title: PeerJ
description:  Articles published in PeerJ
link: https://peerj.com/articles/index.rss3?journal=peerj&page=506
creator: info@peerj.com PeerJ
errorsTo: info@peerj.com PeerJ
language: en

title: Spatio-temporal evolution and prediction of carbon storage in Kunming based on PLUS and InVEST models
link: https://peerj.com/articles/15285
last-modified: 2023-05-23
description: Carbon storage is a critical ecosystem service provided by terrestrial environmental systems that can effectively reduce regional carbon emissions and is critical for achieving carbon neutrality and carbon peak. We conducted a study in Kunming and analyzed the land utilization data for 2000, 2010, and 2020. We assessed the features of land utilization conversion and forecasted land utilization under three development patterns in 2030 on the basis of the Patch-generating Land Use Simulation (PLUS) model. We used the Integrated Valuation of Ecosystem Services and Trade-offs (InVEST) model to estimate changes in carbon storage trends under three development scenarios in 2000, 2010, 2020, and 2030 and the impact of socioeconomic and natural factors on carbon storage. The results of the study indicated that (1) carbon storage is intimately associated with land utilization practices. Carbon storage in Kunming in 2000, 2010, and 2020 was 1.146 × 108 t, 1.139 × 108 t, and 1.120 × 108 t, respectively. During the 20 years, forest land decreased by 142.28 km2, and the decrease in forest land area caused a loss of carbon storage. (2) Carbon storage in 2030 was predicted to be 1.102 × 108 t, 1.136 × 108 t, and 1.105 × 108 t, respectively, under the trend continuation scenario, eco-friendly scenario, and comprehensive development scenario, indicating that implementing ecological protection and cultivated land protection measures can facilitate regional ecosystem carbon storage restoration. (3) Impervious surfaces and vegetation have the greatest influence on carbon storage for the study area. A spatial global and local negative correlation was found between impervious surface coverage and ecosystem carbon storage. A spatial global and local positive correlation was found between NDVI and ecosystem carbon storage. Therefore, ecological and farmland protection policies need to be strengthened, the expansion of impervious surfaces should be strictly controlled, and vegetation coverage should be improved.
creator: Yimin Li
creator: Xue Yang
creator: Bowen Wu
creator: Juanzhen Zhao
creator: Wenxue Jiang
creator: Xianjie Feng
creator: Yuanting Li
uri: https://doi.org/10.7717/peerj.15285
license: https://creativecommons.org/licenses/by/4.0/
rights: © 2023 Li et al.

title: Transcriptome analysis reveals genes associated with wool fineness in merinos
link: https://peerj.com/articles/15327
last-modified: 2023-05-23
description: Hair/wool usually plays an important role in maintaining animal physiological activities, and the economic value of wool cannot be ignored. At present, people set higher demands on wool fineness. Hence, improving wool fineness is the concern of fine wool sheep breeding. Using RNA-Seq to screen the potential candidate genes that associate with wool fineness can provide theoretical references for fine-wool sheep breeding, and also provide us new ideas for further understand the molecular regulation mechanism of hair growth. In this study, we compared the expression pattern difference of genome-wide genes between the skin transcriptomes of Subo and Chinese Merinos. The results showed that, 16 candidate differentially expressed genes (DEGs) (Included: CACNA1S, GP5, LOC101102392, HSF5, SLITRK2, LOC101104661, CREB3L4, COL1A1, PTPRR, SFRP4, LOC443220, COL6A6, COL6A5, LAMA1, LOC114115342 and LOC101116863 genes) that may associate with wool fineness were screened, and these genes were located in signaling pathways that regulate hair follicle development, cycle or hair growth. It is worth noting that, among the 16 DEGs, COL1A1 gene has the highest expression level in Merino skins, and the fold change of LOC101116863 gene is the highest, and the structures of these two genes are both highly conserved in different species. In conclusion, we speculate that these two genes may play a key role in regulating wool fineness and respectively have similar and conserved functions in different species.
creator: Shengchao Ma
creator: Li Long
creator: Xixia Huang
creator: Kechuan Tian
creator: Yuezhen Tian
creator: Cuiling Wu
creator: Zhiwen Zhao
uri: https://doi.org/10.7717/peerj.15327
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 Ma et al.

title: Morphometric analysis of odontoid process among Arab population: a retrospective cone beam CT study
link: https://peerj.com/articles/15411
last-modified: 2023-05-23
description: ObjectiveThis study aims to evaluate the feasibility of using cone beam computed tomography (CBCT) scans to assess the odontoid process diameter in the Arab population and to determine whether one or two cortical screws can be used for treating odontoid fractures.MethodsThe odontoid process of 142 individuals aged 12–75 years, including 72 males (mean age: 35.5) and 70 females (mean age: 36.2), were analyzed using CBCT scans. The sagittal and coronal CBCT views were used to evaluate the antero-posterior (AP) and transverse diameters of the odontoid process.ResultsMales had substantially bigger transverse and AP diameters of the odontoid process than females (p < 0.05 & P < 0.01 respectively). Among the sample, 97 individuals (67.4%) had external transverse diameter (METD) of less than 9 mm which is slightly bigger than that of Indians and 48 individuals (31.83%) had enough room for two 3.5 mm or two 2.7 mm screws as their METD was more than 9 mm like that of Greek and Turkish. Age had no significant impact on the morphometric measurements of the odontoid process.ConclusionMore than sixty percent of the sample had METDs of less than 9 millimeters, indicating that a single 4.5-mm Herbert screw may be suggested for fixing fractured odontoid processes in the Arab population.
creator: Asmaa Uthman
creator: Basheer Salman
creator: Hawraa Shams Aldeen
creator: Hesham Marei
creator: Sura F. Al-Bayati
creator: Natheer H. Al-Rawi
uri: https://doi.org/10.7717/peerj.15411
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 Uthman et al.

title: Small-fragment, high turnover: soil microenvironment fluctuation effect on tree diversity in a Neotropical montane oak forest
link: https://peerj.com/articles/15415
last-modified: 2023-05-23
description: BackgroundSoil microenvironmental variables showed an important key in α and β-tree diversity in Neotropical montane oak forest. Thus, understanding the microenvironment fluctuation at small-fragment effects on tree diversity is crucial in maintaining the montane oak ecosystems. In this study, we hypothesized that within a relatively small-fragment (151.63 ha), tree α and β-diversity fluctuate and specific soil microenvironmental factors could influence tree species diversity to answer three questions: Do tree α and β-diversity differ among transects, even in a short-distance between them? Do microenvironmental variables influence tree diversity composition that occurs within a relict Neotropical montane oak forest? Is there a particular microenvironmental variable influencing tree species-specific?MethodsWe established four permanent transects during a year in a relict Neotropical montane oak forest, we assessed tree diversity and specific microenvironmental variables (soil moisture, soil temperature, pH, depth litterfall and light incidence). This allowed us to evaluate how microenvironmental variables at small-fragment influence α and β-tree diversity and tree species-specific.ResultsOur results showed that α-diversity was not different among transects; however, β-diversity of tree species was mostly explained by turnover and soil moisture, soil temperature, and light incidence were the microenvironmental variables that triggered the replacement (i.e., one species by another). Those variables also had effect on tree species-specific: Mexican beech (Fagus mexicana), Quebracho (Quercus delgadoana), Pezma (Cyathea fulva), Aguacatillo (Beilschmiedia mexicana), Pezma (Dicksonia sellowiana var. arachneosa), and Mountain magnolia (Magnolia schiedeana).DiscussionOur results confirm our hypothesis related to β-diversity but not with α-diversity; however, the tree community structure of the diversity was similar among transects. Our study represents the first effort to evaluate and link the soil microenvironmental effect on tree α and β-diversity, finding a high replacement in a small-fragment of Neotropical montane oak forest from eastern Mexico.
creator: Luis F. López-Calvillo
creator: Pilar Carbó-Ramírez
creator: Ernesto C. Rodríguez-Ramírez
uri: https://doi.org/10.7717/peerj.15415
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 López-Calvillo et al.

title: Minimizing the variables of voiding spot assay for comparison between laboratories
link: https://peerj.com/articles/15420
last-modified: 2023-05-23
description: The voiding spot assay (VSA) is increasingly being adopted as a standard method for assessing mouse urinary function. However, VSA outcomes are highly sensitive to housing environment and procedural parameters. Many variables exist among laboratories, including analytical software, type of daily housing cage, transportation, and the time of the day. Some of these variables, such as the time of VSA and analytical software, have been shown to result in inconsistency and incomparability of data. In this study, we evaluated whether the results of VSA can be compared across laboratories by minimizing these variables. We found that analytical tools between Fiji and MATLAB are in good agreement in the quantification of VSA parameters, especially primary voiding spot (PVS) parameters. Unexpectedly, we found that mice housed in different daily home cages did not alter voiding patterns in a standard VSA cage. Nonetheless, we still recommend acclimation when performing VSA in unfamiliar cages. Notably, mice are highly sensitive to transportation and the time in the morning versus afternoon, which can induce significant changes in voiding patterns. Therefore, a standardized period among laboratories and allowing 2–3 days of rest for mice acclimation after transportation are necessary for VSA. Finally, we performed VSA using identical procedural parameters in two laboratories from two geographical locations to compare the results of VSA and concluded that it is possible to generate limited comparable VSA data, such as PVS volume.
creator: Chuang Luo
creator: Juan Liu
creator: Jiali Yang
creator: Xiang Xie
creator: Weiqun Yu
creator: Huan Chen
uri: https://doi.org/10.7717/peerj.15420
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 Luo et al.

title: Virioplankton and virus-induced mortality of prokaryotes in the Kara Sea (Arctic) in summer
link: https://peerj.com/articles/15457
last-modified: 2023-05-23
description: Among the Arctic seas, the largest volume of river runoff (~45% of the total river-water inflow into the Arctic Ocean) enters the Siberian Kara Sea. The viral communities of the Kara Sea are important for the functioning of the marine ecosystem. Studies of virus–prokaryote interactions on the Kara Sea shelf have been conducted only in spring and autumn. Here, we investigated the abundance of free viruses, viruses attached to prokaryotes, and pico-sized detrital particles; the morphology (shape and size) of the viruses, viral infection and virus-mediated mortality of prokaryotes in early summer, i.e., during a seasonal ice melting period and maximum inflow of river-water volumes with high concentrations of dissolved and suspended organic carbon. Seawater samples for microbial analyses were collected across the Kara Sea shelf zone on board the Norilskiy Nickel as a research platform from June 29 to July 15, 2018. Abundances of prokaryotes (range (0.6–25.3) × 105 cells mL−1) and free viruses (range (10–117) × 105 viruses mL−1) were correlated (r = 0.63, p = 0.005) with an average virus: prokaryote ratio of 23.9 ± 5.3. The abundance of free viruses and viral-mediated mortality of prokaryotes were significantly higher in early summer than in early spring and autumn. Free viruses with a capsid diameter of 16–304 nm were recorded in the examined water samples. Waters in the Kara Sea shelf contained high concentrations of suspended organic particles 0.25–4.0 µm in size (range (0.6–25.3) × 105 particles mL−1). The proportions of free viruses, viruses attached to prokaryotes, and viruses attached to pico-sized detrital particles were 89.8 ± 6.0%, 2.2 ± 0.6% and 8.0 ± 1.3%, respectively, of the total virioplankton abundance (on average (61.5 ± 6.2) × 105 viruses mL−1). Viruses smaller than 60 nm clearly dominated at all studied sites. The majority of free viruses were not tailed. We estimated that an average of 1.4% (range 0.4–3.5%) of the prokaryote community was visibly infected by viruses, suggesting that a significant proportion of prokaryotic secondary production, 11.4% on average (range 4.0–34.0%), was lost due to viral lysis. There was a negative correlation between the abundance of pico-sized detrital particles and the frequency of visibly infected prokaryotic cells: r = −0.67, p = 0.0008.
creator: Alexander Ivanovich Kopylov
creator: Elena Anatoliyevna Zabotkina
creator: Andrey Fiodorovich Sazhin
creator: Nadezda Romanova
creator: Nikolay Belyaev
creator: Anastasia Drozdova
uri: https://doi.org/10.7717/peerj.15457
license: https://creativecommons.org/licenses/by/4.0/
rights: © 2023 Kopylov et al.

title: Determination of the affinity constants for phage display albumin-binding peptides
link: https://peerj.com/articles/15078
last-modified: 2023-05-22
description: BackgroundPhage display technology has been established as a powerful screening approach to select ligands or peptides for binding to proteins. Despite rapid growth in the field, there has been a relative dearth of quantitative criteria to measure the effectiveness of the process of phage display screening. Since human serum albumin (HSA) has been extensively studied as a drug carrier to extend the plasma half-life of protein therapeutics, the use of phage display technology is required for identifying albumin-binding peptides as the very promising strategy of albumin-binding against albumin fusion. The construction of albumin-binding drug requires the assessment of a large quantity of HSA-binding peptide (HSA binder) candidates for conjugation with therapeutic proteins. The use of the linear epitope mapping method has allowed researchers to discover many HSA-binding peptides. However, it may be inefficient to select these peptides based on sequence identity via randomly sequencing individual phage clones from enrichment pools.MethodHere, a simple assessment method to facilitate phage display selection of HSA-binding peptides was recommended. With experimentally determined phage titer, one can calculate the specificity ratios, the recovery yields and the relative dissociation constants, which are defined as quantitative criteria for panning and characterization of the binding phage fused peptides.ResultsConsequently, this approach may not only enable more rapid and low-cost phage display screening, but also efficiently reduce pseudo-positive phages selected as HSA binders for conjugation with therapeutic proteins.
creator: Yi-Feng Shi
uri: https://doi.org/10.7717/peerj.15078
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 Shi

title: Effects of in-situ stroboscopic training on visual, visuomotor and reactive agility in youth volleyball players
link: https://peerj.com/articles/15213
last-modified: 2023-05-22
description: BackgroundStroboscopic training is based on an exercise with intermittent visual stimuli that force a greater demand on the visuomotor processing for improving performance under normal vision. While the stroboscopic effect is used as an effective tool to improve information processing in general perceptual-cognitive tasks, there is still a lack of research focused on identifying training protocols for sport-specific settings. Therefore, we aimed at assessing the effects of in-situ stroboscopic training on visual, visuomotor and reactive agility in young volleyball players.MethodsFifty young volleyball athletes (26 males and 24 females; mean age, 16.5 ± 0.6 years) participated in this study and were each divided randomly into an experimental group and a control group, who then both performed identical volleyball-specific tasks, with the experimental group under stroboscopic influence. The participants were evaluated three times using laboratory based tests for simple and complex reaction speed, sensory sensitivity and saccade dynamics; before the after the 6-week-long training (short-term effect) and 4 weeks later (long-term effect). In addition, a field test investigated the effects of the training on reactive agility.ResultsA significant TIME vs GROUP effect was observed for (1) simple motor time (p = 0.020, ηp2 = 0.08), with improvement in the stroboscopic group in the post-test and retention test (p = 0.003, d = 0.42 and p = 0.027, d = 0.35, respectively); (2) complex reaction speed (p < 0.001, ηp2 = 0.22), with a large post-test effect in the stroboscopic group (p < 0.001, d = 0.87) and a small effect in the non-stroboscopic group (p = 0.010, d = 0.31); (3) saccade dynamics (p = 0.011, ηp2 = 0.09), with post-hoc tests in the stroboscopic group not reaching significance (p = 0.083, d = 0.54); and (4) reactive agility (p = 0.039, ηp2 = 0.07), with a post-test improvement in the stroboscopic group (p = 0.017, d = 0.49). Neither sensory sensitivity nor simple reaction time was statistically significantly affected as a result of the training (p > 0.05). A significant TIME vs GENDER effect was observed for saccadic dynamics (p = 0.003, ηp2 = 0.226) and reactive agility (p = 0.004, ηp2 = 0.213), with stronger performance gains in the females.ConclusionsThere was a larger effectiveness from the 6-week volleyball-specific training in the stroboscopic group compared to the non-stroboscopic group. The stroboscopic training resulted in significant improvements on most measures (three of five) of visual and visuomotor function with more marked enhancement in visuomotor than in sensory processing. Also, the stroboscopic intervention improved reactive agility, with more pronounced performance gains for short-term compared to the long-term changes. Gender differences in response to the stroboscopic training are inconclusive, therefore our findings do not offer a clear consensus.
creator: Michał Zwierko
creator: Wojciech Jedziniak
creator: Marek Popowczak
creator: Andrzej Rokita
uri: https://doi.org/10.7717/peerj.15213
license: https://creativecommons.org/licenses/by/4.0/
rights: © 2023 Zwierko et al.

title: Description and life cycle of a new species of the genus Arachnanthus (Cnidaria: Anthozoa: Ceriantharia) from the Southwestern Atlantic Ocean
link: https://peerj.com/articles/15290
last-modified: 2023-05-22
description: BackgroundCeriantharia is a subclass of the phylum Cnidaria, which comprises tube-dwelling marine invertebrates. This subclass is composed of three families, including Arachnactidae, with two known genera. Currently, the genus Arachnanthus has five valid species recorded from Australia, the Mediterranean Sea and both the Southern and Northern Pacific Ocean. However, at the moment, there is no record of organisms of this family from the South Atlantic Ocean. Besides that, the life cycle of any species of the genus Arachnanthus is known. The present study describes a new species of the genus Arachnanthus and its life cycle, based on specimens from Uruguay and South of Brazil.MethodsLarvae were collected by plankton net in Rio Grande—Brazil and the development and external morphology of these specimens were observed in the laboratory during two years, and subsequently described. Additionally, nine adult ceriantharians correspondent to the larvae from Rio Grande were collected in Uruguay and their external and internal anatomies, and cnidome were described.ResultsArachnanthus erranssp. nov. exhibited a free-swimming, short-lived cerinula larvae that spent short-time on the plankton. The larva developed into small and translucent polyps with a short actinopharynx, one pair of mesenteries attached to a siphonoglyph, and a medium first pair of metamesenteries. Further, the adult polyp displayed an unprecedented locomotion behavior in Ceriantharia that is first reported here, it can crawl under and in between the sediment.
creator: Celine S.S. Lopes
creator: Fabrizio Scarabino
creator: Alvar Carranza
creator: Ricardo González Muñoz
creator: André C. Morandini
creator: Renato Mitsuo Nagata
creator: Sérgio Nascimento Stampar
uri: https://doi.org/10.7717/peerj.15290
license: https://creativecommons.org/licenses/by/4.0/
rights: ©2023 S S Lopes et al.

title: Comparative morpho-anatomical study on Leptadenia pyrotechnica (Apocynaceae) growing in the hyper-arid and arid habitats of Saudi Arabia
link: https://peerj.com/articles/15320
last-modified: 2023-05-22
description: The use of wild plants is considered to be an eco-friendly and promising natural resource. In sandy desert habitats, Leptadenia pyrotechnica flourishes as a xerophytic shrub with high biomass production. As a dominant shrub in the arid sand dune habitats of Saudi Arabia, Leptadenia pyrotechnica (Forssk.) Decne (Asclepiadaceae) is one of the most common xerophytes; the many medicinal uses of this plant include treating allergies, productive coughs, abortions, diabetes, stomach disorders, fevers, kidney disorders, and stones. In such a distribution, morpho-anatomical characteristics, among other adaptive traits, play an important role. This study aims to characterize some morpho-anatomical adaptations of L. pyrotechnica in two stressful habitats: the hyper-arid inland sand dunes of the Empty Quarter (EQ) and the arid coastal sand dunes of Jazan. A morpho-anatomical analysis of plant stems and roots from both habitats was conducted using light microscopy (LM) and scanning electron microscopy (SEM). The outcomes indicated similar characteristics, a low surface-to-volume ratio (S/V), a thin boundary layer (δbl), an epidermis with many layers of hypodermis, bundles of sclerenchymatous cells around vascular tissue, and storage starch grains in ray parenchyma between xylem conduits. On the other hand, the L. pyrotechnica stem from the hyper-arid habitat of the Empty Quarter revealed more encrypted stomata, more elongated palisade cells, less calcium oxalate crystals with low Ca percentage, and a high vulnerability index of xylem vessels compared with the same traits of the stem from the Jazan coastal sand dunes habitat. Roots of L. pyrotechnica from both habitats revealed similar features of general anatomy. However, differences in specific anatomical traits were observed, especially in xylem vessel characters. The vulnerability index of root xylem vessels from the Empty Quarter habitat was more than that from the Jazan coastal sand dunes habitat. Furthermore, vestured bordered pits in root xylem walls were more abundant in the Empty Quarter habitat than in the Jazan coastal sand dunes habitat. As a result, these characteristics in the morpho-anatomy of L. pyrotechnica from both habitats provide practical adaptations to highly stressful conditions, along with specific anatomical traits relating to each habitat.
creator: Najla A. Al Shaye
uri: https://doi.org/10.7717/peerj.15320
license: https://creativecommons.org/licenses/by/4.0/
rights: © 2023 Al Shaye