PeerJ
type: channel
link: https://peerj.com/articles/
description: Articles published in PeerJ
publisher: PeerJ Inc.
publication name: PeerJ
issn: 2167-8359
items: Identification of pre-flexion fish larvae from the western South Atlantic using DNA barcoding and morphological characters
items: Effect of bioceramic intracanal medication on the dentinal bond strength of bioceramic cements: an ex-vivo study
items: Cognitive-behavioral treatment for insomnia and mindfulness-based stress reduction in nurses with insomnia: a non-inferiority internet delivered randomized controlled trial
items: Systematic review assessing the effects of amendments on acidic soils pH in tea plantations
items: Applicability and perspectives for DNA barcoding of soil invertebrates
items: Evaluation of the facial profile of skeletal Class III patients undergoing camouflage orthodontic treatment: a retrospective study
items: Evaluation of in-house dengue real-time PCR assays in West Java, Indonesia
items: A methodological and reporting quality assessment of systematic reviews/meta-analyses on exercise interventions for cognitive function in older adults with mild cognitive impairment
items: Validation of a commercially available mobile application for velocity-based resistance training
items: Application of combined teaching method of case-based-learning and clinical pathway in practical gynecological teaching

Identification of pre-flexion fish larvae from the western South Atlantic using DNA barcoding and morphological characters
type: item
type: AcademicArticle
description: Knowledge on species composition is the first step necessary for the proper conservation and management of biological resources and ecologically relevant species. High species diversity and a lack of diagnostic characters for some groups can impose difficulties for taxonomic identification through traditional methodologies, and ichthyoplankton (fish larvae and eggs) are a good example of such a scenario. With more than 35.000 valid species of fishes worldwide and overall similar anatomies in early developmental stages in closely related groups, fish larvae are often hard to be identified at the species or even more encompassing taxonomic levels. To overcome this situation, molecular techniques have been applied, with different markers tested over the years. Cytochrome c oxidase I (COI) is the most commonly used marker and now has the broadest public reference libraries, providing consistent results for species identification in different metazoan studies. Here we sequenced the mitochondrial COI-5P fragment of 89 fish larvae collected in the Campos Basin, coastal southeastern Brazil, and compared these sequences with references deposited in public databases to obtain taxonomic identifications. Most specimens identified are species of the Blenniiformes, with Parablennius and Labrisomus the most frequently identified genera. Parablennius included two species (P. marmoreus and P. pilicornis), while Labrisomus included three species (L. cricota, L. conditus and L. nuchipinnis). Anatomy of these molecularly identified specimens were then analyzed with the intention of finding anatomical characters that might be diagnostically informative amongst the early development stage (pre-flexion) larvae. Ventral pigmentation patterns are proposed as useful markers to identify Labrisomus species. However, additional specimens are needed to confirm if the character holds stability through the geographic distribution of the species.
format: application/pdf
format: text/html
creator: Allan Pierre Bonetti Pozzobon
creator: Jonathan Stuart Ready
creator: Fabio Di Dario
creator: Rodrigo Nunes-da-Fonseca
subject: Aquaculture, Fisheries and Fish Science
subject: Biodiversity
subject: Genetics
subject: Marine Biology
subject: Molecular Biology
description: doi:10.7717/peerj.17791
publisher: PeerJ Inc.
rights: © 2024 Pozzobon et al.
abstract: Knowledge on species composition is the first step necessary for the proper conservation and management of biological resources and ecologically relevant species. High species diversity and a lack of diagnostic characters for some groups can impose difficulties for taxonomic identification through traditional methodologies, and ichthyoplankton (fish larvae and eggs) are a good example of such a scenario. With more than 35.000 valid species of fishes worldwide and overall similar anatomies in early developmental stages in closely related groups, fish larvae are often hard to be identified at the species or even more encompassing taxonomic levels. To overcome this situation, molecular techniques have been applied, with different markers tested over the years. Cytochrome c oxidase I (COI) is the most commonly used marker and now has the broadest public reference libraries, providing consistent results for species identification in different metazoan studies. Here we sequenced the mitochondrial COI-5P fragment of 89 fish larvae collected in the Campos Basin, coastal southeastern Brazil, and compared these sequences with references deposited in public databases to obtain taxonomic identifications. Most specimens identified are species of the Blenniiformes, with Parablennius and Labrisomus the most frequently identified genera. Parablennius included two species (P. marmoreus and P. pilicornis), while Labrisomus included three species (L. cricota, L. conditus and L. nuchipinnis). Anatomy of these molecularly identified specimens were then analyzed with the intention of finding anatomical characters that might be diagnostically informative amongst the early development stage (pre-flexion) larvae. Ventral pigmentation patterns are proposed as useful markers to identify Labrisomus species. However, additional specimens are needed to confirm if the character holds stability through the geographic distribution of the species.
bibliographic citation: Pozzobon et al. (2024) Identification of pre-flexion fish larvae from the western South Atlantic using DNA barcoding and morphological characters. PeerJ 12:e17791 https://doi.org/10.7717/peerj.17791
date submitted: 2024-04-17
date accepted: 2024-07-01
issued: 2024-07-25
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Pozzobon
  given name: Allan Pierre Bonetti
author list: Agent
  family name: Ready
  given name: Jonathan Stuart
author list: Agent
  family name: Di Dario
  given name: Fabio
author list: Agent
  family name: Nunes-da-Fonseca
  given name: Rodrigo
doi: 10.7717/peerj.17791
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-25
copyright: © 2024 Pozzobon et al.
attribution name: Pozzobon et al.

Effect of bioceramic intracanal medication on the dentinal bond strength of bioceramic cements: an ex-vivo study
type: item
type: AcademicArticle
description: Background The present study evaluated the effect of a bioceramic intracanal medicament (Bio-C Temp) on the push-out bond strength of bioceramic cements. Methods Forty-eight human single-canaled premolars were prepared and randomly divided into three groups: Group (A) received no intracanal medicament; Group (B) calcium hydroxide (CH); and Group (C) Bio-C Temp. After medicament removal, the roots were sectioned transversely. The slices in each group were separated into two subgroups (n = 16): in Subgroup (1), mineral trioxide aggregate (MTA) was placed, and in Subgroup (2) Bio-C Repair. Push-out bond strength was determined using a universal testing machine, applying a constant compressive force on the cement until bond failure. The failure mode was also evaluated. Data were analyzed using the Chi-square test and two-way ANOVA followed by Tukey’s post hoc tests. The level of significance was set at 5%. Results The pushout bond strength of Bio-C Repair was significantly higher than that of MTA irrespective of intracanal medication (p = 0.005). The placement of Bio-C Temp was associated with significantly lower bond strength (p = 0.002, p = 0.001). Conclusion Bio-C Repair showed better bond strength compared to MTA, irrespective of intracanal medication. Bio-C Temp intracanal medicament, however, decreased the bond strength of both these cements.
format: application/pdf
format: text/html
creator: Rahaf A. Almohareb
creator: Reem M. Barakat
creator: Fahda N. Algahtani
creator: Mshael Ahmed Almohaimel
creator: Denah Alaraj
creator: Norah Alotaibi
subject: Dentistry
subject: Drugs and Devices
description: doi:10.7717/peerj.17826
publisher: PeerJ Inc.
rights: © 2024 Almohareb et al.
abstract: Background The present study evaluated the effect of a bioceramic intracanal medicament (Bio-C Temp) on the push-out bond strength of bioceramic cements. Methods Forty-eight human single-canaled premolars were prepared and randomly divided into three groups: Group (A) received no intracanal medicament; Group (B) calcium hydroxide (CH); and Group (C) Bio-C Temp. After medicament removal, the roots were sectioned transversely. The slices in each group were separated into two subgroups (n = 16): in Subgroup (1), mineral trioxide aggregate (MTA) was placed, and in Subgroup (2) Bio-C Repair. Push-out bond strength was determined using a universal testing machine, applying a constant compressive force on the cement until bond failure. The failure mode was also evaluated. Data were analyzed using the Chi-square test and two-way ANOVA followed by Tukey’s post hoc tests. The level of significance was set at 5%. Results The pushout bond strength of Bio-C Repair was significantly higher than that of MTA irrespective of intracanal medication (p = 0.005). The placement of Bio-C Temp was associated with significantly lower bond strength (p = 0.002, p = 0.001). Conclusion Bio-C Repair showed better bond strength compared to MTA, irrespective of intracanal medication. Bio-C Temp intracanal medicament, however, decreased the bond strength of both these cements.
bibliographic citation: Almohareb et al. (2024) Effect of bioceramic intracanal medication on the dentinal bond strength of bioceramic cements: an ex-vivo study. PeerJ 12:e17826 https://doi.org/10.7717/peerj.17826
date submitted: 2023-10-31
date accepted: 2024-07-08
issued: 2024-07-25
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Almohareb
  given name: Rahaf A.
author list: Agent
  family name: Barakat
  given name: Reem M.
author list: Agent
  family name: Algahtani
  given name: Fahda N.
author list: Agent
  family name: Almohaimel
  given name: Mshael Ahmed
author list: Agent
  family name: Alaraj
  given name: Denah
author list: Agent
  family name: Alotaibi
  given name: Norah
doi: 10.7717/peerj.17826
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-25
copyright: © 2024 Almohareb et al.
attribution name: Almohareb et al.

Cognitive-behavioral treatment for insomnia and mindfulness-based stress reduction in nurses with insomnia: a non-inferiority internet delivered randomized controlled trial
type: item
type: AcademicArticle
description: Background Insomnia is a highly prevalent sleep disorder frequently comorbid with mental health conditions in nurses. Despite the effectiveness of evidence-based cognitive behavioral therapy for insomnia (CBT-I), there is a critical need for alternative approaches. This study investigated whether internet-delivered mindfulness-based stress reduction (IMBSR) for insomnia could be an alternative to internet-delivered CBT-I (ICBT-I). Objective The hypothesis was that the IMBSR would be noninferior to the ICBT-I in reducing the severity of insomnia among nurses with insomnia. Additionally, it was expected that ICBT-I would produce a greater reduction in the severity of insomnia and depression than IMBSR. Method Among 240 screened nurses, 134 with insomnia were randomly allocated (IMBSR, n = 67; ICBT-I, n = 67). The assessment protocol comprised clinical interviews and self-reported outcome measures, including the Insomnia Severity Index (ISI), Patient Health Questionnaire-9 (PHQ-9), the 15-item Five Facet Mindfulness Questionnaire (FFMQ), and the Client Satisfaction Questionnaire (CSQ-I). Results The retention rate was 55% with 77.6% (n = 104) of participants completing the study. At post-intervention, the noninferiority analysis of the ISI score showed that the upper limit of the 95% confidence interval was 4.88 (P = 0.46), surpassing the pre-specified noninferiority margin of 4 points. Analysis of covariance revealed that the ICBT-I group had significantly lower ISI (Cohen’s d = 1.37) and PHQ-9 (Cohen’s d = 0.71) scores than did the IMBSR group. In contrast, the IMBSR group showed a statistically significant increase in the FFMQ-15 score (Cohen’s d = 0.67). Within-group differences showed that both the IMBSR and ICBT-I were effective at reducing insomnia severity and depression severity and improving mindfulness. Conclusion Overall, nurses demonstrated high levels of satisfaction and adherence to both interventions. The IMBSR significantly reduced insomnia severity an…
format: application/pdf
format: text/html
creator: Wanran Guo
creator: Nabi Nazari
creator: Masoud Sadeghi
subject: Clinical Trials
subject: Nursing
subject: Psychiatry and Psychology
subject: Mental Health
subject: COVID-19
description: doi:10.7717/peerj.17491
publisher: PeerJ Inc.
rights: © 2024 Guo et al.
abstract: Background Insomnia is a highly prevalent sleep disorder frequently comorbid with mental health conditions in nurses. Despite the effectiveness of evidence-based cognitive behavioral therapy for insomnia (CBT-I), there is a critical need for alternative approaches. This study investigated whether internet-delivered mindfulness-based stress reduction (IMBSR) for insomnia could be an alternative to internet-delivered CBT-I (ICBT-I). Objective The hypothesis was that the IMBSR would be noninferior to the ICBT-I in reducing the severity of insomnia among nurses with insomnia. Additionally, it was expected that ICBT-I would produce a greater reduction in the severity of insomnia and depression than IMBSR. Method Among 240 screened nurses, 134 with insomnia were randomly allocated (IMBSR, n = 67; ICBT-I, n = 67). The assessment protocol comprised clinical interviews and self-reported outcome measures, including the Insomnia Severity Index (ISI), Patient Health Questionnaire-9 (PHQ-9), the 15-item Five Facet Mindfulness Questionnaire (FFMQ), and the Client Satisfaction Questionnaire (CSQ-I). Results The retention rate was 55% with 77.6% (n = 104) of participants completing the study. At post-intervention, the noninferiority analysis of the ISI score showed that the upper limit of the 95% confidence interval was 4.88 (P = 0.46), surpassing the pre-specified noninferiority margin of 4 points. Analysis of covariance revealed that the ICBT-I group had significantly lower ISI (Cohen’s d = 1.37) and PHQ-9 (Cohen’s d = 0.71) scores than did the IMBSR group. In contrast, the IMBSR group showed a statistically significant increase in the FFMQ-15 score (Cohen’s d = 0.67). Within-group differences showed that both the IMBSR and ICBT-I were effective at reducing insomnia severity and depression severity and improving mindfulness. Conclusion Overall, nurses demonstrated high levels of satisfaction and adherence to both interventions. The IMBSR significantly reduced insomnia severity an…
bibliographic citation: Guo et al. (2024) Cognitive-behavioral treatment for insomnia and mindfulness-based stress reduction in nurses with insomnia: a non-inferiority internet delivered randomized controlled trial. PeerJ 12:e17491 https://doi.org/10.7717/peerj.17491
date submitted: 2024-02-15
date accepted: 2024-05-09
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Guo
  given name: Wanran
author list: Agent
  family name: Nazari
  given name: Nabi
author list: Agent
  family name: Sadeghi
  given name: Masoud
doi: 10.7717/peerj.17491
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: ©2024 Guo et al.
attribution name: Guo et al.

Systematic review assessing the effects of amendments on acidic soils pH in tea plantations
type: item
type: AcademicArticle
description: Soil acidification has emerged as a critical limiting factor for the sustainable development of the tea industry. In this article, a comprehensive review of 63 original research articles focusing on the impact of amendments on the pH in tea plantations soil was conducted. Through meta-analysis, the effect of applying soil amendments to increase the pH of tea plantation soil and its influencing factors were investigated. The results revealed that lime had a significant impact, increasing the pH by 18% in tea plantation soil, while rapeseed cake had a minimal (2%) effect. It was observed that as the quantity of amendments and pH levels increased, so did their impact on the pH of tea plantation soil. Subgroup analysis within biochar showed varying effects, depending on soil pH, with an 11% increase in acidic soil. Among these amendments, biochar produced at pyrolysis temperature ranging from 501–600 °C and derived from animal waste demonstrated significant effect on increasing soil pH in tea plantations by 9% and 12%, respectively. This study offers valuable insights into improving and ensuring the health and sustainability of tea plantations.
format: application/pdf
format: text/html
creator: Zhenyu Yang
creator: Bo Yao
creator: Ronghui Li
creator: Wenyan Yang
creator: Dubin Dong
creator: Zhengqian Ye
creator: Yuchun Wang
creator: Jiawei Ma
subject: Agricultural Science
subject: Ecology
subject: Environmental Sciences
subject: Plant Science
subject: Soil Science
description: doi:10.7717/peerj.17653
publisher: PeerJ Inc.
rights: © 2024 Yang et al.
abstract: Soil acidification has emerged as a critical limiting factor for the sustainable development of the tea industry. In this article, a comprehensive review of 63 original research articles focusing on the impact of amendments on the pH in tea plantations soil was conducted. Through meta-analysis, the effect of applying soil amendments to increase the pH of tea plantation soil and its influencing factors were investigated. The results revealed that lime had a significant impact, increasing the pH by 18% in tea plantation soil, while rapeseed cake had a minimal (2%) effect. It was observed that as the quantity of amendments and pH levels increased, so did their impact on the pH of tea plantation soil. Subgroup analysis within biochar showed varying effects, depending on soil pH, with an 11% increase in acidic soil. Among these amendments, biochar produced at pyrolysis temperature ranging from 501–600 °C and derived from animal waste demonstrated significant effect on increasing soil pH in tea plantations by 9% and 12%, respectively. This study offers valuable insights into improving and ensuring the health and sustainability of tea plantations.
bibliographic citation: Yang et al. (2024) Systematic review assessing the effects of amendments on acidic soils pH in tea plantations. PeerJ 12:e17653 https://doi.org/10.7717/peerj.17653
date submitted: 2024-01-23
date accepted: 2024-06-07
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by-nc/4.0
author list: Agent
  family name: Yang
  given name: Zhenyu
author list: Agent
  family name: Yao
  given name: Bo
author list: Agent
  family name: Li
  given name: Ronghui
author list: Agent
  family name: Yang
  given name: Wenyan
author list: Agent
  family name: Dong
  given name: Dubin
author list: Agent
  family name: Ye
  given name: Zhengqian
author list: Agent
  family name: Wang
  given name: Yuchun
author list: Agent
  family name: Ma
  given name: Jiawei
doi: 10.7717/peerj.17653
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: © 2024 Yang et al.
attribution name: Yang et al.

Applicability and perspectives for DNA barcoding of soil invertebrates
type: item
type: AcademicArticle
description: Belowground invertebrate communities are dominated by species-rich and very small microarthropods that require long handling times and high taxonomic expertise for species determination. Molecular based methods like metabarcoding circumvent the morphological determination process by assigning taxa bioinformatically based on sequence information. The potential to analyse diverse and cryptic communities in short time at high taxonomic resolution is promising. However, metabarcoding studies revealed that taxonomic assignment below family-level in Collembola (Hexapoda) and Oribatida (Acariformes) is difficult and often fails. These are the most abundant and species-rich soil-living microarthropods, and the application of molecular-based, automated species determination would be most beneficial in these taxa. In this study, we analysed the presence of a barcoding gap in the standard barcoding gene cytochrome oxidase I (COI) in Collembola and Oribatida. The barcoding gap describes a significant difference between intra- and interspecific genetic distances among taxa and is essential for bioinformatic taxa assignment. We collected COI sequences of Collembola and Oribatida from BOLD and NCBI and focused on species with a wide geographic sampling to capture the range of their intraspecific variance. Our results show that intra- and interspecific genetic distances in COI overlapped in most species, impeding accurate assignment. When a barcoding gap was present, it exceeded the standard threshold of 3% intraspecific distances and also differed between species. Automatic specimen assignments also showed that most species comprised of multiple genetic lineages that caused ambiguous taxon assignments in distance-based methods. Character-based taxonomic assignment using phylogenetic trees and monophyletic clades as criteria worked for some species of Oribatida but failed completely for Collembola. Notably, parthenogenetic species showed lower genetic variance in COI and more accur…
format: application/pdf
format: text/html
creator: Jéhan Le Cadre
creator: Finn Luca Klemp
creator: Miklós Bálint
creator: Stefan Scheu
creator: Ina Schaefer
subject: Biodiversity
subject: Ecology
subject: Entomology
subject: Genetics
subject: Zoology
description: doi:10.7717/peerj.17709
publisher: PeerJ Inc.
rights: © 2024 Le Cadre et al.
abstract: Belowground invertebrate communities are dominated by species-rich and very small microarthropods that require long handling times and high taxonomic expertise for species determination. Molecular based methods like metabarcoding circumvent the morphological determination process by assigning taxa bioinformatically based on sequence information. The potential to analyse diverse and cryptic communities in short time at high taxonomic resolution is promising. However, metabarcoding studies revealed that taxonomic assignment below family-level in Collembola (Hexapoda) and Oribatida (Acariformes) is difficult and often fails. These are the most abundant and species-rich soil-living microarthropods, and the application of molecular-based, automated species determination would be most beneficial in these taxa. In this study, we analysed the presence of a barcoding gap in the standard barcoding gene cytochrome oxidase I (COI) in Collembola and Oribatida. The barcoding gap describes a significant difference between intra- and interspecific genetic distances among taxa and is essential for bioinformatic taxa assignment. We collected COI sequences of Collembola and Oribatida from BOLD and NCBI and focused on species with a wide geographic sampling to capture the range of their intraspecific variance. Our results show that intra- and interspecific genetic distances in COI overlapped in most species, impeding accurate assignment. When a barcoding gap was present, it exceeded the standard threshold of 3% intraspecific distances and also differed between species. Automatic specimen assignments also showed that most species comprised of multiple genetic lineages that caused ambiguous taxon assignments in distance-based methods. Character-based taxonomic assignment using phylogenetic trees and monophyletic clades as criteria worked for some species of Oribatida but failed completely for Collembola. Notably, parthenogenetic species showed lower genetic variance in COI and more accur…
bibliographic citation: Le Cadre et al. (2024) Applicability and perspectives for DNA barcoding of soil invertebrates. PeerJ 12:e17709 https://doi.org/10.7717/peerj.17709
date submitted: 2024-02-27
date accepted: 2024-06-18
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Le Cadre
  given name: Jéhan
author list: Agent
  family name: Klemp
  given name: Finn Luca
author list: Agent
  family name: Bálint
  given name: Miklós
author list: Agent
  family name: Scheu
  given name: Stefan
author list: Agent
  family name: Schaefer
  given name: Ina
doi: 10.7717/peerj.17709
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: ©2024 Le Cadre et al.
attribution name: Le Cadre et al.

Evaluation of the facial profile of skeletal Class III patients undergoing camouflage orthodontic treatment: a retrospective study
type: item
type: AcademicArticle
description: Objective To identify objective metrics for evaluating the esthetics of facial profiles in skeletal Class III patients undergoing camouflage orthodontic treatment. Methods Eighty Asian–Chinese patients classified as skeletal Class III were included. Thirty cephalometric measurements of pre- and posttreatment cephalograms were analyzed. Ten orthodontists assigned visual analog scale (VAS) scores to the pre- and posttreatment profiles based on standardized lateral photographs. Correlations between subjective VAS scores and objective measurements were assessed using Pearson correlation and stepwise multiple linear regression analysis. Results Lower incisor (L1) protrusion, nasolabial angle, lower lip-E line distance, SNB angle, and L1 to AP plane were significantly correlated with VAS scores of pretreatment profiles of skeletal Class III patients. Factors such as retraction of the lower incisor, increased interincisal angle and overjet, reduction of lower lip-E line distance, as well as augmentation of the Z angle and nasolabial angle were significantly correlated with the changes in VAS scores post-camouflage orthodontic treatment. Stepwise multiple linear regression analysis revealed that pretreatment nasolabial angle, changes in the lower lip-E line distance, and pretreatment Pog-NB distance were the key factors influencing the posttreatment facial profile esthetics of skeletal Class III patients with camouflage orthodontic treatment. Conclusion Several cephalometric measurements correlate with subjective facial esthetic evaluations of skeletal Class III patients. Changes in lower lip prominence, the pretreatment nasolabial angle, and Pog-NB distance are the main factors related to facial esthetics in skeletal Class III patients after camouflage orthodontic treatment.
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format: text/html
creator: Xiaobei Li
creator: Yuan Tian
creator: Runzhi Guo
creator: Weiran Li
creator: Danqing He
creator: Yannan Sun
subject: Dentistry
description: doi:10.7717/peerj.17733
publisher: PeerJ Inc.
rights: © 2024 Li et al.
abstract: Objective To identify objective metrics for evaluating the esthetics of facial profiles in skeletal Class III patients undergoing camouflage orthodontic treatment. Methods Eighty Asian–Chinese patients classified as skeletal Class III were included. Thirty cephalometric measurements of pre- and posttreatment cephalograms were analyzed. Ten orthodontists assigned visual analog scale (VAS) scores to the pre- and posttreatment profiles based on standardized lateral photographs. Correlations between subjective VAS scores and objective measurements were assessed using Pearson correlation and stepwise multiple linear regression analysis. Results Lower incisor (L1) protrusion, nasolabial angle, lower lip-E line distance, SNB angle, and L1 to AP plane were significantly correlated with VAS scores of pretreatment profiles of skeletal Class III patients. Factors such as retraction of the lower incisor, increased interincisal angle and overjet, reduction of lower lip-E line distance, as well as augmentation of the Z angle and nasolabial angle were significantly correlated with the changes in VAS scores post-camouflage orthodontic treatment. Stepwise multiple linear regression analysis revealed that pretreatment nasolabial angle, changes in the lower lip-E line distance, and pretreatment Pog-NB distance were the key factors influencing the posttreatment facial profile esthetics of skeletal Class III patients with camouflage orthodontic treatment. Conclusion Several cephalometric measurements correlate with subjective facial esthetic evaluations of skeletal Class III patients. Changes in lower lip prominence, the pretreatment nasolabial angle, and Pog-NB distance are the main factors related to facial esthetics in skeletal Class III patients after camouflage orthodontic treatment.
bibliographic citation: Li et al. (2024) Evaluation of the facial profile of skeletal Class III patients undergoing camouflage orthodontic treatment: a retrospective study. PeerJ 12:e17733 https://doi.org/10.7717/peerj.17733
date submitted: 2024-01-23
date accepted: 2024-06-21
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Li
  given name: Xiaobei
author list: Agent
  family name: Tian
  given name: Yuan
author list: Agent
  family name: Guo
  given name: Runzhi
author list: Agent
  family name: Li
  given name: Weiran
author list: Agent
  family name: He
  given name: Danqing
author list: Agent
  family name: Sun
  given name: Yannan
doi: 10.7717/peerj.17733
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: ©2024 Li et al.
attribution name: Li et al.

Evaluation of in-house dengue real-time PCR assays in West Java, Indonesia
type: item
type: AcademicArticle
description: Dengue is an infectious disease caused by infection of dengue virus (DENV) transmitted by Aedes aegypti and Aedes albopictus. In Indonesia, dengue commonly occurs with an increasing incidence rate annually. It is known that early detection of dengue infection is one of the keys to controlling this disease outbreak. Rapid and accurate early detection to diagnose dengue can be achieved by molecular tests, one of which is through a real-time PCR method. However, real-time PCR assay for dengue developed based on Indonesian DENV sequences has not been available. Therefore, we developed in-house dengue real-time PCR (SYBR- and TaqMan-based) assays and evaluated those assays in routine clinical testing in the community. These assays target the 3′ UTR region of the four DENV serotypes and was found to be specific for DENV. The most sensitive assay was the TaqMan assay with the LOD95% of 482 copy/ml, followed by the SYBR assay with the LOD95% of 14,398 copy/ml. We recruited dengue suspected patients from three primary health care services in West Java, Indonesia to represent the community testing setting. Dengue infection was examined using the two in-house real-time PCR assays along with NS1, IgM, and IgG rapid diagnostic tests (RDT). In total, as many as 74 clinical specimens of dengue suspected patients were included in this study. Among those patients, 21 were positive for TaqMan assay, 17 were positive for SYBR assay, nine were positive for NS1 test, six were positive for both IgG and IgM tests, and 22 were positive for IgG test only. Compared with our in-house TaqMan assay, the sensitivity of NS1 test, IgM test, and IgG test were 42.86%, 14.29%, and 28.57% respectively. Among these three RDT tests, NS1 showed 100% specificity. Thus, our study confirmed that NS1 test showed high specificity, indicating that a positive result of NS1 can be confidently considered a dengue case. However, NS1, IgM, and IgG tests with RDT are not enough to diagnose a dengue case. We suggest …
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creator: Denti R. Kinanti
creator: Intan Ahmad
creator: Ramadhani Putra
creator: Sri Yusmalinar
creator: Indra Wibowo
creator: Tjandra Anggraeni
creator: Angga Dwiartama
creator: Tommy Octavianus Soetrisno Tjia
creator: Putri Cahya Destiani
creator: Karimatu Khoirunnisa
creator: Wu-Chun Tu
creator: Kok-Boon Neoh
creator: Rosye Arosdiani Apip
creator: Ahyani Raksanagara
creator: Ira Dewi Jani
creator: Yeppi Tisnawati
creator: Aan Warisman
creator: Tita Rostiana
creator: Azzania Fibriani
subject: Molecular Biology
subject: Epidemiology
subject: Infectious Diseases
subject: Public Health
description: doi:10.7717/peerj.17758
publisher: PeerJ Inc.
rights: © 2024 Kinanti et al.
abstract: Dengue is an infectious disease caused by infection of dengue virus (DENV) transmitted by Aedes aegypti and Aedes albopictus. In Indonesia, dengue commonly occurs with an increasing incidence rate annually. It is known that early detection of dengue infection is one of the keys to controlling this disease outbreak. Rapid and accurate early detection to diagnose dengue can be achieved by molecular tests, one of which is through a real-time PCR method. However, real-time PCR assay for dengue developed based on Indonesian DENV sequences has not been available. Therefore, we developed in-house dengue real-time PCR (SYBR- and TaqMan-based) assays and evaluated those assays in routine clinical testing in the community. These assays target the 3′ UTR region of the four DENV serotypes and was found to be specific for DENV. The most sensitive assay was the TaqMan assay with the LOD95% of 482 copy/ml, followed by the SYBR assay with the LOD95% of 14,398 copy/ml. We recruited dengue suspected patients from three primary health care services in West Java, Indonesia to represent the community testing setting. Dengue infection was examined using the two in-house real-time PCR assays along with NS1, IgM, and IgG rapid diagnostic tests (RDT). In total, as many as 74 clinical specimens of dengue suspected patients were included in this study. Among those patients, 21 were positive for TaqMan assay, 17 were positive for SYBR assay, nine were positive for NS1 test, six were positive for both IgG and IgM tests, and 22 were positive for IgG test only. Compared with our in-house TaqMan assay, the sensitivity of NS1 test, IgM test, and IgG test were 42.86%, 14.29%, and 28.57% respectively. Among these three RDT tests, NS1 showed 100% specificity. Thus, our study confirmed that NS1 test showed high specificity, indicating that a positive result of NS1 can be confidently considered a dengue case. However, NS1, IgM, and IgG tests with RDT are not enough to diagnose a dengue case. We suggest …
bibliographic citation: Kinanti et al. (2024) Evaluation of in-house dengue real-time PCR assays in West Java, Indonesia. PeerJ 12:e17758 https://doi.org/10.7717/peerj.17758
date submitted: 2022-06-02
date accepted: 2024-06-25
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Kinanti
  given name: Denti R.
author list: Agent
  family name: Ahmad
  given name: Intan
author list: Agent
  family name: Putra
  given name: Ramadhani
author list: Agent
  family name: Yusmalinar
  given name: Sri
author list: Agent
  family name: Wibowo
  given name: Indra
author list: Agent
  family name: Anggraeni
  given name: Tjandra
author list: Agent
  family name: Dwiartama
  given name: Angga
author list: Agent
  family name: Tjia
  given name: Tommy Octavianus Soetrisno
author list: Agent
  family name: Destiani
  given name: Putri Cahya
author list: Agent
  family name: Khoirunnisa
  given name: Karimatu
author list: Agent
  family name: Tu
  given name: Wu-Chun
author list: Agent
  family name: Neoh
  given name: Kok-Boon
author list: Agent
  family name: Apip
  given name: Rosye Arosdiani
author list: Agent
  family name: Raksanagara
  given name: Ahyani
author list: Agent
  family name: Dewi Jani
  given name: Ira
author list: Agent
  family name: Tisnawati
  given name: Yeppi
author list: Agent
  family name: Warisman
  given name: Aan
author list: Agent
  family name: Rostiana
  given name: Tita
author list: Agent
  family name: Fibriani
  given name: Azzania
doi: 10.7717/peerj.17758
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: © 2024 Kinanti et al.
attribution name: Kinanti et al.

A methodological and reporting quality assessment of systematic reviews/meta-analyses on exercise interventions for cognitive function in older adults with mild cognitive impairment
type: item
type: AcademicArticle
description: Objective To assess the methodological quality of meta-analytic literature on exercise interventions for cognitive function in patients with mild cognitive impairment (MCI) and the certainty of evidence for its outcome indicators, and to provide clinicians and researchers with more reliable data for making decisions. Methods Meta-analytic literature related to the effect of exercise intervention on cognitive function in patients with mild cognitive impairment was searched through PubMed, Cochrane Library, Embase, Scopus, Physiotherapy Evidence Database and Web of Science, all with a search period frame of each database until June 1, 2024. The AMSTAR2 scale was used to evaluate the methodological quality of the included studies. Results Seventeen meta-analyses were included. The AMSTAR2 scale evaluation results showed that there was one medium-quality studies (5.55%), seven low-quality studies (38.88%), and 10 very low-quality studies (55.55%). Methodological deficiencies included failure to prepare a plan and provide a registration number, literature screening, data extraction, reasons for exclusion not described in detail, poor implementation process for systematic evaluation, and failure to describe the source of funding for the included studies or relevant conflicts of interest. Conclusion The overall methodological quality of the meta-analytic literature is low, and the certainty of evidence is low. We encourage the conduction of high-quality randomized trials to generate stronger evidence. Subsequent systematic reviews can then synthesize this evidence to inform future research and clinical guidelines.
format: application/pdf
format: text/html
creator: Wanli Zang
creator: Qinghai Zou
creator: Ningkun Xiao
creator: Mingqing Fang
creator: Su Wang
creator: Jingjing Chen
subject: Cognitive Disorders
subject: Evidence Based Medicine
subject: Geriatrics
subject: Sports Medicine
description: doi:10.7717/peerj.17773
publisher: PeerJ Inc.
rights: © 2024 Zang et al.
abstract: Objective To assess the methodological quality of meta-analytic literature on exercise interventions for cognitive function in patients with mild cognitive impairment (MCI) and the certainty of evidence for its outcome indicators, and to provide clinicians and researchers with more reliable data for making decisions. Methods Meta-analytic literature related to the effect of exercise intervention on cognitive function in patients with mild cognitive impairment was searched through PubMed, Cochrane Library, Embase, Scopus, Physiotherapy Evidence Database and Web of Science, all with a search period frame of each database until June 1, 2024. The AMSTAR2 scale was used to evaluate the methodological quality of the included studies. Results Seventeen meta-analyses were included. The AMSTAR2 scale evaluation results showed that there was one medium-quality studies (5.55%), seven low-quality studies (38.88%), and 10 very low-quality studies (55.55%). Methodological deficiencies included failure to prepare a plan and provide a registration number, literature screening, data extraction, reasons for exclusion not described in detail, poor implementation process for systematic evaluation, and failure to describe the source of funding for the included studies or relevant conflicts of interest. Conclusion The overall methodological quality of the meta-analytic literature is low, and the certainty of evidence is low. We encourage the conduction of high-quality randomized trials to generate stronger evidence. Subsequent systematic reviews can then synthesize this evidence to inform future research and clinical guidelines.
bibliographic citation: Zang et al. (2024) A methodological and reporting quality assessment of systematic reviews/meta-analyses on exercise interventions for cognitive function in older adults with mild cognitive impairment. PeerJ 12:e17773 https://doi.org/10.7717/peerj.17773
date submitted: 2024-04-14
date accepted: 2024-06-28
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Zang
  given name: Wanli
author list: Agent
  family name: Zou
  given name: Qinghai
author list: Agent
  family name: Xiao
  given name: Ningkun
author list: Agent
  family name: Fang
  given name: Mingqing
author list: Agent
  family name: Wang
  given name: Su
author list: Agent
  family name: Chen
  given name: Jingjing
doi: 10.7717/peerj.17773
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: ©2024 Zang et al.
attribution name: Zang et al.

Validation of a commercially available mobile application for velocity-based resistance training
type: item
type: AcademicArticle
description: Background Velocity-based training (VBT) is commonly used for programming and autoregulation of resistance training. Velocity may also be measured during resistance training to estimate one repetition maximum and monitor fatigue. This study quantifies the validity of Metric VBT, a mobile application that uses camera-vision for measuring barbell range of motion (RoM) and mean velocity during resistance exercises. Methods Twenty-four participants completed back squat and bench press repetitions across various loads. Five mobile devices were placed at varying angles (0, ±10, and ±20°) perpendicular to the participant. The validity of Metric VBT was assessed in comparison to Vicon motion analysis using precision and recall, Lin’s concordance correlation coefficient, and Bland-Altman plots. Proportional bias was assessed using linear regression. Results Metric VBT accurately detected over 95% of repetitions. It showed moderate to substantial agreement with the Vicon system for measuring RoM in both exercises. The average Limits of Agreement (LoA) for RoM across all camera positions were −5.45 to 4.94 cm for squats and −5.80 to 3.55 cm for bench presses. Metric VBT exhibited poor to moderate agreement with the Vicon system for measuring mean velocity. The average LoA for mean velocity were 0.03 to 0.25 m/s for squats and −5.80 to 3.55 m/s for bench presses. A proportional bias was observed, with bias increasing as repetition velocity increased. Conclusions Metric VBT’s wide LoA for measuring RoM and mean velocity highlights significant accuracy concerns, exceeding acceptable levels for practical use. However, for users prioritizing repetition counts over precise RoM or mean velocity data, the application can still provide useful information for monitoring workout volume.
format: application/pdf
format: text/html
creator: Danielle Anne Trowell
creator: Angus G. Carruthers Collins
creator: Ashlee M. Hendy
creator: Eric James Drinkwater
creator: Claire Kenneally-Dabrowski
subject: Kinesiology
subject: Biomechanics
subject: Sports Injury
subject: Sports Medicine
description: doi:10.7717/peerj.17789
publisher: PeerJ Inc.
rights: © 2024 Trowell et al.
abstract: Background Velocity-based training (VBT) is commonly used for programming and autoregulation of resistance training. Velocity may also be measured during resistance training to estimate one repetition maximum and monitor fatigue. This study quantifies the validity of Metric VBT, a mobile application that uses camera-vision for measuring barbell range of motion (RoM) and mean velocity during resistance exercises. Methods Twenty-four participants completed back squat and bench press repetitions across various loads. Five mobile devices were placed at varying angles (0, ±10, and ±20°) perpendicular to the participant. The validity of Metric VBT was assessed in comparison to Vicon motion analysis using precision and recall, Lin’s concordance correlation coefficient, and Bland-Altman plots. Proportional bias was assessed using linear regression. Results Metric VBT accurately detected over 95% of repetitions. It showed moderate to substantial agreement with the Vicon system for measuring RoM in both exercises. The average Limits of Agreement (LoA) for RoM across all camera positions were −5.45 to 4.94 cm for squats and −5.80 to 3.55 cm for bench presses. Metric VBT exhibited poor to moderate agreement with the Vicon system for measuring mean velocity. The average LoA for mean velocity were 0.03 to 0.25 m/s for squats and −5.80 to 3.55 m/s for bench presses. A proportional bias was observed, with bias increasing as repetition velocity increased. Conclusions Metric VBT’s wide LoA for measuring RoM and mean velocity highlights significant accuracy concerns, exceeding acceptable levels for practical use. However, for users prioritizing repetition counts over precise RoM or mean velocity data, the application can still provide useful information for monitoring workout volume.
bibliographic citation: Trowell et al. (2024) Validation of a commercially available mobile application for velocity-based resistance training. PeerJ 12:e17789 https://doi.org/10.7717/peerj.17789
date submitted: 2023-12-18
date accepted: 2024-06-30
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Trowell
  given name: Danielle Anne
author list: Agent
  family name: Carruthers Collins
  given name: Angus G.
author list: Agent
  family name: Hendy
  given name: Ashlee M.
author list: Agent
  family name: Drinkwater
  given name: Eric James
author list: Agent
  family name: Kenneally-Dabrowski
  given name: Claire
doi: 10.7717/peerj.17789
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: © 2024 Trowell et al.
attribution name: Trowell et al.

Application of combined teaching method of case-based-learning and clinical pathway in practical gynecological teaching
type: item
type: AcademicArticle
description: Background To train highly qualified medical talent in 5-year programs and improve students’ analytical and problem-solving abilities, it is necessary to change the traditional teaching method. This study introduces the combined teaching method of case-based learning (CBL) and clinical pathway and evaluates its role in practical gynecological teaching. Methods Medical students in a 5-year program who were enrolled in the fourth year were selected as the research subjects; these students were randomized into two groups that separately received either the traditional teaching method or the combined teaching method of CBL and clinical pathway. Before the internship, a questionnaire was administered to explore students’ views of internship in gynecology, and after the internship, the questionnaire was administered to assess the two teaching methods. Furthermore, theoretical and skill tests were performed both before and after the internship. Results A total of 206 medical students in a 5-year program who were in their fourth year were enrolled in the study. Students in the experimental group performed significantly better than those in the control group. They performed significantly better in the postinternship test than in the preinternship test (P < 0.001). The questionnaire showed that more students in the experimental group thought that their learning interests, clinical skills, case analysis ability, clinical communication ability, understanding of theoretical knowledge and clinical thinking ability had improved and significantly differed between the two groups (P < 0.05). Discussion Compared to traditional teaching methods, combined teaching method of CBL and clinical pathway can elevate students’ academic performance, improve their learning enthusiasm and help promote clinical teachers’ teaching quality. Additionally, this novel method is effective in facilitating the achievement of teaching objectives and improving the quality of talent training. Therefore, the …
format: application/pdf
format: text/html
creator: Xiaoxia Wang
creator: Xuan Che
creator: Xuedong Tang
creator: Zhengfen Xu
subject: Gynecology and Obstetrics
subject: Science and Medical Education
subject: Healthcare Services
description: doi:10.7717/peerj.17813
publisher: PeerJ Inc.
rights: © 2024 Wang et al.
abstract: Background To train highly qualified medical talent in 5-year programs and improve students’ analytical and problem-solving abilities, it is necessary to change the traditional teaching method. This study introduces the combined teaching method of case-based learning (CBL) and clinical pathway and evaluates its role in practical gynecological teaching. Methods Medical students in a 5-year program who were enrolled in the fourth year were selected as the research subjects; these students were randomized into two groups that separately received either the traditional teaching method or the combined teaching method of CBL and clinical pathway. Before the internship, a questionnaire was administered to explore students’ views of internship in gynecology, and after the internship, the questionnaire was administered to assess the two teaching methods. Furthermore, theoretical and skill tests were performed both before and after the internship. Results A total of 206 medical students in a 5-year program who were in their fourth year were enrolled in the study. Students in the experimental group performed significantly better than those in the control group. They performed significantly better in the postinternship test than in the preinternship test (P < 0.001). The questionnaire showed that more students in the experimental group thought that their learning interests, clinical skills, case analysis ability, clinical communication ability, understanding of theoretical knowledge and clinical thinking ability had improved and significantly differed between the two groups (P < 0.05). Discussion Compared to traditional teaching methods, combined teaching method of CBL and clinical pathway can elevate students’ academic performance, improve their learning enthusiasm and help promote clinical teachers’ teaching quality. Additionally, this novel method is effective in facilitating the achievement of teaching objectives and improving the quality of talent training. Therefore, the …
bibliographic citation: Wang et al. (2024) Application of combined teaching method of case-based-learning and clinical pathway in practical gynecological teaching. PeerJ 12:e17813 https://doi.org/10.7717/peerj.17813
date submitted: 2024-01-02
date accepted: 2024-07-03
issued: 2024-07-24
is part of: PeerJ
license: https://creativecommons.org/licenses/by-nc/4.0
author list: Agent
  family name: Wang
  given name: Xiaoxia
author list: Agent
  family name: Che
  given name: Xuan
author list: Agent
  family name: Tang
  given name: Xuedong
author list: Agent
  family name: Xu
  given name: Zhengfen
doi: 10.7717/peerj.17813
volume: 12
issn: 2167-8359
publication name: PeerJ
publication date: 2024-07-24
copyright: © 2024 Wang et al.
attribution name: Wang et al.

PeerJ
type: Periodical
uri: PeerJ
issn: 2167-8359