Hudson Ashrafi

Fruit Composition Diversity among the North Carolina Strawberry Core Germplasm Collection

Haynes, B., Fernandez, G., Iorizzo, M., Ma, G., Ashrafi, H., & Perkins-Veazie, P. (2026, February 12). HortScience, Vol. 2.

Bridging Genomics and Grower Needs: Developing Molecular Tools for Phenology and Quality Improvement in Blueberry Breeding Programs

Ashrafi, H. (2025, January 1). [Data Management Plan]. DMP Tool.].

Genetic control of prickles in tetraploid blackberry

Johns, C. A., Silva, A., Chizk, T. M., Nelson, L., Clark, J. R., Aryal, R., … Worthington, M. L. (2025, March 20). (E. Akhunov, Ed.). G3 Genes Genomes Genetics, Vol. 3.

Genetic diversity and population structure analysis in Tunisian Olive collection using genotyping-by-sequencing

Abdelhamid, S., Araouki, A., Chehab, H., Olukolu, B. A., & Ashrafi, H. (2025, December 22). Euro-Mediterranean Journal for Environmental Integration.

Identification of late blight resistance QTLs in an interspecific RIL population of tomato via genotyping-by-sequencing

Jia, M., Ashrafi, H., & Foolad, M. R. (2025, April 1). Molecular Breeding, Vol. 45.

Leveraging Persephone for Genomic Insights into Blueberry Morphogenic Genes

Plant & Animal Genome Conference (PAG 32). Presented at the Plant & Animal Genome Conference (PAG 32), San Diego.

Optimization of Adventitious Shoot Regeneration Protocols for Six Vaccinium corymbosum Cultivars

Kelso, F., Da, K., Dewey, R. E., Reiland, D. S., Almeyda, C., Liu, W., & Ashrafi, H. (2025, June 13). HortScience, Vol. 60, pp. 1109–1117.

A Blueberry (Vaccinium L.) Crop Ontology to Enable Standardized Phenotyping for Blueberry Breeding and Research

HortScience, 59(10), 1433–1442.

Advancements in Highbush Blueberry Regeneration Systems & Enhancing blueberry regeneration by genome editing

Advancements in Highbush Blueberry Regeneration Systems & Enhancing blueberry regeneration by genome editing. 13th International Vaccinium Symposium. Poster presented at the 13th International Vaccinium Symposium, Halifax, Nova Scotia and Charlottetown, Prince Edward Island (Canada).

Application of RAPD and ISSR markers tools for commercial monovarietal Tunisian extra virgin olive oils (EVOO) authenticity and traceability

Euro-Mediterranean Journal for Environmental Integration, 10(3), 1759–1766.

Development of a targeted genotyping platform for reproducible results within tetraploid and hexaploid blueberry

Frontiers in Horticulture, 2.

Enhancing Blueberry Regeneration and Transformation by Genome Engineering

NCSU Plant Breeding Consortium Fall Gathering. Lightning talk presented at the NCSU Plant Breeding Consortium Fall Gathering, Raleigh, NC.

Enhancing blueberry regeneration by genome editing

NCSU Genetics, Genomics, & Bioinformatics Graduate Student Research Symposium. Lightning talk presented at the NCSU Genetics, Genomics, & Bioinformatics Graduate Student Research Symposium, Raleigh, NC.

Genetic Control of Prickles in Tetraploid Blackberry

Johns, C. A., Silva, A., Chizk, T. M., Nelson, L., Clark, J. R., Aryal, R., … Worthington, M. (2024, December 2).

Genomic Exploration of Challenging-to-Culture Blueberry Varieties

33rd Annual Spring Undergraduate Research & Creativity Symposium. Poster presented at the 33rd Annual Spring Undergraduate Research & Creativity Symposium.

Genomic Exploration of Challenging-to-Culture Blueberry Varieties

3rd Annual Genomics and Genetics Symposium. Poster presented at the 3rd Annual Genomics and Genetics Symposium.

Ongoing Genetic Research at the NC State Blueberry Lab

Horticulture Science Department Internship showcase. Poster presented at the Horticulture Science Department Internship showcase, Raleigh, NC.

Ongoing Genetic Research at the NC State Blueberry Lab

Internship and Research Experience Symposium. Poster presented at the Internship and Research Experience Symposium.

Open-Source High-Throughput Phenotyping for Blueberry Yield and Maturity Prediction Across Environments: Neural Network Model and Labeled Dataset for Breeders

Zhang, J., Maleski, J., Ashrafi, H., Spencer, J. A., & Chu, Y. (2024, December 13). Horticulturae, Vol. 10.

PCR-Marker Development for Genotyping Vaccinium spp

33rd Annual Spring Undergraduate Research & Creativity Symposium. Poster presented at the 33rd Annual Spring Undergraduate Research & Creativity Symposium.

A multiplexed plant–animal SNP array for selective breeding and species conservation applications

G3: Genes, Genomes, Genetics, 13(10).

Advancements in Highbush Blueberry Regeneration Systems

NCSU GGA 2nd Annual Retreat. Poster presented at the NCSU GGA 2nd Annual Retreat, Raleigh, NC.

Genome-wide association identifies key loci controlling blackberry postharvest quality

Frontiers in Plant Science, 14.

Optimization of tissue culture and regeneration in hard-to-propagate blueberry genotypes

NC Blueberry Council- 57th Annual Open House and Trade Show. Presented at the NC Blueberry Council- 57th Annual Open House and Trade Show, Fayetteville, NC.

A chromosome-length genome assembly and annotation of blackberry ( Rubus argutus , cv. “Hillquist”)

G3, 13(2).

A first complete phylogenomic hypothesis for diploid blueberries (Vaccinium section Cyanococcus)

American Journal of Botany, 109(10), 1596–1606.

A multiplexed plant-animal SNP array for selective breeding and species conservation applications

Autopolyploid inheritance and a heterozygous reciprocal translocation shape chromosome genetic behavior in tetraploid blueberry (Vaccinium corymbosum)

New Phytologist, 237(3), 1024–1039.

Identification of late blight resistance quantitative trait loci in Solanum pimpinellifolium accession PI 270441

The Plant Genome, 15(4).

Nuclear DNA contents and ploidy levels of North American Vaccinium species and interspecific hybrids

Scientia Horticulturae, 297, 110955.

RNA-Seq and Gene Regulatory Network Analyses Uncover Candidate Genes in the Early Defense to Two Hemibiotrophic Colletorichum spp. in Strawberry

Frontiers in Genetics, 12.

There and back again; historical perspective and future directions for Vaccinium breeding and research studies

Horticulture Research, 9.

An anchored chromosome‐scale genome assembly of spinach improves annotation and reveals extensive gene rearrangements in euasterids

The Plant Genome, 14(2).

An optimized protocol for stepwise optimization of real-time RT-PCR analysis

Horticulture Research, 8(1).

Detection of Fruit Meals Within Laboratory-Raised and Field-Trapped Adult Drosophila suzukii (Diptera: Drosophilidae) Guts

Frontiers in Ecology and Evolution, 9.

Genome sequence of Monilinia vaccinii-corymbosi sheds light on mummy berry disease infection of blueberry and mating type

G3 Genes|Genomes|Genetics, 11(2).

Genotype, Environment, Year, and Harvest Effects on Fruit Quality Traits of Five Blueberry (Vaccinium corymbosum L.) Cultivars

Redpath, L. E., Gumpertz, M., Ballington, J. R., Bassil, N., & Ashrafi, H. (2021, September 7). Agronomy, Vol. 9.

High-density linkage map construction and identification of loci regulating fruit quality traits in blueberry

Horticulture Research, 8(1).

Reproductive developmental transcriptome analysis of Tripidium ravennae (Poaceae)

BMC Genomics, 22(1).

A Rosaceae Family-Level Approach To Identify Loci Influencing Soluble Solids Content in Blackberry for DNA-Informed Breeding

Zurn, J. D., Driskill, M., Jung, S., Main, D., Yin, M. H., Clark, M. C., … Bassil, N. (2020, August 8). G3 Genes Genomes Genetics.

Biomass yields, cytogenetics, fertility, and compositional analyses of novel bioenergy grass hybrids (Tripidium spp.)

GCB Bioenergy, 12(5), 361–373.

Development of new genomic resources and tools for molecular breeding in blackberry

Acta Horticulturae, 4(1277), 39–46.

3D point cloud data to quantitatively characterize size and shape of shrub crops

Horticulture Research, 6(1).

Simulated storage causes carbohydrate loss and rooting differences in two poinsettia cultivars

Canadian Journal of Plant Science, 100(4), 459–462.

Breeding Trait Priorities of the Blueberry Industry in the United States and Canada

HortScience, 53(7), 1021–1028.

Developing the Genomic Resources for a Tetraploid Blueberry cv "O'Neal"

Aryal, R., Yow, A., & Ashrafi, H. (2018, August). Poster presented at the National Association of Plant Breeders 2018 Annual Meeting, Guelph Canada.

Differential Gene Expression during Blueberry Fruits Ripening

Aryal, R., & Ashrafi, H. (2018, July). Poster presented at the Plant Biology 2018, Montreal, Quebec, Canada.

Differential Gene Expression during Flower and Fruit Development of the Blueberry Cv. "O'Neal"

Aryal, R., Bostan, H., Yow, A. G., Tseng, E., Iorizzo, M., & Ashrafi, H. (Januaary 13-17, 2018Januaary 13-17, 2018). Poster presented at the Plant and Animal Genome XXVI Conference, San Diego CA.

Differential Gene Expression of Southern Highbush Blueberry cv. ‘O’Neal’ Floral Buds in Response to Freeze Treatment and Recovery Periods

Redpath, L. E., Yow, A. G., Aryal, R., Hulse-Kemp, A. M., Franks, R. G., Whetten, R., & Ashrafi, H. (2018, July). Poster presented at the American Society for Horticultural Science, Washington D.C.

Differential Gene Expression of ‘O’Neal’ Blueberry Floral Buds in Response to Freeze Treatment and Recovery Periods

Redpath, L. E., & Ashrafi, H. (2018, April). Presented at the Genomic Science and Biomathematics Symposium, NC State University, Raleigh NC.

Evaluation of Mechanically Harvested Southern Highbush Blueberries (Vaccinium corymbosum) Advanced Selections for Fresh Market

Redpath, L. E., Bland, T. W., Ballington, J. R., Jiang, Y., Li, C., & Ashrafi, H. (2018, July). Presented at the American Society for Horticultural Science, Washington D.C.

Fruit Quality Related Trait Evaluation in a Segregating F1 Population of Blueberry from a Cross Between "Reveille" and "Arlen" Cultivars

Young, E., Redpath, L., Iorizzo, M., & Ashrafi, H. (2018, August). Poster presented at the National Association of Plant Breeders 2018 Annual Meeting, Guelph, Canada.

Identification and Mapping of Late Blight Resistance Quantitative Trait Loci in Tomato Accession PI 163245

The Plant Genome, 11(3), 0.

RNA-Seq Analysis of Floral Bud Response to Freeze Treatments in Southern Highbush Blueberry CV "O’Neal"

Redpath, L. E., Yow, A. G., Aryal, R., Hulse-Kemp, A. M., Franks, R. G., Whetten, R., & Ashrafi, H. (2018, August). Poster presented at the National Plant Breeders Association, Guelph Ontario, Canada August.

Sequencing‐Based Bin Map Construction of a Tomato Mapping Population, Facilitating High‐Resolution Quantitative Trait Loci Detection

The Plant Genome, 12(1).

Single Nucleotide Polymorphic (SNP) Marker Discovery in a Diverse Panel of Blueberry (Vaccinium sp.) Species

Young., E., Ballington, J. R., & Ashrafi, H. (2018, July). Presented at the American Society of Horticulture Sciences, Washington, D.C.

Differential Gene Expression Analysis of Blueberry Cultivar “Arlen” in Response to Mummy Berry (Monilinia vaccinii-corymbosi) Disease Infection

Yow, A. G., Burchhardt, K., Rollins, J. A., Cubeta, M. A., & Ashrafi, H. (2017, September). Presented at the Plant Molecular Biology Consortium Retreat, Asheville, NC.

Disease Resistance to Multiple Fungal and Oomycete Pathogens Evaluated Using a Recombinant Inbred Line Population in Pepper

Naegele, R. P., Granke, L. L., Fry, J., Hill, T. A., Ashrafi, H., Deynze, A. V., & Hausbeck, M. K. (2017, August 1). Phytopathology.

Identification of Candidate Genes for Mummy Berry Disease Resistance in Blueberry

Yow, A. G., Burchhardt, K., Cubeta, M. A., & Ashrafi, H. (2017, March). Poster presented at the NCSU Graduate Student Research Symposium, Raleigh, NC.

Identification of Candidate Genes for Mummy Berry Disease Resistance in Blueberry

Yow, A. G., Burchhardt, K., Cubeta, M. A., & Ashrafi, H. (2017, January). Poster presented at the International Conference on the Status of Plant and Animal Genome Research (PAG XXV), San Diego, CA.

Recent advance in carrot genomics

Acta Horticulturae, 1153(1153), 61–68.

Regions Underlying Population Structure and the Genomics of Organ Size Determination in Capsicum annuum

The Plant Genome, 10(3), 0.

A HapMap leads to a Capsicum annuum SNP infinium array: a new tool for pepper breeding

Horticulture Research, 3(1), 16036.

A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution

Nature Genetics, 48(6), 657–666.

DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton

PLOS Genetics, 12(5), e1006012.

Identification of Differentially Expressed Genes for Mummy Berry (Monilinia vaccinii-corymbosi) Resistance in Blueberry

Yow, A. G., Burchhardt, K., Cubeta, M. A., & Ashrafi, H. (2016, August). Poster presented at the Conference for the American Society for Horticultural Science (ASHS), Atlanta, GA.

Major CNV Detection by Read-Depth Analysis Using Capture-Based GBS in Cotton

Santiago, L. M. D., Hulse-Kemp, A. M., Resende, M., Neves, L. G., Ashrafi, H., Gill, C. A., & Stelly, D. M. (2016, January). Poster presented at the International Conference of Plant and Animal Genome Research (PAG XXIV), San Diego, CA.

New Insights on Eggplant/Tomato/Pepper Synteny and Identification of Eggplant and Pepper Orthologous QTL

Frontiers in Plant Science, 7.

QTL Underlying Androgenic Haploid Production in Pepper (Capsicum annuum)

Hill, T., Afnan, K., Ray, T., Chaverri, A., Ashrafi, H., Deynze, A. V., & Bradford, K. (2016, January). Poster presented at the International Conference of Plant and Animal Genome Research (PAG XXIV), San Diego, CA.

The carrot genome provides insights into crop origins and a foundation for future crop improvement

Chronica Horticulturae, 56(4). http://hdl.handle.net/11336/82245

Toward Deciphering of Mechanisms Underlying White Drupelet and Reversion Disorders of Blackberry

Fernandez, G., Carter, J. R., Yow, A. G., & Ashrafi, H. (2016, January). Poster presented at the International Conference of Plant and Animal Genome Research (PAG XXIV), San Diego, CA.

Using RNA-Seq for the Identification of Candidate Genes for Mummy Berry Disease Resistance in Blueberry

Yow, A. G., Burchhardt, K., Cubeta, M. A., & Ashrafi, H. (2016, September). Presented at the Plant Molecular Biology Consortium Retreat, Wrightsville Beach, NC.

A Long-Read Transcriptome Assembly of Cotton (Gossypium hirsutum L.) and Intraspecific Single Nucleotide Polymorphism Discovery

The Plant Genome, 8(2), 0.

BAC-End Sequence-Based SNP Mining in Allotetraploid Cotton (Gossypium) Utilizing Resequencing Data, Phylogenetic Inferences, and Perspectives for Genetic Mapping

G3 Genes|Genomes|Genetics, 5(6), 1095–1105.

Characterization of early blight resistance in a recombinant inbred line population of tomato: I. Heritability and trait correlations

Advanced Studies in Biology, 7, 131–148.

Characterization of early blight resistance in a recombinant inbred line population of tomato: II. Identification of QTLs and their co-localization with candidate resistance genes

Advanced Studies in Biology, 7, 149–168.

Development of a 63K SNP Array for Cotton and High-Density Mapping of Intraspecific and Interspecific Populations of Gossypium spp.

G3 Genes|Genomes|Genetics, 5(6), 1187–1209.

Development of a 63K SNP array for Gossypium and high-density mapping of intra- and inter-specific populations of cotton (G. hirsutum L)

G3 Gene| Genomes| Genetics, 5, 1187–1209.

Full-Length Transcriptome Sequencing Using PacBio Sequencing in Blueberry

Yow, A. G., Guo, W., & Ashrafi, H. (2015, November). Poster presented at the NCSU CALS Stewards of the Future Conference, Raleigh, NC.

Ultra-High Density, Transcript-Based Genetic Maps of Pepper Define Recombination in the Genome and Synteny Among Related Species

G3 Genes|Genomes|Genetics, 5(11), 2341–2355.

Using spinach to compare technologies for whole genome assemblies

Presented at the Plant and Animal Genome XXIII Conference.

CaDMR1 Cosegregates with QTL Pc5.1 for Resistance to Phytophthora capsici in Pepper ( Capsicum annuum )

The Plant Genome, 7(2), 0.

Deciphering Resistance to Phytophthora capsici in Pepper

Deynze, A. V., Hill, T., Ashrafi, H., Kozik, A., Chin-Wo, S. R., & Rehrig, W. Z. (2014, January). Poster presented at the International Conference on the Status of Plant and Animal Genome Research (PAG XXI), San Diego, CA.

Detached-Leaflet Evaluation of Tomato Germplasm for Late Blight Resistance and Its Correspondence to Field and Greenhouse Screenings

Plant Disease, 99(5), 718–722.

Development and bin mapping of gene-associated interspecific SNPs for cotton (Gossypium hirsutum L.) introgression breeding efforts

BMC Genomics, 15(1), 945.

Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species

Nature Genetics, 46(3), 270–278.