Amanda Marie Hulse-Kemp

https://orcid.org/0000-0001-9670-9433

Genomics, Genetics, Cotton, Marker Development, Physical Mapping, Genome Assembly

Works (35)

Updated: August 30th, 2023 05:01

2023 journal article

A first look at the ability to use genomic prediction for improving the ratooning ability of sugarcane

FRONTIERS IN PLANT SCIENCE, 14.

By: M. Islam*, K. Corak*, P. McCord*, A. Hulse-Kemp n & A. Lipka*

author keywords: candidate gene; GWAS; genomic selection; marker trait association; sugarcane production
Sources: Web Of Science, ORCID
Added: August 28, 2023

2023 journal article

Detecting Cotton Leaf Curl Virus Resistance Quantitative Trait Loci in Gossypium hirsutum and iCottonQTL a New R/Shiny App to Streamline Genetic Mapping

PLANTS-BASEL, 12(5).

author keywords: genetic mapping; cotton; genotyping; R; Shiny; cotton leaf curl virus; quantitative trait loci
Sources: ORCID, Web Of Science
Added: March 3, 2023

2023 journal article

Initiation of genomics-assisted breeding in Virginia-type peanuts through the generation of a de novo reference genome and informative markers

FRONTIERS IN PLANT SCIENCE, 13.

By: C. Newman n, R. Andres n, R. Youngblood*, J. Campbell*, S. Simpson*, S. Cannon*, B. Scheffler*, A. Oakley n, A. Hulse-Kemp n, J. Dunne n

author keywords: genome; genotyping; introgression; legume; peanut; markers; plant breeding; cultivar development
Sources: Web Of Science, ORCID
Added: March 13, 2023

2023 journal article

Long-read, chromosome-scale assembly of Vitis rotundifolia cv. Carlos and its unique resistance to Xylella fastidiosa subsp. fastidiosa

BMC GENOMICS, 24(1).

By: M. Huff*, A. Hulse-Kemp n, B. Scheffler*, R. Youngblood*, S. Simpson*, E. Babiker, M. Staton*

author keywords: Muscadine grape; Grape; Pangenome; Transcriptome; Pierce's disease
Sources: Web Of Science, ORCID
Added: August 14, 2023

2023 journal article

Two pathogen loci determine Blumeria graminis

New Phytologist, 238(4), 1546–1561.

author keywords: Blumeria graminis; effector; genome-wide association study; host resistance; powdery mildew; Triticum aestivum; wheat
MeSH headings : Triticum / microbiology; Virulence / genetics; Genome-Wide Association Study; Plant Diseases / microbiology; Disease Resistance / genetics
Sources: ORCID, Web Of Science, Crossref
Added: March 19, 2023

2022 article

Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication

Chang, J., Marczuk-Rojas, J. P., Waterman, C., Garcia-Llanos, A., Chen, S., Ma, X., … Carretero-Paulet, L. (2022, July 27). PLANT GENOME, Vol. 7.

MeSH headings : Chromosomes; Flavonoids; Genome, Plant; Glucosinolates; Moringa oleifera / genetics; Plant Breeding; Polyploidy; Secondary Metabolism
Sources: ORCID, Web Of Science
Added: July 28, 2022

2022 article

Efficient imaging and computer vision detection of two cell shapes in young cotton fibers

Graham, B. P., Park, J., Billings, G. T., Hulse-Kemp, A. M., Haigler, C. H., & Lobaton, E. (2022, November 26). APPLICATIONS IN PLANT SCIENCES, Vol. 11.

By: B. Graham n, J. Park n, G. Billings n, A. Hulse-Kemp n, C. Haigler n & E. Lobaton n

author keywords: cotton diversity; fiber morphogenesis; Gossypium barbadense; Gossypium hirsutum; light microscopy; machine learning
Sources: ORCID, Web Of Science
Added: November 28, 2022

2022 article

Genetic variability and QTL mapping of winter survivability and leaf firing in African bermudagrass

Yu, S., Schoonmaker, A. N., Yan, L., Hulse-Kemp, A. M., Fontanier, C. H., Martin, D. L., … Wu, Y. Q. (2022, October 26). CROP SCIENCE, Vol. 10.

Sources: Web Of Science, ORCID
Added: November 7, 2022

2022 journal article

Graph-based pangenomics maximizes genotyping density and reveals structural impacts on fungal resistance in melon

NATURE COMMUNICATIONS, 13(1).

By: J. Vaughn*, S. Branham*, B. Abernathy*, A. Hulse-Kemp n, A. Rivers*, A. Levi*, W. Wechter*

MeSH headings : Genotype; Cucurbitaceae / genetics; DNA Copy Number Variations; Plant Breeding; Quantitative Trait Loci / genetics; Cucumis melo / genetics; Cucumis melo / microbiology
Sources: Web Of Science, ORCID
Added: May 22, 2023

2022 journal article

Leveraging National Germplasm Collections to Determine Significantly Associated Categorical Traits in Crops: Upland and Pima Cotton as a Case Study

FRONTIERS IN PLANT SCIENCE, 13.

By: D. Restrepo-Montoya n, A. Hulse-Kemp n, J. Scheffler*, C. Haigler n, L. Hinze*, J. Love*, R. Percy*, D. Jones*, J. Frelichowski*

author keywords: trait association; categorical data; cotton; crop germplasm; breeding
Sources: Web Of Science, ORCID
Added: May 31, 2022

2022 journal article

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

SCIENTIA HORTICULTURAE, 297.

By: L. Redpath n, R. Aryal n, N. Lynch n, J. Spencer n, A. Hulse-Kemp n, J. Ballington n, J. Green*, N. Bassil* ...

author keywords: Blueberry; Vaccinium; Flowcytometry; Propidium iodide; K -mer analysis
Sources: Web Of Science, ORCID
Added: May 16, 2022

2022 journal article

Outlook for Implementation of Genomics-Based Selection in Public Cotton Breeding Programs

PLANTS-BASEL, 11(11).

By: G. Billings n, M. Jones*, S. Rustgi*, W. Bridges*, J. Holland n, A. Hulse-Kemp n, B. Campbell*

author keywords: cotton breeding; GWAS; genomic prediction; fiber quality; cotton yield
Sources: Web Of Science, ORCID
Added: May 31, 2022

2022 journal article

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

HORTICULTURE RESEARCH, 9.

By: P. Edger*, M. Iorizzo n, N. Bassil*, J. Benevenuto*, L. Ferrao*, L. Giongo*, K. Hummer*, L. Lawas* ...

Sources: Web Of Science, ORCID
Added: August 1, 2022

2021 article

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

Hulse-Kemp, A. M., Bostan, H., Chen, S., Ashrafi, H., Stoffel, K., Sanseverino, W., … Van Deynze, A. (2021, June 10). PLANT GENOME, Vol. 6.

By: A. Hulse-Kemp n, H. Bostan n, S. Chen*, H. Ashrafi n, K. Stoffel*, W. Sanseverino*, L. Li*, S. Cheng* ...

MeSH headings : Chromosomes; Gene Rearrangement; Peronospora; Plant Breeding; Spinacia oleracea / genetics
Sources: Web Of Science, ORCID
Added: June 14, 2021

2021 journal article

Genomic Resource Development for Hydrangea (Hydrangea macrophylla (Thunb.) Ser.)-A Transcriptome Assembly and a High-Density Genetic Linkage Map

HORTICULTURAE, 7(2).

By: X. Wu n, A. Hulse-Kemp n, P. Wadl*, Z. Smith*, K. Mockaitis, M. Staton*, T. Rinehart*, L. Alexander*

author keywords: Hydrangea macrophylla; SSR; SNP; linkage map
Sources: Web Of Science, ORCID
Added: March 22, 2021

2021 journal article

High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii)

HORTICULTURE RESEARCH, 8(1).

By: J. Yu*, A. Hulse-Kemp n, E. Babiker & M. Staton*

Sources: Web Of Science, ORCID
Added: November 15, 2021

2021 journal article

Population structure and genetic diversity of the Pee Dee cotton breeding program

G3-GENES GENOMES GENETICS, 11(7).

By: G. Billings n, M. Jones*, S. Rustgi*, A. Hulse-Kemp n & B. Campbell*

MeSH headings : Gossypium; Phylogeny; Plant Breeding; Alleles; Genetic Variation
Sources: Web Of Science, ORCID
Added: June 5, 2021

2020 journal article

Enhancing Upland cotton for drought resilience, productivity, and fiber quality: comparative evaluation and genetic dissection

MOLECULAR GENETICS AND GENOMICS, 295(1), 155–176.

By: M. Ulloa, L. De Santiago*, A. Hulse-Kemp n, D. Stelly* & J. Burke

author keywords: Genetic mapping; Linkage analysis; Quantitative trait loci (QTLs); Drought; Plant stress; Breeding; Molecular markers; SNP; Mapping population; Recombinant inbred line (RIL)
MeSH headings : Breeding / methods; Chromosome Mapping / methods; Cotton Fiber; Droughts; Genetic Linkage / genetics; Genome, Plant / genetics; Genotype; Gossypium / genetics; Phenotype; Polymorphism, Single Nucleotide / genetics; Quantitative Trait Loci / genetics
Sources: Web Of Science, ORCID
Added: November 4, 2019

2019 journal article

Capsicum-An Abbreviated Compendium

JOURNAL OF THE AMERICAN SOCIETY FOR HORTICULTURAL SCIENCE, 144(1), 3–22.

By: R. Jarret, G. Barboza, F. Costa Batista, T. Berke, Y. Chou, A. Hulse-Kemp*, N. Ochoa-Alejo, P. Tripodi ...

author keywords: crop production; germplasm; botany; capsaicinoids; carotenoids; genome
Sources: Web Of Science, ORCID
Added: March 11, 2019

2019 journal article

Feeding high-oleic peanuts to layer hens enhances egg yolk color and oleic fatty acid content in shell eggs

Poultry Science, 98(4), 1732–1748.

By: O. Toomer*, A. Hulse-Kemp*, L. Dean*, D. Boykin*, R. Malheiros n & K. Anderson n

author keywords: high-oleic peanuts; feed ingredients; layer hens; shell eggs; beta-carotene
MeSH headings : Animals; Arachis; Chickens / physiology; Color; Egg Shell / chemistry; Egg Yolk / chemistry; Fatty Acids / analysis; Female; Linoleic Acids / administration & dosage; Linoleic Acids / metabolism; Oleic Acids / administration & dosage; Oleic Acids / metabolism; Random Allocation
Sources: Web Of Science, ORCID, Crossref
Added: April 15, 2019

2019 journal article

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

PLANT GENOME, 12(1).

By: I. Gonda*, H. Ashrafi*, D. Lyon*, S. Strickler*, A. Hulse-Kemp*, Q. Ma*, H. Sun*, K. Stoffel* ...

MeSH headings : Chromosome Mapping; Chromosomes, Plant; Genes, Plant; Genotyping Techniques; Lycopene / metabolism; Solanum lycopersicum / genetics; Polymorphism, Single Nucleotide / genetics; Quantitative Trait Loci; RNA, Plant; Recombination, Genetic; Sequence Analysis, RNA; cis-trans-Isomerases / metabolism
Sources: Web Of Science, ORCID
Added: April 2, 2019

2018 journal article

Reference quality assembly of the 3.5-Gb genome of Capsicum annuum from a single linked-read library

HORTICULTURE RESEARCH, 5.

By: A. Hulse-Kemp n, S. Maheshwari*, K. Stoffel*, T. Hill*, D. Jaffe*, S. Williams*, N. Weisenfeld*, S. Ramakrishnan* ...

Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Diversity analysis of cotton (Gossypium hirsutum L.) germplasm using the CottonSNP63K Array.

BMC Plant Biology, 17(1), 37,

author keywords: Breeding; Cotton; Diversity analysis; Genome-wide association analysis; Germplasm collection; Molecular markers; Seed protein content
MeSH headings : Alleles; Genetic Markers; Genetic Variation; Genome, Plant; Genotype; Gossypium / classification; Gossypium / genetics; Microsatellite Repeats; Phylogeny; Plant Proteins / genetics; Polymorphism, Single Nucleotide
Source: ORCID
Added: August 4, 2021

2017 article

Reference Quality Assembly of the 3.5 Gb genome of Capsicum annuum from a Single Linked-Read Library

Hulse-Kemp, A. M., Maheshwari, S., Stoffel, K., Hill, T. A., Jaffe, D., Williams, S., … Deynze, A. V. (2017, June 20). (Vol. 6). Vol. 6.

By: A. Hulse-Kemp*, S. Maheshwari*, K. Stoffel*, T. Hill*, D. Jaffe*, S. Williams*, N. Weisenfeld*, S. Ramakrishnan* ...

Source: ORCID
Added: August 4, 2021

2016 journal article

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

HORTICULTURE RESEARCH, 3(1).

By: A. Hulse-Kemp*, H. Ashrafi n, J. Plieske, J. Lemm, K. Stoffel*, T. Hill*, H. Luerssen, C. Pethiyagoda* ...

Sources: ORCID, Web Of Science
Added: August 6, 2018

2016 journal article

Correction: DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton.

PLoS Genetics, 12(7), 1006206,

By: J. Page, Z. Liechty, R. Alexander, K. Clemons, A. Hulse-Kemp*, H. Ashrafi, D. Van, D. Stelly, J. Udall

Source: ORCID
Added: August 4, 2021

2016 journal article

DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton

PLOS GENETICS, 12(5).

By: J. Page*, Z. Liechty*, R. Alexander*, K. Clemons*, A. Hulse-Kemp*, H. Ashrafi*, A. Van Deynze*, D. Stelly*, J. Udall*

Ed(s): K. Bomblies

MeSH headings : Alleles; Chromosome Mapping; Chromosomes, Plant / genetics; Cotton Fiber; Evolution, Molecular; Genome, Plant; Genotype; Gossypium / genetics; High-Throughput Nucleotide Sequencing; Polymorphism, Single Nucleotide; Polyploidy; Tetraploidy
Sources: ORCID, Web Of Science
Added: August 6, 2018

2015 journal article

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

G3&Amp;#58; Genes|Genomes|Genetics, 5(6), 1095–1105.

By: A. Hulse-Kemp*, H. Ashrafi*, K. Stoffel*, X. Zheng*, C. Saski*, B. Scheffler*, D. Fang*, Z. Chen* ...

author keywords: SNP genotyping; cotton genomics; resequencing; BAC-derived SNPs; intraspecific
MeSH headings : Base Sequence; Chromosome Mapping / methods; Chromosomes, Artificial, Bacterial / genetics; Cluster Analysis; Computer Simulation; Contig Mapping; Data Mining; Diploidy; Genetic Linkage; Genetic Loci; Genetic Markers; Genome, Bacterial; Gossypium / genetics; Heterozygote; Homozygote; Molecular Sequence Annotation; Phylogeny; Polymorphism, Single Nucleotide / genetics; Polyploidy; Principal Component Analysis; Sequence Analysis, DNA / methods; Species Specificity
Source: ORCID
Added: December 6, 2018

2015 journal article

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

5(6), 1187–1209,

By: A. Hulse-Kemp*, J. Lemm, J. Plieske, H. Ashrafi*, R. Buyyarapu, D. Fang*, J. Frelichowski*, M. Giband* ...

author keywords: linkage analysis; recombination; interspecific SNPs; intraspecific SNPs; breeding
MeSH headings : Chromosome Mapping / methods; Chromosomes, Plant / genetics; Crossing Over, Genetic; Databases, Genetic; Gene Frequency / genetics; Genetic Linkage; Genetic Markers; Genotype; Genotyping Techniques; Gossypium / genetics; Polymorphism, Single Nucleotide / genetics; Polyploidy; Reproducibility of Results; Species Specificity; Synteny / genetics
Source: ORCID
Added: August 4, 2021

2015 journal article

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement.

Nature Biotechnology, 33(5), 531–537,

By: T. Zhang*, Y. Hu*, W. Jiang*, L. Fang*, X. Guan*, J. Chen*, J. Zhang*, C. Saski* ...

MeSH headings : Base Sequence; Chromosome Mapping; Cotton Fiber; Genome, Plant; Gossypium / genetics; High-Throughput Nucleotide Sequencing; Plant Proteins / biosynthesis; Plant Proteins / genetics; Sequence Analysis, DNA; Tetraploidy
Source: ORCID
Added: August 4, 2021

2014 journal article

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

BMC Genomics, 15(1), 945.

By: A. Hulse-Kemp*, H. Ashrafi*, X. Zheng*, F. Wang*, K. Hoegenauer*, A. Maeda*, S. Yang*, K. Stoffel* ...

author keywords: Cotton; Gossypium barbadense; Gossypium tomentosum; Gossypium mustelinum; Gossypium armourianum; Gossypium longicalyx; RNA-seq; Interspecific SNP
MeSH headings : Breeding; Chromosome Mapping; Chromosomes, Plant; Computational Biology; Crosses, Genetic; Genes, Plant; Genetic Markers; Genome, Plant; Genotyping Techniques; Gossypium / genetics; Polymorphism, Single Nucleotide; Reproducibility of Results; Sequence Deletion; Transcriptome
Source: ORCID
Added: December 6, 2018

2013 journal article

Genetic Variants Contribute to Gene Expression Variability in Humans

Genetics, 193(1), 95–108.

By: A. Hulse* & J. Cai*

MeSH headings : Epistasis, Genetic; Gene Expression Profiling; Gene Expression Regulation; Genome-Wide Association Study; Genomics; Genotype; Humans; Polymorphism, Single Nucleotide; Quantitative Trait Loci
Source: ORCID
Added: August 4, 2021

2013 journal article

Haplotype phasing after joint estimation of recombination and linkage disequilibrium in breeding populations

J Anim Sci Biotechnol, 4(1), 30.

By: L. Gomez-Raya*, A. Hulse*, D. Thain* & W. Rauw*

author keywords: Breeding; Haplotype phasing; Linkage disequilibrium; SNP
Source: ORCID
Added: August 4, 2021

2013 journal article

Insights into the Evolution of Cotton Diploids and Polyploids from Whole-Genome Re-sequencing

G3&Amp;#58; Genes|Genomes|Genetics, 3(10), 1809–1818.

By: J. Page*, M. Huynh*, Z. Liechty*, K. Grupp*, D. Stelly, A. Hulse, H. Ashrafi*, A. Deynze*, J. Wendel*, J. Udall*

author keywords: cotton fiber; comparative genomics; molecular evolution; allopolyploid
MeSH headings : Diploidy; Evolution, Molecular; Genome, Plant; Gossypium / genetics; Polymorphism, Single Nucleotide; Polyploidy; Sequence Analysis, DNA; Sequence Deletion
Source: ORCID
Added: December 6, 2018

2012 journal article

Evolutionary Analysis of Sequence Divergence and Diversity of Duplicate Genes in Aspergillus fumigatus

EBO, 11, 623.

By: Cai, E. Yang, A. Hulse* & Cai

author keywords: duplicate gene; Aspergillus fumigatus; positive selection; sequence diversity
Source: ORCID
Added: August 4, 2021

Employment

Updated: June 20th, 2017 15:39

2016 - present

USDA-ARS Raleigh, NC, US
Genomics & Bioinformatics Research Unit

Education

Updated: July 20th, 2014 09:56

University of Nevada Reno Reno, NV, US
BS Biology & Animal Biotechnology, Chemistry Minor

Texas A&M University College Station, TX, US
PhD Genetics Soil & Crop Science