Conservation and Management of Polytypic Species: The Little Striped Whiptail Complex (<i>Aspidoscelis inornata</i>) as a Case Study

Sullivan, Brian K.; Douglas, Michael E.; Walker, James M.; Cordes, James E.; Davis, Mark A.; Anthonysamy, Whitney J. B.; Sullivan, Keith O.

doi:10.1643/cg-13-140

Cited by 14 publications

(22 citation statements)

References 57 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Species represent the currency of biodiversity, and as such are focal points for conservation and management. Yet, they often lack those distinct demarcations expected of their categorization, 46 and represent instead mere waypoints along evolutionary pathways (Sullivan et al, 2014). Our capacity to discriminate is further confounded by an observed variance in intraspecific diversity 48 that also contributes to the difficulties in unambiguously defining taxonomic units.…”

mentioning

confidence: 98%

Defining Relictual Biodiversity: Conservation Units in Speckled Dace (Cyprinidae:Rhinichthys osculus) of the Greater Death Valley Ecosystem

Mussmann

Douglas

Oakey

2020

Preprint

Self Cite

View full text Add to dashboard Cite

22The tips in the tree of life serve as foci for conservation and management, yet clear delimitations are masked by inherent variance at the species-population interface. Analyses using thousands of 24 nuclear loci can potentially sort inconsistencies, yet standard categories applied to this parsing are themselves potentially conflicting and/or subjective [e.g., DPS (distinct population 26 segments); DUs (Diagnosable Units-Canada); MUs (management units); SSP (subspecies); Evolutionarily Significant Units (ESUs)]. One potential solution for consistent categorization is 28 to create a comparative framework by accumulating statistical results from independent studies and evaluating congruence among data sets. Our study illustrates this approach in speckled dace 30 (Cyprinidae: Rhinichthys osculus) endemic to two basins (Owens and Amargosa) in the Death Valley ecosystem (DVE). These fish persist in the Mojave Desert as isolated Pleistocene-relicts 32 and are of conservation concern, but lack formal taxonomic descriptions/designations. Doubledigest RAD (ddRAD) methods identified 14,355 SNP loci across 10 populations (N=140). 34Species delimitation analyses [multispecies coalescent (MSC) and unsupervised machine learning (UML)] delineated four putative ESUs. F ST outlier loci (N=106) were juxtaposed to 36 uncover the potential for localized adaptations. We detected one hybrid population that resulted from upstream reconnection of habitat following contemporary pluvial periods, whereas 38 remaining populations represent relics of ancient tectonism within geographically-isolated springs and groundwater-fed streams. Our study offers three salient conclusions: A blueprint for 40 a multi-faceted delimitation of conservation units; a proposed mechanism by which criteria for intraspecific biodiversity can be potentially standardized; and a strong argument for the proactive 42 management of critically-endangered DVE fishes.3

show abstract

mentioning

confidence: 98%

Defining Relictual Biodiversity: Conservation Units in Speckled Dace (Cyprinidae:Rhinichthys osculus) of the Greater Death Valley Ecosystem

Mussmann

Douglas

Oakey

2020

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

“…Since speciation is a gradual process with biodiversity elements scattered along its 418 continuum (Sullivan et al, 2014), potential incongruence would be expected when different species delimitation methods are employed. Introgression would further complicate this process, 420 yet its impacts on most species delimitation methods remain unknown, thus confounding any attempt to decipher results (Camargo et al, 2012).…”

Section: Discussionmentioning

confidence: 99%

“…For example, elevated lineage resolution (as above) has the propensity to re-ignite earlier debates regarding the over-splitting of species (Isaac et al, 2004;66 Sullivan et al, 2014). Not surprisingly, this process is rife with value judgments, one of which seemingly intuits that species defined by parsing previously identified biodiversity are more 68 problematic than those discovered de novo (Padial and de la Riva, 2006; Sullivan et al, 2014).…”

Section: | Introductionmentioning

confidence: 99%

Gene flow and species delimitation in fishes of Western North America: Flannelmouth (Catostomus latipinnis) and Bluehead sucker (C. Pantosteus discobolus)

Bangs

Douglas

Chafin

2019

Preprint

Self Cite

View full text Add to dashboard Cite

2The delimitation of species-boundaries, particularly those obscured by reticulation, is a critical step in contemporary biodiversity assessment. It is especially relevant for conservation and 4 management of indigenous fishes in western North America, represented herein by two species with dissimilar life-histories co-distributed in the highly modified Colorado River (i.e., 6Flannelmouth Sucker, Catostomus latipinnis; Bluehead Sucker, C. Pantosteus discobolus). To quantify phylogenomic patterns and examine proposed taxonomic revisions, we first employed 8 double-digest restriction-site associated DNA sequencing (ddRAD), yielding 39,755 unlinked SNPs across 139 samples. These were subsequently evaluated with multiple analytical 10 approaches and by contrasting life history data. Three phylogenetic methods and a Bayesian assignment test highlighted similar phylogenomic patterns in each, but with considerable 12 difference in presumed times of divergence. Three lineages were detected in Bluehead Sucker, supporting elevation of C. P. virescens to species-status, and recognizing C. P. discobolus 14 yarrowi (Zuni Bluehead Sucker) as a discrete entity. Admixture in the latter necessitated a reevaluation of its contemporary and historic distributions, underscoring how biodiversity 16 identification can be confounded by complex evolutionary histories. In addition, we defined three separate Flannelmouth Sucker lineages as ESUs (Evolutionarily Significant Units), given 18 limited phenotypic and genetic differentiation, contemporary isolation, and lack of concordance (per the genealogical concordance component of the phylogenetic species concept). Introgression 20 was diagnosed in both species, with the Little Colorado and Virgin rivers in particular. Our diagnostic methods, and the alignment of our SNPs with previous morphological, enzymatic, and 22 mitochondrial work, allowed us to partition complex evolutionary histories into requisite components, such as isolation versus secondary contact. 24 (ESUs), as reflected by their reduced phenotypic and genetic differentiation. They thus lack concordance under the genealogical component of the phylogenetic species concept. 596 ACKNOWLEDGEMENTS 598Numerous agencies contributed field expertise, specimens, technical assistance, collecting permits, funding or comments for the completion of this study. We are in debt to students, 600 postdoctorals, and faculty who contributed to the development of our research:

show abstract

“…Implicit in this language is the need to understand how biological diversity within species is partitioned across space (eg, within landscapes/riverscapes) to quantify divergence among those groups and, from this pattern, extrapolate recommendations for effective and adaptive management. Although establishing universal criteria for delineating such units remains contentious (eg, see the works of McElroy et al and Sullivan et al), recent molecular advances offer unprecedented resolution . The field of conservation genetics, borne of these molecular developments over the last several decades, is increasingly empowered by access to large‐scale data through advances in DNA sequencing technology .…”

Section: Demonstrations Of Utilitymentioning

confidence: 99%

Jetstream—Early operations performance, adoption, and impacts

Hancock

Stewart

Vaughn³

et al. 2018

Concurrency and Computation

View full text Add to dashboard Cite

Summary Jetstream is a first of its kind system for the NSF — a distributed production cloud resource. We review the purpose for creating Jetstream, discuss Jetstream's key characteristics, describe our experiences from the first year of maintaining an OpenStack‐based cloud environment, and share some of the early scientific impacts achieved by Jetstream users. Jetstream offers a unique capability within the XSEDE‐supported US national cyberinfrastructure, delivering interactive virtual machines (VMs) via the Atmosphere interface. As a multi‐region deployment that operates as an integrated system, Jetstream is proving effective in supporting modes and disciplines of research traditionally underrepresented on larger XSEDE‐supported clusters and supercomputers. Already, Jetstream has been used to perform research and education in biology, biochemistry, atmospheric science, earth science, and computer science.

show abstract

Conservation and Management of Polytypic Species: The Little Striped Whiptail Complex (Aspidoscelis inornata) as a Case Study

Cited by 14 publications

References 57 publications

Defining Relictual Biodiversity: Conservation Units in Speckled Dace (Cyprinidae:Rhinichthys osculus) of the Greater Death Valley Ecosystem

Defining Relictual Biodiversity: Conservation Units in Speckled Dace (Cyprinidae:Rhinichthys osculus) of the Greater Death Valley Ecosystem

Gene flow and species delimitation in fishes of Western North America: Flannelmouth (Catostomus latipinnis) and Bluehead sucker (C. Pantosteus discobolus)

Jetstream—Early operations performance, adoption, and impacts

Contact Info

Product

Resources

About