabs (Aeglidae: Anomura: Decapoda) in freshwater Hydrobiologia. 595: 267-273. DOI: 10.1007/s10750-007-9022-4  0.72
2008 Weaver KF, Perez-Losada M, Guralnick RP, Nelson A, Blatt S, Crandall KA. Assessing the conservation status of the land snail Oreohelix peripherica wasatchensis (Family Oreohelicidae) Conservation Genetics. 9: 907-916. DOI: 10.1007/s10592-007-9415-y  1
2008 Pérez-Losada M, Porter M, Crandall KA. Methods for analyzing viral evolution Plant Virus Evolution. 165-204. DOI: 10.1007/978-3-540-75763-4_10  1
2008 Pérez-Losada M, Porter M, Crandall KA. Methods for analyzing viral evolution Plant Virus Evolution. 165-204. DOI: 10.1007/978-3-540-75763-4_10  0.72
2007 Daniels SR, Hofmeyr MD, Henen BT, Crandall KA. Living with the genetic signature of Miocene induced change: evidence from the phylogeographic structure of the endemic angulate tortoise Chersina angulata. Molecular Phylogenetics and Evolution. 45: 915-26. PMID 17936644 DOI: 10.1016/j.ympev.2007.08.010  1
2007 Leavitt DH, Bezy RL, Crandall KA, Sites JW. Multi-locus DNA sequence data reveal a history of deep cryptic vicariance and habitat-driven convergence in the desert night lizard Xantusia vigilis species complex (Squamata: Xantusiidae). Molecular Ecology. 16: 4455-81. PMID 17868311 DOI: 10.1111/j.1365-294X.2007.03496.x  1
2007 Bernardo J, Ossola RJ, Spotila J, Crandall KA. Interspecies physiological variation as a tool for cross-species assessments of global warming-induced endangerment: validation of an intrinsic determinant of macroecological and phylogeographic structure. Biology Letters. 3: 695-8. PMID 17711816 DOI: 10.1098/rsbl.2007.0259  1
2007 Pérez-Losada M, Nolte MJ, Crandall KA, Shaw PW. Testing hypotheses of population structuring in the Northeast Atlantic Ocean and Mediterranean Sea using the common cuttlefish Sepia officinalis. Molecular Ecology. 16: 2667-79. PMID 17594438 DOI: 10.1111/j.1365-294X.2007.03333.x  1
2007 Pérez-Losada M, Crandall KA, Bash MC, Dan M, Zenilman J, Viscidi RP. Distinguishing importation from diversification of quinolone-resistant Neisseria gonorrhoeae by molecular evolutionary analysis. Bmc Evolutionary Biology. 7: 84. PMID 17543117 DOI: 10.1186/1471-2148-7-84  1
2007 Carvajal-Rodríguez A, Crandall KA, Posada D. Recombination favors the evolution of drug resistance in HIV-1 during antiretroviral therapy. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 7: 476-83. PMID 17369105 DOI: 10.1016/j.meegid.2007.02.001  1
2007 Pérez-Losada M, Crandall KA, Zenilman J, Viscidi RP. Temporal trends in gonococcal population genetics in a high prevalence urban community. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 7: 271-8. PMID 17141576 DOI: 10.1016/j.meegid.2006.11.003  1
2007 Porter ML, Cronin TW, McClellan DA, Crandall KA. Molecular characterization of crustacean visual pigments and the evolution of pancrustacean opsins. Molecular Biology and Evolution. 24: 253-68. PMID 17053049 DOI: 10.1093/molbev/msl152  1
2007 Buhay JE, Moni G, Mann N, Crandall KA. Molecular taxonomy in the dark: evolutionary history, phylogeography, and diversity of cave crayfish in the subgenus Aviticambarus, genus Cambarus. Molecular Phylogenetics and Evolution. 42: 435-48. PMID 16971141 DOI: 10.1016/j.ympev.2006.07.014  1
2007 Pérez-Losada M, Porter ML, Tazi L, Crandall KA. New methods for inferring population dynamics from microbial sequences. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 7: 24-43. PMID 16627010 DOI: 10.1016/j.meegid.2006.03.004  1
2007 Rudolph EH, Crandall KA. A new species of burrowing crayfish Virilastacus retamali (Decapoda: Parastacidae) from the Southern Chile Peatland Journal of Crustacean Biology. 27: 502-512. DOI: 10.1651/S-2681.1  1
2007 Jones JPG, Andriahajaina FB, Hockley NJ, Crandall KA, Ravoahangimalala OR. The ecology and conservation status of Madagascar's endemic freshwater crayfish (Parastacidae; Astacoides) Freshwater Biology. 52: 1820-1833. DOI: 10.1111/j.1365-2427.2007.01766.x  1
2007 Schultz MB, Smith SA, Richardson AMM, Horwitz P, Crandall KA, Austin CM. Cryptic diversity in Engaeus Erichson, Geocharax Clark and Gramastacus Riek (Decapoda:Parastacidae) revealed by mitochondrial 16S rDNA sequences Invertebrate Systematics. 21: 569-587. DOI: 10.1071/IS07019  1
2007 Schultz MB, Smith SA, Richardson AMM, Horwitz P, Crandall KA, Austin CM. Cryptic diversity in Engaeus Erichson, Geocharax Clark and Gramastacus Riek (Decapoda:Parastacidae) revealed by mitochondrial 16S rDNA sequences Invertebrate Systematics. 21: 569-587. DOI: 10.1071/IS07019  0.44
2006 Jobes DV, Daoust M, Nguyen VT, Padua A, Sinangil F, Pérez-Losada M, Crandall KA, Oliphant T, Posada D, Rambaut A, Fuchs J, Berman PW. Longitudinal population analysis of dual infection with recombination in two strains of HIV type 1 subtype B in an individual from a Phase 3 HIV vaccine efficacy trial. Aids Research and Human Retroviruses. 22: 968-78. PMID 17067266 DOI: 10.1089/aid.2006.22.968  1
2006 Parr RL, Dakubo GD, Crandall KA, Maki J, Reguly B, Aguirre A, Wittock R, Robinson K, Alexander JS, Birch-Machin MA, Abdel-Malak M, Froberg MK, Diamandis EP, Thayer RE. Somatic mitochondrial DNA mutations in prostate cancer and normal appearing adjacent glands in comparison to age-matched prostate samples without malignant histology. The Journal of Molecular Diagnostics : Jmd. 8: 312-9. PMID 16825503 DOI: 10.2353/jmoldx.2006.050112  1
2006 Pérez-Losada M, Christensen RG, McClellan DA, Adams BJ, Viscidi RP, Demma JC, Crandall KA. Comparing phylogenetic codivergence between polyomaviruses and their hosts. Journal of Virology. 80: 5663-9. PMID 16731904 DOI: 10.1128/JVI.00056-06  1
2006 Crandall KA, Pérez-Losada M, Christensen RG, McClellan DA, Viscidi RP. Phylogenomics and molecular evolution of polyomaviruses. Advances in Experimental Medicine and Biology. 577: 46-59. PMID 16626026 DOI: 10.1007/0-387-32957-9_3  1
2006 Daniels SR, Cumberlidge N, Pérez-Losada M, Marijnissen SA, Crandall KA. Evolution of Afrotropical freshwater crab lineages obscured by morphological convergence. Molecular Phylogenetics and Evolution. 40: 227-35. PMID 16621611 DOI: 10.1016/j.ympev.2006.02.022  1
2006 Pérez-Losada M, Browne EB, Madsen A, Wirth T, Viscidi RP, Crandall KA. Population genetics of microbial pathogens estimated from multilocus sequence typing (MLST) data. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 6: 97-112. PMID 16503511 DOI: 10.1016/j.meegid.2005.02.003  1
2006 Coulthart MB, Posada D, Crandall KA, Dekaban GA. On the phylogenetic placement of human T cell leukemia virus type 1 sequences associated with an Andean mummy. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 6: 91-6. PMID 16503510 DOI: 10.1016/j.meegid.2005.02.001  1
2006 Carvajal-Rodríguez A, Crandall KA, Posada D. Recombination estimation under complex evolutionary models with the coalescent composite-likelihood method. Molecular Biology and Evolution. 23: 817-27. PMID 16452117 DOI: 10.1093/molbev/msj102  1
2006 Posada D, Crandall KA, Templeton AR. Nested clade analysis statistics Molecular Ecology Notes. 6: 590-593. DOI: 10.1111/j.1471-8286.2006.01368.x  1
2006 Posada D, Crandall KA, Templeton AR. Nested clade analysis statistics Molecular Ecology Notes. 6: 590-593. DOI: 10.1111/j.1471-8286.2006.01368.x  1
2006 Sinclair EA, Scholl R, Bezy RL, Crandall KA, Sites JW. Isolation and characterization of di- and tetranucleotide microsatellite loci in the yellow-spotted night lizard Lepidophyma flavimaculatum (Squamata: Xantusiidae) Molecular Ecology Notes. 6: 233-236. DOI: 10.1111/j.1471-8286.2005.01204.x  1
2006 Crandall KA. Advocacy dressed up as scientific critique Animal Conservation. 9: 250-251. DOI: 10.1111/j.1469-1795.2006.00054.x  1
2006 Finlay JB, Buhay JE, Crandall KA. Surface to subsurface freshwater connections: Phylogeographic and habitat analyses of Cambarus tenebrosus, a facultative cave-dwelling crayfish Animal Conservation. 9: 375-387. DOI: 10.1111/j.1469-1795.2006.00046.x  1
2006 Finlay JB, Buhay JE, Crandall KA. Surface to subsurface freshwater connections: Phylogeographic and habitat analyses of Cambarus tenebrosus, a facultative cave-dwelling crayfish Animal Conservation. 9: 375-387. DOI: 10.1111/j.1469-1795.2006.00046.x  1
2006 Daniels SR, Heideman NJL, Hendricks MGJ, Crandall KA. Taxonomic subdivisions within the fossorial skink subfamily Acontinae (Squamata: Scincidae) reconsidered: A multilocus perspective Zoologica Scripta. 35: 353-362. DOI: 10.1111/j.1463-6409.2006.00233.x  1
2006 Daniels SR, Gouws G, Crandall KA. Phylogeographic patterning in a freshwater crab species (Decapoda: Potamonautidae: Potamonautes) reveals the signature of historical climatic oscillations Journal of Biogeography. 33: 1538-1549. DOI: 10.1111/j.1365-2699.2006.01537.x  1
2006 Crandall KA. Applications of phylogenetics to issues in freshwater crayfish biology Bfpp - Bulletin Francais De La Peche Et De La Protection Des Milieux Aquatiques. 953-963.  1
2005 Buhay JE, Crandall KA. Subterranean phylogeography of freshwater crayfishes shows extensive gene flow and surprisingly large population sizes. Molecular Ecology. 14: 4259-73. PMID 16313591 DOI: 10.1111/j.1365-294X.2005.02755.x  1
2005 Porter ML, Pérez-Losada M, Crandall KA. Model-based multi-locus estimation of decapod phylogeny and divergence times. Molecular Phylogenetics and Evolution. 37: 355-69. PMID 16112880 DOI: 10.1016/j.ympev.2005.06.021  1
2005 Shull HC, Pérez-Losada M, Blair D, Sewell K, Sinclair EA, Lawler S, Ponniah M, Crandall KA. Phylogeny and biogeography of the freshwater crayfish Euastacus (Decapoda: Parastacidae) based on nuclear and mitochondrial DNA. Molecular Phylogenetics and Evolution. 37: 249-63. PMID 16029952 DOI: 10.1016/j.ympev.2005.04.034  1
2005 Pérez-Losada M, Viscidi RP, Demma JC, Zenilman J, Crandall KA. Population genetics of Neisseria gonorrhoeae in a high-prevalence community using a hypervariable outer membrane porB and 13 slowly evolving housekeeping genes. Molecular Biology and Evolution. 22: 1887-902. PMID 15944444 DOI: 10.1093/molbev/msi184  1
2005 Daniels SR, Heideman NJ, Hendricks MG, Mokone ME, Crandall KA. Unraveling evolutionary lineages in the limbless fossorial skink genus Acontias (Sauria: Scincidae): are subspecies equivalent systematic units? Molecular Phylogenetics and Evolution. 34: 645-54. PMID 15683935 DOI: 10.1016/j.ympev.2004.11.011  1
2005 Martin DP, Posada D, Crandall KA, Williamson C. A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints. Aids Research and Human Retroviruses. 21: 98-102. PMID 15665649 DOI: 10.1089/aid.2005.21.98  1
2005 Rudolph EH, Crandall KA. A new species of burrowing crayfish, Virilastacus rucapihuelensis (Crustacea: Decapoda: Parastacidae), from southern Chile Proceedings of the Biological Society of Washington. 118: 765-776. DOI: 10.2988/0006-324X(2005)118[765:ANSOBC]2.0.CO;2  1
2005 Rader RB, Belk MC, Shiozawa DK, Crandall KA. Empirical tests for ecological exchangeability Animal Conservation. 8: 239-247. DOI: 10.1017/S1367943005002271  1
2004 Pérez-Losada M, Bond-Buckup G, Jara CG, Crandall KA. Molecular systematics and biogeography of the southern South american freshwater "crabs" Aegla (decapoda: Anomura: Aeglidae) using multiple heuristic tree search approaches. Systematic Biology. 53: 767-80. PMID 15545254 DOI: 10.1080/10635150490522331  1
2004 Crandall KA, Buhay JE. Evolution. Genomic databases and the tree of life. Science (New York, N.Y.). 306: 1144-5. PMID 15539592 DOI: 10.1126/science.1106198  1
2004 Sinclair EA, Bezy RL, Bolles K, Camarillo JL, Crandall KA, Sites JW. Testing species boundaries in an ancient species complex with deep phylogeographic history: genus Xantusia (Squamata: Xantusiidae). The American Naturalist. 164: 396-414. PMID 15478093 DOI: 10.1086/381404  1
2004 Tarjuelo I, Posada D, Crandall KA, Pascual M, Turon X. Phylogeography and speciation of colour morphs in the colonial ascidian Pseudodistoma crucigaster. Molecular Ecology. 13: 3125-36. PMID 15367125 DOI: 10.1111/j.1365-294X.2004.02306.x  1
2004 Agapow PM, Bininda-Emonds OR, Crandall KA, Gittleman JL, Mace GM, Marshall JC, Purvis A. The impact of species concept on biodiversity studies. The Quarterly Review of Biology. 79: 161-79. PMID 15232950 DOI: 10.1086/383542  1
2004 Pérez-Losada M, Høeg JT, Crandall KA. Unraveling the evolutionary radiation of the thoracican barnacles using molecular and morphological evidence: a comparison of several divergence time estimation approaches. Systematic Biology. 53: 244-64. PMID 15205051 DOI: 10.1080/10635150490423458  1
2004 Abdo Z, Crandall KA, Joyce P. Evaluating the performance of likelihood methods for detecting population structure and migration. Molecular Ecology. 13: 837-51. PMID 15012759 DOI: 10.1111/j.1365-294X.2004.02132.x  1
2004 Rambaut A, Posada D, Crandall KA, Holmes EC. The causes and consequences of HIV evolution. Nature Reviews. Genetics. 5: 52-61. PMID 14708016 DOI: 10.1038/nrg1246  1
2004 Pearse DE, Crandall KA. Beyond FST: Analysis of population genetic data for conservation Conservation Genetics. 5: 585-602. DOI: 10.1007/s10592-003-1863-4  1
2003 Fetzner JW, Crandall KA. Linear habitats and the nested clade analysis: an empirical evaluation of geographic versus river distances using an Ozark crayfish (Decapoda: Cambaridae). Evolution; International Journal of Organic Evolution. 57: 2101-18. PMID 14575330  1
2003 Woolley S, Johnson J, Smith MJ, Crandall KA, McClellan DA. TreeSAAP: selection on amino acid properties using phylogenetic trees. Bioinformatics (Oxford, England). 19: 671-2. PMID 12651734 DOI: 10.1093/bioinformatics/btg043  1
2003 Porter ML, Crandall KA. Lost along the way: The significance of evolution in reverse Trends in Ecology and Evolution. 18: 541-547. DOI: 10.1016/S0169-5347(03)00244-1  1
2003 Jara CG, Pérez-Losada M, Crandall KA. A new species of freshwater anomuran crab of the genus Aegla Leach, 1821 (Crustacea: Decapoda: Aeglidae) from the Nahuelbuta Coastal Range, Chile Proceedings of the Biological Society of Washington. 116: 933-942.  1
2003 Sinclair EA, Black HL, Crandall KA. Population structure and paternity in an American black bear (Ursus americanus) population using microsatellite DNA Western North American Naturalist. 63: 489-497.  1
2003 Pérez-Losada M, Crandall KA. Can taxonomic richness be used as a surrogate for phylogenetic distinctness indices for ranking areas for conservation? | ¿Puede utilizarse la riqueza taxonómica como un indicativo de diferenciación filogenética para evaluar áreas de conservación? Animal Biodiversity and Conservation. 26: 77-84.  1
2002 Posada D, Crandall KA, Holmes EC. Recombination in evolutionary genomics. Annual Review of Genetics. 36: 75-97. PMID 12429687 DOI: 10.1146/annurev.genet.36.040202.111115  1
2002 Posada D, Crandall KA. The effect of recombination on the accuracy of phylogeny estimation. Journal of Molecular Evolution. 54: 396-402. PMID 11847565 DOI: 10.1007/s00239-001-0034-9  1
2002 Sinclair EA, Costello B, Courtenay JM, Crandall KA. Detecting a genetic bottleneck in Gilbert's Potoroo (Potorous gilbertii) (Marsupialia: Potoroidae), inferred from microsatellite and mitochondrial DNA sequence data Conservation Genetics. 3: 191-196. DOI: 10.1023/A:1015228508714  1
2002 Pérez-Losada M, Jara CG, Bond-Buckup G, Crandall KA. Conservation phylogenetics of Chilean freshwater crabs Aegla (Anomura, Aeglidae): Assigning priorities for aquatic habitat protection Biological Conservation. 105: 345-353. DOI: 10.1016/S0006-3207(01)00218-X  1
2002 Pérez-Losada M, Jara CG, Bond-Buckup G, Crandall KA. Phylogenetic relationships among the species of Aegla (Anomura: Aeglidae) freshwater crabs from Chile Journal of Crustacean Biology. 22: 304-313.  1
2002 Pérez-Losada M, Jara CG, Bond-Buckup G, Porter ML, Crandall KA. Phylogenetic position of the freshwater Anomuran family Aeglidae Journal of Crustacean Biology. 22: 670-676.  1
2002 Pérez-Losada M, Høeg JT, Kolbasov GA, Crandall KA. Reanalysis of the relationships among the Cirripedia and the Ascothoracida and the phylogenetic position of the Facetotecta (Maxillopoda: Thecostraca) using 18S rDNA sequences Journal of Crustacean Biology. 22: 661-669.  1
2001 Posada D, Crandall KA. Selecting the best-fit model of nucleotide substitution. Systematic Biology. 50: 580-601. PMID 12116655  1
2001 Posada D, Crandall KA. Evaluation of methods for detecting recombination from DNA sequences: computer simulations. Proceedings of the National Academy of Sciences of the United States of America. 98: 13757-62. PMID 11717435 DOI: 10.1073/pnas.241370698  1
2001 Posada D, Crandall KA. Selecting models of nucleotide substitution: an application to human immunodeficiency virus 1 (HIV-1). Molecular Biology and Evolution. 18: 897-906. PMID 11371577  1
2001 Posada D, Crandall K. Simple (wrong) models for complex trees: a case from retroviridae. Molecular Biology and Evolution. 18: 271-5. PMID 11158387  1
2001 Posada D, Crandall KA. Intraspecific gene genealogies: trees grafting into networks. Trends in Ecology & Evolution. 16: 37-45. PMID 11146143 DOI: 10.1016/S0169-5347(00)02026-7  1
2001 Imamichi H, Crandall KA, Natarajan V, Jiang MK, Dewar RL, Berg S, Gaddam A, Bosche M, Metcalf JA, Davey RT, Lane HC. Human immunodeficiency virus type 1 quasi species that rebound after discontinuation of highly active antiretroviral therapy are similar to the viral quasi species present before initiation of therapy. The Journal of Infectious Diseases. 183: 36-50. PMID 11106537 DOI: 10.1086/317641  1
2001 Sinclair EA, Swenson EL, Wolfe ML, Choate DC, Bates B, Crandall KA. Gene flow estimates in Utah's cougars imply management beyond Utah Animal Conservation. 4: 257-264. DOI: 10.1017/S1367943001001305  1
2001 Tarjuelo I, Posada D, Crandall KA, Pascual M, Turon X. Cryptic species of Clavelina (Ascidiacea) in two different habitats: Harbours and rocky littoral zones in the northwestern Mediterranean Marine Biology. 139: 455-462. DOI: 10.1007/s002270100587  1
2000 Crandall KA, Harris DJ, Fetzner JW. The monophyletic origin of freshwater crayfish estimated from nuclear and mitochondrial DNA sequences. Proceedings. Biological Sciences / the Royal Society. 267: 1679-86. PMID 11467432 DOI: 10.1098/rspb.2000.1195  1
2000 Matala E, Crandall KA, Baker RC, Ahmad N. Limited heterogeneity of HIV type 1 in infected mothers correlates with lack of vertical transmission. Aids Research and Human Retroviruses. 16: 1481-9. PMID 11054261 DOI: 10.1089/088922200750006001  1
2000 Clement M, Posada D, Crandall KA. TCS: a computer program to estimate gene genealogies. Molecular Ecology. 9: 1657-9. PMID 11050560 DOI: 10.1046/j.1365-294X.2000.01020.x  1
2000 Peters AA, Coulthart MB, Oger JJ, Waters DJ, Crandall KA, Baumgartner AA, Ward RH, Dekaban GA. HTLV type I/II in British Columbia Amerindians: a seroprevalence study and sequence characterization of an HTLV type IIa isolate. Aids Research and Human Retroviruses. 16: 883-92. PMID 10875614 DOI: 10.1089/08892220050042828  1
2000 Crandall KA, Bininda-Emonds OR, Mace GM, Wayne RK. Considering evolutionary processes in conservation biology. Trends in Ecology & Evolution. 15: 290-295. PMID 10856956 DOI: 10.1016/S0169-5347(00)01876-0  1
2000 Smith KM, Crandall KA, Kneissl ML, Navia BA. PCR detection of host and HIV-1 sequences from archival brain tissue. Journal of Neurovirology. 6: 164-71. PMID 10822330  1
2000 Posada D, Crandall KA, Templeton AR. GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes. Molecular Ecology. 9: 487-8. PMID 10736051 DOI: 10.1046/j.1365-294X.2000.00887.x  1
2000 Posada D, Crandall KA, Nguyen M, Demma JC, Viscidi RP. Population genetics of the porB gene of Neisseria gonorrhoeae: different dynamics in different homology groups. Molecular Biology and Evolution. 17: 423-36. PMID 10723743  1
2000 Harris DJ, Crandall KA. Intragenomic variation within ITS1 and ITS2 of freshwater crayfishes (Decapoda: Cambaridae): implications for phylogenetic and microsatellite studies. Molecular Biology and Evolution. 17: 284-91. PMID 10677851  1
2000 Grandjean F, Harris DJ, Souty-Grosset C, Crandall KA. Systematics of the European endangered crayfish species Austropotamobius pallipes (Decapoda: Astacidae) Journal of Crustacean Biology. 20: 522-529.  1
2000 Crandall KA, Fetzner JW, Jara CG, Backup L. On the phylogenetic positioning of the South American freshwater crayfish genera (Decapoda: Parastacidae) Journal of Crustacean Biology. 20: 530-540.  1
2000 Whiting AS, Lawler SH, Horwitz P, Crandall KA. Biogeographic regionalization of Australia: Assigning conservation priorities based on endemic freshwater crayfish phylogenetics Animal Conservation. 3: 155-163.  1
2000 Harris DJ, Maxson LS, Braithwaite LF, Crandall KA. Phylogeny of the Thoracican barnacles based on 18S rDNA sequences Journal of Crustacean Biology. 20: 393-398.  1
1999 Crandall KA, Templeton AR, Neigel J. THE ZOOGEOGRAPHY AND CENTERS OF ORIGIN OF THE CRAYFISH SUBGENUS PROCERICAMBARUS (DECAPODA: CAMBARIDAE). Evolution; International Journal of Organic Evolution. 53: 123-134. PMID 28565195 DOI: 10.1111/j.1558-5646.1999.tb05338.x  1
1999 Crandall KA, Vasco DA, Posada D, Imamichi H. Advances in understanding the evolution of HIV. Aids (London, England). 13: S39-47. PMID 10885761  1
1999 Vila C, Amorim IR, Leonard JA, Posada D, Castroviejo J, Petrucci-Fonseca F, Crandall KA, Ellegren H, Wayne RK. Mitochondrial DNA phylogeography and population history of the grey wolf canis lupus Molecular Ecology. 8: 2089-103. PMID 10632860 DOI: 10.1046/j.1365-294X.1999.00825.x  1
1999 Kelsey CR, Crandall KA, Voevodin AF. Different models, different trees: the geographic origin of PTLV-I. Molecular Phylogenetics and Evolution. 13: 336-47. PMID 10603262 DOI: 10.1006/mpev.1999.0663  1
1999 Shapshak P, Segal DM, Crandall KA, Fujimura RK, Zhang BT, Xin KQ, Okuda K, Petito CK, Eisdorfer C, Goodkin K. Independent evolution of HIV type 1 in different brain regions. Aids Research and Human Retroviruses. 15: 811-20. PMID 10381169 DOI: 10.1089/088922299310719  1
1999 Crandall KA, Kelsey CR, Imamichi H, Lane HC, Salzman NP. Parallel evolution of drug resistance in HIV: failure of nonsynonymous/synonymous substitution rate ratio to detect selection. Molecular Biology and Evolution. 16: 372-82. PMID 10331263  1
1999 Crandall KA, Posada D, Vasco D. Effective population sizes: Missing measures and missing concepts Animal Conservation. 2: 317-319.  1
1999 Harris DJ, Sinclair EA, Mercader NL, Marshall JC, Crandall KA. Squamate relationships based on C-mos nuclear DNA sequences Herpetological Journal. 9: 147-151.  1
1999 Crandall KA, Templeton AR. The zoogeography and centers of origin of the crayfish subgenus Procericambarus (Decapoda: Cambaridae) Evolution. 53: 123-134.  1
1999 Crandall KA, Fetzner JW, Lawlef SH, Kinnersley M, Austin CM. Phylogenetic relationships among the Australian and New Zealand genera of freshwater crayfishes (Decapoda: Parastacidae) Australian Journal of Zoology. 47: 199-214.  1
1998 Posada D, Crandall KA. MODELTEST: testing the model of DNA substitution. Bioinformatics (Oxford, England). 14: 817-8. PMID 9918953  1
1998 Fujimura RK, Shapshak P, Segal DM, Crandall KA, Goodkin K, Page JB, Douyon R, Zhang BT, Xin KQ, Rodriguez de la Vega P, Nagona I, Srivastava A. Viral and host determinants of neurovirulence of HIV-1 infection. Advances in Experimental Medicine and Biology. 437: 241-53. PMID 9666277  1
1998 Goodkin K, Shapshak P, Metsch LR, McCoy CB, Crandall KA, Kumar M, Fujimura RK, McCoy V, Zhang BT, Reyblat S, Xin KQ, Kumar AM. Cocaine abuse and HIV-1 infection: epidemiology and neuropathogenesis. Journal of Neuroimmunology. 83: 88-101. PMID 9610677 DOI: 10.1016/S0165-5728(97)00225-7  1
1998 Crandall KA. Conservation phylogenetics of Ozark crayfishes: Assigning priorities for aquatic habitat protection Biological Conservation. 84: 107-117. DOI: 10.1016/S0006-3207(97)00112-2  1
1998 Lawler SH, Crandall KA. The relationship of the Australian freshwater crayfish genera Euastacus and Astacopsis Proceedings of the Linnean Society of New South Wales. 1998: 1-8.  1
1997 Segal DM, Shapshak P, Zhang BT, Crandall KA, Page B, Fujimura R, Goodkin K, Douyon R, McCoy CB. Novel tetrameric tip motifs (APGK and VPGK) in the V3 loop of HIV type 1 envelope sequences in blood and brain from two injection drug users in Miami, Florida. Aids Research and Human Retroviruses. 13: 1643-6. PMID 9430257  1
1997 Crandall KA, Cronin TW. The molecular evolution of visual pigments of freshwater crayfishes (Decapoda: Cambaridae). Journal of Molecular Evolution. 45: 524-34. PMID 9342400 DOI: 10.1007/PL00006257  1
1997 Crandall KA, Hillis DM. Rhodopsin evolution in the dark. Nature. 387: 667-8. PMID 9192889 DOI: 10.1038/42628  1
1997 Vilà C, Savolainen P, Maldonado JE, Amorim IR, Rice JE, Honeycutt RL, Crandall KA, Lundeberg J, Wayne RK. Multiple and ancient origins of the domestic dog. Science (New York, N.Y.). 276: 1687-9. PMID 9180076 DOI: 10.1126/science.276.5319.1687  1
1997 Huelsenbeck JP, Crandall KA. Phylogeny estimation and hypothesis testing using maximum likelihood Annual Review of Ecology and Systematics. 28: 437-466. DOI: 10.1146/annurev.ecolsys.28.1.437  1
1997 Federoff NE, Nowak RM, Scott JP, Elliot OS, Ginsburg BE, Vila C, Maldonado J, Amorim IR, Wayne RK, Crandall KA, Honeycutt RL. Man and his dog [1] (multiple letters) Science. 278: 205. DOI: 10.1126/science.278.5336.205  1
1997 Sites JW, Crandall KA. Testing species boundaries in biodiversity studies Conservation Biology. 11: 1289-1297. DOI: 10.1046/j.1523-1739.1997.96254.x  1
1996 Shapshak P, Crandall KA, Xin KQ, Goodkin K, Fujimura RK, Bradley W, McCoy CB, Nagano I, Yoshioka M, Petito C, Sun NC, Srivastava AK, Weatherby N, Stewart R, Delgado S, et al. HIV-1 neuropathogenesis and abused drugs: current reviews, problems, and solutions. Advances in Experimental Medicine and Biology. 402: 171-86. PMID 8787658  1
1996 Voevodin A, Crandall KA, Seth P, al Mufti S. HIV type 1 subtypes B and C from new regions of India and Indian and Ethiopian expatriates in Kuwait. Aids Research and Human Retroviruses. 12: 641-3. PMID 8743090  1
1996 Crandall KA. Multiple interspecies transmissions of human and simian T-cell leukemia/lymphoma virus type I sequences. Molecular Biology and Evolution. 13: 115-31. PMID 8583886  1
1996 Crandall KA, Fitzpatrick JF. Crayfish molecular systematics: Using a combination of procedures to estimate phylogeny Systematic Biology. 45: 1-26.  1
1995 Chang BS, Crandall KA, Carulli JP, Hartl DL. Opsin phylogeny and evolution: a model for blue shifts in wavelength regulation. Molecular Phylogenetics and Evolution. 4: 31-43. PMID 7620634 DOI: 10.1006/mpev.1995.1004  1
1993 Crandall KA, Templeton AR. Empirical tests of some predictions from coalescent theory with applications to intraspecific phylogeny reconstruction. Genetics. 134: 959-69. PMID 8349118  1
1992 Templeton AR, Crandall KA, Sing CF. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics. 132: 619-33. PMID 1385266  1
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