Amanda Marie Hulse-Kemp
Genomics, Genetics, Cotton, Marker Development, Physical Mapping, Genome Assembly
Works (40)
Updated: November 16th, 2024 05:05
2024 journal article
A Blueberry (<i> Vaccinium</i> L.) Crop Ontology to Enable Standardized Phenotyping for Blueberry Breeding and Research
HORTSCIENCE, 59(10), 1433–1442.
author keywords: controlled vocabulary; database; plant ontology; phenotype; trait ontology
open access via doi.org (publisher)
Sources: Web Of Science, NC State University Libraries
Added: September 23, 2024
2024 journal article
CitDet: A Benchmark Dataset for Citrus Fruit Detection
IEEE Robotics and Automation Letters.
UN Sustainable Development Goal Categories
2. Zero Hunger
(OpenAlex)
Source: ORCID
Added: October 21, 2024
2024 journal article
De novo whole-genome assembly and annotation of Coffea arabica var. Geisha, a high-quality coffee variety from the primary origin of coffee
G3: Genes, Genomes, Genetics.
Ed(s): S. Pearce
Source: ORCID
Added: November 15, 2024
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.
author keywords: candidate gene; GWAS; genomic selection; marker trait association; sugarcane production
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
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.
author keywords: genome; genotyping; introgression; legume; peanut; markers; plant breeding; cultivar development
TL;DR:
The findings and tools produced in this research will allow for rapid genetic gain in the Virginia-type peanut population and allow swift response to changing biotic and abiotic threats, and ultimately the development of superior cultivars for public use and consumption.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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).
author keywords: Muscadine grape; Grape; Pangenome; Transcriptome; Pierce's disease
TL;DR:
The results support the utility of a pan-genome approach to identify candidate genes for traits of interest, particularly disease resistance to Xfsf , within and between muscadine and common grape.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 14, 2023
2023 journal article
Representing true plant genomes: haplotype-resolved hybrid pepper genome with trio-binning
FRONTIERS IN PLANT SCIENCE, 14.
author keywords: haplotype; pepper; genome assembly; trio-binning; HiFi
TL;DR:
These assemblies represent the complete genome structure of the intraspecific hybrid, as well as the two parental genomes, and show measurable improvements over the currently available reference genomes.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: December 18, 2023
2023 journal article
Two haplotype-resolved genomes reveal important flower traits in bigleaf hydrangea (Hydrangea macrophylla) and insights into Asterid evolution
HORTICULTURE RESEARCH, 10(12).
TL;DR:
Using the newly developed high-quality reference genomes along with high-quality genomes of other related flowering plants, nuclear data were found to support a single divergence point in the Asterids clade where both the Cornales and Ericales diverged from the euasterids.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: January 8, 2024
2023 journal article
Two pathogen loci determine <i>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
TL;DR:
A genome-wide association study was conducted to map sequence variants associated with Pm1a virulence in 216 Bgt isolates from six countries, including the U.S; a co-expression study in Nicotiana benthamiana showed that BGTE-5612 and BGT-51526 each produce a PM1A-dependent hypersensitive response.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries, 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
TL;DR:
This study provides a genetic roadmap to guide future breeding programs in moringa, especially those aimed at improving secondary metabolism related traits, as well as investigating main drivers of gene family and genome evolution that may be at the origin of relevant biological innovations including agronomical favorable traits.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
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.
author keywords: cotton diversity; fiber morphogenesis; Gossypium barbadense; Gossypium hirsutum; light microscopy; machine learning
TL;DR:
Improved semi‐automated imaging methods for young cotton fibers and a novel machine learning algorithm for the rapid detection of tapered or hemisphere fibers in homogeneous or mixed populations are developed.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
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.
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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).
MeSH headings : Genotype; Cucurbitaceae / genetics; DNA Copy Number Variations; Plant Breeding; Quantitative Trait Loci / genetics; Cucumis melo / genetics; Cucumis melo / microbiology
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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.
author keywords: trait association; categorical data; cotton; crop germplasm; breeding
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries, 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.
author keywords: Blueberry; Vaccinium; Flowcytometry; Propidium iodide; K -mer analysis
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
14. Life Below Water
(Web of Science)
15. Life on Land
(Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: May 16, 2022
2022 journal article
Outlook for Implementation of Genomics-Based Selection in Public Cotton Breeding Programs
PLANTS-BASEL, 11(11).
author keywords: cotton breeding; GWAS; genomic prediction; fiber quality; cotton yield
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries, 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.
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
14. Life Below Water
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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.
MeSH headings : Chromosomes; Gene Rearrangement; Peronospora; Plant Breeding; Spinacia oleracea / genetics
TL;DR:
Diversity analysis of 75 lines indicate that variation in genes is ample for hypothesis‐driven, genomic‐assisted breeding enabled by this work, and Evolutionary analysis indicates that Spinacia is a paleohexaploid with a whole‐genome triplication followed by extensive gene rearrangements identified in this work.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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).
author keywords: Hydrangea macrophylla; SSR; SNP; linkage map
TL;DR:
The high-density genetic linkage maps presented here will serve as an important foundation for quantitative trait loci mapping, map-based gene cloning, and marker-assisted selection of H. macrophylla.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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).
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
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).
Contributors: G. Billings n , M. Jones *, S. Rustgi *, n & B. Campbell *
MeSH headings : Gossypium; Phylogeny; Plant Breeding; Alleles; Genetic Variation
TL;DR:
Evaluating genetic diversity across and within breeding groups, examine population structure, and contextualize these findings relative to the global upland cotton gene pool will steer future utilization of the Pee Dee cotton germplasm resources and aid in combining program-specific beneficial alleles and maintaining genetic diversity.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: June 5, 2021
2019 journal article
Capsicum-An Abbreviated Compendium
JOURNAL OF THE AMERICAN SOCIETY FOR HORTICULTURAL SCIENCE, 144(1), 3–22.
author keywords: crop production; germplasm; botany; capsaicinoids; carotenoids; genome
TL;DR:
Various topics are addressed in this review, including recent additions to and clarification of Capsicum taxonomy, genetic resources of capsicum, cytogenetic studies, the current status of the understanding of the mechanisms affecting the biosynthesis of capsaicinoids, the use of gene mutations to elucidate carotenoid biosynthetic pathways and their regulation.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: March 11, 2019
2019 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.
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
TL;DR:
The heritable variation among elite bi-parental RILs for productivity and quality under field drought conditions, and their association of QTLs, and thus specific genomic regions, indicate opportunities for breeding-based gains in water resource conservation, i.e., enhancing cotton’s agricultural sustainability.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: November 4, 2019
2018 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.
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
TL;DR:
H peanuts are identified as an abundant commodity that could be used to support local agricultural markets of peanuts and poultry within the southeastern United States and be of economic advantage to producers while providing a potential health benefit to the consumer with improved egg nutrition.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(OpenAlex)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: April 15, 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.
TL;DR:
The most contiguous pepper genome assembly to date has been generated which demonstrates that Linked-Read library technology provides a tool to de novo assemble complex highly repetitive heterozygous plant genomes.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018
2018 journal article
Sequencing-Based Bin Map Construction of a Tomato Mapping Population, Facilitating High-Resolution Quantitative Trait Loci Detection
PLANT GENOME, 12(1).
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
TL;DR:
Identification of SIZISO as the gene underlying the lycopene QTL Lyc12.1 RIL population, high‐resolution genetic map, and analytical pipeline available to the public.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: April 2, 2019
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
TL;DR:
Thousands of SNPs in representative cotton genotypes provide an opportunity to finely discriminate among cultivated cotton from around the world and will be relevant as dense markers of genome variation for association mapping approaches aimed at correlating molecular polymorphisms with variation in phenotypic traits.
(via Semantic Scholar)
Source: ORCID
Added: August 4, 2021
2017 article
Reference Quality Assembly of the 3.5 Gb genome ofCapsicum annuumfrom 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).
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).
TL;DR:
Through resequencing of inbred lines, a valuable haplotype map (HapMap) for the pepper genome based on single-nucleotide polymorphisms (SNP) is completed and the PepperSNP16K array can be used worldwide to share findings and analyze QTLs for important traits leading to continued improvement of pepper for consumers.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science; OpenAlex)
13. Climate Action
(Web of Science)
15. Life on Land
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: August 6, 2018
2016 journal article
Correction: DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton.
PLoS Genetics, 12(7), 1006206,
TL;DR:
This research presents a novel probabilistic approach to estimating the response of the immune system to laser-spot assisted, 3D image analysis of central nervous system injury.
(via Semantic Scholar)
Source: ORCID
Added: August 4, 2021
2016 journal article
DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton
PLOS GENETICS, 12(5).
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
TL;DR:
The evolution of the cotton genome (SNPs and structural variants) with the greatly improved resolution of 34 deeply re-sequenced genomes is described and the evolution of homoeologous regions in the AT- and DT-genomes is explored.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: ORCID, Web Of Science, NC State University Libraries
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.
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
TL;DR:
The mapping results validated the approach for reliably producing large numbers of both intraspecific and interspecific SNPs aligned to BAC-ends, which will allow for future construction of high-density integrated physical and genetic maps for cotton and other complex polyploid genomes.
(via Semantic Scholar)
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,
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
TL;DR:
The produced intraspecific genetic map is the first saturated map that associates into 26 linkage groups corresponding to the number of cotton chromosomes for a cross between two G. hirsutum lines.
(via Semantic Scholar)
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,
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
TL;DR:
Genomic signatures of selection and domestication are associated with positively selected genes (PSGs) for fiber improvement in the A subgenome and for stress tolerance in the D subgenomes, suggesting asymmetric evolution.
(via Semantic Scholar)
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.
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
TL;DR:
Using transcriptome sequencing, the first gene-associated single nucleotide polymorphism (SNP) markers for wild cotton species G. hirsutum will allow for the first high-density mapping of genes from five wild species that affect traits of interest, including beneficial agronomic and fiber characteristics.
(via Semantic Scholar)
Source: ORCID
Added: December 6, 2018
2013 journal article
Haplotype phasing after joint estimation of recombination and linkage disequilibrium in breeding populations
J Anim Sci Biotechnol, 4(1), 30.
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), 1809â1818.
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
TL;DR:
A comparative analysis using deep re-sequencing of multiple accessions of each diploid species and identified 24 million SNPs between the A-diploid and D-Diploid genomes facilitated the construction of a robust index of conserved SNPs at all detected polymorphic loci, widely applicable for read mapping efforts of other diploids and allopolyploid Gossypium accessions.
(via Semantic Scholar)
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.
author keywords: duplicate gene; Aspergillus fumigatus; positive selection; sequence diversity
TL;DR:
This study characterizes the duplicate genes in the genome of Aspergillus fumigatus and establishes a computational framework, including parameter settings and methods, for comparative study of genetic redundancy and gene duplication between different fungal species.
(via Semantic Scholar)
Source: ORCID
Added: August 4, 2021
2012 journal article
Genetic Variants Contribute to Gene Expression Variability in Humans
Genetics, 193(1), 95â108.
MeSH headings : Epistasis, Genetic; Gene Expression Profiling; Gene Expression Regulation; Genome-Wide Association Study; Genomics; Genotype; Humans; Polymorphism, Single Nucleotide; Quantitative Trait Loci
TL;DR:
It is argued that detecting evQTL may represent a novel method for effectively screening for genetic interactions, especially when the multiple-SNP influence on expression variability is implied.
(via Semantic Scholar)
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
Texas A&M University College Station, TX, US
PhD Genetics
Soil & Crop Science
University of Nevada Reno Reno, NV, US
BS Biology & Animal Biotechnology, Chemistry Minor
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