Networks
Doyle, Jeffrey J.
Cornell Faculty Member
Positions
- Professor, Plant Biology (BIOPL), College of Agriculture and Life Sciences (CALS)
- Professor, Plant Breeding and Genetics (PB&G), College of Agriculture and Life Sciences (CALS)
My training is as a plant systematist, studying the evolutionary relationships of flowering plants. Beginning with my doctoral work I have been interested in genome duplication, and my work in this area involves comparative genomics of polyploid species. Most of this work involves the large and economically important legume family ("beans"), where projects include studies addressing the origin of nodulation (symbiotic nitrogen fixation) and the study of gene families involved in cell wall synthesis, aimed at developing alfalfa (a polyploid) as a biofuels crop, particularly soybean and its wild relatives. Soybean and, particularly, its wild relatives have been the focus of much work, developing the latter into a model system for studying natural allopolyploidy.
Research Areas
- biodiversity
- evolution
- genetics
- genomics
- molecular genetics
- plant biology
- plant breeding and genetics
- Affiliations
- Research
- Publications
- Teaching
- Service
- Background
- Other
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Affiliations
member of graduate field
other Cornell affiliations
advisory group member
Research
research overview
- My research lies in the area of plant molecular systematics, molecular evolution, and comparative genomics. I am especially interested in the origin and evolution of polyploidy in plants, including such topics as the role of polyploidy in shaping the floral and photosynthetic transcriptomes. Much of my research has focused on polyploid complexes in the genus Glycine, which includes the cultivated soybean (G. max). The genus is itself an ancient polyploid, and several projects are aimed at understanding two ancient polyploidy events that shaped its genome. More recent cycles of allopolyploidy have occurred in the Australian perennial subgenus. Genomic studies are aimed at investigating the effect of both ancient and recent polyploidy on regions of the genome that harbor disease resistance genes (R-genes). Dissecting the genome origins of the neopolyploids has revealed at least nine different allopolyploid genome combinations involving around nine different diploid genomes. Primary molecular phylogenetic work on diploid species is addressing the possible hybrid origins of diploid species. We are studying the evolution of gene expression in fixed hybrid allopolyploid plants, and investigating the consequences of altered expression on morphology and physiology. The evolution of autopolyploidy is being studied in alfalfa and its allies (Medicago); a current project is aimed at understanding the diversity at genes involved in biomass production. Student projects also have centered on the origin of polyploids, with current work on another legume genus, Amorpha, and a noxious polyploid weed, johnsongrass (Sorghum halepense); an additional collaborative project with a plant breeder in Israel involves the origin of the polyploid “dragon fruit” cactus (Selenicereus megalanthus). The legume family as a whole has also been a focus of phylogenetic work. Knowledge of legume phylogeny is important for understanding the origin of nitrogen fixing symbioses ("nodulation"), which our work suggests may have originated several times in the family. Studies of low copy nuclear genes are useful for understanding patterns of gene family evolution and for phylogeny reconstruction at low taxonomic levels, and also for testing hypotheses of multiple origins of nodulation.
research activities
principal investigator on
- EAGER ALLOPOLYPLOIDY AND PHOTOSYNTHESIS: A WHOLE TRANSCRIPTOME APPROACH awarded by DIRECTORATE FOR BIOLOGICAL SCIENCES NSF 2009 - 2012
- EAGER: ESTIMATING THE PREVALENCE OF POLYPLOIDY IN THE PHASEOLOID LEGUMES: ARRA FUNDING awarded by DIRECTORATE FOR BIOLOGICAL SCIENCES NSF 2009 - 2013
- SOYMAPII: LEVERAGING GENETIC DIVERSITY IN SOYBEAN awarded by DIRECTORATE FOR BIOLOGICAL SCIENCES NSF 2011 - 2013
- UNDERGRADUATE BIOLOGICAL SCIENCE EDUCATION PROGRAM awarded by HOWARD HUGHES MEDICAL INST 2006 - 2012
- UNDERGRADUATE SCIENCE EDUCATION 2010 - CORE PROPOSAL awarded by HOWARD HUGHES MEDICAL INST 2010 - 2014
other area(s) of concentration/expertise
- Plant Systematics and Comparative Genomics
keywords
- alfalfa
- comparative genomics
- gene and genome evolution
- legumes
- photosynthesis
- phylogeny
- polyploidy
- soybean
- systematics
submitted impact statement
- Project 1: Comparative genomics of disease resistance in soybean and relatives|Project 2: Identifying genes for cell wall constituents and biomass yield in alfalfa|Project 3: Polyploidy and evolution in soybean and related species
- Project 1: Comparative genomics of disease resistance in soybean and relatives Project 2: Floral genomics Project 3: Polyploidy and evolution in soybean and related species
- Multiple projects: Comparative genomics of disease resistance in soybean and relatives; Floral genomics; and Polyploidy and evolution in soybean and related species
Publications
individual publications
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academic article
- A comparative transcriptomic study of an allotetraploid and its diploid progenitors illustrates the unique advantages and challenges of RNA-Seq in plant species.. American Journal of Botany. 99:383-396. 2012
- Adaptive horizontal transfer of a bacterial gene to an invasive insect pest of coffee.. Proceedings of the National Academy of Sciences of the United States of America. 2012
- Anatomical, biochemical and photosynthetic responses to recent allopolyploidy in Glycine dolichocarpa. American Journal of Botany. 99:55-67. 2012
- Evolution of a complex disease resistance gene cluster in diploid Phaseolus and tetraploid Glycine.. Plant Physiology. 159:336-354. 2012
- Hotspots of diversity of wild Australian soybean relatives and their conservation in situ.. Genetics. 13:1269-1281. 2012
- Patterns of linkage disequilibrium and association mapping in diploid alfalfa (M. sativa L.).. Applied Genetics. 125:590. 2012
- Selecting nuclear sequences for fine detail molecular phylogenetic studies: a computational approach. Systematic Biology. 37:7-14. 2012
- Transgressive physiological and transcriptomic responses to light stress in allopolyploid Glycine dolichocarpa (Leguminosae).. Heredity. 2012
- Comparative evolution of photosynthetic genes in response to polyploid and non-polyploid duplication. Plant Physiology. 155:2081-2095. 2011
- Complex patterns of autopolyploid evolution in alfalfa and allies (Medicago sativa: Leguminosae). American Journal of Botany. 98:1633-1646. 2011
- Divergent evolutionary fates of major photosynthetic gene networks following gene and whole genome duplications. Plant Signaling and Behavior. 6:594-597. 2011
- Phenotypic and genomic characterization of vine cacti collection (Cactaceae). Genetic Resources of Crop Evolution. 7:1075-1085. 2011
- Phylogenetic perspectives on the origins of nodulation. Molecular Plant-Microbe Interactions. 24:1289-1295. 2011
- The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature. 480:520-524. 2011
- A comparison of global, gene-specific, and relaxed clock methods in a comparative genomics framework: dating the polyploid history of soybean (Glycine max). Systematic Biology. 59:534-547. 2010
- Dating the origins of polyploidy events. New Phytologist. 186. 2010
- Development of genomic microsatellite markers in Lupinus luteus L. (Fabaceae), an emerging protein crop, and cross-species amplification in other lupin species. American Journal of Botany Primer Notes & Protocols. 97. 2010
- Inferring population structure and genetic diversity of broad range of wild diploid alfalfa (Medicago sativa L.) accessions using SSR markers. Theoretical and Applied Genetics. 121. 2010
- Polyploidy did not predate the evolution of nodulation in all legumes. PLoS One. 5. 2010
- Quantifying whole transcriptome size, a prerequisite for understanding transcriptome evolution across species: an example from a plant allopolyploid. Genome Biology and Evolution. 2:534-546. 2010
- Relationships among diploid members of the Medicago sativa (Fabaceae) species complex based on chloroplast and mitochondrial DNA sequences. Systematic Botany. 35:140-150. 2010
- What we still don’t know about polyploidy. Taxon. 59:1387-1403. 2010
- Conservation genetics of Amorpha georgiana (Fabaceae), an endangered legume of the Southeastern United States. Molecular Ecology. 18:4349-4365. 2009
- Dedication: Anthony H. D. Brown Conservation Geneticist. Plant Breeding Reviews. 31:1-20. 2009
- Isolation and characterization of thirteen polymorphic microsatellite loci in the A-genome perennial group of the legume genus Glycine. Molecular Ecology Resources. 9:1547-1550. 2009
- Molecular and chromosomal evidence for allopolyploidy in soybean, Glycine max (L.) Merr. Plant Physiology. 151:1167-74. 2009
- Relationships among phaseoloid legumes based on sequences from eight chloroplast regions. Systematic Botany. 34:115-128. 2009
- Venturing beyond peas and beans: What can we learn from Chamaecrista? . Plant Physiology. 151:1041-1047. 2009
- Characterization of twelve polymorphic microsatellite markers for Georgia false indigo (Amorpha georgiana Wilbur var. georgiana), an endangered species, and their utility in other dwarf Amorpha L. species. Molecular Ecology Resources. 9:225-228. 2008
- Differential accumulation of retroelements and diversification of NB-LRR disease resistance genes in duplicated regions following polyploidy in the ancestor of soybean. Plant Physiology. 148:1740-1759. 2008
- Evolutionary genetics of genome merger and doubling in plants. Annual Review of Ecology, Evolution and Systematics. 42:443-461. 2008
- ITS and ETS sequence data and phylogeny reconstruction in allopolyploids and hybrids. Systematic Botany. 33:7-20. 2008
- Origins and genetic conservation of tropical trees in agroforestry systems: a case study from the Peruvian Amazon. Conservation Genetics. 9. 2008
- The reticulate history of Medicago (Fabaceae). Systematic Biology. 57:466-482. 2008
- Development of nuclear gene-derived markers linked to legume genetic maps. Molecular Genetics and Genomics. 276:56-70. 2006
- Paleopolyploidy and gene duplication in soybean and other legumes. Current Opinion in Plant Biology. 9:104-109. 2006
- Taking the first steps towards a Standard for Reporting on Phylogenetics: Minimum Information about a Phylogenetic Analysis. A Journal of Integrative Biology. 10:231-237. 2006
- Testing the polyploid past of soybean using a low-copy nuclear gene: is Glycine(Fabaceae: Papilonoideae) an auto- or allopolyploid?. Molecular Phylogenetics and Evolution. 39:580-584. 2006
- Three new species of Northern Australia Glycine (Fabaceae, Phaseolae) including G. gracei, G. montis-douglas and G. syndetica. Australian Systematic Botany. 19:245-258. 2006
- Widespread genome duplications throughout the history of flowering plants. Genome Research. 16:738-749. 2006
- Acacia: the case against moving the type to Australia. Taxon. 54:513-519. 2005
- Analysis of genomic sequences from peanut (Arachis hypogaea). Electronic Journal of Biotechnology. 8. 2005
- Placing Paleopolyploidy in relation to taxon divergence: a phylogenetic analysis in legumes using 39 gene families. Systematic Biology. 54:441-454. 2005
- Comparative phylogeography of Amphicarpaea legumes and their root-nodule symbionts in Japan and North America. Journal of Biogeography. 31:425-434. 2004
- Diploid and polyploid reticulate evolution throughout the history of the perennial soybeans( Glycine subgenusGlycine). New Phytologist. 161:121-132. 2004
- Estimating genome conservation between crop and model legume species. Proceedings of the National Academy of Sciences of the United States of America. 101:15289-15294. 2004
- Evolution of the perennial soybean polyploid complex (Glycine subgenus Glycine): A study of contrasts. Biological Journal of the Linnean Society. 82:583-597. 2004
- Evolutionary dynamics and preferential expression of homoeologous 18S-5.8S-26S nuclear ribosomal genes in natural and artificial Clycine allopolyploids. Molecular Biology and Evolution. 21:1409-1421. 2004
- Is Eragrostis(Poaceae) monophyletic? Insights from nuclear and plastid sequence data. Systematic Botany. 29:545-552. 2004
- Mining EST databases to resolve evolutionary events in major crop species. Genome. 47:868-876. 2004
- Multiple origins and nrDNA internal transcribed spacer homoeologue evolution in the Glycine tementella(Leguminosae) allopolyploid complex. Genetics. 166:987-989. 2004
- Chloroplast-expressed gutamine synthetase in Glycine and related Leguminosae: Phylogeny, gene duplication, and ancient polyploidy. Systematic Botany. 28:567-577. 2003
- The origin and evolution of Eragrostis tef (Poaceae) and related polyploids: evidence from nuclear waxy and plastid rps16 sequence data. Americal Journal of Botany. 90:116-122. 2003
- The rest of the iceberg: legume diversity and evolution in a phylogenetic context. Plant Physiology. 131:900-910. 2003
- Two tomato non-symbiotic haemoglobin genes are differentially expressed in response to diverse changes in mineral nutrient status. Plant, Cell and Environment. 26:673-680. 2003
- A phylogenetic analysis of tribe Areceae (Arecaceae) using two low-copy nuclear genes. Plant Systematics and Evolution. 236:1-17. 2002
- HecA is a member of a class of adhesins produced by diverse pathogenic bacteria and contributes to the attachment, aggregation, epidermal cell killing, and virulence phenotypes of Erwinia chrysanthemi EC 16 on Nicotiana clevelandii seedlings. Proceedings at the National Academy of Science USA. 99:13142-13147. 2002
- Internal transcribed spacer repeat-specific primers and the analysis of hybridization in the Glycine tomentella (Leguminosae) polyploid complex. Molecular Ecology. 11:2691-2702. 2002
- Molecular phylogenetic relationships within and among diploid races of Glycine tomentella (Leguminosae). Australian Systematic Botany. 15:37-47. 2002
- Origins of domestication and polyploidy in oca (Oxalis tuberosa: Oxalidaceae). 2. Chloroplast-expressed glutamine synthetase data. Americal Journal of Botany. 89:1042-1056. 2002
- Systematics of the halimolobine Brassicaceae: evidence from three loci and morphology. Systematic Botany. 27:318-332. 2002
- Phylogenetic utility of the nuclear gene malate synthase in the palm family (Arecaceae). Molecular Phylogenetics and Evolution. 19:409-420. 2001
- Phylogeny of the Celastraceae inferred from phytochrome B gene sequence and morphology. Americal Journal of Botany. 88:313-325. 2001
- rbcL and legume phylogeny, with particular reference to Phaseoleae, Millettieae, and allies. Systematic Botany. 26:515-536. 2001
- Confirmation of shared and divergent genomes in the Glycine tabacina polyploid complex (Leguminosae). Systematic Botany. 25:437-448. 2000
- Evolution of genes and taxa: a primer. Plant Molecular Biology. 42:1-23. 2000
- Chloroplast-expressed glutamine synthetase (ncpGS): potential utility for phylogenetic studies with an example from Oxalis (Oxalidaceae). Molecular Phylogenetics and Evolution. 12:310-319. 1999
- Incongruence in the diploid B-genome species complex of Glycine (Leguminosae) revisited: Histone H3-D alleles vs. chloroplast haplotypes. Molecular Biology and Evolution. 16:354-362. 1999
- Multiple insertions and dual transcription of nuclear and mitochondrial cox2 genes following transfer to the nucleus during recent legume evolution. Proceedings at the National Academy of Science USA. 96:13863-13868. 1999
- Origins, colonization, and lineage recombination in a widespread perennial soybean polyploid complex. Proceedings at the National Academy of Science USA. 96:10741-10745. 1999
- Origins, colonization, and lineage recombination in a widespread perennial soybean polyploid complex. Proceedings at the National Academy of Science USA. 96:10741-10745. 1999
- Phylogeny, biogeography, and processes of molecular differentiation in Quercus subgenus Quercus (Fagaceae). Molecular Phylogenetics and Evolution. 12:333-349. 1999
- Potential phylogenetic utility of the low-copy nuclear gene pistillata in dictyledonous plants: comparison to nrDNA ITS and trnL intron in Sphaerocardamum and other Brassicaceae. Molecular Phylogenetics and Evolution. 13:20-30. 1999
- Origins of domestication and polyploidy in oca (Oxalis tuberosa: Oxalidaceae): nrDNA ITS data. Americal Journal of Botany. 85:975-985. 1998
- Phylogenetic perspectives on nodulation: An evolving view of plants and symbiotic bacteria. Trends in Plant Science. 3:473-478. 1998
- Size homoplasy in chloroplast microsatellites of wild perennial relatives of soybean (Glycine subgenus Glycine). Molecular Biology and Evolution. 15:215-218. 1998
- A phylogeny of the chloroplast gene rbcL in the Leguminosae: Taxonomic correlations and insights into the evolution of nodulation. Americal Journal of Botany. 84:541-554. 1997
- Phylogenetic perspectives on the origins and evolution of nodulation in the legumes and allies. NATO ASI Series. 39:307-312. 1997
- Polymorphism for the presence of the rpl2 intron in chloroplast genomes of Bauhinia (Leguminosae). Systematic Botany. 22:519-528. 1997
- The chloroplast rpl2 intron and ORF184 as phylogenetic markers in the legume tribe Desmodieae. Systematic Botany. 22:133-138. 1997
- Trees within trees: genes and species, molecules and morphology. Systematic Biology. 46:537-553. 1997
- Genepool variation in genus Glycine subgenus Soja revealed by polymorphic nuclear and chloroplast microsatellites. Genetics. 144:793-803. 1996
- Infrageneric phylogeny of the genus Gentiana (Gentianaceae) inferred from nucleotide sequences of the internal transcribed spacers (ITS) of nuclear ribosomal DNA. Americal Journal of Botany. 83:641-652. 1996
- Phylogenetic utility of histone H3 intron sequences in the perennial relatives of soybean (Glycine: Leguminosae). Molecular Phylogenetics and Evolution. 6:438-447. 1996
- Reconstruction of the evolution of reproductive characters in Pontederiaceae using phylogenetic evidence from chloroplast DNA restriction site variation. Evolution. 50:1454-1469. 1996
- The distribution and phylogenetic significance of a 50kb chloroplast DNA inversion in the flowering plant family Leguminosae. Molecular Phylogenetics and Evolution. 5:429-438. 1996
- A cladistic analysis of chloroplast DNA restriction site variation and morphology for the genera of the Juglandaceae. Americal Journal of Botany. 82:1163-1172. 1995
- A single nuclear locus phylogeny of soybean based on DNA sequence. Theoretical and Applied Genetics. 90:991-999. 1995
- Hypervariable microsatellites provide a general source of polymorphic DNA markers for the chloroplast genome. Current Biology. 5:1023-1029. 1995
- Multiple independent losses of two genes and one intron from legume chloroplast genomes. Systematic Botany. 20:272-294. 1995
- The irrelevance of allele tree topologies for species delimitation, and a non-topological alternative. Systematic Botany. 20:574-588. 1995
- A novel anther-expressed adh-homologous gene in Lycopersicon esculentum. Plant Molec. Biol.. 26:1875-1891. 1994
- Character transformation and evolution in Corallorhiza (Orchidaceae: Epidendroideae). I. Plastid DNA. Americal Journal of Botany. 81:1458-1467. 1994
- Character transformation and evolution in Corallorhiza (Orchidaceae: Epidendroideae). I. Plastid DNA. Americal Journal of Botany. 81:1458-1467. 1994
- Evolution of a plant homeotic multigene family: toward connecting molecular systematics and molecular developmental genetics. Systematic Biology. 43:307-328. 1994
- Phylogeny and systematics of Sphenostylis and Nesphostylis (Leguminosae: Phaseoleae) based on morphological and chloroplast DNA data. Systematic Botany. 19:389-406. 1994
- Phylogeny of the legume family: an approach to understanding the origins of nodulation. Annual Review of Ecology, Evolution and Systematics. 25:325-349. 1994
- Plastid DNA, morphological variation, and the Phylogenetic Species Concept: the Corallorhiza maculata complex. Systematic Botany. 19:273-290. 1994
- The reduced stability of a plant alcohol dehydrogenase is due to the substitution of serine for a highly conserved phenylalanine residue. Plant Molecular Biology. 26:643-655. 1994
- Chloroplast DNA phylogenetic studies in New World Phaseolinae (Leguminosae: Papilionoideae: Phaseoleae). Systematic Botany. 18:6-17. 1993
- Chloroplast DNA phylogeny of Old World Vigna (Leguminosae). Systematic Botany. 18:642-651. 1993
- Chloroplast DNA phylogeny of the papilionoid legume tribe Phaseoleae. Systematic Botany. 18:309-327. 1993
- Cladistic analysis of restriction site variation within the chloroplast DNA inverted repeat region of selected Hamamelididae. Systematic Botany. 18:551-562. 1993
- DNA, phylogeny, and the flowering of plant systematics. BioScience. 43:380-389. 1993
- Phylogenetic analysis of chloroplast DNA restriction site characters in Erythrina L. (Phaseoleae: Leguminosae). Systematic Botany. 18:229-247. 1993
- Phylogenetic relationships in North American Astragalus (Fabaceae) based on chloroplast DNA restriction site variation. Systematic Botany. 18:395-408. 1993
- Chloroplast DNA inversions and the origin of the grass family (Poaceae). Proceedings at the National Academy of Science USA. 89:7722-7726. 1992
- Gene trees and species trees: molecular systematics as one-character taxonomy. Systematic Botany. 17:144-163. 1992
- Nuclear DNA content variation within the Rosaceae. Americal Journal of Botany. 79:1081-1086. 1992
- Origins of the African yam bean (Sphenostylis stenocarpa (Hochst, ex A. Rich.) Harms): Evidence from morphology, isozymes, chloroplast DNA and linguistics. Economic Botany. 46:276-293. 1992
- Reconstruction of organismal phylogenies from multigene families: paralogy, concerted evolution, and homoplasy. Systematic Biology. 41:4-17. 1992
- Evolution of higher plant glutamine synthetase genes: tissue specificity as a criterion for predicting orthology. Molecular Biology and Evolution. 8:366-377. 1991
- The pros and cons of DNA systematic data: studies of the wild perennial relatives of soybean. Evolutionary Trends in Plants. 5:99-104. 1991
- Tribal relationships of Sphinctospermum (Leguminosae): integration of traditional and chloroplast DNA data. Systematic Botany. 16:162-172. 1991
- A chloroplast DNA phylogeny of the wild perennial relatives of soybean (Glycine subgenus Glycine): congruence with morphological and crossing groups. Evolution. 44:371-389. 1990
- A chloroplast DNA structural mutation as a subtribal character in the Phaseolae (Leguminosae). Systematic Botany. 15:378-386. 1990
- A phylogenetic analysis of chloroplast DNA restriction site variation in Poaceae subfamily Pooideae. Plant Systematics and Evolution. 172:65-75. 1990
- Analysis of a polyploid complex in Glycine with chloroplast and nuclear DNA. Australian Journal of Systematic Botany. 3:125-136. 1990
- Anything goes--breaking the "rules" of organelle inheritance. Nature (News and Views). 344:295-296. 1990
- Chloroplast DNA phylogenetic affinities of newly described species in Glycine (Leguminosae: Phaseoleae). Systematic Botany. 15:466-471. 1990
- Chloroplast DNA polymorphism and phylogeny in the B genome of Glycine subgenus Glycine (Leguminosae). Americal Journal of Botany. 77:772-782. 1990
- Multiple origins of polyploids in the Glycine tabacina complex inferred from chloroplast DNA polymorphism. Proceedings at the National Academy of Science USA. 87:714-717. 1990
- Organelle inheritance: Redwoods break the rules. Nature. 344:295-296. 1990
- Reproductively isolated polyploid races of Glycine tabacina (Leguminosae) had different chloroplast genome donors. Systematic Botany. 15:173-181. 1990
- Systematic and evolutionary significance of the loss of the large chloroplast DNA inverted repeat in the family Leguminosae. Evolution. 44:390-402. 1990
- 5S ribosomal gene variation in the Glycine tomentella polyploid complex. Systematic Botany. 14:398-407. 1989
- Distribution and evolution of a cytosolic GPI isozyme duplication in the Leguminosae. Evolution. 43:1637-1651. 1989
- 5S ribosomal gene variation in the soybean and its progenitor. Theoretical and Applied Genetics. 75:621-624. 1988
- Hybridization in Claytonia: morphology, fertility, and nuclear ribosomal genes. Americal Journal of Botany. 75:1238-1246. 1988
- Preservation of plant samples for DNA restriction endonuclease analysis. Taxon. 36:715-722. 1987
- Ribosomal RNA gene variation in diploid and tetraploid cytotypes of Tolmiea menziesii (Saxifragaceae). Plant Systematics and Evolution. 15:75-78. 1987
- The glycosylated seed storage proteins of Glycine max and Phaseolus vulgaris: structural homologies of genes and proteins. Journal of Biological Chemistry. 261:9228-9238. 1986
- An intergeneric hybrid in the Saxifragaceae: evidence from ribosomal RNA genes. Americal Journal of Botany. 72:1388-1391. 1985
- Antigenic relationship of legume seed storage proteins to the 7S storage protein of soybean. Biochemical Systematics and Ecology. 13:123-132. 1985
- Ribosomal gene variation in soybean (Glycine max) and its relatives. Theoretical and Applied Genetics. 70:369-376. 1985
- Karyotypic variation of eastern North American Claytonia chemical races. Americal Journal of Botany. 71:970-979. 1984
- Leaf morphology of Claytonia virginica L.: racial and clinal variation. Canadian Journal of Botany. 62:1469-1473. 1984
- Molecular characterization of a deletion mutation affecting the a'-subunit of •-conglycinin of soybean. Journal of Molecular and Applied Genetics. 2:372-380. 1984
- Chemical races of Claytonia virginica L. (Portulacaceae). Americal Journal of Botany. 70:1085-1091. 1983
- Nucleotide homologies between the glycosylated seed storage proteins of Glycine max and Phaseolus vulgaris. Plant Molecular Biology. 2:119-127. 1983
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article
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booksection
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chapter
- Polyploidy in legumes.. Polyploidy and Genome Evolution. 147-180. 2012
- Glycine. Wild Crop Relatives: Genomic and Breeding Resources, Legume Crops and Forages. 2011
- The population genetic structure of diploid Medicago sativa L. germplasm. Sustainable use of genetic diversity in forage and turf breeding. 143-148. 2010
- Polyploidy and evolution in plants. Plant Diversity and Evolution: Genotypic and Phenotypic Variation in Higher Plants. 97-117. 2005
- Legume phylogeny:context for the family, major groups, and the relationships of crop and model species. Legume Crop Genomics. 30-59. 2004
- Nuclear protein-coding genes in phylogeny reconstruction and homology assessment: some examples from Leguminosae. Molecular Systematics and Plant Evolution. 229-254. 1999
- Homology in molecular phylogenetics: a parsimony perspective. Molecular Systematics of Plants. 101-131. 1998
- Phylogenetic incongruence: window into genome history and molecular evolution. Molecular Systematics of Plants. 265-296. 1998
- Homoplasy connections and disconnections: genes and species, molecules and morphology. Homoplasy and the evolutionary process. 37-66. 1996
- DNA data and legume phylogeny: a progress report. Advances in Legume Systematics, part 7: Phylogeny. 11-30. 1995
- Phylogenetic evidence in Phaseoleae: evidence from chloroplast restriction site characters. Advances in Legume Systematics, part 7: Phylogeny. 309-330. 1995
- Phylogenetic relationships among palms: cladistic analyses of morphological and chloroplast DNA restriction site variation. Monocotyledons: systematics and evolution. 623-661. 1995
- Contributions of molecular data to Papilionoid legume systematics. Molecular Systematics of Plants. 223-251. 1992
- Molecular data and polyploid evolution in plants. Molecular Systematics of Plants. 177-201. 1992
- DNA and higher plant systematics: some examples from the legumes. Molecular Techniques in Taxonomy. 101-115. 1991
- Variation at the DNA level: uses and potential in legume systematics. Advances in Legume Systematics. 1-30. 1987
- Evolution of rDNA in Claytonia polyploid complexes. Plant Biosystematics. 321-341. 1984
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conference paper
- Molecular characterization of a soybean variety lacking a subunit of the 7S seed storage protein. Plant Molecular Biology, UCLA Symposium on Molecular and Cellular Biology, New Series vol. XII. 413-422. 1983
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document part
- Phylogenetic relationships among palms. 193. 1994
- "Of Plants and People" by C.B. Heiser, Jr 1989
- Plant Evolutionary Biology 1989
- A rapid DNA isolation procedure for small quantities of fresh leaf tissue 1987
- "Genetic Engineering of Plants: Agricultural Research Opportunities and Policy Concerns" by National Research Council 1985
- Genetic Engineering of Eukaryotes 1985
- Genetic Engineering of Plants: An Agricultural Perspective 1985
- Biosystematic Studies on the Claytonia virginica Aneuploid Complex 1981
Teaching
teaching overview
- Molecular systematics and evolution
teaching activities
- BIOPL-7440: Graduate Research in Plant Biology - Spring 2013
- BIOPL-7490: Graduate Research in Botany - Spring 2013
- PLBR-7900: Graduate-Level Dissertation - Spring 2013
- PLBR-8900: Master's Level Thesis Research - Spring 2013
- PLBR-9900: Doctoral-Level Dissertation Research - Spring 2013
- BIOPL-7440: Graduate Research in Plant Biology - Fall 2012
- BIOPL-7490: Graduate Research in Botany - Fall 2012
- PLBR-7900: Graduate-Level Dissertation - Fall 2012
- PLBR-8900: Master's Level Thesis Research - Fall 2012
- PLBR-9900: Doctoral-Level Dissertation Research - Fall 2012
- BIOPL-7440: Graduate Research in Plant Biology - Spring 2012
- BIOPL-7490: Graduate Research in Botany - Spring 2012
- PLBR-7900: Graduate-Level Dissertation - Spring 2012
- PLBR-8900: Master's Level Thesis Research - Spring 2012
- PLBR-9900: Doctoral-Level Dissertation Research - Spring 2012
- BIOPL-7440: Graduate Research in Plant Biology - Fall 2011
- BIOPL-7490: Graduate Research in Botany - Fall 2011
- PLBR-7900: Graduate-Level Dissertation - Fall 2011
- PLBR-8900: Master's-Level Thesis Research - Fall 2011
- PLBR-9900: Doctoral-Level Dissertation Research - Fall 2011
Service
service to the profession
- Advisory Board for iPlant Collaborative Education, Teaching and Outreach Committee Board of Advisors 2008 -
- Botanical Society of America Nominations Committee Committee Member 2008 -
- Scientific Advisory Board for NSF Plant Genome Board of Advisors 2007 -
- International Legume Database and Information Service Trustee 1995 -
- International Society for Plant Molecular Biology
- Willi Henning Society
- i-Plant Collaborative Education, Outreach, and Teaching Committee Board of Advisors 2009
- Botany in Copenhagen Review Team, U. of Copenhagen Botanical Institute, Botanical Garden, and Botanical Museum Committee Member 2002
- Evaluation team for University of Copenhagen Member - 2002
- Kew Science Audit Team, Royal Botanic Gardens Committee Member 2001
- Molecular Biology/Systematics Search Committee, New York Botanical Garden Committee Member 1999 - 2001
- National Science Foundation Biocomplexity in the Environment Advisory Panel Member - 2001
- Molecular Systematics/ Evolution Subcommittee Chairperson 2000
- Molecular Biology/Systematics Search Committee, New York Botanical Garden Committee Member - 1999
- Systematics Lecturer Search Committee, Uppsala University, Sweden Committee Member 1997 - 1998
- American Society of Plant Taxonomists Council Member 1993 - 1996
- Molecular Systematics Search Committee, New York Botanical Garden Committee Member 1994 - 1995
- Botanical Society of America Committee on Elections Committee Member 1991 - 1994
- National Science Foundation Biotic Systems and Resources (Division of Environmental Biology) Systematic Biology Program Advisory Panels Member 1991 - 1994
- Molecular Systematics Search Committee, Lund University Committee Member - 1993
- Review committee, Field Museum of Natural History Department of Botany Committee Member - 1993
- Society of Systematic Biologists Elections Committee Committee Member 1992
- ASPT Cooley Award Selection Committee, 1990 and 1991 AIBS meetings Committee Member 1990 - 1991
- Committee on an Examination of Plant Science Programs in the United States Committee Member 1990 - 1991
- AI-SPER-0203DF692AB00010862 Officer, President/Elect/Past 1991
- Phytochemical Section, Botanical Society of America Chair and elect chair 1988 - 1990
- Phytochemical Section, Botanical Society of America Officer, Secretary 1987 - 1989
- Review Committee, University of Michigan Herbarium Committee Member - 1989
reviewer or editor for
- ANR (France)
- ANR (France) proposal review
- American Journal of Botany
- American Journal of Botany
- Austrian Science Fund (FWF)
- BARD grant proposal review
- Biochemical Systematics and Ecology
- Evolution
- Hatch proposal review
- Molecular Phylogenetics and Evolution
- NSF proposal reviews (3)
- National Science Foundation
- National Science Foundation (US)
- National Science Foundation proposal review
- PLoS Genetics
- PLoS One
- Plant Physiology
- Plant Physiology
- Plant Physiology
Background
education and training
- Ph.D. in, Indiana University 1981
- M.S. in, Indiana University 1977
- B.S. in, College of William and Mary 1975
awards and honors
- Visiting Professor, CNRS (Centre national de la recherche scientifique), France, 2009
- Outstanding Graduate Mentor, 2007
- External Reviewer, 1999
- Appointments Committee External Expert, Faculty of Science and Technology, 1997
- Outside expert for search committee on molecular taxonomy, 1993
- Outside Expert consultant on Jodrell Laboratory, 1990
- George R. Cooley Award, 1985
- Dupont Young Faculty Grant, 1984
- Cornell Biotechnology Institute Young Investigator Award, 1984
- Washington University Monsanto Corporation Plant Biology Fellowship, 1980
- Brackenridge Fellowship, 1979
- Grants-in-aid of Research, 1979
- Floyd Biology Departmental Summer Fellowship, 1979
- Grants-in-aid of Research, 1976
- Floyd Biology Departmental Summer Fellowship, 1976
- Graduate High Honors, Phi Beta Kappa, 1975
- Sigma Xi
- Floyd Departmental Fellowship
- Named "Outstanding Educator" for being selected by Cornell Merrill Presidential Scholar Jennifer Sceppa ('96) as Cornell faculty member who most influenced her career
- Named "Outstanding Educator" for being selected by Cornell Merrill Presidential Scholar Raymond Heung-Wing Mak ('01) as Cornell faculty member who most influenced his career
- Named "Outstanding Educator" for being selected by Cornell Merrill Presidential Scholar Arthur Turko ('04) as Cornell faculty member who most influenced his career
Other
alternate name
- Jeff J. Doyle
college
- CALS
research keyword
- alfalfa
- comparative genomics
- gene and genome evolution
- legumes
- photosynthesis
- phylogeny
- polyploidy
- soybean
- systematics