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Research Output 2000 2019

2000
172 Citations (Scopus)

Conserved plant genes with similarity to mammalian de novo DNA methyltransferases

Cao, X., Springer, N. M., Muszynski, M. G., Phillips, R. L., Kaeppler, S. & Jacobsen, S. E., Apr 25 2000, In : Proceedings of the National Academy of Sciences of the United States of America. 97, 9, p. 4979-4984 6 p.

Research output: Contribution to journalArticle

Plant Genes
Methyltransferases
Ubiquitin
DNA
DNA Methylation
2001
111 Citations (Scopus)

Maize chromomethylase Zea methyltransferase2 is required for CpNpG methylation

Papa, C. M., Springer, N. M., Muszynski, M. G., Meeley, R. & Kaeppler, S. M., Sep 5 2001, In : Plant Cell. 13, 8, p. 1919-1928 10 p.

Research output: Contribution to journalArticle

methylation
Methylation
Zea mays
Zea
cytosine
2002
58 Citations (Scopus)

Sequence relationships, conserved domains, and expression patterns for maize homologs of the polycomb group genes E(z), esc, and E(Pc)

Springer, N. M., Danilevskaya, O. N., Hermon, P., Helentjaris, T. G., Phillips, R. L., Kaeppler, H. F. & Kaeppler, S. M., Jan 1 2002, In : Plant physiology. 128, 4, p. 1332-1345 14 p.

Research output: Contribution to journalArticle

Comb and Wattles
Conserved Sequence
Zea mays
Polycomb-Group Proteins
corn
2003
113 Citations (Scopus)

Comparative analysis of SET domain proteins in maize and Arabidopsis reveals multiple duplications preceding the divergence of monocots and dicots

Springer, N. M., Napoli, C. A., Selinger, D. A., Pandey, R., Cone, K. C., Chandler, V. L., Kaeppler, H. F. & Kaeppler, S. M., Jun 1 2003, In : Plant physiology. 132, 2, p. 907-925 19 p.

Research output: Contribution to journalArticle

Magnoliopsida
Liliopsida
Arabidopsis
Zea mays
Plant Proteins
2004
265 Citations (Scopus)

Discovery of induced point mutations in maize genes by TILLING

Till, B. J., Reynolds, S. H., Weil, C., Springer, N., Burtner, C., Young, K., Bowers, E., Codomo, C. A., Enns, L. C., Odden, A. R., Greene, E. A., Comai, L. & Henikoff, S., Jul 28 2004, In : BMC plant biology. 4, 12.

Research output: Contribution to journalArticle

lesions (plant)
point mutation
mutagenesis
genome
corn
37 Citations (Scopus)

Utility of different gene enrichment approaches toward identifying and sequencing the maize gene space

Springer, N. M., Xu, X. & Brad Barbazuk, W., Oct 1 2004, In : Plant physiology. 136, 2, p. 3023-3033 11 p.

Research output: Contribution to journalArticle

Zea mays
corn
Genes
Complementary DNA
genes
2005
43 Citations (Scopus)

Evolutionary divergence of monocot and dicot methyl-CpG-binding domain proteins

Springer, N. M. & Kaeppler, S. M., Dec 1 2005, In : Plant Physiology. 138, 1, p. 92-104 13 p.

Research output: Contribution to journalArticle

divergent evolution
Magnoliopsida
Liliopsida
Carrier Proteins
DNA Methylation
67 Citations (Scopus)

Transgene-induced RNA interference as a tool for plant functional genomics

McGinnis, K., Chandler, V., Cone, K., Kaeppler, H., Kaeppler, S., Kerschen, A., Pikaard, C., Richards, E., Sidorenko, L., Smith, T., Springer, N. & Wulan, T., Jan 24 2005, In : Methods in enzymology. 392, p. 1-24 24 p.

Research output: Contribution to journalArticle

Genomics
RNA Interference
Transgenes
Genes
RNA
2006
182 Citations (Scopus)
Zea mays
Genes
Gene Expression
Microarray Analysis
Seedlings
2007
88 Citations (Scopus)

Allele-specific expression patterns reveal biases and embryo-specific parent-of-origin effects in hybrid maize

Springer, N. M. & Stupar, R. M., Aug 1 2007, In : Plant Cell. 19, 8, p. 2391-2402 12 p.

Research output: Contribution to journalArticle

Zea mays
Embryonic Structures
Alleles
alleles
Seedlings
222 Citations (Scopus)

Allelic variation and heterosis in maize: How do two halves make more than a whole?

Springer, N. M. & Stupar, R. M., Mar 1 2007, In : Genome Research. 17, 3, p. 264-275 12 p.

Research output: Contribution to journalReview article

Hybrid Vigor
Zea mays
Alleles
Phenotype
Gene Expression
46 Citations (Scopus)

Assessing the efficiency of RNA interference for maize functional genomics

McGinnis, K., Murphy, N., Carlson, A. R., Akula, A., Akula, C., Basinger, H., Carlson, M., Hermanson, P., Kovacevic, N., McGill, M. A., Seshadri, V., Yoyokie, J., Cone, K., Kaeppler, H. F., Kaeppler, S. M. & Springer, N. M., Apr 1 2007, In : Plant physiology. 143, 4, p. 1441-1451 11 p.

Research output: Contribution to journalArticle

Genomics
RNA Interference
RNA interference
Zea mays
genomics
86 Citations (Scopus)

Genomic imprinting, methylation and molecular evolution of maize Enhancer of zeste (Mez) homologs

Haun, W. J., Laoueillé-Duprat, S., O'Connell, M. J., Spillane, C., Grossniklaus, U., Phillips, A. R., Kaeppler, S. M. & Springer, N. M., Jan 1 2007, In : Plant Journal. 49, 2, p. 325-337 13 p.

Research output: Contribution to journalArticle

Genomic Imprinting
genomic imprinting
Molecular Evolution
Endosperm
methylation
24 Citations (Scopus)

Natural variation for alleles under epigenetic control by the maize chromomethylase Zmet2

Makarevitch, I., Stupar, R. M., Iniguez, A. L., Haun, W. J., Barbazuk, W. B., Kaeppler, S. M. & Springer, N. M., Oct 1 2007, In : Genetics. 177, 2, p. 749-760 12 p.

Research output: Contribution to journalArticle

Epigenomics
Zea mays
Alleles
Genes
Gene Expression
52 Citations (Scopus)
Endosperm
endosperm
Zea mays
Alleles
alleles
2008
1 Citation (Scopus)

Chapter 3 Epigenetics. The Second Genetic Code

Springer, N. M. & Kaeppler, S. M., Jan 1 2008, In : Advances in Agronomy. 100, C, p. 59-80 22 p.

Research output: Contribution to journalReview article

genetic code
epigenetics
gene expression
cultivar
DNA
101 Citations (Scopus)

Gene expression analyses in maize inbreds and hybrids with varying levels of heterosis

Stupar, R. M., Gardiner, J. M., Oldre, A. G., Haun, W. J., Chandler, V. L. & Springer, N. M., May 14 2008, In : BMC plant biology. 8, 33.

Research output: Contribution to journalArticle

heterosis
gene expression
corn
genetic variation
genes
32 Citations (Scopus)

Maternal and paternal alleles exhibit differential histone methylation and acetylation at maize imprinted genes

Haun, W. J. & Springer, N. M., Dec 1 2008, In : Plant Journal. 56, 6, p. 903-912 10 p.

Research output: Contribution to journalArticle

acetylation
Acetylation
histones
methylation
Histones
30 Citations (Scopus)

Profiling expression changes caused by a segmental aneuploid in maize

Makarevitch, I., Phillips, R. L. & Springer, N. M., Jan 10 2008, In : BMC Genomics. 9, 7.

Research output: Contribution to journalArticle

Aneuploidy
Zea mays
Chromosomes, Human, Pair 5
Genes
Inflorescence
2009
32 Citations (Scopus)

A recommendation for naming transcription factor proteins in the grasses

Gray, J., Bevan, M., Brutnell, T., Buell, C. R., Cone, K., Hake, S., Jackson, D., Kellogg, E., Lawrence, C., McCouch, S., Mockler, T., Moose, S., Paterson, A., Peterson, T., Rokshar, D., Souza, G. M., Springer, N., Stein, N., Timmermans, M., Wang, G. L. & 1 others, Grotewold, E., Jan 1 2009, In : Plant physiology. 149, 1, p. 4-6 3 p.

Research output: Contribution to journalLetter

Plant Proteins
plant proteins
Poaceae
Transcription Factors
transcription factors
2 Citations (Scopus)

Characterization of a novel maize retrotransposon family sprite that shows high levels of variability among maize inbred lines

Springer, N. M., Eichten, S., Smith, A., Papa, C. M., Steinway, S. & Kaeppler, S. M., Dec 1 2009, In : Maydica. 54, 4, p. 417-428 12 p.

Research output: Contribution to journalArticle

Retroelements
decitabine
retrotransposons
inbred lines
Zea mays
8 Citations (Scopus)

Developmental origins of cancer

Johnson, K. J., Springer, N. M., Bielinsky, A. K., Largaespada, D. A. & Ross, J. A., Aug 15 2009, In : Cancer Research. 69, 16, p. 6375-6377 3 p.

Research output: Contribution to journalArticle

Developmental Gene Expression Regulation
Genetic Epigenesis
Developmental Genes
Animal Disease Models
Neoplasms
11 Citations (Scopus)

Disruption of imprinting by Mutator transposon insertions in the 5′ proximal regions of the Zea mays Mez1 locus

Haun, W. J., Danilevskaya, O. N., Meeley, R. B. & Springer, N. M., Apr 1 2009, In : Genetics. 181, 4, p. 1229-1237 9 p.

Research output: Contribution to journalArticle

Zea mays
Alleles
Endosperm
Mothers
Epigenomics
2 Citations (Scopus)

Epigenetic phenomena and epigenomics in maize

Hollick, J. B. & Springer, N., Jan 1 2009, Epigenomics. Springer Netherlands, p. 119-147 29 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Epigenomics
Zea mays
Genome
Research
DNA Transposable Elements
98 Citations (Scopus)

Heterosis Is Prevalent for Multiple Traits in Diverse Maize Germplasm

Flint-Garcia, S. A., Buckler, E. S., Tiffin, P., Ersoz, E. & Springer, N. M., Dec 1 2009, In : PloS one. 4, 10, e0007433.

Research output: Contribution to journalArticle

Hybrid Vigor
heterosis
Zea mays
germplasm
corn
6 Citations (Scopus)

Imprinting in maize

Springer, N. M. & Gutierrez-Marcos, J. F., Jan 1 2009, Handbook of Maize: Genetics and Genomics. Springer New York, p. 429-440 12 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

genomic imprinting
Polymorphism
Zea mays
Chromatin
Genes
309 Citations (Scopus)

Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content

Springer, N. M., Ying, K., Fu, Y., Ji, T., Yeh, C. T., Jia, Y., Wu, W., Richmond, T., Kitzman, J., Rosenbaum, H., Iniguez, A. L., Barbazuk, W. B., Jeddeloh, J. A., Nettleton, D. & Schnable, P. S., Nov 1 2009, In : PLoS genetics. 5, 11, e1000734.

Research output: Contribution to journalArticle

Hybrid Vigor
Comparative Genomic Hybridization
Eukaryota
Haplotypes
Zea mays
153 Citations (Scopus)

Reciprocal silencing, transcriptional bias and functional divergence of homeologs in polyploid cotton (Gossypium)

Chaudhary, B., Flagel, L., Stupar, R. M., Udall, J. A., Verma, N., Springer, N. M. & Wendel, J. F., Jun 1 2009, In : Genetics. 182, 2, p. 503-517 15 p.

Research output: Contribution to journalArticle

Gossypium
Polyploidy
Diploidy
Genome
Duplicate Genes
7 Citations (Scopus)

Small RNAs: How Seeds Remember To Obey Their Mother

Springer, N. M., Aug 11 2009, In : Current Biology. 19, 15, p. R649-R651

Research output: Contribution to journalShort survey

Endosperm
endosperm
Seed
Seeds
RNA
2301 Citations (Scopus)

The B73 maize genome: Complexity, diversity, and dynamics

Schnable, P. S., Ware, D., Fulton, R. S., Stein, J. C., Wei, F., Pasternak, S., Liang, C., Zhang, J., Fulton, L., Graves, T. A., Minx, P., Reily, A. D., Courtney, L., Kruchowski, S. S., Tomlinson, C., Strong, C., Delehaunty, K., Fronick, C., Courtney, B., Rock, S. M. & 30 others, Belter, E., Du, F., Kim, K., Abbott, R. M., Cotton, M., Levy, A., Marchetto, P., Ochoa, K., Jackson, S. M., Gillam, B., Chen, W., Yan, L., Higginbotham, J., Cardenas, M., Waligorski, J., Applebaum, E., Phelps, L., Falcone, J., Kanchi, K., Thane, T., Scimone, A., Thane, N., Henke, J., Wang, T., Ruppert, J., Shah, N., Rotter, K., Hodges, J., Ingenthron, E. & Springer, N. M., Nov 20 2009, In : Science. 326, 5956, p. 1112-1115 4 p.

Research output: Contribution to journalArticle

Zea mays
Genome
Biological Models
DNA Transposable Elements
Centromere
4 Citations (Scopus)

The Plant Genome: Decoding the Transcriptional Hardwiring

Grotewold, E. & Springer, N., Aug 18 2009, Plant Systems Biology. Blackwell Publishing Ltd, Vol. 35. p. 196-228 33 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Plant Genome
DNA-Directed RNA Polymerases
DNA-directed RNA polymerase
Transcription Factors
transcription factors
2010
315 Citations (Scopus)

Genome-wide patterns of genetic variation among elite maize inbred lines

Lai, J., Li, R., Xu, X., Jin, W., Xu, M., Zhao, H., Xiang, Z., Song, W., Ying, K., Zhang, M., Jiao, Y., Ni, P., Zhang, J., Li, D., Guo, X., Ye, K., Jian, M., Wang, B., Zheng, H., Liang, H. & 11 others, Zhang, X., Wang, S., Chen, S., Li, J., Fu, Y., Springer, N. M., Yang, H., Wang, J., Dai, J., Schnable, P. S. & Wang, J., Nov 1 2010, In : Nature Genetics. 42, 11, p. 1027-1030 4 p.

Research output: Contribution to journalArticle

Zea mays
Single Nucleotide Polymorphism
DNA Shuffling
Genome
Hybrid Vigor
9 Citations (Scopus)

High-resolution genotyping via whole genome hybridizations to microarrays containing long oligonucleotide probes

Fu, Y., Springer, N. M., Ying, K., Yeh, C. T., Iniguez, A. L., Richmond, T., Wu, W., Barbazuk, B., Nettleton, D., Jeddeloh, J. & Schnable, P. S., Dec 15 2010, In : PloS one. 5, 12, e14178.

Research output: Contribution to journalArticle

oligonucleotide probes
Oligonucleotide Probes
Microarrays
genotyping
hybridization
51 Citations (Scopus)

High-throughput genetic mapping of mutants via quantitative single nucleotide polymorphism typing

Liu, S., Chen, H. D., Makarevitch, I., Shirmer, R., Emrich, S. J., Dietrich, C. R., Barbazuk, W. B., Springer, N. M. & Schnable, P. S., Jan 1 2010, In : Genetics. 184, 1, p. 19-26 8 p.

Research output: Contribution to journalArticle

Single Nucleotide Polymorphism
Genetic Markers
Zea mays
Technology
Population
21 Citations (Scopus)
Plant DNA
Polymerase Chain Reaction
cetrimonium
177 Citations (Scopus)

Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor

Swanson-Wagner, R. A., Eichten, S. R., Kumari, S., Tiffin, P., Stein, J. C., Ware, D. & Springer, N. M., Dec 1 2010, In : Genome research. 20, 12, p. 1689-1699 11 p.

Research output: Contribution to journalArticle

Zea mays
Genotype
Genome
Genes
Gene Dosage
48 Citations (Scopus)

Ragged seedling2 encodes an ARGONAUTE7-like protein required for mediolateral expansion, but not dorsiventrality, of maize leaves

Douglas, R. N., Wiley, D., Sarkar, A., Springer, N., Timmermans, M. C. P. & Scanlon, M. J., May 1 2010, In : Plant Cell. 22, 5, p. 1441-1451 11 p.

Research output: Contribution to journalArticle

Zea mays
Indoleacetic Acids
corn
auxins
leaves
3 Citations (Scopus)

Realizing the potential of genomics for crop improvement

Springer, N. M. & Jackson, S. A., Mar 20 2010, In : Briefings in Functional Genomics and Proteomics. 9, 2, p. 93-94 2 p., elq006.

Research output: Contribution to journalEditorial

Agricultural Crops
Plant Genome
Plant Genes
Gene Knockout Techniques
Cytogenetic Analysis
59 Citations (Scopus)

Repeat subtraction-mediated sequence capture from a complex genome

Fu, Y., Springer, N. M., Gerhardt, D. J., Ying, K., Yeh, C. T., Wu, W., Swanson-Wagner, R., D'Ascenzo, M., Millard, T., Freeberg, L., Aoyama, N., Kitzman, J., Burgess, D., Richmond, T., Albert, T. J., Barbazuk, W. B., Jeddeloh, J. A. & Schnable, P. S., Jun 1 2010, In : Plant Journal. 62, 5, p. 898-909 12 p.

Research output: Contribution to journalArticle

Single Nucleotide Polymorphism
Genome
Technology
application coverage
genome
13 Citations (Scopus)

Shaping a better rice plant

Springer, N. M., Jun 1 2010, In : Nature Genetics. 42, 6, p. 475-476 2 p.

Research output: Contribution to journalShort survey

Genes
Oryza
2011
47 Citations (Scopus)

B73-Mo17 near-isogenic lines demonstrate dispersed structural variation in maize

Eichten, S. R., Foerster, J. M., de Leon, N., Kai, Y., Yeh, C. T., Liu, S., Jeddeloh, J. A., Schnable, P. S., Kaeppler, S. M. & Springer, N. M., Aug 1 2011, In : Plant physiology. 156, 4, p. 1679-1690 12 p.

Research output: Contribution to journalArticle

isogenic lines
Zea mays
Quantitative Trait Loci
corn
Genome
308 Citations (Scopus)

Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss

Schnable, J. C., Springer, N. M. & Freeling, M., Mar 8 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 10, p. 4069-4074 6 p.

Research output: Contribution to journalArticle

Tetraploidy
Zea mays
Genome
Duplicate Genes
Genes
105 Citations (Scopus)

Heritable epigenetic variation among maize inbreds

Eichten, S. R., Swanson-Wagner, R. A., Schnable, J. C., Waters, A. J., Hermanson, P. J., Liu, S., Yeh, C. T., Jia, Y., Gendler, K., Freeling, M., Schnable, P. S., Vaughn, M. W. & Springer, N. M., Nov 1 2011, In : PLoS genetics. 7, 11, e1002372.

Research output: Contribution to journalArticle

methylation
Epigenomics
epigenetics
Zea mays
maize
131 Citations (Scopus)

Parent-of-origin effects on gene expression and DNA methylation in the maize endosperm

Waters, A. J., Makarevitch, I., Eichten, S. R., Swanson-Wagner, R. A., Yeh, C. T., Xu, W., Schnable, P. S., Vaughn, M. W., Gehring, M. & Springer, N. M., Dec 1 2011, In : Plant Cell. 23, 12, p. 4221-4233 13 p.

Research output: Contribution to journalArticle

Endosperm
DNA methylation
DNA Methylation
endosperm
Zea mays
85 Citations (Scopus)

The composition and origins of genomic variation among individuals of the soybean reference cultivar williams 82

Haun, W. J., Hyten, D. L., Xu, W. W., Gerhardt, D. J., Albert, T. J., Richmond, T., Jeddeloh, J. A., Jia, G., Springer, N. M., Vance, C. P. & Stupar, R. M., Feb 1 2011, In : Plant physiology. 155, 2, p. 645-655 11 p.

Research output: Contribution to journalArticle

Soybeans
soybeans
genomics
nucleotides
cultivars
2012
53 Citations (Scopus)

Brd1 gene in maize encodes a brassinosteroid C-6 oxidase

Makarevitch, I., Thompson, A., Muehlbauer, G. J. & Springer, N. M., Jan 26 2012, In : PloS one. 7, 1, e30798.

Research output: Contribution to journalArticle

Brassinosteroids
brassinosteroids
Zea mays
Oxidoreductases
Genes
14 Citations (Scopus)

Changes in genome content generated via segregation of non-allelic homologs

Liu, S., Ying, K., Yeh, C. T., Yang, J., Swanson-Wagner, R., Wu, W., Richmond, T., Gerhardt, D. J., Lai, J., Springer, N., Nettleton, D., Jeddeloh, J. A. & Schnable, P. S., Nov 1 2012, In : Plant Journal. 72, 3, p. 390-399 10 p.

Research output: Contribution to journalArticle

Exome
Quantitative Trait Loci
Sequence Homology
inbred lines
Zea mays
396 Citations (Scopus)

Comparative population genomics of maize domestication and improvement

Hufford, M. B., Xu, X., Van Heerwaarden, J., Pyhäjärvi, T., Chia, J. M., Cartwright, R. A., Elshire, R. J., Glaubitz, J. C., Guill, K. E., Kaeppler, S. M., Lai, J., Morrell, P. L., Shannon, L. M., Song, C., Springer, N. M., Swanson-Wagner, R. A., Tiffin, P. L., Wang, J., Zhang, G., Doebley, J. & 5 others, McMullen, M. D., Ware, D., Buckler, E. S., Yang, S. & Ross-Ibarra, J., Jul 1 2012, In : Nature Genetics. 44, 7, p. 808-811 4 p.

Research output: Contribution to journalArticle

Metagenomics
Zea mays
Genes
Gene Expression Profiling
Breeding
77 Citations (Scopus)

Reshaping of the maize transcriptome by domestication

Swanson-Wagner, R., Briskine, R., Schaefer, R., Hufford, M. B., Ross-Ibarra, J., Myers, C. L., Tiffin, P. L. & Springer, N. M., Jul 17 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 29, p. 11878-11883 6 p.

Research output: Contribution to journalArticle

Transcriptome
Zea mays
Genes
Population Genetics
Domestication
91 Citations (Scopus)

Spreading of Heterochromatin Is Limited to Specific Families of Maize Retrotransposons

Eichten, S. R., Ellis, N. A., Makarevitch, I., Yeh, C. T., Gent, J. I., Guo, L., McGinnis, K. M., Zhang, X., Schnable, P. S., Vaughn, M. W., Dawe, R. K. & Springer, N. M., Dec 1 2012, In : PLoS genetics. 8, 12, e1003127.

Research output: Contribution to journalArticle

Retroelements
Heterochromatin
retrotransposons
heterochromatin
transposons