PUBLICATIONS  

C. WILLIAM BIRKY, JR.


(List does not include abstracts or letters.)


Published Papers

Birky, C. W., Jr., 1964 Studies on the physiology and genetics of the rotifer Asplanchna. I. Methods and physiology. J. Exp. Zool. 155:273-292.

Birky, C. W., Jr., 1965 Studies on the physiology and genetics of the rotifer Asplanchna. II. The genic basis of a case of male sterility. J. Exp. Zool. 158:349-356.

Birky, C. W., Jr., and Bonnie Field, 1966 Nuclear number in the rotifer Asplanchna: Intraclonal variation and environmental control. Science 151:585-587.

Koehler, James K. and C. W. Birky, Jr., 1966 An electron microscope study of the dimorphic spermatozoa of Asplanchna (Rotifer). II. the development of "atypical spermatozoa." Zeit. Zellforsch. 70:303-321.

Birky, C. W., Jr., 1967 Studies on the physiology and genetics of the rotifer Asplanchna. III. Results of outcrossing, selfing, and selection. J. Exp. Zool. 164:105-116.

Birky, C. W., Jr., 1967 Rotifers. pp. 245-255. In: Methods in Developmental Biology, Edited by Fred Wilt and Norman Wessels. Thomas Y. Crowell Co., New York.

Birky, C. W., Jr., Rossana Zito Bignami, and Sister M. Jacinta Bentfeld, 1967 Nuclear and cytoplasmic DNA synthesis in adult and embryonic rotifers. Biol. Bull. 133:502-509.

Birky, C. W., Jr., 1969 The developmental genetics of polymorphism in the rotifer Asplanchna. I. Dietary vitamin E control of mitosis and morphogenesis in embryos. J. Exp. Zool. 169:205-210.

Birky, C. W., Jr., and Judith A. Power, 1969 The developmental genetics of polymorphism in the rotifer Asplanchna. II. A method for quantitative analysis of changes in morphogenesis induced by vitamin E, and the short-term inheritance of the effects of vitamin E. J. Exp. Zool. 170:157-168.

Birky, C. W., Jr., 1969 The developmental genetics of polymorphism in the rotifer Asplanchna. III. Quantitative modification of developmental responses to vitamin E, by the genome, physiological state, and population density of responding females. J. Exp. Zool. 170:437-448.

Gilbert, John J., and C. W. Birky, Jr., 1971 Sensitivity and specificity of the Asplanchna response to dietary a-tocopherol. J. Nutrit. 101:113-126.

Birky, C. William, Jr., and John J. Gilbert, 1971 Parthenogenesis in rotifers: the control of sexual and asexual reproduction. Am. Zoologist 11:245-266.

Birky, C. W., Jr., and John J. Gilbert, 1972 Vitamin E as an extrinsic and intrinsic signal controlling development in the rotifer Asplanchna: Uptake, transmission and localization of [3H]a-tocopherol. J. Embryol. Morph. 27:103-120.

Birky, C. W., Jr., 1973 On the origin of mitochondrial mutants: Evidence for intracellular selection of mitochondria in the origin of antibiotic-resistant cells in yeast. Genetics 74:421-432.

Perlman, Phillip S., and C. William Birky, Jr., 1974 Mitochondrial genetics in bakers' yeast: A molecular mechanism for recombinational polarity and suppressiveness. Proc. Nat. Acad. Sci. USA 71:4612-4616.

Birky, C. William, Jr., 1975 Mitochondrial genetics in fungi and ciliates. pp. 182-224. In: Genetics and Biogenesis of Mitochondria and Chloroplasts, Edited by C. W. Birky, Jr., P. S. Perlman, and T. J. Byers. Ohio State University Press, Columbus.

Birky, C. W. Jr., 1975 Effects of glucose repression on the transmission and recombination of mitochondrial genes in yeast (Saccharomyces cerevisiae). Genetics 80:695-709.

Birky, C. W., Jr., 1975 Zygote heterogeneity and uniparental inheritance of mitochondrial genes in yeast. Mol. Gen. Genet. 141:41-58.

Birky, C. Ww., Jr., 1976 The inheritance of genes in mitochondria and chloroplasts. BioScience 26:26-33.

Birky, C. W., Jr., and Russell V.. Skavaril, 1976 Maintenance of genetic homogeneity in systems with multiple genomes. Genet. Res. 27:249-265.

Perlman, P. S., C. W. Birky, Jr., C. A. Demko, and R. L. Strausberg, 1976 Confirmations and exceptions to the phage analogy model: Input bias, bud position effects, zygote homogeneity, and uniparental inheritance. pp. 405-414. In: Genetics and Biogenesis of Chloroplasts and Mitochondria, Edited by Th. Bücher, W. Neupert, W. Sebald, and S. Werner. North-Holland Publishing Company, Amsterdam, pp. 405-414.

Skavaril, Russell V., C. William Birky, Jr., Richard E. Duhrkopf, and Jeffrey A. Knight, 1976 The use of CAI to provide problems for students in introductory genetics. J. Computer-Based Instruction 3:13-20.

Birky, C. William, Jr., Robert L. Strausberg, Philip S. Perlman, and Jean L. Forster, 1978 Vegetative segregation of mitochondria in yeast: Estimating parameters using a random model. Molec. Gen. Genet. 158:251-261.

Birky, C. W., Jr., 1978 Transmission genetics of mitochondria and chloroplasts. Ann. Rev. Genet. 12:471-512.

Birky, C. W. Jr., Catherine A. Demko, Philip S. Perlman, and Robert L. Strausberg, 1978 Uniparental inheritance of mitochondrial genes in yeast: Dependence on input bias of mitochondrial DNA and preliminary investigations of the mechanism. Genetics 89:615-651.

VanWinkle-Swift, Karen P., and C. William Birky, Jr., 1978 The non-reciprocality of organelle gene recombination in Chlamydomonas reinhardtii and Saccharomyces cerevisiae. Molec. Gen. Genet. 166:193-209.

Perlman, Philip S., C. William Birky, Jr., and Robert L. Strausberg, 1979 Segregation of mitochondrial markers in yeast. Methods in Enzymology: Biomembranes 56:139-154.

Gilbert, John J., C. William Birky, Jr., and Elizabeth S. Wurdak, 1979 Taxonomic relationships of Asplanchna brightwelli, A. intermedia, and A. sieboldi. Arch. Hydrobiol. 87:224-242.

Strausberg, Susan L., and C. William Birky, Jr., 1979 Recombination of yeast mitochondrial DNA does not require mitochondrial protein synthesis. Curr. Genet. 1:21-31.

Thrailkill, Kathryn M., C. William Birky, Jr., Gudrun Lückemann, and Klaus Wolf, 1980 Intracellular population genetics: Evidence for random drift of mitochondrial allele frequencies in Saccharomyces cerevisiae and Schizosaccharomyces pombe. Genetics 96:237-262.

Treat, Lynda G., and C. William Birky, Jr., 1980 Early vegetative segregation of mitochondrial genes in Saccharomyces cerevisiae. Plasmid 4:261-275.

Tilney-Bassett, R. A. E., and C. W. Birky, Jr., 1981 The mechanism of the mixed inheritance of chloroplast genes in Pelargonium: Evidence from gene frequency distributions among the progeny of crosses. Theoret. Appl. Genet. 60:43-53.

Birky, C. William, Jr., Karen P. VanWinkle-Swift, Barbara B. Sears, John E. Boynton, and Nicholas W. Gillham, 1981 Frequency distributions for chloroplast genes in Chlamydomonas zygote clones: Evidence for random drift. Plasmid 6:173-192.

Birky, C. w., Jr., Arlene R. Acton, Rosemary Dietrich, and Maureen Carver, 1982 Mitochondrial transmission genetics: Replication, recombination, and segregation of mitochondrial DNA and its inheritance in crosses. pp. 333-348. In: Mitochondrial Genes, Edited by G. Attardi, P. Borst, and P. P. Slonimski. Cold Spring Harbor Laboratory, New York.

Waxman, Michael F., and C. William Birky, Jr., 1982 Partial pedigree analysis of the segregation of yeast mitochondrial genes during vegetative reproduction. Curr. Genet. 5:171-180.

Birky, C. W. Jr., 1982 Endosymbiosis vs. autogeny. Science 215:495-497. (Essay review of Origins and Evolution of Eukaryotic Intracellular Organelles, Edited by Jerome F. Frederick. New York Academy of Sciences, New York, 1981.)

Birky, C. W., Jr., 1983 The partitioning of cytoplasmic organelles at cell division. Int. Rev. Cytol, Suppl. 15:49-89.

Birky, C. W., Jr., Takeo Maruyama, and Paul Fuerst, 1983 An approach to population and evolutionary genetic theory for genes in mitochondria and chloroplasts, and some results. Genetics 103:513-527.

Birky, C. W., Jr., 1983 Relaxed cellular controls and organelle heredity. Science 222:468-475.

Treat-Clemmons, Lynda G., and C. William Birky, Jr., 1983 Persistent heteroplasmic cells for mitochondrial genes in Saccharomyces cerevisiae. Curr. Genet. 7:489-492.

Birky, C. William, Jr., Pamela Katko, and Maureen Lorenz, 1984 Cytological demonstration of chloroplast DNA behavior during gametogenesis and zygote formation in Chlamydomonas reinhardtii. Curr. Genet. 8:1-7.

Lewis, J. E., and C. William Birky, Jr., 1984 Homoplasmic mutant yeast cells contain no selectable "hidden" mitochondrial alleles. Curr. Genet. 8:81-84.

Birky, C. William, Jr., and Russell V. Skavaril, 1984 Random partitioning of cytoplasmic organelles at cell division: The effect of organelle and cell volume. J. Theoret. Biol. 106:441-447.

Hennis, Annette S., and C. William Birky, Jr., 1984 Stochastic partitioning of chloroplasts at cell division in the alga Olisthodiscus, and compensating control of chloroplast replication. J. Cell Sci. 70:1-15.

Backer, James S. and C. William Birky, Jr., 1985 The origin of mutant cells: Mechanisms by which Saccharomyces cerevisiae produces cells homoplasmic for new mitochondrial mutants. Curr. Genet. 9:627-640.

Banks, Jo Ann, and C. William Birky, Jr., 1985 Chloroplast DNA diversity is low in a wild plant, Lupinus texensis. Proc. Nat. Acad. Sci. USA 82:6950-6954.

Birky, C. William, Jr., 1987 The partitioning of cytoplasmic organelles at cell division. pp. 43-56. In: Spatial Organization in Eukaryotic Microbes, Edited by R. K. Poole and A. P. J. Trinci. Society for General Microbiology Special Publications, Vol. 23, IRL Press, Oxford.

Birky, C. W., Jr., 1988 Evolution and variation in plant chloroplast and mitochondrial genomes. pp. 23-53. In: Plant Evolutionary Biology,, Edited by Leslie D. Gottlieb and Subodh K. Jain. Chapman & Hall, Ltd., London.

Birky, C. W., Jr., and J. Bruce Walsh, 1988 Effects of linkage on rates of molecular evolution. Proc. Nat. Acad. Sci. USA 85:6414-6418.

Birky, C. W., Jr., Paul Fuerst and Takeo Maruyama, 1989 Organelle gene diversity under migration, mutation, and drift: Equilibrium expectations, approach to equilibrium, effects of heteroplasmic cells, and comparison to nuclear genes. Genetics 121:613-627.

Vernon-Kipp, Dawne, Steve A. Kuhl, and C. William Birky, Jr., 1989 Molecular evolution of Polytoma, a non-green chlorophyte. pp. 284-286 In: Physiology, Biochemistry, and Genetics of Nongreen Plastids, Edited by C. D. Boyer, J. C. Shannon, and R. C. Hardison. The American Society of Plant Physiologists.

Birky, C. William, Jr., 1989 Organelle evolution. Genome 31(Supplement 2):1095-1097. (Summary of a workshop conducted by CWB at the XIth International Congress of Genetics.)

Birky, C. W., Jr., 1991 Evolution and population genetics of organelle genes: Mechanisms and models. In: Evolution at the Molecular Level, Edited by R. K. Selander, A. G. Clark, T. S. Whittam. Sinauer, Sunderland, Mass.

Maruyama, Takeo and C. William Birky, Jr., 1991 Effects of periodic selection on gene diversity in organelle genomes and other systems without recombination. Genetics 127:449-451.

Birky, C. William, Jr. and J. Bruce Walsh, 1992 Biased gene conversion, copy number, and apparent mutation rate differences within chloroplast and bacterial genomes. Genetics 130:677-683.

Birky, C. William, Jr., 1994 Relaxed and stringent genomes: Why cytoplasmic genes don't obey Mendel's laws. J. Hered. 85:355-365.

Gordon, Julie, Robert Rumpf, Samuel L. Shank, Dawne Vernon, and C. William Birky, Jr., 1995 Sequences of the Rrn18 genes of Chlamydomonas humicola Luksch and C. dysosmos Moewus are identical, in agreement with their combination in the species C. applanata Pringshein (Chlorophyta). J. Phycol. 31:312-313.

Birky, C. William, Jr., 1995 Uniparental inheritance of mitochondria and chloroplast genes: mechanisms and evolution. Proc. Nat. Acad. Sci. USA 92:11331-11338. Birky95UPI.pdf

Rumpf, Robert, Dawne Vernon, David Schreiber, and C. William Birky, Jr., 1996 Evolutionary consequences of the loss of photosynthesis in Chlamydomonadaceae: Phylogenetic analysis of Rrn18 (18S rDNA) in 13 Polytoma strains (Chlorophyta). J. Phycol. 32:119-126.

Birky, C. William, Jr., 1996 Heterozygosity, heteromorphy, and phylogenetic trees in asexual eukaryotes. Genetics 144:427-437. Birky96Heterozygosity.pdf

Birky, C. William, Jr., 1999 Inheritance of Mitochondrial Mutations. In: Keshav K. Singh (ed.) Mitochondrial Mutations in Aging, Disease and Cancer, RG Landes Company.

Birky, C. William, Jr., 1999 An even broader perspective on sex and recombination. J. Evol. Biol. 12:1013-1016. Birky99BroaderPerspective.pdf

Birky, C. William, Jr., 2001 The inheritance of genes in mitochondria and chloroplasts: Laws, mechanisms, and models. Annu. Rev. Genet. 35:125-148. Birky01AnnRevGenet.pdf

Vernon, Dawne, Robin Gutell, Jaime Cannone, Robert Rumpf, and C. William Birky, Jr., 2001. Accelerated evolution of functional plastid rRNA and elongation factor genes due to reduced protein synthetic load after the loss of photosynthesis in the chlorophyte alga Polytoma.. Mol. Biol. Evol. 18:1810-1822. Vernon01PolyRates.pdf

Maughan, H., C. W. Birky,Jr, W. L. Nicholson, W. D. Rosenzweig, and R. H. Vreeland, 2002. "The paradox of the 'ancient' bacterium which contains 'modern' protein-coding genes. Mol. Biol. Evol. 19:1637-1639. Maughan02BacillusPermians.pdf

Lizhi Yu, C.. William Birky, Jr., and Rodney D. Adam, 2002 "The two nuclei of Giardia each have complete copies of the genome as demonstrated by fluorescence in situ hybridization. Eukaryotic Cell 1:191-199. Yu02Giardia.pdf

Birky, C. William, Jr., 2002 "Non-Mendelian Mitochondrial Inheritance: Evolutionary Origin and Consequences." Encyclopedia of the Human Genome, entry 1129, Nature Publishing Group.

Birky, C. William, Jr., 2002 "Extrnuclear Inheritance." In Robinson, Richard (ed)., Genetics. New York, MacMillan Reference USA.

Barraclough, Timothy G., C. William Birky, Jr., and Austin Burt, 2003 "Diversification in sexual and asexual organisms." Evolution 57:2166-2172. BarraBirkyBurt2003.pdf

Birky, C. William, Jr. (2004) Bdelloid rotifers revisited. Proceedings of the National Academy of Sciences USA 101:2651-2652. Birky04BdelloidsRevisited.pdf

Birky, C. William, Jr. (2005) Sex: Is Giardia doing it in the dark? Current Biology 15:R56-58. Birky05SexInGiardia?.pdf

Birky, C. William, Jr., Cynthia Wolf, Heather Maughan, Linnea Herbertson, Elena Henry (2005) Speciation and selection without sex. Hydrobiologia 546:29-45.

Birky, C. William, Jr. (2005) Sex: Is Giardia doing it in the dark? Current Biology 15:R56-58

Maughan, Heather., Victoria Callicotte, Adam Hancock, C. William Birky, Jr., Wayne L. Nicholson, Joanna Masel (2006) The population genetics of phenotypic deterioration in experimental populations of Bacillus subtilis. Evolution 60:686-695.

Maughan, Heather, Joanna Masel, C. William Birky Jr, Wayne L. Nicholson (2007) The roles of mutation accumulation and selection in loss of sporulation in experimental populations of Bacillus subtilis. Genetics 177:937-948,

Birky, C. William, Jr. (2007) Barcoded DNA: Application to rotifer phylogeny, evolution, and systematics. Hydrobiologia 593:175-183.

Birky, C. William, Jr. (2008) Uniparental inheritance of organelle genes. Current Biology 18 (16):R1-R4.

Maughan, Heather, C. William Birky Jr, Wayne L. Nicholson (2009) Transcriptome divergence and the loss of plasticity in Bacillus subtilis after 6,000 generations of evolution under relaxed selection for sporulation. Journal of Bacteriology 191:428-433.

Birky, C. William, Jr. (2009) Sex and Evolution in Eukaryotes. In: Encyclopedia of Life Support Systems (EOLSS), Developed under the Auspices of the UNESCO, EoLSS Publishers, Oxford ,UK, [http://www.eolss.net].

Birky, C. William, Jr., Timothy G. Barraclough (2009) Asexual Speciation. pp. 201-216. In:  Lost Sex. The Evolutionary Biology of Parthenogenesis. Isa Schön, Koen Martens,  Peter Van Dijk (eds.) Springer.

Birky, C. William, Jr. (2010) Positively negative evidence for asexuality. Journal of Heredity 101(supp1):S42-S45.

Birky, C. William, Jr., Joshua Adams, Marlea Gemmel, Julia Perry(2010) Using population genetic theory and DNA sequences for species detection and identification in asexual
organisms PLoS One 5:e10609

Birky, C. William, Jr., Claudia Ricci, Giulio Melone, Diego Fontaneto (2011) Integrating DNA and traditional taxonomy to describe diversity in poorly studied microscopic animals: new species of the genus Abrochtha Bryce, 1910 (Rotifera: Bdelloidea: Philodinavidae). Zoological Journal of the Linnean Society 161:723-734 (DOI: 10.1111/j.1096-3642.2010.00674.x).

Schön,  Isa,  Ricardo L. Pinto, Stuart Halse, Alison J. Smith, Koen Martens & C. William Birky, Jr. (2012) Cryptic species in putative ancient asexual darwinulids (Crustacea, Ostracoda). PLoS One 7(7):e39844 (doi:10.1371/journal.pone.0039844).

Birky, C. William, Jr. (2013) Species detection and identification in sexual organisms using population genetic theory and DNA sequences. PLoS One 8(1):e52544.

Morgan, M.J., Bass, D., Bik, H., Birky, C.W., Blaxter, M., Crisp, M.D., Derycke, S., Fitch, D., Fontaneto, D., Hardy, C.M., King, A.J., Kiontke, K.C., Moens, T., Pawlowski, J.W., Porazinska, D., Tang, C.Q., Thomas, W.K., Yeates, D.K., Creer, S. 2014 A critique of Rossberg et al.: noise obscures the genetic signal of meiobiotal ecospecies in ecogenomic datasets. Proc. Roy. Soc. B 281:20133076.


Manuscripts in preparation or submitted

Birky, C. William, Jr. (2014) Species detection and identification in bacteria using population genetic theory and DNA sequences.  In preparation for submission to PLoS One.


Student Publications


Through 1980, I gave graduate students who worked with a substantial degree of independence the option of publishing their thesis research as sole authors. The resulting papers were:

Brodie, Ann E., 1970 Development of the cuticle in the rotifer, Asplanchna brightwelli. Z. Zellforsch. 105:515-525.

Brodie, Ann E., 1971 Localization of streptomycin at the ciliary membrane region of the rotifer, Asplanchna brightwelli. Exp. Cell Res. 68:157-162.

Bentfeld, Mary E., 1971 Studies of oogenesis in the rotifer, Asplanchna. I. Fine structure of the female reproductive system. Z. Zellforsch. 115:165-183.

Bentfeld, Mary E., 1971 Studies of oogenesis in the rotifer, Asplanchna. II. Oocyte growth and development. Z. Zellforsch. 115:184-195.

Knight, Jeffrey A., 1980 New antibiotic resistance loci in the ribosomal region of yeast mitochondrial DNA. Genetics 94:69-92.


Book Reviews

Berrill, N. J. 1961 Growth, Development, and Pattern W. H. Freeman & Company, San Francisco. Reviewed inThe American Biology Teacher 23:534 (1960).

Grun, Paul 1977 Cytoplasmic Genetics and Evolution Columbia University Press, New York. Reviewed in American Scientist 65:232 (1977).

Gillham, N. W. 1978 Organelle Heredity Raven Press, New York. Reviewed in Science 204:761 (1979).

Boffey, S. A. and Lloyd, D. (eds.) 1988 Division and Segregation of Organelles Cambridge University Press, Cambridge. Reviewed in Trends in Genetics 5:385-386 (1989).

Bogorad, Lawrence and Indra K. Vasil (eds.) 1991 The Molecular Biology of Plastids. Academic Press, San Diego. Reviewed in Science 255:95-96 (1992).

Dyer, Betsey Dexter and Obar, Rovert Alan 1994 Tracing the History of Eukaryotic Cells. The Enigmatic Smile. Columbia University Press, New York. Reviewed in Science 266:309-310.


 

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