Joseph P. Bielawski, Ph.D. - Publications

2000 Texas A & M University, College Station, TX, United States 

47 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
2016 Baker JL, Dunn K, Mingrone J, Wood BA, Karpinski BA, Sherwood CC, Wildman DE, Maynard TM, Bielawski JP. Functional Divergence of the Nuclear Receptor NR2C1 as a Modulator of Pluripotentiality During Hominid Evolution. Genetics. PMID 27075724 DOI: 10.1534/genetics.115.183889  1
2016 Moore-Connors JM, Dunn KA, Bielawski JP, Van Limbergen J. Novel Strategies for Applied Metagenomics. Inflammatory Bowel Diseases. PMID 26848519 DOI: 10.1097/MIB.0000000000000717  1
2015 Shafiei M, Dunn KA, Boon E, MacDonald SM, Walsh DA, Gu H, Bielawski JP. BioMiCo: a supervised Bayesian model for inference of microbial community structure. Microbiome. 3: 8. PMID 25774293 DOI: 10.1186/s40168-015-0073-x  1
2014 Shafiei M, Dunn KA, Chipman H, Gu H, Bielawski JP. BiomeNet: a Bayesian model for inference of metabolic divergence among microbial communities. Plos Computational Biology. 10: e1003918. PMID 25412107 DOI: 10.1371/journal.pcbi.1003918  1
2014 El-Swais H, Dunn KA, Bielawski JP, Li WK, Walsh DA. Seasonal assemblages and short-lived blooms in coastal north-west Atlantic Ocean bacterioplankton. Environmental Microbiology. PMID 25244530 DOI: 10.1111/1462-2920.12629  1
2014 Garvin MR, Bielawski JP, Sazanov LA, Gharrett AJ. Review and meta-analysis of natural selection in mitochondrial complex I in metazoans Journal of Zoological Systematics and Evolutionary Research. DOI: 10.1111/jzs.12079  1
2013 Bay RA, Bielawski JP. Inference of functional divergence among proteins when the evolutionary process is non-stationary. Journal of Molecular Evolution. 76: 205-15. PMID 23443835 DOI: 10.1007/s00239-013-9549-0  1
2013 Dunn KA, Jiang W, Field C, Bielawski JP. Improving evolutionary models for mitochondrial protein data with site-class specific amino acid exchangeability matrices. Plos One. 8: e55816. PMID 23383286 DOI: 10.1371/journal.pone.0055816  1
2013 Bielawski JP. Detecting the signatures of adaptive evolution in protein-coding genes. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. Unit 19.1.. PMID 23288462 DOI: 10.1002/0471142727.mb1901s101  1
2011 Bay RA, Bielawski JP. Recombination detection under evolutionary scenarios relevant to functional divergence. Journal of Molecular Evolution. 73: 273-86. PMID 22210457 DOI: 10.1007/s00239-011-9473-0  1
2011 Garvin MR, Bielawski JP, Gharrett AJ. Positive Darwinian selection in the piston that powers proton pumps in complex I of the mitochondria of Pacific salmon. Plos One. 6: e24127. PMID 21969854 DOI: 10.1371/journal.pone.0024127  1
2011 Sullivan MB, Coleman ML, Quinlivan V, Rosenkrantz JE, Defrancesco AS, Tan G, Fu R, Lee JA, Waterbury JB, Bielawski JP, Chisholm SW. Portal protein diversity and phage ecology Environmental Microbiology. 13: 2832. DOI: 10.1111/j.1462-2920.2011.02616.x  1
2009 Dunn KA, Bielawski JP, Ward TJ, Urquhart C, Gu H. Reconciling ecological and genomic divergence among lineages of listeria under an "extended mosaic genome concept". Molecular Biology and Evolution. 26: 2605-15. PMID 19666992 DOI: 10.1093/molbev/msp176  1
2009 Morine MJ, Gu H, Myers RA, Bielawski JP. Trade-offs between efficiency and robustness in bacterial metabolic networks are associated with niche breadth. Journal of Molecular Evolution. 68: 506-15. PMID 19365645 DOI: 10.1007/s00239-009-9226-5  1
2008 Ward TJ, Ducey TF, Usgaard T, Dunn KA, Bielawski JP. Multilocus genotyping assays for single nucleotide polymorphism-based subtyping of Listeria monocytogenes isolates. Applied and Environmental Microbiology. 74: 7629-42. PMID 18931295 DOI: 10.1128/AEM.01127-08  1
2008 Sullivan MB, Coleman ML, Quinlivan V, Rosenkrantz JE, Defrancesco AS, Tan G, Fu R, Lee JA, Waterbury JB, Bielawski JP, Chisholm SW. Portal protein diversity and phage ecology. Environmental Microbiology. 10: 2810-23. PMID 18673386 DOI: 10.1111/j.1462-2920.2008.01702.x  1
2008 Bao L, Gu H, Dunn KA, Bielawski JP. Likelihood-based clustering (LiBaC) for codon models, a method for grouping sites according to similarities in the underlying process of evolution. Molecular Biology and Evolution. 25: 1995-2007. PMID 18586695 DOI: 10.1093/molbev/msn145  1
2007 Bao L, Gu H, Dunn KA, Bielawski JP. Methods for selecting fixed-effect models for heterogeneous codon evolution, with comments on their application to gene and genome data. Bmc Evolutionary Biology. 7: S5. PMID 17288578 DOI: 10.1186/1471-2148-7-S1-S5  1
2006 Aguileta G, Bielawski JP, Yang Z. Proposed standard nomenclature for the alpha- and beta-globin gene families. Genes & Genetic Systems. 81: 367-71. PMID 17159299 DOI: JST.JSTAGE/ggs/81.367  1
2006 Aguileta G, Bielawski JP, Yang Z. Evolutionary rate variation among vertebrate beta globin genes: implications for dating gene family duplication events. Gene. 380: 21-9. PMID 16843621 DOI: 10.1016/j.gene.2006.04.019  1
2006 Sullivan MB, Lindell D, Lee JA, Thompson LR, Bielawski JP, Chisholm SW. Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. Plos Biology. 4: e234. PMID 16802857 DOI: 10.1371/journal.pbio.0040234  1
2006 Aris-Brosou S, Bielawski JP. Large-scale analyses of synonymous substitution rates can be sensitive to assumptions about the process of mutation. Gene. 378: 58-64. PMID 16797879 DOI: 10.1016/j.gene.2006.04.024  1
2006 Field SF, Bulina MY, Kelmanson IV, Bielawski JP, Matz MV. Adaptive evolution of multicolored fluorescent proteins in reef-building corals. Journal of Molecular Evolution. 62: 332-9. PMID 16474984 DOI: 10.1007/s00239-005-0129-9  1
2006 Popescu CE, Borza T, Bielawski JP, Lee RW. Evolutionary rates and expression level in Chlamydomonas. Genetics. 172: 1567-76. PMID 16361241 DOI: 10.1534/genetics.105.047399  1
2005 Zeidner G, Bielawski JP, Shmoish M, Scanlan DJ, Sabehi G, Béjà O. Potential photosynthesis gene recombination between Prochlorococcus and Synechococcus via viral intermediates. Environmental Microbiology. 7: 1505-13. PMID 16156724 DOI: 10.1111/j.1462-2920.2005.00833.x  1
2005 Shi P, Bielawski JP, Yang H, Zhang YP. Adaptive diversification of vomeronasal receptor 1 genes in rodents. Journal of Molecular Evolution. 60: 566-76. PMID 15983866 DOI: 10.1007/s00239-004-0172-y  1
2004 Aguileta G, Bielawski JP, Yang Z. Gene conversion and functional divergence in the beta-globin gene family. Journal of Molecular Evolution. 59: 177-89. PMID 15486692 DOI: 10.1007/s00239-004-2612-0  1
2004 Bielawski JP, Dunn KA, Sabehi G, Béjà O. Darwinian adaptation of proteorhodopsin to different light intensities in the marine environment. Proceedings of the National Academy of Sciences of the United States of America. 101: 14824-9. PMID 15466697 DOI: 10.1073/pnas.0403999101  1
2004 Bielawski JP, Yang Z. A maximum likelihood method for detecting functional divergence at individual codon sites, with application to gene family evolution. Journal of Molecular Evolution. 59: 121-32. PMID 15383915 DOI: 10.1007/s00239-004-2597-8  1
2004 Murad L, Bielawski JP, Matyasek R, Kovarík A, Nichols RA, Leitch AR, Lichtenstein CP. The origin and evolution of geminivirus-related DNA sequences in Nicotiana. Heredity. 92: 352-8. PMID 14985783 DOI: 10.1038/sj.hdy.6800431  1
2003 Yang W, Bielawski JP, Yang Z. Widespread adaptive evolution in the human immunodeficiency virus type 1 genome. Journal of Molecular Evolution. 57: 212-21. PMID 14562964 DOI: 10.1007/s00239-003-2467-9  1
2003 Sabehi G, Massana R, Bielawski JP, Rosenberg M, Delong EF, Béjà O. Novel Proteorhodopsin variants from the Mediterranean and Red Seas. Environmental Microbiology. 5: 842-9. PMID 14510837 DOI: 10.1046/j.1462-2920.2003.00493.x  1
2003 Bielawski JP, Yang Z. Maximum likelihood methods for detecting adaptive evolution after gene duplication. Journal of Structural and Functional Genomics. 3: 201-12. PMID 12836699 DOI: 10.1023/A:1022642807731  1
2002 Bielawski JP, Gold JR. Mutation patterns of mitochondrial H- and L-strand DNA in closely related Cyprinid fishes. Genetics. 161: 1589-97. PMID 12583346  1
2002 Ward TJ, Bielawski JP, Kistler HC, Sullivan E, O'Donnell K. Ancestral polymorphism and adaptive evolution in the trichothecene mycotoxin gene cluster of phytopathogenic Fusarium. Proceedings of the National Academy of Sciences of the United States of America. 99: 9278-83. PMID 12080147 DOI: 10.1073/pnas.142307199  1
2002 Anisimova M, Bielawski JP, Yang Z. Accuracy and power of bayes prediction of amino acid sites under positive selection. Molecular Biology and Evolution. 19: 950-8. PMID 12032251  1
2002 Bielawski JP, Brault A, Gold JR. Phylogenetic relationships within the genus Pimephales as inferred from ND4 and ND4L nucleotide sequences Journal of Fish Biology. 61: 293-297. DOI: 10.1111/j.1095-8649.2002.tb01754.x  1
2001 Anisimova M, Bielawski JP, Yang Z. Accuracy and power of the likelihood ratio test in detecting adaptive molecular evolution Molecular Biology and Evolution. 18: 1585-1592. PMID 11470850 DOI: 10.1093/OXFORDJOURNALS.MOLBEV.A003945  1
2001 Bielawski JP, Yang Z. Positive and negative selection in the DAZ gene family Molecular Biology and Evolution. 18: 523-529. PMID 11264403 DOI: 10.1093/OXFORDJOURNALS.MOLBEV.A003831  1
2001 Dunn KA, Bielawski JP, Yang Z. Substitution rates in Drosophila nuclear genes: implications for translational selection. Genetics. 157: 295-305. PMID 11139510  1
2001 Bielawski JP, Gold JR. Phylogenetic relationships of cyprinid fishes in subgenus Notropis inferred from nucleotide sequences of the mitochondrially encoded cytochrome b gene Copeia. 656-667.  1
2000 Bielawski JP, Dunn KA, Yang Z. Rates of nucleotide substitution and mammalian nuclear gene evolution. Approximate and maximum-likelihood methods lead to different conclusions. Genetics. 156: 1299-308. PMID 11063703  1
1999 Ward TJ, Bielawski JP, Davis SK, Templeton JW, Derr JN. Identification of domestic cattle hybrids in wild cattle and bison species: A general approach using mtDNA markers and the parametric bootstrap Animal Conservation. 2: 51-57.  1
1998 Schmidt TR, Bielawski JP, Gold JR. Molecular phylogenetics and evolution of the cytochrome b gene in the cyprinid genus Lythrurus (Actinopterygii: Cypriniformes) Copeia. 14-22.  1
1997 Bielawski JP, Pumo DE. Randomly amplified polymorphic DNA (RAPD) analysis of Atlantic Coast striped bass Heredity. 78: 32-40. PMID 9023990 DOI: 10.1038/sj.hdy.6881130  1
1996 Bielawski JP, Gold JR. Unequal synonymous substitution rates within and between two protein-coding mitochondrial genes. Molecular Biology and Evolution. 13: 889-92. PMID 8754224  1
1995 Bielawski JP, Noack K, Pumo DE. Reproducible amplification of RAPD markers from vertebrate DNA Biotechniques. 18. PMID 7619492  1
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