Phil Bregitzer

Agricultural Research Service

Author Statistics

Papers

Citation

H-Index

i-10 index

Research Trends

Author Order

Document Type

Co-Authors

Peggy G. Lemaux

University of California, Berkeley

Lynn S. Dahleen

Edward T. Schafer Agricultural Research Center

Victor Raboy

University of Portland

D. W. Mornhinweg

United States Department of Agriculture

Patrick M. Hayes

Oregon State University

Kathy Esvelt Klos

Agricultural Research Service

Ryan H. Brown

University of California, Davis

D. E. Obert

Limagrain (France)

Thomas Baldwin

North Dakota State University

Jaswinder Singh

McGill University

Cooperative Institutions

Agricultural Research Service

United States Department of Agriculture

University of California, Riverside

University of California, Davis

Oregon State University

University of Minnesota

North Dakota State University

Washington State University

University of Idaho

University of California, Berkeley

Author Statistics

Papers

Citation

H-Index

i-10 index

Research Field

Sharing mutants and experimental information prepublication using FgMutantDb (https://scabusa.org/FgMutantDb)

Fungal Genetics and Biology (2018)

Thomas Baldwin Evelina Y. Basenko Omar S. Harb Neil Brown Martin Urban

Ensembl

Information Sharing

Data Sharing

Information Dissemination

10.1016/j.fgb.2018.01.002

Cite

Citations (10)

Registration of the Barley Transposon-Tagged Population I: Seventy Lines Each with a Single, Unique Site ofDsInsertion

Journal of Plant Registrations (2014)

Ryan Brown Lynn S. Dahleen Peggy G. Lemaux Phil Bregitzer

The USDA–ARS has developed and released a new genetic stock resource, a transposon-tagging barley (Hordeum vulgare L.) population comprising 70 lines, TNP 200−TNP 207, TNP 210–TNP 229, TNP 232, TNP 233, TNP 235, TNP 237–TNP 262, TNP 264–TNP 267, TNP 269, and TNP 273–TNP 280 (Reg. No. GS-13–GS-82, PI 670045–670114). Each line is homozygous for a single Ds-bar transposable element insertion at a different genomic location. The ∼3.6-kb Ds-bar element is a modified maize Dissociation (Ds) element containing a bar expression cassette. These lines derive from primary Ds (PDS) transpositions resulting from biolistic cointroduction of Ds-bar and maize Ac transposase (AcT) into ‘Golden Promise’ (PI 343079). Lines containing secondary, tertiary, and quaternary transpositions were generated by remobilizing Ds-bar via sexual hybridization of AcT-expressing Golden Promise plants with PDS lines and with derived TNP lines containing secondary or tertiary transpositions. Each line was characterized for the 5′ and/or 3′ sequences flanking the Ds-bar insertion. Insertions that interrupt native genes or regulatory elements likely will alter or abolish the function of these sequences. Therefore, it is expected that these lines will be useful for the study of the biological roles of such genes or regulatory sequences. These lines can also be used as parents for the creation of additional lines with novel transpositions of Ds-bar.

Transposase

10.3198/jpr2013.09.0056crgs

Cite

Citations (2)

Effect of the ANT-13 Locus (Proanthocyanidin-Free) on the Malting Quality and Agronomic Performance of Barley

Journal of the American Society of Brewing Chemists (1995)

Phil Bregitzer D. M. Wesenberg B. L. Jones

AbstractProanthocyanidin (ant)-free barley may be used to brew beer with excellent haze stability, but economically competitive ant-free malting cultivars adapted to the western United States have not been developed. Two experimental lines derived from a cross of ANT-13 517 and the cultivar Harrington that were initially selected as ant-free were observed to be segregating for the ant-free character in advanced generations. Reselections (sublines) from these lines were studied to determine the effect of the ant-free character on agronomic performance and malting quality. Ant-free and ant-containing (normal) sublines from the lines 85Y22 and 85Y27 were evaluated in replicated field trials at two locations in two years. The agronomic performance and malting quality of the normal sublines was competitive with Harrington, whereas the ant-free sublines were markedly poorer. However, the ant-free sublines were improved relative to the ANT-13 517 parent. These results indicated that the ant-free character derived from ANT-13 517 is negatively associated with significant determinants of commercial acceptability. Additional hybridization to malting cultivars may break these relationships, and allow the development of commercially acceptable ant-free malting cultivars adapted to the western United States.ResumenCebada libre de proantocianidina (ant) puede ser usada para hacer cerveza con excelente estabilidad coloidal, sin embargo cultivos de estas variedades adaptados al oeste de Estados Unidos y económicamente competitivos no han sido desarrollados. Dos líneas experimentales derivadas de un cruce de ANT-13 517 y el cultivo Harrington, que fueron inicialmente seleccionadas como libre-ant, perdieron esta caracteristica en generaciones posteriores. Reselecciones (sublíneas) de estas líneas fueron estudiadas para determinar el efecto del carácter libre-ant en el comportamiento agronómico y en calidad maltera. Las sublíneas libre-ant y normal-ant de las líneas 85Y22 y 85Y27 fueron evaluadas por duplicado en pruebas de campo en dos lugares durante dos años. El comportamiento agronómico y la calidad maltera de las sublíneas normales fue competitivo con Harrington, mientras que las sublíneas libre-ant fueron marcadamente inferiores. Sin embargo, las sublíneas libre-ant fueron mejores en relación a la ANT-13 517 progenitor. Estos resultados indicaron que el carácter libre-ant derivado de ANT-13 517 está negativamente asociado con algunos indicadores significativos de la aceptabilidad comercial. Hibridización adicional a cultivos malteros puede romper esta correlacion, y Permitir el desarrollo de cultivos malteros libre-ant comercialmante aceptables adaptados at oeste de Estados Unidos.KeywordsBarley mutantsBreedingHordeum vulgare L.Malting quality

10.1094/asbcj-53-0191

Cite

Citations (2)

Inheritance and Expression of Transgenes in Barley

Crop Science (2003)

Phil Bregitzer Dennis J. Tonks

Empirical assessments of transgene inheritance and phenotypic expression will assist in the development of efficient breeding strategies for transgenic germplasm, and guide research into the improvement of transformation techniques. The inheritance of a barley yellow dwarf virus (BYDV) coat protein gene and bar, and the expression of bar as measured by resistance to glufosinate-ammonium damage, was studied in the T1 and T3 generations of barley (Hordeum vulgare L.) populations derived from seven independent transformation events. Most populations deviated from Mendelian inheritance patterns, and several showed evidence of transgene silencing. To further study transgene behavior, several transgenic lines were crossed to a diverse set of nontransgenic cultivars and breeding lines to produce single cross- and backcross-derived populations. In these populations, the inheritance of glufosinate-ammonium resistance generally fit Mendelian expectations for single, dominant loci. Quantitative measurements of glufosinate-ammonium resistance showed heritable variability for glufosinate-ammonium resistance both among and within individual transformation events, but no variability could be attributed to the different genetic backgrounds of the nontransgenic parents. It is concluded that, although transgenic parents such as these can be used in a breeding program, transformation systems that result in greater stability of transgene behavior are desirable.

Glufosinate

Mendelian inheritance

Germ plasm

10.2135/cropsci2003.0004

Cite

Citations (20)

Candidate Genes within Tissue Culture Regeneration QTL Revisited with a Linkage Map Based on Transcript‐Derived Markers

Crop Science (2010)

Neerja Tyagi Lynn S. Dahleen Phil Bregitzer

ABSTRACT Green plant regeneration from tissue culture is under the genetic control of multiple genes. Candidate genes for regeneration have been identified in multiple species using quantitative trait loci (QTL) and microarray analyses, and some of these genes have been verified as improving regeneration through transformation. Multiple studies have located QTL for regeneration from barley ( Hordeum vulgare L.) tissue cultures, but these studies have been based on restriction fragment length polymorphism markers that do not provide information on candidate genes. A recent transcript‐derived marker barley map based on expressed sequence tags was used to locate QTL for barley green plant regeneration and identify candidate genes. Quantitative trait loci analysis identified four significant regions, on chromosomes 2H, 3H, 6H, and 7H, in places where QTL were previously identified. An additional four regions were suggestive for green and/or albino plant regeneration on chromosomes 1H, 3H, 4H, and 5H. Examination of transcript‐derived markers at the QTL peaks showed that many genes identified as important for regeneration in other species were located in these QTL peaks, including a gene for ferredoxin‐nitrate reductase and genes involved in hormone response and synthesis, cell division and the cell cycle, chloroplast development, and transcription factors. Identifying these genes allows manipulation to better understand the processes involved in regeneration from barley tissue cultures.

Candidate gene

Family-based QTL mapping

10.2135/cropsci2009.10.0624

Cite

Citations (16)

Sequencing of 15 622 gene‐bearing BACs clarifies the gene‐dense regions of the barley genome

The Plant Journal (2015)

María Muñoz‐Amatriaín Stefano Lonardi Ming‐Cheng Luo Kavitha Madishetty Jan T. Svensson

Summary Barley ( Hordeum vulgare L.) possesses a large and highly repetitive genome of 5.1 Gb that has hindered the development of a complete sequence. In 2012, the International Barley Sequencing Consortium released a resource integrating whole‐genome shotgun sequences with a physical and genetic framework. However, because only 6278 bacterial artificial chromosome ( BAC s) in the physical map were sequenced, fine structure was limited. To gain access to the gene‐containing portion of the barley genome at high resolution, we identified and sequenced 15 622 BAC s representing the minimal tiling path of 72 052 physical‐mapped gene‐bearing BAC s. This generated ~1.7 Gb of genomic sequence containing an estimated 2/3 of all Morex barley genes. Exploration of these sequenced BAC s revealed that although distal ends of chromosomes contain most of the gene‐enriched BAC s and are characterized by high recombination rates, there are also gene‐dense regions with suppressed recombination. We made use of published map‐anchored sequence data from Aegilops tauschii to develop a synteny viewer between barley and the ancestor of the wheat D‐genome. Except for some notable inversions, there is a high level of collinearity between the two species. The software Harv EST :Barley provides facile access to BAC sequences and their annotations, along with the barley– Ae. tauschii synteny viewer. These BAC sequences constitute a resource to improve the efficiency of marker development, map‐based cloning, and comparative genomics in barley and related crops. Additional knowledge about regions of the barley genome that are gene‐dense but low recombination is particularly relevant.

Synteny

Aegilops tauschii

Bacterial artificial chromosome

Comparative Genomics

Gene prediction

Sequence assembly

10.1111/tpj.12959

Cite

Citations (36)

Methylation of the exon/intron region in the Ubi1 promoter complex correlates with transgene silencing in barley

Plant Molecular Biology (2003)

Ling Meng Phil Bregitzer Shibo Zhang Peggy G. Lemaux

10.1023/b:plan.0000006942.00464.e3

Cite

Citations (31)

Barley Stripe Rust Resistance QTL: Development and Validation of SNP Markers for Resistance to Puccinia striiformis f. sp. hordei

Phytopathology (2016)

Kathy Esvelt Klos Tyler Gordon Phil Bregitzer Patrick M. Hayes X. M. Chen

Quantitative trait loci (QTL) for barley stripe rust resistance were mapped in recombinant inbred lines (RIL) from a 'Lenetah' × 'Grannelose Zweizeilige' (GZ) cross. GZ is known for a major seedling resistance QTL on chromosome 4H but linked markers suitable for marker-assisted selection have not been developed. This study identified the 4H QTL (log of the likelihood [LOD] = 15.94 at 97.19 centimorgans [cM]), and additional QTL on chromosomes 4H and 6H (LOD = 5.39 at 72.7 cM and 4.24 at 34.46 cM, respectively). A QTL on chromosome 7H (LOD = 2.04 at 81.07 cM) was suggested. All resistance alleles were derived from GZ. Evaluations of adult plant response in Corvallis, OR in 2013 and 2015 provided evidence of QTL at the same positions. However, the minor QTL on 4H was not statistically significant in either location/year, while the 7H QTL was significant in both. The single-nucleotide polymorphism markers flanking the resistance QTL were validated in RIL from a '95SR316A' × GZ cross for their ability to predict seedling resistance. In 95SR316A × GZ, 91 to 92% of RIL with GZ alleles at the major 4H QTL and at least one other were resistant to moderate in reaction. In these populations, at least two QTL were required to transfer the barley stripe rust resistance from GZ.

Centimorgan

Marker-Assisted Selection

SNP

10.1094/phyto-09-15-0225-r

Cite

Citations (21)

An Efficient Method for Flanking Sequence Isolation in Barley

Crop Science (2012)

Ryan H. Brown Lynn S. Dahleen Phil Bregitzer

ABSTRACT A polymerase chain reaction (PCR)‐based adapter ligation method was developed to determine native barley ( Hordeum vulgare L.) sequences flanking Dissociation ( Ds ) insertions and barley expressed sequence tags (ESTs). This method is simple and efficient, with the majority (∼70%) of queries returning valid sequence information. The success of this method can be traced to experimental protocols that control sample cross contamination and that segregate specific products from nonspecific products. This report describes the protocol in detail, quantifies its efficiency to enable comparisons to future modifications, and discusses specific problems that may be addressed to enable further improvements to this method.

Adapter (computing)

Sequence (biology)

10.2135/cropsci2011.10.0560

Cite

Citations (7)

Deletion of the benzoxazinoid detoxification gene NAT1 in Fusarium graminearum reduces deoxynivalenol in spring wheat

PLoS ONE (2019)

Thomas Baldwin Suzette Arcibal Baldwin Kathy L.E. Klos Phil Bregitzer Juliet M. Marshall

Benzoxazinoid (Bx) metabolites produced by wheat and other members of the Poaceae have activity against Fusarium sp. that cause cereal diseases including Fusarium head blight (FHB) on wheat and barley. Certain Bx metabolites can be detoxified by Fusarium sp. with the arylamine N-acetyltransferase NAT1. Investigation of this pathway may reveal strategies for increasing FHB resistance, such as selection for higher levels of Bx metabolites within existing germplasm and/or engineering fungal susceptibility via host induced silencing of NAT1. We assessed the reactions of fifteen wheat cultivars or breeding lines adapted to the Northwestern United States to infection with F. graminearum Δnat1 mutants that should be sensitive to Bx metabolites. Significant differences were noted in disease severity and deoxynivalenol (DON) among the cultivars 21 d after inoculation with either mutant or wildtype (PH1) strains. Mutant vs. wildtype strains did not result in significant variation for infection severity (as measured by % infected florets), but inoculation with Δnat1 mutants vs. wildtype resulted in significantly lower DON concentrations in mature kernels (p < 0.0001). Of the cultivars tested, HRS3419 was the most resistant cultivar to PH1 (severity = 62%, DON = 45 ppm) and Δnat1 mutants (severity = 61%, DON = 30 ppm). The cultivar most susceptible to infection was Kelse with PH1 (severity = 100%, DON = 292 ppm) and Δnat1 mutants (severity = 100%, DON = 158 ppm). We hypothesized that sub-lethal Bx metabolite levels may suppress DON production in F. graminearum Δnat1 mutants. In vitro assays of Bx metabolites BOA, MBOA, and DIMBOA at 30 μM did not affect growth, but did reduce DON production by Δnat1 and PH1. Although the levels of Bx metabolites are likely too low in the wheat cultivars we tested to suppress FHB, higher levels of Bx metabolites may contribute towards reductions in DON and FHB.

Germ plasm

Wild type

10.1371/journal.pone.0214230

Cite

Citations (14)