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List of works by H. Bradley Shaffer

A New Frog of the Genus Oreolalax (Pelobatidae) from Sichuan, China

scientific article published in 1993

A brief history of population genetic research in California and an evaluation of its utility for conservation decision-making

scientific article published in 2022

A global phylogeny of turtles reveals a burst of climate-associated diversification on continental margins ⬇️

scientific article published in 2021

A new species of leopard frog (Anura: Ranidae) from the urban northeastern US ⬇️

scientific article published on February 2, 2012

Adaptive evolution via a major gene effect: Paedomorphosis in the Mexican axolotl ⬇️

scientific article published on December 9, 1997

Advances in climate models from CMIP3 to CMIP5 do not change predictions of future habitat suitability for California reptiles and amphibians

article

Allele specific expression and gene regulation help explain transgressive thermal tolerance in non-native hybrids of the endangered California tiger salamander (Ambystoma californiense)

scientific article published on 18 December 2020

Allozyme Analysis of Delta Smelt, Hypomesus transpacificus and Longfin Smelt, Spirinchus thaleichthys in the Sacramento-San Joaquin Estuary, California

scientific article published on 3 May 1995

Amphibian molecular ecology and how it has informed conservation

scientific article published on 05 October 2015

Amphibian responses in the aftermath of extreme climate events

scientific article published on 25 February 2020

An amphibian chemical defense phenotype is inducible across life history stages.

scientific article published on 15 August 2017

An empirical pipeline for choosing the optimal clustering threshold in RADseq studies

scientific article published on 01 June 2019

Animal Evolution in Changing Environments with Special Reference to Abnormal Metamorphosis

scientific article published on 27 December 1989

Aquatic prey capture in ambystomatid salamanders: patterns of variation in muscle activity

scientific article published on 01 March 1985

Are Genomic Updates of Well-Studied Species Worth the Investment for Conservation? A Case Study of the Critically Endangered Magdalena River Turtle

scientific article published in 2021

Assessing concordance of fossil calibration points in molecular clock studies: an example using turtles.

scientific article

Assessing effects of non-native crayfish on mosquito survival

Assessing what is needed to resolve a molecular phylogeny: simulations and empirical data from emydid turtles

scientific article

Biosystematics of Ambystoma rosaceum and A. tigrinum in Northwestern Mexico

scientific article published on 10 February 1983

Calculating biologically accurate mitigation credits: insights from the California tiger salamander

scientific article published on 10 July 2008

Candidate gene analysis of metamorphic timing in ambystomatid salamanders

scientific article published in May 2003

Candidate gene analysis of thyroid hormone receptors in metamorphosing vs. nonmetamorphosing salamanders

scientific article published on 01 August 2000

Chelonian Antipredator Strategies: Preliminary and Comparative Data from Tanzanian Pelusios

scholarly article by Tim Caro & H. Bradley Shaffer published December 2010 in Chelonian Conservation and Biology

Conflicting mitochondrial and nuclear phylogenies for the widely disjunct Emys (Testudines: Emydidae) species complex, and what they tell us about biogeography and hybridization

scientific article published in February 2009

Conservation and genetics of the frosted flatwoods salamander (Ambystoma cingulatum) on the Atlantic coastal plain

article

Conservation genetics and genomics of amphibians and reptiles

scientific article published on 2 January 2015

Conservation genomics of the threatened western spadefoot, Spea hammondii, in urbanized southern California

scientific article published on 27 November 2020

Cryptic diversity in metropolis: confirmation of a new leopard frog species (Anura: Ranidae) from New York City and surrounding Atlantic coast regions

scientific article published on 29 October 2014

DECLINES OF THE CALIFORNIA RED-LEGGED FROG: CLIMATE, UV-B, HABITAT, AND PESTICIDES HYPOTHESES

article by Carlos Davidson et al published April 2001 in Ecological Applications

Delayed life history effects, multilevel selection, and evolutionary trade-offs in the California tiger salamander

scientific article published on January 2014

Delimiting species in recent radiations

scientific article

Developing markers for multilocus phylogenetics in non-model organisms: A test case with turtles

scientific article

Distribution and Abundance of Invasive Red-Eared Sliders (Trachemys scripta elegans) in California's Sacramento River Basin and Possible Impacts on Native Western Pond Turtles (Emys marmorata)

article

Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories

scientific article published in 2023

Do Ecological Niche Models Accurately Identify Climatic Determinants of Species Ranges?

scientific article

EVOLUTION IN A PAEDOMORPHIC LINEAGE. I. AN ELECTROPHORETIC ANALYSIS OF THE MEXICAN AMBYSTOMATID SALAMANDERS

scientific article published on 01 November 1984

EVOLUTION IN A PAEDOMORPHIC LINEAGE. II. ALLOMETRY AND FORM IN THE MEXICAN AMBYSTOMATID SALAMANDERS

scientific article published on 01 November 1984

Ecological equivalency as a tool for endangered species management

scientific article

Ecological structure of a herpetological assemblage in South India

scientific article (publication date: 1987)

Effective population size is strongly correlated with breeding pond size in the endangered California tiger salamander, Ambystoma californiense

Effects of chytrid and carbaryl exposure on survival, growth and skin peptide defenses in foothill yellow-legged frogs

scientific article

Efficient screening for ‘genetic pollution’ in an anthropogenic crested newt hybrid zone

article by Ben Wielstra et al published 30 July 2016 in Conservation Genetics Resources

Environment-dependent admixture dynamics in a tiger salamander hybrid zone

scientific article published on 01 June 2004

Evolutionary genetics of metamorphic failure using wild-caught vs. laboratory axolotls (Ambystoma mexicanum).

scientific article published in September 2000

Exon capture optimization in amphibians with large genomes.

scientific article

Field body temperatures of tropical and temperature zone salamanders ⬇️

Follow-up ecological studies for cryptic species discoveries: Decrypting the leopard frogs of the eastern U.S

scientific article published in PLoS ONE

Fourteen nuclear genes provide phylogenetic resolution for difficult nodes in the turtle tree of life

scientific article published on 12 November 2009

Functional morphology of the feeding mechanism in aquatic ambystomatid salamanders.

scientific article published in September 1985

Genome-wide SNP markers breathe new life into phylogeography and species delimitation for the problematic short-necked turtles (Chelidae: Emydura) of eastern Australia

article

Genomewide SNP markers breathe new life into phylogeography and species delimitation for the problematic short‐necked turtles (Chelidae: Emydura ) of eastern Australia

article

Genomic data recover previously undetectable fragmentation effects in an endangered amphibian

article

Genotype and temperature affect locomotor performance in a tiger salamander hybrid swarm

scientific article published in 2010

HYBRIDIZATION BETWEEN A RARE, NATIVE TIGER SALAMANDER (AMBYSTOMA CALIFORNIENSE) AND ITS INTRODUCED CONGENER

scientific article published in 2003

Habitat Features Determine the Basking Distribution of Introduced Red-Eared Sliders and Native Western Pond Turtles

article

Historical museum collections and contemporary population studies implicate roads and introduced predatory bullfrogs in the decline of western pond turtles ⬇️

scientific article published on 12 June 2020

Hybrid vigor between native and introduced salamanders raises new challenges for conservation

scholarly article

Hybridization and endangered species protection in the molecular era.

scientific article

Incorporating model complexity and spatial sampling bias into ecological niche models of climate change risks faced by 90 California vertebrate species of concern

article

Individual fluctuations in toxin levels affect breeding site fidelity in a chemically defended amphibian

scientific article published in May 2016

Individual heterozygosity predicts translocation success in threatened desert tortoises

scientific article published on 01 November 2020

Introduction history and habitat variation explain the landscape genetics of hybrid tiger salamanders

scientific article published in March 2007

Landscape genetics and least-cost path analysis reveal unexpected dispersal routes in the California tiger salamander (Ambystoma californiense).

scientific article

Landscape genetics of alpine Sierra Nevada salamanders reveal extreme population subdivision in space and time

scientific article

Landscape genomic signatures indicate reduced gene flow and forest-associated adaptive divergence in an endangered neotropical turtle

scientific article published on 26 June 2019

Large, rapidly evolving intergenic spacers in the mitochondrial DNA of the salamander family Ambystomatidae (Amphibia: Caudata) ⬇️

scientific article published on November 1, 1997

Lethal effects of water quality on threatened California salamanders but not on co-occurring hybrid salamanders

scientific article

Life History and Demographic Variation in the California Tiger Salamander (Ambystoma californiense)

scientific article published in May 2000

Misleading phylogenetic inferences based on single-exemplar sampling in the turtle genus Pseudemys

scientific article published on 12 April 2013

Model Organisms in Evolutionary Studies

article

Molecular phylogenetics and evolution of turtles

scientific article published in October 2005

Molecular phylogeny and divergence of the Map Turtles (Emydidae: Graptemys).

scientific article published on 11 December 2017

Molecular systematics, phylogeography, and the effects of Pleistocene glaciation in the painted turtle (Chrysemys picta) complex

scientific article

Morphological variation and ecological distribution of co-occurring larval forms of Oreolalax (Anura: Pelobatidae)

Multilocus phylogeny of the New-World mud turtles (Kinosternidae) supports the traditional classification of the group

scientific article

Multiple data sets, high homoplasy, and the phylogeny of softshell turtles (Testudines: Trionychidae).

scientific article

Multiple nuclear gene sequences identify phylogenetic species boundaries in the rapidly radiating clade of Mexican ambystomatid salamanders

scientific article published in August 2006

Multiple sources of uncertainty affect metrics for ranking conservation risk under climate change

article

Nuclear gene phylogeography reveals the historical legacy of an ancient inland sea on lineages of the western pond turtle, Emys marmorata in California

scientific article

Occurrence of Batrachochytrium dendrobatidis in anurans of the Mediterranean region of Baja California, México

scientific article published in March 2018

Ontogeny of functional design in tiger salamanders (Ambystoma tigrinum): Are motor patterns conserved during major morphological transformations?

scientific article published on 01 September 1988

PATTERNS OF VARIATION IN AQUATIC AMBYSTOMATID SALAMANDERS: KINEMATICS OF THE FEEDING MECHANISM

scientific article published on 01 January 1985

Parallel tagged amplicon sequencing reveals major lineages and phylogenetic structure in the North American tiger salamander (Ambystoma tigrinum) species complex

scientific article published on 12 October 2012

Phylogenetic Uncertainty and Taxonomic Re-revisions: An Example from the Australian Short-necked Turtles (Testudines: Chelidae)

article

Phylogenetic hypotheses for the turtle family Geoemydidae

scientific article

Phylogenomic analyses of 539 highly informative loci dates a fully resolved time tree for the major clades of living turtles (Testudines).

scientific article

Phylogenomics of the adaptive radiation of Triturus newts supports gradual ecological niche expansion towards an incrementally aquatic lifestyle

Phylogenomics of the adaptive radiation of Triturus newts supports gradual ecological niche expansion towards an incrementally aquatic lifestyle

scientific article published on 07 January 2019

Phylogeny and temporal diversification of the New World pond turtles (Emydidae).

scientific article published on 8 July 2016

Phylogeographic concordance in the southeastern United States: the flatwoods salamander, Ambystoma cingulatum, as a test case.

scientific article

Population genetic and field-ecological analyses return similar estimates of dispersal over space and time in an endangered amphibian.

scientific article

Population genomic data reveal extreme geographic subdivision and novel conservation actions for the declining foothill yellow-legged frog

scientific article published on 25 June 2018

Range-wide molecular analysis of the western pond turtle (Emys marmorata): cryptic variation, isolation by distance, and their conservation implications

scientific article published in June 2005

Rapid color evolution in an aposematic species: a phylogenetic analysis of color variation in the strikingly polymorphic strawberry poison-dart frog

scientific article

Rapid fixation of non-native alleles revealed by genome-wide SNP analysis of hybrid tiger salamanders ⬇️

scientific article

Rapid progress on the vertebrate tree of life

scientific article

Rapid spread of invasive genes into a threatened native species ⬇️

scientific article

Reference Genome of the Black Surfperch, <i>Embiotoca jacksoni</i> (Embiotocidae, Perciformes), a California Kelp Forest Fish That Lacks a Pelagic Larval Stage

scientific article published in 2022

Reference Genome of the California Sheephead, <i>Semicossyphus pulcher</i> (Labridae, Perciformes), A Keystone Fish Predator in Kelp Forest Ecosystems

scientific article published in 2022

Reference genome of the color polymorphic desert annual plant sandblossoms, <i>Linanthus parryae</i>

scientific article published in 2022

Relative Predation Pressure on Salamanders (Caudata: Plethodontidae) along an Altitudinal Transect in Guatemala

scientific article published on 5 May 1978

Reptiles of Katavi National Park, western Tanzania, are from different biomes

scientific article published in 2011

Retention of low-fitness genotypes over six decades of admixture between native and introduced tiger salamanders

scientific article

Short pond hydroperiod decreases fitness of nonnative hybrid salamanders in California

Sonographic diagnosis of a liver cell adenoma

scientific article published on 01 March 1986

Sparse supermatrices for phylogenetic inference: taxonomy, alignment, rogue taxa, and the phylogeny of living turtles

scientific article

Species boundaries and phylogenetic relationships in the critically endangered Asian box turtle genus Cuora.

scientific article

Species boundaries, phylogeography and conservation genetics of the red-legged frog (Rana aurora/draytonii) complex.

scientific article published in September 2004

Species limits and phylogeography of North American cricket frogs (Acris: Hylidae).

scientific article

Survival of the western pond turtle (Emys marmorata) in an urban California environment

article

THE EFFECTS OF KIN-STRUCTURED COLONIZATION ON NUCLEAR AND CYTOPLASMIC GENETIC DIVERSITY.

scientific article published on August 1994

THE POLYTYPIC SPECIES REVISITED: GENETIC DIFFERENTIATION AND MOLECULAR PHYLOGENETICS OF THE TIGER SALAMANDER AMBYSTOMA TIGRINUM (AMPHIBIA: CAUDATA) COMPLEX.

scientific article published on February 1996

Testing avian, squamate, and mammalian nuclear markers for cross amplification in turtles

article

Tests of turtle phylogeny: molecular, morphological, and paleontological approaches

scientific article published in June 1997

The Consequences of Metamorphosis on Salamander (Ambystoma) Locomotor Performance

The Decline of Amphibians in California's Great Central Valley

article

The Polytypic Species Revisited: Morphological Differentiation among Tiger Salamanders (Ambystoma tigrinum) (Amphibia: Caudata)

The Relationship between Allozyme Variation and Life History: Non-Transforming Salamanders Are Less Variable

scientific article published on 27 December 1989

The advantages of going large: genome-wide SNPs clarify the complex population history and systematics of the threatened western pond turtle.

scientific article

The genetics of amphibian declines: population substructure and molecular differentiation in the yosemite toad, Bufo canorus (Anura, bufonidae) based on single-strand conformation polymorphism analysis (SSCP) and mitochondrial DNA sequence data

scientific article

The influence of locus number and information content on species delimitation: an empirical test case in an endangered Mexican salamander

scientific article published on 17 October 2016

The molecular phylogenetics of endangerment: cryptic variation and historical phylogeography of the California tiger salamander, Ambystoma californiense.

scientific article

The origin of tiger salamander (Ambystoma tigrinum) populations in California, Oregon, and Nevada: introductions or relicts?

article

The role of natural history collections in documenting species declines ⬇️

scientific article published on January 1, 1998

The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.

scientific article

Thyroid hormone responsive QTL and the evolution of paedomorphic salamanders ⬇️

scientific article published on August 1, 2012

Turtle Extinctions Working Group ⬇️

Turtles and Tortoises of the World During the Rise and Global Spread of Humanity: First Checklist and Review of Extinct Pleistocene and Holocene Chelonians

Turtle phylogeny: insights from a novel nuclear intron

scientific article

Turtles and Tortoises Are in Trouble

scientific article published on 01 June 2020

Turtles of the World, 2012 Update: Annotated Checklist of Taxonomy, Synonymy, Distribution, and Conservation Status

article

Turtles of the World, 7th Edition

Annotated Checklist of Taxonomy, Synonymy, Distribution with Maps, and Conservation Status

Turtles of the World: Annotated Checklist and Atlas of Taxonomy, Synonymy, Distribution, and Conservation Status (8th Ed.) ⬇️

Western pond turtles in the Mojave Desert? A review of their past, present, and possible future

scientific article

What insights into the developmental traits of urodeles does the study of interspecific hybrids provide?

scientific article published on August 1996

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