title: PeerJ
description:  Articles published in PeerJ
link: https://peerj.com/articles/index.rss3?journal=peerj&page=1805
creator: info@peerj.com PeerJ
errorsTo: info@peerj.com PeerJ
language: en

title: Seasonal changes in fish assemblage structure at a shallow seamount in the Gulf of California
link: https://peerj.com/articles/2357
last-modified: 2016-09-06
description: Seamounts have generally been identified as locations that can promote elevated productivity, biomass and predator biodiversity. These properties attract seamount-associated fisheries where elevated harvests can be obtained relative to surrounding areas. There exists large variation in the geological and oceanographic environment among the thousands of locations that fall within the broad definition of seamount. Global seamount surveys have revealed that not all seamounts are hotspots of biodiversity, and there remains a strong need to understand the mechanisms that underlie variation in species richness observed. We examined the process of fish species assembly at El Bajo Espiritu Santo (EBES) seamount in the Gulf of California over a five-year study period. To effectively quantify the relative abundance of fast-moving and schooling fishes in a ‘blue water’ habitat, we developed a simplified underwater visual census (UVC) methodology and analysis framework suitable for this setting and applicable to future studies in similar environments. We found correlations between seasonally changing community structure and variability in oceanographic conditions. Individual species responses to thermal habitat at EBES revealed three distinct assemblages, a ‘fall assemblage’ tracking warmer overall temperature, a ‘spring assemblage’ correlated with cooler temperature, and a ‘year-round assemblage’ with no significant response to temperature. Species richness was greatest in spring, when cool and warm water masses stratified the water column and a greater number of species from all three assemblages co-occurred. We discuss our findings in the context of potential mechanisms that could account for predator biodiversity at shallow seamounts.
creator: Salvador J. Jorgensen
creator: A. Peter Klimley
creator: Arturo Muhlia-Melo
creator: Steven G. Morgan
uri: https://doi.org/10.7717/peerj.2357
license: http://creativecommons.org/licenses/by/4.0/
rights: © 2016 Jorgensen et al.

title: A new rauisuchid (Archosauria, Pseudosuchia) from the Upper Triassic (Norian) of New Mexico increases the diversity and temporal range of the clade
link: https://peerj.com/articles/2336
last-modified: 2016-09-06
description: Rauisuchids are large (2–6 m in length), carnivorous, and quadrupedal pseudosuchian archosaurs closely related to crocodylomorphs. Though geographically widespread, fossils of this clade are relatively rare in Late Triassic assemblages. The middle Norian (∼212 Ma) Hayden Quarry of northern New Mexico, USA, in the Petrified Forest Member of the Chinle Formation, has yielded isolated postcranial elements and associated skull elements of a new species of rauisuchid. Vivaron haydeni gen. et. sp. nov. is diagnosed by the presence of two posteriorly directed prongs at the posterior end of the maxilla for articulation with the jugal. The holotype maxilla and referred elements are similar to those of the rauisuchid Postosuchus kirkpatricki from the southwestern United States, but V. haydeni shares several maxillary apomorphies (e.g., a distinct dropoff to the antorbital fossa that is not a ridge, a straight ventral margin, and a well defined dental groove) with the rauisuchid Teratosaurus suevicus from the Norian of Germany. Despite their geographic separation, this morphological evidence implies a close phylogenetic relationship between V. haydeni and T. suevicus. The morphology preserved in the new Hayden Quarry rauisuchid V. haydeni supports previously proposed and new synapomorphies for nodes within Rauisuchidae. The discovery of Vivaron haydeni reveals an increased range of morphological disparity for rauisuchids from the low-paleolatitude Chinle Formation and a clear biogeographic connection with high paleolatitude Pangea.
creator: Emily J. Lessner
creator: Michelle R. Stocker
creator: Nathan D. Smith
creator: Alan H. Turner
creator: Randall B. Irmis
creator: Sterling J. Nesbitt
uri: https://doi.org/10.7717/peerj.2336
license: http://creativecommons.org/licenses/by/4.0/
rights: © 2016 Lessner et al.

title: The influence of temperament and character profiles on specialty choice and well-being in medical residents
link: https://peerj.com/articles/2319
last-modified: 2016-09-06
description: BackgroundMultiple factors influence the decision to enter a career in medicine and choose a specialty. Previous studies have looked at personality differences in medicine but often were unable to describe the heterogeneity that exists within each specialty. Our study used a person-centered approach to characterize the complex relations between the personality profiles of resident physicians and their choice of specialty.Methods169 resident physicians at a large Midwestern US training hospital completed the Temperament and Character Inventory (TCI) and the Satisfaction with Life Scale (SWLS). Clusters of personality profiles were identified without regard to medical specialty, and then the personality clusters were tested for association with their choice of specialty by co-clustering analysis. Life satisfaction was tested for association with personality traits and medical specialty by linear regression and analysis of variance.ResultsWe identified five clusters of people with distinct personality profiles, and found that these were associated with particular medical specialties Physicians with an “investigative” personality profile often chose pathology or internal medicine, those with a “commanding” personality often chose general surgery, “rescuers” often chose emergency medicine, the “dependable” often chose pediatrics, and the “compassionate” often chose psychiatry. Life satisfaction scores were not enhanced by personality-specialty congruence, but were related strongly to self-directedness regardless of specialty.ConclusionsThe personality profiles of physicians were strongly associated with their medical specialty choices. Nevertheless, the relationships were complex: physicians with each personality profile went into a variety of medical specialties, and physicians in each medical specialty had variable personality profiles. The plasticity and resilience of physicians were more important for their life satisfaction than was matching personality to the prototype of a particular specialty.
creator: Martin Sievert
creator: Igor Zwir
creator: Kevin M. Cloninger
creator: Nigel Lester
creator: Sandor Rozsa
creator: C. Robert Cloninger
uri: https://doi.org/10.7717/peerj.2319
license: http://creativecommons.org/licenses/by/3.0/
rights: ©2016 Sievert et al.

title: Food safety in Thailand 4: comparison of pesticide residues found in three commonly consumed vegetables purchased from local markets and supermarkets in Thailand
link: https://peerj.com/articles/2432
last-modified: 2016-09-01
description: BackgroundThe wide use of pesticides raises concerns on the health risks associated with pesticide exposure. For developing countries, like Thailand, pesticide monitoring program (in vegetables and fruits) and also the maximum residue limits (MRL) regulation have not been entirely implemented. The MRL is a product limit, not a safety limit. The MRL is the maximum concentration of a pesticide residue (expressed as mg/kg) recommended by the Codex Alimentarius Commission to be legally permitted in or on food commodities and animal feeds (Codex Alimentarius Commission, 2015; European Commission, 2015). MRLs are based on supervised residue trial data where the pesticide has been applied in accordance with GAP (Good Agricultural Practice). This study aims at providing comparison data on pesticide residues found in three commonly consumed vegetables (Chinese kale, pakchoi and morning glory) purchased from some local markets and supermarkets in Thailand.MethodsThese vegetables were randomly bought from local markets and supermarkets. Then they were analyzed for the content of 28 pesticides by using GC-MS/MS.ResultsTypes of pesticides detected in the samples either from local markets or supermarkets were similar. The incidence of detected pesticides was 100% (local markets) and 99% (supermarkets) for the Chinese kale; 98% (local markets) and 100% (supermarkets) for the pakchoi; and 99% (local markets) and 97% (supermarkets) for the morning glory samples. The pesticides were detected exceeding their MRL at a rate of 48% (local markets) and 35% (supermarkets) for the Chinese kale; 71% (local markets) and 55% (supermarkets) for the pakchoi, and 42% (local markets) and 49% (supermarkets) for the morning glory.DiscussionThese rates are much higher than those seen in developed countries. It should be noted that these findings were assessed on basis of using criteria (such as MRL) obtained from developed countries. Our findings were also confined to these vegetables sold in a few central provinces of Thailand and did not reflect for the whole country as sample sizes were small. Risk assessment due to consuming these pesticide contaminated vegetables, still remains to be evaluated. However, remarkably high incidence rates of detected pesticides give warning to the Thai authorities to implement proper regulations on pesticide monitoring program. Similar incidence of pesticide contamination found in the vegetables bought from local markets and supermarkets raises question regarding the quality of organic vegetables domestically sold in Thailand. This conclusion excludes Thai export quality vegetables and fruits routinely monitored for pesticide contamination before exporting.
creator: Sompon Wanwimolruk
creator: Kamonrat Phopin
creator: Somchai Boonpangrak
creator: Virapong Prachayasittikul
uri: https://doi.org/10.7717/peerj.2432
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Wanwimolruk et al.

title: Inferring extinction in North American and Hawaiian birds in the presence of sighting uncertainty
link: https://peerj.com/articles/2426
last-modified: 2016-09-01
description: For most species the timing of extinction events is uncertain, occurring sometime after the last sighting. However, the sightings themselves may also be uncertain. Recently a number of methods have been developed that incorporate sighting uncertainty in the inference of extinction based on a series of sightings. Here we estimate the timing of extinction for 41 of 52 North American and Hawaiian bird taxa and populations, the results of which suggest all became extinct before 2009. By acknowledging sighting uncertainty it results in two opposite effects, one pushing the timing of extinction away from the last sighting and the other drawing the timing of extinction nearer to it. However, for 14 assessed taxa and populations the upper 95% bounds lie beyond the end of the observation period and therefore suggest the possibility of continued persistence. This has important implications for conservation decision-makers and potentially reduces the likelihood of Romeo’s Error.
creator: David L. Roberts
creator: Ivan Jarić
uri: https://doi.org/10.7717/peerj.2426
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Roberts and Jarić

title: Parrotfish grazing ability: interspecific differences in relation to jaw-lever mechanics and relative weight of adductor mandibulae on an Okinawan coral reef
link: https://peerj.com/articles/2425
last-modified: 2016-09-01
description: Parrotfishes (family Labridae: Scarini) are regarded to have important roles for maintaining the ecosystem balance in coral reefs due to their removal of organic matter and calcic substrates by grazing. The purpose of the present study was to clarify the interspecific differences in grazing ability of five parrotfish species (Chlorurus sordidus, C. bowersi, Scarus rivulatus, S. niger and S. forsteni) in relation to interspecific differences in jaw-lever mechanics and the relative weight of the adductor mandibulae (muscles operating jaw closing). The grazing ability was calculated by using stomach contents (CaCO3 weight/organic matter weight) defined as the grazing ability index (GAI). There were significant interspecific differences in GAI (C. sordidus = C. bowersi > S. rivulatus > S. niger = S. forsteni). Teeth of C. sordidus and C. bowersi were protrusive-shape whereas teeth of S. rivulatus, S. niger and S. forsteni were flat-shape. C. sordidus and C. bowersihave jaw-lever mechanics producing a greater biting force and have a larger weight of adductor mandibulae. S. rivulatus has jaw-lever mechanics producing a greater biting force but a smaller weight of adductor mandibulae that produce an intermediate biting force. In contrast, S. niger and S. forsteni have jaw-lever mechanics producing a lesser biting force and have a smaller weight of adductor mandibulae. Feeding rates and foray size of S. rivulatus, S. niger and S. forsteni were greater than C. sordidus and C. bowersi. The degree in bioerosion (GAI × feeding rate) was the largest for S. rivulatusand the smallest for S. forsteni. The degree in bioerosion for C. sordidus was larger than S. niger whereas relatively equal between C. bowersi and S. niger. These results suggest that interspecific difference in GAI was explained by interspecific differences in teeth shape, jaw-lever mechanics and relative weight of adductor mandibulae. The interspecific difference in the degree of bioerosion suggests the importance of various size of parrotfishes with diverse feeding modes to maintain healthy coral reef ecosystems.
creator: Atsushi Nanami
uri: https://doi.org/10.7717/peerj.2425
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Nanami

title: Development and characterization of 24 polymorphic microsatellite loci for the freshwater fish Ichthyoelephas longirostris (Characiformes: Prochilodontidae)
link: https://peerj.com/articles/2419
last-modified: 2016-09-01
description: The Neotropical freshwater fish Ichthyoelephas longirostris (Characiformes: prochilodontidae) is a short-distance migratory species endemic to Colombia. This study developed for the first time a set of 24 polymorphic microsatellite loci by using next-generation sequencing to explore the population genetics of this commercially exploited species. Nineteen of these loci were used to assess the genetic diversity and structure of 193 I. longirostris in three Colombian rivers of the Magdalena basin. Results showed that a single genetic stock circulates in the Cauca River, whereas other single different genetic stock is present in the rivers Samaná Norte and San Bartolomé-Magdalena. Additionally, I. longirostris was genetically different among and across rivers. This first insight about the population genetic structure of I. longirostris is crucial for monitoring the genetic diversity, the management and conservation of its populations, and complement the genetic studies in Prochilodontidae.
creator: Ricardo M. Landínez-García
creator: Edna J. Márquez
uri: https://doi.org/10.7717/peerj.2419
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Landínez-García and Márquez

title: Cross-sectional study of expression of divalent metal transporter-1, transferrin, and hepcidin in blood of smelters who are occupationally exposed to manganese
link: https://peerj.com/articles/2413
last-modified: 2016-09-01
description: BackgroundManganese (Mn) is widely used in industries including the manufacture of Mn-iron (Fe) alloy. Occupational Mn overexposure causes manganism. Mn is known to affect Fe metabolism; this study was designed to test the hypothesis that workers exposed to Mn may have an altered expression of mRNAs encoding proteins in Fe metabolism.MethodsWorkers occupationally exposed to Mn (n = 71) from a Mn–Fe alloy factory and control workers without Mn-exposure (n = 48) from a pig-iron plant from Zunyi, China, were recruited for this study. Blood samples were collected into Trizol-containing tubes. Total RNA was isolated, purified, and subjected to real-time RT-PCR analysis. Metal concentrations were quantified by atomic absorption spectrophotometry.ResultsWorking environment and genetic background of both groups were similar except for marked differences in airborne Mn concentrations (0.18 mg/m3 in Mn–Fe alloy factory vs. 0.0022 mg/m3 in pig-Fe plant), and in blood Mn levels (34.3 µg/L vs. 10.4 µg/L). Mn exposure caused a significant decrease in the expression of divalent metal transporter-1 (DMT1), transferrin (Tf) and hepcidin by 58.2%, 68.5% and 61.5%, respectively, as compared to controls, while the expression of transferrin receptor (TfR) was unaltered. Linear regression analysis revealed that expressions of DMT1, Tf and hepcidin were inversely correlated with the accumulative Mn exposure; the correlation coefficients (r) are −0.47, −0.54, and −0.49, respectively (p < 0.01).ConclusionThe data suggest that occupational Mn exposure causes decreased expressions of DMT1, Tf and hepcidin in blood cells; the finding will help understand the mechanism underlying Mn exposure-associated alteration in Fe homeostasis among workers.
creator: Qiyuan Fan
creator: Yan Zhou
creator: Changyin Yu
creator: Jian Chen
creator: Xiujuan Shi
creator: Yanshu Zhang
creator: Wei Zheng
uri: https://doi.org/10.7717/peerj.2413
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Fan et al.

title: Do beaver dams reduce habitat connectivity and salmon productivity in expansive river floodplains?
link: https://peerj.com/articles/2403
last-modified: 2016-09-01
description: Beaver have expanded in their native habitats throughout the northern hemisphere in recent decades following reductions in trapping and reintroduction efforts. Beaver have the potential to strongly influence salmon populations in the side channels of large alluvial rivers by building dams that create pond complexes. Pond habitat may improve salmon productivity or the presence of dams may reduce productivity if dams limit habitat connectivity and inhibit fish passage. Our intent in this paper is to contrast the habitat use and production of juvenile salmon on expansive floodplains of two geomorphically similar salmon rivers: the Kol River in Kamchatka, Russia (no beavers) and the Kwethluk River in Alaska (abundant beavers), and thereby provide a case study on how beavers may influence salmonids in large floodplain rivers. We examined important rearing habitats in each floodplain, including springbrooks, beaver ponds, beaver-influenced springbrooks, and shallow shorelines of the river channel. Juvenile coho salmon dominated fish assemblages in all habitats in both rivers but other species were present. Salmon density was similar in all habitat types in the Kol, but in the Kwethluk coho and Chinook densities were 3–12× lower in mid- and late-successional beaver ponds than in springbrook and main channel habitats. In the Kol, coho condition (length: weight ratios) was similar among habitats, but Chinook condition was highest in orthofluvial springbrooks. In the Kwethluk, Chinook condition was similar among habitats, but coho condition was lowest in main channel versus other habitats (0.89 vs. 0.99–1.10). Densities of juvenile salmon were extremely low in beaver ponds located behind numerous dams in the orthofluvial zone of the Kwethluk River floodplain, whereas juvenile salmon were abundant in habitats throughout the entire floodplain in the Kol River. If beavers were not present on the Kwethluk, floodplain habitats would be fully interconnected and theoretically could produce 2× the biomass (between June–August, 1,174 vs. 667 kg) and rear 3× the number of salmon (370,000 vs. 140,000) compared to the existing condition with dams present. The highly productive Kol river produces an order of magnitude more salmon biomass and rears 40× the individuals compared to the Kwethluk. If beavers were introduced to the Kol River, we estimate that off-channel habitats would produce half as much biomass (2,705 vs. 5,404 kg) and 3× fewer individuals (1,482,346 vs. 4,856,956) owing to conversion of inter-connected, productive springbrooks into inaccessible pond complexes. We concluded that beaver dams may limit the total amount of floodplain habitat available for salmon rearing in the Kwethluk river and that the introduction of beavers to the Kol river could be detrimental to salmon populations. The introduction of beavers to other large alluvial rivers like those found in Kamchatka could have negative consequences for salmon production.
creator: Rachel L. Malison
creator: Kirill V. Kuzishchin
creator: Jack A. Stanford
uri: https://doi.org/10.7717/peerj.2403
license: http://creativecommons.org/licenses/by/4.0/
rights: ©2016 Malison et al.

title: Screening microalgae isolated from urban storm- and wastewater systems as feedstock for biofuel
link: https://peerj.com/articles/2396
last-modified: 2016-09-01
description: Exploiting microalgae as feedstock for biofuel production is a growing field of research and application, but there remain challenges related to industrial viability and economic sustainability. A solution to the water requirements of industrial-scale production is the use of wastewater as a growth medium. Considering the variable quality and contaminant loads of wastewater, algal feedstock would need to have broad tolerance and resilience to fluctuating wastewater conditions during growth. As a first step in targeting strains for growth in wastewater, our study isolated microalgae from wastewater habitats, including urban stormwater-ponds and a municipal wastewater-treatment system, to assess growth, fatty acids and metal tolerance under standardized conditions. Stormwater ponds in particular have widely fluctuating conditions and metal loads, so microalgae from this type of environment may have desirable traits for growth in wastewater. Forty-three algal strains were isolated in total, including several strains from natural habitats. All strains, with the exception of one cyanobacterial strain, are members of the Chlorophyta, including several taxa commonly targeted for biofuel production. Isolates were identified using taxonomic and 18S rRNA sequence methods, and the fastest growing strains with ideal fatty acid profiles for biodiesel production included Scenedesmus and Desmodesmus species (Growth rate (d−1) > 1). All isolates in a small, but diverse taxonomic group of test-strains were tolerant of copper at wastewater-relevant concentrations. Overall, more than half of the isolated strains, particularly those from stormwater ponds, show promise as candidates for biofuel feedstock.
creator: Rebecca Massimi
creator: Andrea E. Kirkwood
uri: https://doi.org/10.7717/peerj.2396
license: http://creativecommons.org/licenses/by/4.0/
rights: © 2016 Massimi & Kirkwood