Works (12)
Updated: September 1st, 2023 05:00
2023 article
A chromosome-level genome assembly of longnose gar, Lepisosteus osseus
Mallik, R., Carlson, K. B., Wcisel, D. J., Fisk, M., Yoder, J. A., & Dornburg, A. (2023, April 29). (N. Whiteman, Ed.). G3-GENES GENOMES GENETICS, Vol. 4.
Ed(s): N. Whiteman
author keywords: teleost genome duplication; holostei; longnose gar; chromosome level assembly; living fossil; transposable elements
MeSH headings : Humans; Animals; Evolution, Molecular; Fishes / genetics; Genome; Chromosomes / genetics; Phylogeny
TL;DR:
The first high quality reference genome assembly and annotation of the longnose gar (Lepisosteus osseus) is reported, highlighting the potential utility of holostean genomes for understanding the evolution of vertebrate repetitive elements and providing a critical reference for comparative genomic studies utilizing ray-finned fish models.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID
Added: June 12, 2023
2023 article
Ancient fish lineages illuminate toll-like receptor diversification in early vertebrate evolution
Carlson, K. B., Nguyen, C., Wcisel, D. J., Yoder, J. A., & Dornburg, A. (2023, August 9). IMMUNOGENETICS, Vol. 8.
author keywords: Vertebrate; TLR; Immunogenetics; Evolution; Actinopterygii; Polypterus senegalus
TL;DR:
This work investigates the diversification of vertebrate Toll-like receptors (TLRs), one of the most ancient and well conserved innate immune receptor families found across the Tree of Life, integrating genomic data that represent all major vertebrate lineages with new transcriptomic data from Polypteriformes, the earliest diverging ray-finned fish lineage.
(via Semantic Scholar)
doi.org (repository)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID
Added: August 28, 2023
2022 article
A highly diverse set of novel immunoglobulin-like transcript (NILT) genes in zebrafish indicates a wide range of functions with complex relationships to mammalian receptors
Wcisel, D. J., Dornburg, A., McConnell, S. C., Hernandez, K. M., Andrade, J., Jong, J. L. O., … Yoder, J. A. (2022, July 23). IMMUNOGENETICS, Vol. 7.
author keywords: Innate immunity; Gene content variation; Alternative immune haplotypes; Gene family evolution; Mammalian CD300 (CMRF35); Mammalian NCR2 (NKp44)
MeSH headings : Animals; Zebrafish / genetics; Amino Acid Sequence; Receptors, Immunologic / genetics; Genome / genetics; Immunoglobulins / genetics; Phylogeny; Mammals / genetics
TL;DR:
A higher level of genetic complexity, interindividual variation, and sequence diversity for NILTs than previously described is revealed, suggesting that this gene family likely plays multiple roles in host immunity.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID
Added: July 23, 2022
2022 article
Transcriptome annotation reveals minimal immunogenetic diversity among Wyoming toads, Anaxyrus baxteri
Carlson, K. B., Wcisel, D. J., Ackerman, H. D., Romanet, J., Christiansen, E. F., Niemuth, J. N., … Yoder, J. A. (2022, April 28). CONSERVATION GENETICS, Vol. 4.
author keywords: Amphibian; Bufonidae; Immunogenetics; MHC; TLR; Transcriptomics
TL;DR:
Comparison transcriptomics is used to examine the diversity of toll-like receptors and major histocompatibility complex sequences across three individual Wyoming toads and finds reduced diversity at MHC genes compared to bufonid species with a similar history of bottleneck events.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: April 29, 2022
2021 journal article
Single-minded 2 is required for left-right asymmetric stomach morphogenesis
DEVELOPMENT, 148(17).
author keywords: right asymmetry; Stomach; Morphogenesis; Pitx2; Sim2; Down syndrome; Frog
MeSH headings : Animals; Anura; Basic Helix-Loop-Helix Transcription Factors / genetics; Basic Helix-Loop-Helix Transcription Factors / metabolism; Body Patterning; Embryo, Nonmammalian; Endoderm / embryology; Endoderm / metabolism; Gene Expression Regulation, Developmental; Homeodomain Proteins / genetics; Homeodomain Proteins / metabolism; Morphogenesis; Stomach / embryology; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR:
It is demonstrated that sim2 functions downstream of LR patterning cues to regulate key cellular properties and behaviors in the left stomach epithelium that drive asymmetric curvature, and has implications for dose-dependent roles of laterality factors in non-laterality-related birth defects.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: September 27, 2021
2021 article
The bowfin genome illuminates the developmental evolution of ray-finned fishes
Thompson, A. W., Hawkins, M. B., Parey, E., Wcisel, D. J., Ota, T., Kawasaki, K., … Braasch, I. (2021, August 30). NATURE GENETICS, Vol. 8.
MeSH headings : Animals; Biological Evolution; Chromatin / genetics; Evolution, Molecular; Fishes; Genome / genetics; Skates, Fish / genetics; Skates, Fish / immunology; Skates, Fish / physiology; Whole Genome Sequencing
TL;DR:
A chromosome-level genome assembly for bowfin is presented that enables gene-order analyses, settling long-debated neopterygian phylogenetic relationships and investigates the evolution of immune, scale, respiratory and fin skeletal systems and identifies hundreds of gene-regulatory loci conserved across vertebrates.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID
Added: September 7, 2021
2017 journal article
Spotted Gar and the Evolution of Innate Immune Receptors
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 328(7), 666–684.
MeSH headings : Amino Acid Sequence; Animals; Biological Evolution; Fishes / genetics; Fishes / immunology; Gene Expression Regulation / immunology; Immunity, Innate / genetics; Immunity, Innate / physiology
TL;DR:
It appears that both the total genome duplication and different patterns of genetic selection have influenced the derivation and stabilization of innate immune genes in a substantial manner during the course of vertebrate evolution.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2016 journal article
Alternative haplotypes of antigen processing genes in zebrafish diverged early in vertebrate evolution
Proceedings of the National Academy of Sciences, 113(34), E5014–E5023.
author keywords: comparative genomics; proteasome and TAP evolution; major histocompatibility; MHC class I pathway; CG2 clonal zebrafish
MeSH headings : Animals; Antigen Presentation; Biological Evolution; Cloning, Organism; Cysteine Endopeptidases / classification; Cysteine Endopeptidases / genetics; Cysteine Endopeptidases / immunology; Genome; Haplotypes; High-Throughput Nucleotide Sequencing; Histocompatibility Antigens Class I / classification; Histocompatibility Antigens Class I / genetics; Histocompatibility Antigens Class I / immunology; Phylogeny; Proteasome Endopeptidase Complex / genetics; Proteasome Endopeptidase Complex / immunology; Protein Isoforms / classification; Protein Isoforms / genetics; Protein Isoforms / immunology; Transcriptome; Zebrafish / classification; Zebrafish / genetics; Zebrafish / immunology; Zebrafish Proteins / classification; Zebrafish Proteins / genetics; Zebrafish Proteins / immunology
TL;DR:
Comparison analysis shows that antigen processing gene diversity is far more extensive than previously realized, implying distinct immune functions and conserved roles in shaping MHC pathway evolution throughout vertebrates.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2016 journal article
The confounding complexity of innate immune receptors within and between teleost species
Fish & Shellfish Immunology, 53, 24–34.
author keywords: Gene content haplotype; Novel immune-type receptors; Diverse immunoglobulin domain containing proteins; Polymeric immunoglobulin receptor-like proteins; Novel immunoglobulin-like transcripts
MeSH headings : Animals; Fishes / genetics; Fishes / immunology; Genetic Variation; Genome; Immunity, Innate; Receptors, Immunologic / genetics
TL;DR:
By defining which teleost lineages encode (and do not encode) different IIir families, predictions can be made about the presence (or absence) of specific IIIR families in each teleost lineage.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2016 journal article
The identification of additional zebrafish DICP genes reveals haplotype variation and linkage to MHC class I genes
Immunogenetics, 68(4), 295–312.
author keywords: Innate immunity; Immunoglobulin domain; Haplotype; Polymorphism; Immune receptor
MeSH headings : Animals; Gene Expression Regulation, Developmental; Genes, MHC Class I / genetics; Genes, MHC Class I / immunology; Genetic Linkage; Haplotypes; Immunity, Innate; Immunoglobulins / genetics; Lipids / genetics; Receptors, Immunologic / genetics; Receptors, Immunologic / immunology; Zebrafish / genetics; Zebrafish / growth & development; Zebrafish / immunology; Zebrafish Proteins / genetics; Zebrafish Proteins / immunology
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
2016 journal article
The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons
Nature Genetics, 48(4), 427–437.
MeSH headings : Animals; Evolution, Molecular; Female; Fishes / genetics; Fishes / metabolism; Genome; Humans; Karyotype; Models, Genetic; Organ Specificity; Sequence Analysis, DNA; Transcriptome
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: NC State University Libraries, ORCID, Crossref
Added: August 6, 2018
2014 journal article
Multigene families of immunoglobulin domain-containing innate immune receptors in zebrafish: Deciphering the differences
Developmental & Comparative Immunology, 46(1), 24–34.
author keywords: Novel immune-type receptors; Diverse immunoglobulin domain containing proteins; Polymeric immunoglobulin receptor-like proteins; Novel immunoglobulin-like transcripts; Leukocyte immune-type receptors
MeSH headings : Animals; Haplotypes; Receptors, Immunologic / chemistry; Receptors, Immunologic / genetics; Receptors, Immunologic / immunology; Zebrafish / genetics; Zebrafish / immunology; Zebrafish Proteins / chemistry; Zebrafish Proteins / genetics; Zebrafish Proteins / immunology
TL;DR:
Five large multigene families encoding innate-type immune receptors that are comprised of immunoglobulin domains have been identified in bony fish, of which four do not possess definable mammalian orthologs.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
14. Life Below Water
(OpenAlex)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018
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