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Melanie Culver

Publications and source records attributed to Melanie Culver.

45 records · Page 3Linked to original sources

Anatomical and genetic variation of western Oxyloma (Pulmonata: Succineidae) concerning the endangered Kanab ambersnail ( Oxyloma haydeni kanabense ) in Arizona and Utah

The land snail genus Oxyloma (Pulmonata: Succineidae) includes the Federally endangered Kanab ambersnail (Oxyloma haydeni kanabense Pilsbry), which is known at the time of this study from only two locations in the United States: Three Lakes, Utah, and Vaseys Paradise, Arizona, on the Colorado River in Grand Canyon National Park. Since 1994, the Kanab ambersnail has received much attention because its presence at Vaseys Paradise has implications for the ecosystem-wide management of the Colorado River. This attention is primarily because an experimental high-flow release of water from Glen Canyon Dam in 1996 destroyed or degraded Kanab ambersnail habitat at Vaseys Paradise. This experimental high flow was designed to replicate natural flow regimes throughout the Grand Canyon river corridor. However, as a result of the habitat destruction at Vaseys Paradise, in 1996, the U.S. Fish and Wildlife Service ruled that no further experimental high-discharge floods could be carried out until additional Kanab ambersnail populations were discovered or established. This mandate created a situation where the management of a single endangered species conflicted directly with the management of an entire ecosystem. Although since 1996, the U.S. Fish and Wildlife Service has permitted the use of flows as high as stage heights equivalent to 44,000 cubic feet per second, higher flows were requested by various Grand Canyon stakeholders and scientists but were not possible owing to low storage of Lake Powell. Adding to the controversy about Oxyloma and the Kanab ambersnail were previous anatomical and genetic analyses of the genus, which showed that genetic characteristics of specimens did not correspond with their identifications based on traditional taxonomic criteria, raising questions about the validity of the taxonomy of Oxyloma and the protected status of Kanab ambersnails. Specifically, a previous study suggested that the endangered Kanab ambersnail population at Three Lakes was more closely related to other, non-endangered ambersnail populations across the Southwest. In contrast, the Kanab ambersnail population at Vaseys Paradise appeared to be genetically distinct from all other ambersnail populations studied. Management options for the ambersnail population at Vaseys Paradise, at the time of this study, conflict with ecosystem-wide measures proposed to benefit other natural resources in the Grand Canyon. The U.S. Fish and Wildlife Service will not revise the 1995 Kanab Ambersnail Recovery Plan until further genetic and anatomical analyses provide more fine-scale taxonomic resolution of the identity of Oxyloma populations on the Colorado Plateau and elsewhere in the American Southwest. Likewise, interagency cooperators cannot revise down-listing criteria for the Kanab ambersnail until substantial evidence is provided identifying distinct Oxyloma taxa or a larger group of conspecifics that reasonably could be managed as one species. Therefore, given the current controversy about the taxonomy of Oxyloma and the endangered Kanab ambersnail, new detailed analyses were completed of morphological and genetic variation from many Oxyloma specimens collected at 12 western North American locations. These new data have allowed us to evaluate many issues related to Kanab ambersnail taxonomy. Using this dataset, the study of shells and anatomy indicates that the holotype of Oxyloma haydeni kanabense plausibly can be regarded as a member of the same species as the populations of Oxyloma analyzed in this study. Additionally, the presence of gene flow among all populations is evidence that they are members of the same species. Almost all the observed genetic diversity can be accounted for by short-distance or long-distance dispersal events between populations in this study. Our major taxonomic conclusion is that all samples collected for this study were drawn from populations of the same species.

Arizona;Utah

New microsatellite loci isolated via next-generation sequencing for two endangered pronghorn from the Sonoran Desert

We isolated 16 novel microsatellite loci in two subspecies of endangered desert pronghorns (Antilocapra americana sonoriensis and Antilocapra americana peninsularis) using a shotgun pyrosequencing approach. All and 87.5 % of the loci were polymorphic within each subspecies, respectively. The mean number of alleles per locus was 4.86 (range 2–8) and 2.5 alleles per locus (range 1–4 alleles), and observed heterozygosity ranged from 0.13 to 0.78 (mean 0.48) and 0.00 to 0.61 (mean 0.31), respectively. We did not find significant linkage disequilibrium among loci pairs and only one locus deviated significantly from Hardy–Weinberg equilibrium in peninsularis.

Conservation Genetics Resources

Concurrent speciation in the eastern woodland salamanders (Genus Plethodon):DNA sequences of the complete albumin nuclear and partialmitochondrial 12s genes

Salamanders of the North American plethodontid genus Plethodon are important model organisms in a variety of studies that depend on a phylogenetic framework (e.g., chemical communication, ecological competition, life histories, hybridization, and speciation), and consequently their systematics has been intensively investigated over several decades. Nevertheless, we lack a synthesis of relationships among the species. In the analyses reported here we use new DNA sequence data from the complete nuclear albumin gene (1818 bp) and the 12s mitochondrial gene (355 bp), as well as published data for four other genes (Wiens et al., 2006), up to a total of 6989 bp, to infer relationships. We relate these results to past systematic work based on morphology, allozymes, and DNA sequences. Although basal relationships show a strong consensus across studies, many terminal relationships remain in flux despite substantial sequencing and other molecular and morphological studies. This systematic instability appears to be a consequence of contemporaneous bursts of speciation in the late Miocene and Pliocene, yielding many closely related extant species in each of the four eastern species groups. Therefore we conclude that many relationships are likely to remain poorly resolved in the face of additional sequencing efforts. On the other hand, the current classification of the 45 eastern species into four species groups is supported. The Plethodon cinereus group (10 species) is the sister group to the clade comprising the other three groups, but these latter groups (Plethodon glutinosus [28 species], Plethodon welleri [5 species], and Plethodon wehrlei [2 species]) probably diverged from each other at approximately the same time.

Molecular Phylogenetics and Evolution

Novel primers for complete mitochondrial cytochrome b genesequencing in mammals

Sequence-based species identification relies on the extent and integrity of sequence data available in online databases such as GenBank. When identifying species from a sample of unknown origin, partial DNA sequences obtained from the sample are aligned against existing sequences in databases. When the sequence from the matching species is not present in the database, high-scoring alignments with closely related sequences might produce unreliable results on species identity. For species identification in mammals, the cytochrome b (cyt b ) gene has been identified to be highly informative; thus, large amounts of reference sequence data from the cyt b gene are much needed. To enhance availability of cyt b gene sequence data on a large number of mammalian species in GenBank and other such publicly accessible online databases, we identified a primer pair for complete cyt b gene sequencing in mammals. Using this primer pair, we successfully PCR amplified and sequenced the complete cyt b gene from 40 of 44 mammalian species representing 10 orders of mammals. We submitted 40 complete, correctly annotated, cyt b protein coding sequences to GenBank. To our knowledge, this is the first single primer pair to amplify the complete cyt b gene in a broad range of mammalian species. This primer pair can be used for the addition of new cyt b gene sequences and to enhance data available on species represented in GenBank. The availability of novel and complete gene sequences as high-quality reference data can improve the reliability of sequence-based species identification.

Molecular Ecology Resources

Spatial and temporal interactions of sympatric mountain lions in Arizona

Spatial and temporal interactions among individual members of populations can have direct applications to habitat management of mountain lions ( Puma concolor ). Our objectives were to evaluate home range overlap and spatial/temporal use of overlap zones (OZ) of mountain lions in Arizona. We incorporated spatial data with genetic analyses to assess relatedness between mountain lions with overlapping home ranges. We recorded the space use patterns of 29 radio-collared mountain lions in Arizona from August 2005 to August 2008. We genotyped 28 mountain lions and estimated the degree of relatedness among individuals. For 26 pairs of temporally overlapping mountain lions, 18 overlapped spatially and temporally and eight had corresponding genetic information. Home range overlap ranged from 1.18% to 46.38% (x̄=2443, SE = 2.96). Male–male pairs were located within 1 km of each other on average, 0.04% of the time, whereas male–female pairs on average were 3.0%. Two male–male pairs exhibited symmetrical spatial avoidance and two symmetrical spatial attractions to the OZ. We observed simultaneous temporal attraction in three male–male pairs and four male–female pairs. Individuals from Tucson were slightly related to one another within the population ( n = 13, mean R = 0.0373 ± 0.0151) whereas lions from Payson ( n = 6, mean R = -0.0079 ± 0.0356) and Prescott ( n = 9, mean R = -0.0242 ± 0.0452) were not as related. Overall, males were less related to other males ( n = 20, mean R = -0.0495 ± 0.0161) than females were related to other females ( n = 8, mean R = 0.0015 ± 0.0839). Genetic distance was positively correlated with geographic distance ( r 2 = 0.22, P = 0.001). Spatial requirements and interactions influence social behavior and can play a role in determining population density.

Arizona

Genetic analysis of scats reveals minimum number and sex of recently documented mountain lions

Recent records of mountain lions Puma concolor and concurrent declines in desert bighorn sheep Ovis canadensis mexicana on Kofa National Wildlife Refuge in Arizona, United States, have prompted investigations to estimate the number of mountain lions occurring there. We performed noninvasive genetic analyses and identified species, individuals, and sex from scat samples collected from the Kofa and Castle Dome Mountains. From 105 scats collected, we identified a minimum of 11 individual mountain lions. These individuals consisted of six males, two females and three of unknown sex. Three of the 11 mountain lions were identified multiple times over the study period. These estimates supplement previously recorded information on mountain lions in an area where they were historically considered only transient. We demonstrate that noninvasive genetic techniques, especially when used in conjunction with camera-trap and radiocollaring methods, can provide additional and reliable information to wildlife managers, particularly on secretive species like the mountain lion.

Arizona

Isolation of microsatellite loci from the lesser long-nosed bat (Leptonycteris yerbuenae)

Leptonycteris yerbabuenae is a nectarivore (subfamily: Glossophaginae, family: Phyllostomidae), is found from southern Arizona/southwestern New Mexico to southern Mexico including the Baja California peninsula (Ceballos et al.1997; Cockrum 1991). Leptonycteris yerbabuenae is listed as endangered in the United States (Shull 1988) and threatened in Mexico (SEMARNAT 2002). They migrate up to 1,800 km between wintering and breeding grounds (Fleming and Eby 2001). Females mate in the winter in southern Mexico, and migrate to maternity roosts in northern Mexico/southern Arizona to give birth in late spring-early summer (Ceballos et al.1997; Cockrum 1991). Wilkinson and Fleming (1996) have suggested two separate migration corridors where bats occupy southeastern Arizona and southwestern Arizona arrive and leave through separate corridors. We isolated 12 microsatellites loci to estimate gene flow between southwestern and southeastern Arizona roosts, as well as Sonora, Baja California, and Jalisco, Mexico. Genomic DNA was extracted using the DNeasy Blood & Tissue Kit (Qiagen). Approximately 5 μg of genomic DNA was digested with RsaI (NEB) and fragments were ligated to double-stranded SuperSNX-24 linkers to construct an enriched genomic DNA library using a modified version of Glenn and Schable (2005). Linker-ligated fragments ranging from 300–1400 bp were recovered using the polymerase chain reaction (PCR) with a SuperSNX-24 forward primer and Platinum high-fidelity Taq DNA polymerase (Invitrogen), and were hybridized to 5′-biotinylated microsatellite oligonucleotide probes (GT) 15 , (CT) 15 , (GATA) 10 and (GACA) 8 . Hybridized fragments were captured on streptavidin-coated paramagnetic beads (Dynal) and then recovered by PCR. These fragments were ligated into the vector PCR4-TOPO (Invitrogen), and transformed into TOP10 chemically competent E. coli cells (Invitrogen) following the manufacturer’s protocol.

Conservation Genetics Resources