Patrick Masterson
A5056587845- Mosquito-borne diseases and control
- Hemiptera Insect Studies
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- Phytoplasmas and Hemiptera pathogens
- Research on scale insects
- Genetic diversity and population structure
- Insect symbiosis and bacterial influences
- Amphibian and Reptile Biology
- Viral Infectious Diseases and Gene Expression in Insects
- Biochemical and Structural Characterization
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Primate Behavior and Ecology
- Turtle Biology and Conservation
- Insect and Arachnid Ecology and Behavior
- Insect Resistance and Genetics
- Trace Elements in Health
- Plant Virus Research Studies
- Genomics and Chromatin Dynamics
- Evolution and Genetic Dynamics
- Legume Nitrogen Fixing Symbiosis
- Plant Reproductive Biology
- Molecular Biology Techniques and Applications
- Genomic variations and chromosomal abnormalities
- Protein Structure and Dynamics
National Center for Biotechnology Information
2015-2025
National Institutes of Health
2015-2025
University of Wyoming
2013
The RefSeq project at the National Center for Biotechnology Information (NCBI) maintains and curates a publicly available database of annotated genomic, transcript, protein sequence records (http://www.ncbi.nlm.nih.gov/refseq/). leverages data submitted to International Nucleotide Sequence Database Collaboration (INSDC) against combination computation, manual curation, collaboration produce standard set stable, non-redundant reference sequences. augments these sequences with current...
Abstract High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, biodiversity conservation. However, such available only a few non-microbial species 1–4 . To address this issue, international Genome 10K (G10K) consortium 5,6 has worked over five-year period evaluate develop cost-effective methods assembling highly accurate nearly genomes. Here we present lessons learned from generating 16 that represent six major vertebrate...
Abstract Apes possess two sex chromosomes—the male-specific Y chromosome and the X chromosome, which is present in both males females. The crucial for male reproduction, with deletions being linked to infertility 1 . vital reproduction cognition 2 Variation mating patterns brain function among apes suggests corresponding differences their chromosomes. However, owing repetitive nature incomplete reference assemblies, ape chromosomes have been challenging study. Here, using methodology...
Abstract High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, biodiversity conservation. However, such only available a few non-microbial species 1–4 . To address this issue, international Genome 10K (G10K) consortium 5,6 has worked over five-year period evaluate develop cost-effective methods assembling most accurate genomes date. Here we summarize these developments, introduce set quality standards, present lessons...
Abstract Background The Asian tiger mosquito Aedes albopictus is globally expanding and has become the main vector for human arboviruses in Europe. With limited antiviral drugs vaccines available, control primary approach to prevent mosquito-borne diseases. A reliable accurate DNA sequence of Ae. genome essential develop new approaches that involve genetic manipulation mosquitoes. Results We use long-read sequencing methods modern scaffolding techniques (PacBio, 10X, Hi-C) produce AalbF2, a...
Abstract Background Halyomorpha halys (Stål), the brown marmorated stink bug, is a highly invasive insect species due in part to its exceptionally high levels of polyphagy. This also nuisance overwintering human-made structures. It has caused significant agricultural losses recent years along Atlantic seaboard North America and continental Europe. Genomic resources will assist with determining molecular basis for this species’ feeding habitat traits, defining potential targets pest...
Sea turtles represent an ancient lineage of marine vertebrates that evolved from terrestrial ancestors over 100 Mya. The genomic basis the unique physiological and ecological traits enabling these species to thrive in diverse habitats remains largely unknown. Additionally, many populations have drastically declined due anthropogenic activities past two centuries, their recovery is a high global conservation priority. We generated analyzed high-quality reference genomes for leatherback (...
We present haplotype-resolved reference genomes and comparative analyses of six ape species, namely: chimpanzee, bonobo, gorilla, Bornean orangutan, Sumatran siamang. achieve chromosome-level contiguity with unparalleled sequence accuracy (<1 error in 500,000 base pairs), completely sequencing 215 gapless chromosomes telomere-to-telomere. resolve challenging regions, such as the major histocompatibility complex immunoglobulin loci, providing more in-depth evolutionary insights. Comparative...
Abstract The most dynamic and repetitive regions of great ape genomes have traditionally been excluded from comparative studies 1–3 . Consequently, our understanding the evolution species is incomplete. Here we present haplotype-resolved reference analyses six species: chimpanzee, bonobo, gorilla, Bornean orangutan, Sumatran orangutan siamang. We achieve chromosome-level contiguity with substantial sequence accuracy (<1 error in 2.7 megabases) completely 215 gapless chromosomes...
The domestic dog has evolved to be an important biomedical model for studies regarding the genetic basis of disease, morphology and behavior. Genetic in have relied on a draft reference genome purebred female boxer named “Tasha” initially published 2005. Derived from Sanger whole shotgun sequencing approach coupled with limited clone-based sequencing, initial assembly subsequent updates served as predominant resource canine genetics 15 years. While produced good-quality draft, all assemblies...
Insights into the evolution of non-model organisms are limited by lack reference genomes high accuracy, completeness, and contiguity. Here, we present a chromosome-level, karyotype-validated genome pangenome for barn swallow (Hirundo rustica). We complement these resources with reference-free multialignment other bird most comprehensive catalog genetic markers swallow. identify potentially conserved accelerated genes using estimate genome-wide linkage disequilibrium catalog. use to infer...
Abstract Apes possess two sex chromosomes—the male-specific Y and the X shared by males females. The chromosome is crucial for male reproduction, with deletions linked to infertility. carries genes vital reproduction cognition. Variation in mating patterns brain function among great apes suggests corresponding differences their structure evolution. However, due highly repetitive nature incomplete reference assemblies, ape chromosomes have been challenging study. Here, using state-of-the-art...
Societal Impact Statement Society anticipates a world in which more food and fiber must be produced at warmer temperatures, which, on the contrary, have greater constraints use of water fertilizers. Tree legumes are often climax vegetation semi‐arid arid lands, covering ~25% planet, but knowledge their genomes is limited. A draft genome sequence for Prosopis alba , salt heat tolerant tree that able to fix nitrogen under harsh conditions, yields new clues about its adaptations. Its rich...
Protein structure is commonly regarded to be conserved and dictate function. Most proteins rely on conformational flexibility some degree. Are regions that convey over evolutionary time? Can changes in alter protein function? Here, the dynamics of structurally ordered disordered (flexible) are investigated genome-wide flaviviruses, revealing amount location structural disorder fluctuates highly among related proteins. Some prone shift between structured flexible states. Increased observed...
Abstract The domestic dog has evolved to be an important biomedical model for studies regarding the genetic basis of disease, morphology and behavior. Genetic in have relied on a draft reference genome purebred female boxer named “Tasha” initially published 2005. Derived from Sanger whole shotgun sequencing approach coupled with limited clone-based sequencing, initial assembly subsequent updates served as predominant resource canine genetics 15 years. While produced good quality draft, all...
We report the construction and analysis of a new reference genome assembly for Rattus norvegicus , laboratory rat, widely used experimental animal model organism. The has been adopted as rat by Genome Reference Consortium is named GRCr8. employed 40× Pacific Biosciences (PacBio) HiFi sequencing coverage scaffolding using optical mapping Hi-C. genomic DNA from male BN/NHsdMcwi (BN) same strain colony prior assembly, mRatBN7.2. at chromosome level with 98.7% sequence assigned to chromosomes....
Abstract Sea turtles represent an ancient lineage of marine vertebrates that evolved from terrestrial ancestors over 100 MYA, yet the genomic basis unique physiological and ecological traits enabling these species to thrive in diverse habitats remains largely unknown. Additionally, many populations have drastically declined due anthropogenic activities past two centuries, their recovery is a high global conservation priority. We generated analyzed high-quality reference genomes for...
Despite high sequence identity among mammalian prion proteins (PrPs), mammals have varying rates of susceptibility to disease resulting in a so-called species barrier. The barrier follows no clear pattern, with closely related or similar sequences being more likely infect each other, and remains an unresolved enigma. Variation the conformationally flexible regions may alter thermodynamics conformational change, commonly referred as conversion, which occurs pathogenic process protein. A...
A fundamental assumption in biology is that protein structure more conserved than sequence. This opinion stems from observations of the fold distribution structures present data bank (PDB), where homologous proteins are found to display same fold. However, set PDB not representative sequence space. The predominant experimental method used for structural characterization X-ray crystallography. Thus, conformational flexibility lost and a static snapshot protein’s dynamic remains. Using...