Gregory Gedman
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View article: Rapid Derivation of Cloning-Competent Cells from Peripheral Blood Advances Conservation Biobanking
Rapid Derivation of Cloning-Competent Cells from Peripheral Blood Advances Conservation Biobanking Open
I. Abstract Establishing viable cell lines from endangered species is essential for conservation, yet traditional fibroblast derivation from skin biopsies faces challenges including variable success rates, contamination risk, and extended …
View article: Insights into Convergent Evolution From Studying Amino Acid Patterns in Independent Lineages of Birds
Insights into Convergent Evolution From Studying Amino Acid Patterns in Independent Lineages of Birds Open
Vocal learning, the ability to imitate sounds, is a complex convergent trait crucial for spoken language and observed in a few independent lineages of mammals and birds. While convergences in gene expression have been found in vocal learni…
View article: Chromosome-level echidna genome illuminates evolution of multiple sex chromosome system in monotremes
Chromosome-level echidna genome illuminates evolution of multiple sex chromosome system in monotremes Open
Background A thorough analysis of genome evolution is fundamental for biodiversity understanding. The iconic monotremes (platypus and echidna) feature extraordinary biology. However, they also exhibit rearrangements in several chromosomes,…
View article: Pronounced early differentiation underlies zebra finch gonadal germ cell development
Pronounced early differentiation underlies zebra finch gonadal germ cell development Open
The diversity of germ cell developmental strategies has been well documented across many vertebrate clades. However, much of our understanding of avian primordial germ cell (PGC) specification and differentiation has derived from only one …
View article: Pronounced early differentiation underlies zebra finch gonadal germ cell development
Pronounced early differentiation underlies zebra finch gonadal germ cell development Open
The diversity of germ cell developmental strategies has been well documented across many vertebrate clades. However, much of our understanding of avian primordial germ cell (PGC) specification and differentiation has derived from only one …
View article: tfboot: Bootstrapping and statistical analysis for transcription factor binding site-disrupting variants in gene sets
tfboot: Bootstrapping and statistical analysis for transcription factor binding site-disrupting variants in gene sets Open
Motivation Genetic variants in noncoding regions can drive changes in phenotype disrupting transcription factor binding site (TFBS) motifs. Other tools including motifbreakR have been developed to assess the impact of TFBS-disrupting varia…
View article: Convergent gene expression highlights shared vocal motor microcircuitry in songbirds and humans
Convergent gene expression highlights shared vocal motor microcircuitry in songbirds and humans Open
Vocal learning is a skilled motor behavior observed in several mammalian and avian species and is critical for human speech. While convergent gene expression patterns have highlighted similar primary motor and striatal pathways for vocal i…
View article: Universal nomenclature for oxytocin–vasotocin ligand and receptor families
Universal nomenclature for oxytocin–vasotocin ligand and receptor families Open
Oxytocin (OXT; hereafter OT) and arginine vasopressin or vasotocin (AVP or VT; hereafter VT) are neurotransmitter ligands that function through specific receptors to control diverse functions 1,2 . Here we performed genomic analyses on 35 …
View article: As above, so below: Whole transcriptome profiling demonstrates strong molecular similarities between avian dorsal and ventral pallial subdivisions
As above, so below: Whole transcriptome profiling demonstrates strong molecular similarities between avian dorsal and ventral pallial subdivisions Open
Over the last two decades, beginning with the Avian Brain Nomenclature Forum in 2000, major revisions have been made to our understanding of the organization and nomenclature of the avian brain. However, there are still unresolved question…
View article: As above, so below: Whole transcriptome profiling supports the continuum hypothesis of avian dorsal and ventral pallium organization
As above, so below: Whole transcriptome profiling supports the continuum hypothesis of avian dorsal and ventral pallium organization Open
Over the last two decades, beginning with the Avian Brain Nomenclature Forum in 2000, major revisions have been made to our understanding of the organization and nomenclature of the avian brain. However, there are still unresolved question…
View article: Rules of amino acid convergence: Not how many, but who in avian vocal learning clades
Rules of amino acid convergence: Not how many, but who in avian vocal learning clades Open
Single amino acid variants (SAVs) may provide clues to understanding evolution of traits. A complex trait that has evolved convergently among species is vocal learning, the rare ability to imitate sounds heard and an important component of…
View article: Towards complete and error-free genome assemblies of all vertebrate species
Towards complete and error-free genome assemblies of all vertebrate species Open
High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are only available for a few non-microbial species 1–4 . To …
View article: <i>De novo</i> PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads
<i>De novo</i> PacBio long-read and phased avian genome assemblies correct and add to reference genes generated with intermediate and short reads Open
Reference-quality genomes are expected to provide a resource for studying gene structure, function, and evolution. However, often genes of interest are not completely or accurately assembled, leading to unknown errors in analyses or additi…
View article: <i>De Novo</i>PacBio long-read and phased avian genome assemblies correct and add to genes important in neuroscience research
<i>De Novo</i>PacBio long-read and phased avian genome assemblies correct and add to genes important in neuroscience research Open
Reference quality genomes are expected to provide a resource for studying gene structure and function. However, often genes of interest are not completely or accurately assembled, leading to unknown errors in analyses or additional cloning…