title: PeerJ description: Articles published in PeerJ link: https://peerj.com/articles/index.rss3?journal=peerj&page=484 creator: info@peerj.com PeerJ errorsTo: info@peerj.com PeerJ language: en title: IL-17A exacerbates psoriasis in a STAT3 overexpressing mouse model link: https://peerj.com/articles/15727 last-modified: 2023-07-14 description: BackgroundPsoriasis is an autoimmune skin disease characterized by immunocyte activation, excessive proliferation, and abnormal differentiation of keratinocytes. Signal transducers and activators of transcription 3 (STAT3) play a crucial role in linking activated keratinocytes and immunocytes during psoriasis development. T helper (Th) 17 cells and secreted interleukin (IL)-17A contribute to its pathogenesis. IL-17A treated STAT3 overexpressing mouse model might serve as an animal model for psoriasis.MethodsIn this study, we established a mouse model of psoriasiform dermatitis by intradermal IL-17A injection in STAT3 overexpressing mice. Transcriptome analyses were performed on the skin of wild type (WT), STAT3, and IL-17A treated STAT3 mice. Bioinformatics-based functional enrichment analysis was conducted to predict biological pathways. Meanwhile, the morphological and pathological features of skin lesions were observed, and the DEGs were verified by qPCR.ResultsIL-17A treated STAT3 mice skin lesions displayed the pathological features of hyperkeratosis and parakeratosis. The DEGs between IL-17A treated STAT3 mice and WT mice were highly consistent with those observed in psoriasis patients, including S100A8, S100A9, Sprr2, and LCE. Gene ontology (GO) analysis of the core DEGs revealed a robust immune response, chemotaxis, and cornified envelope, et al. The major KEGG enrichment pathways included IL-17 and Toll-like receptor signaling pathways.ConclusionIL-17A exacerbates psoriasis dermatitis in a STAT3 overexpressing mouse. creator: Xinran Xie creator: Lei Zhang creator: Yan Lin creator: Xin Liu creator: Ning Wang creator: Ping Li uri: https://doi.org/10.7717/peerj.15727 license: https://creativecommons.org/licenses/by/4.0/ rights: © 2023 Xie et al. title: The force-length relation of the young adult human tibialis anterior link: https://peerj.com/articles/15693 last-modified: 2023-07-13 description: BackgroundKnowledge of the muscle’s lengths at which maximum active isometric force is attained is important for predicting forces during movement. However, there is limited information about the in vivo force-length properties of a human muscle that plays crucial roles during locomotion; the tibialis anterior (TA). We therefore aimed to estimate TA’s force-length relation from dorsiflexor torque-angle curves constructed from eight women and eight men.MethodsParticipants performed maximal voluntary fixed-end contractions with their right ankle dorsiflexors from 0° to 30° plantar flexion. Muscle fascicle lengths were estimated from B-mode ultrasound images, and net ankle joint torques were measured using dynamometry. Fascicle forces were estimated by dividing maximal active torques by literature-derived, angle-specific tendon moment arm lengths while assuming a fixed 50% force contribution of TA to the total dorsiflexor force and accounting for fascicle angles.ResultsMaximal active torques were higher at 15° than 20° and 30° plantar flexion (2.4–6.4 Nm, p ≤ 0.012), whereas maximal active TA fascicle forces were higher at 15° than 0°, 20° and 30° plantar flexion (25–61 N, p ≤ 0.042), but not different between 15° and 10° plantar flexion (15 N, p = 0.277). TA fascicle shortening magnitudes during fixed-end contractions were larger at 15° than 30° plantar flexion (3.9 mm, p = 0.012), but less at 15° than 0° plantar flexion (−2.4 mm, p = 0.001), with no significant differences (≤0.7 mm, p = 0.871) between TA’s superficial and deep muscle compartments. Series elastic element stiffness was lowest and highest at lengths 5% shorter and 5% longer than optimum fascicle length, respectively (−30 and 15 N/mm, p ≤ 0.003).DiscussionTA produced its maximum active force at 10–15° plantar flexion, and its normalized force-length relation had ascending and descending limbs that agreed with a simple scaled sarcomere model when active fascicle lengths from within TA’s superficial or deep muscle compartment were considered. These findings can be used to inform the properties of the contractile and series elastic elements of Hill-type muscle models. creator: Brent J. Raiteri creator: Leon Lauret creator: Daniel Hahn uri: https://doi.org/10.7717/peerj.15693 license: https://creativecommons.org/licenses/by/4.0/ rights: ©2023 Raiteri et al. title: Population influences desiccation tolerance in an invasive aquatic snail, Potamopyrgus antipodarum (Tateidae, Mollusca) link: https://peerj.com/articles/15732 last-modified: 2023-07-13 description: Traits in species that influence invasion success may vary in populations across its invaded range. The aquatic New Zealand mud snail, Potamopyrgus antipodarum, reproduces parthenogenetically in its invaded range, and a few distinct clonal genotypes have been identified in North America. Much of the spread of the snail in North America has been the result of unintentional overland transport by recreational water users. Thus, desiccation tolerance may play an important role in the invasion success of this species. The primary goal of these experiments is to determine if variation in desiccation tolerance exists between populations of this species. Here we compared multiple multi-locus genotypes (MLGs) and populations within those genotypes with regard to their desiccation tolerance. We conducted three experiments. The first compared the survival rate over time of snails from three populations and two MLGs with regard to their ability to survive being completely removed from water. The second experiment examined different size classes of snails from the same population, and the third experiment compared four different populations and two MLGs genotypes with respect to their survival rate over time when removed from water but being kept in moist conditions. We found larger snails tolerate desiccation longer than smaller snails with snails between 4 and 4.6 mm surviving at a rate of more than 50% after 12 h while smaller snails survived at a less than 5% rate after 12 h. We also found significant variation both between and within MLGs in their survival rate when completely removed from water and dried with the MLG from the western US having a more than 50% greater survival probability than the eastern MLGs at both 18 and 24 h out of water. When removed from water and kept moist all MLGs had a near 100% survival rate at 60 days at 7 °C, and most survived at a greater than 90% rate at 60 days at 17 °C, while no MLG’s survived past 30 days at 27 °C. The results demonstrate that variation for desiccation tolerance exists between populations of this invader which could influence the invasiveness of different populations. creator: Edward P. Levri creator: Sheila Hutchinson creator: Rebecca Luft creator: Colin Berkheimer creator: Kellie Wilson uri: https://doi.org/10.7717/peerj.15732 license: https://creativecommons.org/licenses/by/4.0/ rights: © 2023 Levri et al. title: Effects of eggshell and seashell powder as natural dietary calcium supplements on growth, molting frequency, and carapace calcium composition of juvenile red claw crayfish, Cherax quadricarinatus link: https://peerj.com/articles/15449 last-modified: 2023-07-12 description: The growth performance of red claw crayfish, Cherax quadricarinatus, fed diets with different sources and concentrations of natural calcium was evaluated. Formulated diets containing 30% protein and 8% lipid were prepared using supplementation of 0 (control), 3%, 6%, 9% eggshell, and 6% seashell. C. quadricarinatus juveniles with an average total weight of 0.21 ± 0.01 g and length of 25.0 ± 0.10 mm were obtained from ten ovigerous females bred in captivity. An aquarium with a size of 0.72 m² was divided into eight compartments with an area of 0.09 m² per compartment and was individually stocked with juvenile crayfish. A total of eight juvenile crayfish were used per dietary treatment. There were five dietary treatments in total and each of these treatments were replicated three times. The addition of eggshell and seashell powder exerted positive effects on the growth performance, molting frequency, and survival of the crayfish. Crayfish fed with a 6% eggshell-supplemented diet exhibited the best overall growth performance. The calcium percentage of the carapace increased with the increase in calcium content of the diets. Meanwhile, the performance of diets comprising eggshells and seashells was not significantly different (P > 0.05). Considering the low cost and abundance of eggshells, the addition of 6% of this product to the diet is recommended for the best growth of juvenile C. quadricarinatus. creator: Ahmad Shahroom creator: Rossita Shapawi creator: Saleem Mustafa creator: Nur Fatihah Abd Halid creator: Abentin Estim creator: Audrey Daning Tuzan uri: https://doi.org/10.7717/peerj.15449 license: https://creativecommons.org/licenses/by/4.0/ rights: © 2023 Shahroom et al. title: An aquatic environmental DNA filtration system to maximize recovery potential and promote filtration approach standardization link: https://peerj.com/articles/15360 last-modified: 2023-07-12 description: BackgroundAquatic environmental DNA (eDNA) has emerged as a promising approach to identify organisms in freshwater and marine environments. While the recovery of eDNA from water most commonly involves capture of biological debris on a filter matrix, practitioners are yet to converge on standardized approaches for filtration, particularly in the field. This lack of standardization has resulted in inconsistent handling of samples following collection, limiting interpretation of results across studies and burdening groups with inconvenient storage and transport logistics that may compromise eDNA integrity.MethodsA simple to assemble and low-cost ($350 USD) water filtration system is demonstrated that can be used in field and laboratory settings to reduce time between sample acquisition and eDNA filtration, maximizing eDNA sample recovery. Quantitative PCR is used to show the utility of the platform for laboratory and marine eDNA analysis.ResultsThe resulting eDNA collection system is easily transported in a rugged water-resistant case, operates for more than eight hours on a 12-volt lead-acid battery, and has an unobstructed filtration rate of 150.05 ± 7.01 mL/min and 151.70 ± 6.72 mL/min with 0.22 µm and 0.45 µm Sterivex filters, respectively. We show that immediate sample filtration increases eDNA recovery in the laboratory, and demonstrate collections in aquaria and marine environments. We anticipate that providing easy to obtain, open hardware designs for eDNA sample collection will increase standardization of aquatic eDNA collection methods and improve cross-study comparisons. creator: Hayley M. DeHart creator: Mark T. Gasser creator: Jarret Dixon creator: Peter Thielen uri: https://doi.org/10.7717/peerj.15360 license: https://creativecommons.org/licenses/by/4.0/ rights: ©2023 DeHart et al. title: Improved haplotype resolution of highly duplicated MHC genes in a long-read genome assembly using MiSeq amplicons link: https://peerj.com/articles/15480 last-modified: 2023-07-12 description: Long-read sequencing offers a great improvement in the assembly of complex genomic regions, such as the major histocompatibility complex (MHC) region, which can contain both tandemly duplicated MHC genes (paralogs) and high repeat content. The MHC genes have expanded in passerine birds, resulting in numerous MHC paralogs, with relatively high sequence similarity, making the assembly of the MHC region challenging even with long-read sequencing. In addition, MHC genes show rather high sequence divergence between alleles, making diploid-aware assemblers incorrectly classify haplotypes from the same locus as sequences originating from different genomic regions. Consequently, the number of MHC paralogs can easily be over- or underestimated in long-read assemblies. We therefore set out to verify the MHC diversity in an original and a haplotype-purged long-read assembly of one great reed warbler Acrocephalus arundinaceus individual (the focal individual) by using Illumina MiSeq amplicon sequencing. Single exons, representing MHC class I (MHC-I) and class IIB (MHC-IIB) alleles, were sequenced in the focal individual and mapped to the annotated MHC alleles in the original long-read genome assembly. Eighty-four percent of the annotated MHC-I alleles in the original long-read genome assembly were detected using 55% of the amplicon alleles and likewise, 78% of the annotated MHC-IIB alleles were detected using 61% of the amplicon alleles, indicating an incomplete annotation of MHC genes. In the haploid genome assembly, each MHC-IIB gene should be represented by one allele. The parental origin of the MHC-IIB amplicon alleles in the focal individual was determined by sequencing MHC-IIB in its parents. Two of five larger scaffolds, containing 6–19 MHC-IIB paralogs, had a maternal and paternal origin, respectively, as well as a high nucleotide similarity, which suggests that these scaffolds had been incorrectly assigned as belonging to different loci in the genome rather than as alternate haplotypes of the same locus. Therefore, the number of MHC-IIB paralogs was overestimated in the haploid genome assembly. Based on our findings we propose amplicon sequencing as a suitable complement to long-read sequencing for independent validation of the number of paralogs in general and for haplotype inference in multigene families in particular. creator: Samantha Mellinger creator: Martin Stervander creator: Max Lundberg creator: Anna Drews creator: Helena Westerdahl uri: https://doi.org/10.7717/peerj.15480 license: https://creativecommons.org/licenses/by/4.0/ rights: ©2023 Mellinger et al. title: A three-dimensional geometric morphometric analysis of the morphological transformation of Caiman lower jaw during post-hatching ontogeny link: https://peerj.com/articles/15548 last-modified: 2023-07-12 description: Shape ontogenetic changes of the lower jaw in crocodylians are poorly understood. In order to answer some questions related to the inter- and intraspecific morphological variation of the mandible of two extant Caiman species, we performed a three-dimensional geometric morphometric approach. For this purpose, we used landmarks and semilandmarks on two ontogenetic mandibular series of 48 and 15 post-hatching specimens of C. yacare and C. latirostris, respectively. We have also examined the relationship between these anatomical transformations and ontogenetic shifts in diet. We performed a principal component analysis (PCA) for the two species, and regression and partial least squares (PLS) analyses for each species, separately. As a result, species were segregated along the PC1 with specimens of C. yacare showing more gracile mandibles, and specimens of C. latirostris more robust ones. The PC2 and regression analyses showed an age gradient and represented ontogenetic shape changes. Adult caiman mandibles are higher and wider than juvenile ones, and shape changes are more conspicuous in C. latirostris. The PLS analyses showed a significant relationship between shape and diet. Morphological changes of the PLS1 of block-1 match with those of the regression analysis for both species. We have detected morphological transformations in areas where the musculature in charge of mandibular movements is attached. Common morphological changes occurring during ontogeny seem to reflect the same mechanical properties required for crushing and killing in both species, driven by an ontogenetic shift in the diet from invertebrates to vertebrates. Additionally, interspecific differences were also found to be correlated to ontogenetic changes in diet and could be related to dissimilar feeding mechanical requirements (e.g., stiffness and toughness of the item consumed), and to different habitat preferences. Robust mandibles would be more suitable for shallow and fully vegetated environments, as it can be seen in C. latirostris, whereas slender jaws seem to be more suitable for more aquatic species such as C. yacare. creator: María Victoria Fernandez Blanco creator: Guillermo Hernán Cassini creator: Paula Bona uri: https://doi.org/10.7717/peerj.15548 license: https://creativecommons.org/licenses/by/4.0/ rights: © 2023 Fernandez Blanco et al. title: Comparison of inertial records during anticipatory postural adjustments obtained with devices of different masses link: https://peerj.com/articles/15627 last-modified: 2023-07-12 description: BackgroundStep initiation involves anticipatory postural adjustments (APAs) that can be measured using inertial measurement units (IMUs) such as accelerometers. However, previous research has shown heterogeneity in terms of the population studied, sensors used, and methods employed. Validity against gold standard measurements was only found in some studies, and the weight of the sensors varied from 10 to 110 g. The weight of the device is a crucial factor to consider when assessing APAs, as APAs exhibit significantly lower magnitudes and are characterized by discrete oscillations in acceleration paths.ObjectiveThis study aims to validate the performance of a commercially available ultra-light sensor weighing only 5.6 g compared to a 168-g smartphone for measuring APAs during step initiation, using a video capture kinematics system as the gold standard. The hypothesis is that APA oscillation measurements obtained with the ultra-light sensor will exhibit greater similarity to those acquired using video capture than those obtained using a smartphone.Materials and MethodsTwenty subjects were evaluated using a commercial lightweight MetaMotionC accelerometer, a smartphone and a system of cameras—kinematics with a reflective marker on lumbar vertebrae. The subjects initiated 10 trials of gait after a randomized command from the experimenter and APA variables were extracted: APAonset, APAamp, PEAKtime. A repeated measures ANOVA with post-hoc test analyzed the effect of device on APA measurements. Bland–Altman plots were used to evaluate agreement between MetaMotionC, smartphone, and kinematics measurements. Pearson’s correlation coefficients were used to assess device correlation. Percentage error was calculated for each inertial sensor against kinematics. A paired Student’s t-test compared th devices percentage error.ResultsThe study found no significant difference in temporal variables APAonset and PEAKtime between MetaMotionC, smartphone, and kinematic instruments, but a significant difference for variable APAamp, with MetaMotionC yielding smaller measurements. The MetaMotionC had a near-perfect correlation with kinematic data in APAonset and APAamp, while the smartphone had a very large correlation in APAamp and a near-perfect correlation in APAonset and PEAKtime. Bland–Altman plots showed non-significant bias between smartphone and kinematics for all variables, while there was a significant bias between MetaMotionC and kinematics for APAamp. The percentage of relative error was not significantly different between the smartphone and MetaMotionC.ConclusionsThe temporal analysis can be assessed using ultralight sensors and smartphones, as MetaMotionC and smartphone-based measurements have been found to be valid compared to kinematics. However, caution should be exercised when using ultralight sensors for amplitude measurements, as additional research is necessary to determine their effectiveness in this regard. creator: Anderson Antunes da Costa Moraes creator: Manuela Brito Duarte creator: Eduardo Veloso Ferreira creator: Gizele Cristina da Silva Almeida creator: André dos Santos Cabral creator: Anselmo de Athayde Costa e Silva creator: Daniela Rosa Garcez creator: Givago Silva Souza creator: Bianca Callegari uri: https://doi.org/10.7717/peerj.15627 license: https://creativecommons.org/licenses/by/4.0/ rights: © 2023 Antunes da Costa Moraes et al. title: 2018–2022 Southern Resident killer whale presence in the Salish Sea: continued shifts in habitat usage link: https://peerj.com/articles/15635 last-modified: 2023-07-12 description: The fish-eating Southern Resident killer whales (Orcinus orca) of the northeastern Pacific are listed as Endangered in both the USA and Canada. The inland waters of Washington State and British Columbia, a region known as the Salish Sea, are designated as Southern Resident critical habitat by both countries. The whales have historically had regular monthly presence in the Salish Sea, with peak abundance occurring from May through September. In recent years, at least partially in response to shifting prey abundance, habitat usage by the Southern Residents has changed. As conservation measures aim to provide the best possible protection for the whales in their hopeful recovery, it is key that policies are based both on historic trends and current data. To this aim, our study shares 2018–2022 daily occurrence data to build upon and compare to previously published whale presence numbers and to demonstrate more recent habitat shifts. Based on reports from an extensive network of community scientists as well as online streaming hydrophones, every Southern Resident occurrence was confirmed either visually or acoustically. Documented here are the first-ever total absence of the Southern Residents in the Salish Sea in the months of May, June, and August, as well as their continued overall declining presence in the spring and summer, while fall and winter presence remains relatively high. It is key that management efforts consider these shifting presence patterns when setting both seasonal and regional protection measures aimed at supporting population recovery. creator: Monika W. Shields uri: https://doi.org/10.7717/peerj.15635 license: https://creativecommons.org/licenses/by/4.0/ rights: ©2023 Shields title: Combinative effects of β-elemene and propranolol on the proliferation, migration, and angiogenesis of hemangioma link: https://peerj.com/articles/15643 last-modified: 2023-07-12 description: Hemangioma (HA) is one of the most common benign vascular tumors among children. Propranolol is used as the first-line treatment for hemangioma and is a non-selective blocker of the β-adrenergic receptor. β-elemene is a compound extracted from Rhizoma zedoariae and has been approved for the treatment of tumors in clinical practice. However, the combinatorial effects of β-elemene and propranolol in the treatment of HA remains unclear. This study explored the combinative effects and mechanisms of β-elemene and propranolol using hemangioma-derived endothelial cells (HemECs). Cytotoxic assays showed that the combinatorial treatment of β-elemene and propranolol did not increase the cytotoxic effects of HemECs. Furthermore, functional analysis showed that the combinatorial treatment with β-elemene and propranolol significantly inhibited the proliferation, migration, and tube formation of the HemECs compared to the single treatment regimens. Mechanistic analysis showed that combinative treatment with β-elemene and propranolol synergistically down-regulated the hypoxia-inducible factor-1 alpha/vascular endothelial growth factor-A (HIF-1-α/VEGFA) signaling pathway. Additionally, in a xenograft tumor model, angiogenesis in the combinatorial treatment group was significantly lower than in the control, propranolol, and β-elemene treatment alone groups. Our results suggest that β-elemene combined with propranolol can significantly inhibit the proliferation, migration, and tube formation of HemECs via synergistically down-regulating the HIF-1-α/VEGFA signaling pathway without increasing any cytotoxic side effects. creator: Zhenyu Wang creator: Yinxian Chen creator: Lin Yang creator: Dunbiao Yao creator: Yang Shen uri: https://doi.org/10.7717/peerj.15643 license: https://creativecommons.org/licenses/by/4.0/ rights: ©2023 Wang et al.