PeerJ
type: channel
link: https://peerj.com/articles/
description: Articles published in PeerJ
publisher: PeerJ Inc.
publication name: PeerJ
issn: 2167-8359
items: Macrophages play a key role in tissue repair and regeneration
items: The validity and reliability of the Test of Memory Strategies among Italian healthy adults
items: A spectacular new species of Hyloscirtus (Anura: Hylidae) from the Cordillera de Los Llanganates in the eastern Andes of Ecuador
items: Evaluation of total immunoglobulin G and subclass antibodies in an enzyme-linked immunosorbent assay for serodiagnosis of human amebic liver abscess
items: Physiological, biochemical and phytohormone responses of Elymus nutans to α-pinene-induced allelopathy
items: Mutualist- and antagonist-mediated selection contribute to trait diversification of flowers
items: Cold water and harmful algal blooms linked to coral reef collapse in the Eastern Tropical Pacific
items: A phylogenetic analysis of Bromus (Poaceae: Pooideae: Bromeae) based on nuclear ribosomal and plastid data, with a focus on Bromus sect. Bromus
items: High resolution thermal remote sensing and the limits of species’ tolerance
items: Evaluation of knowledge and barriers of influenza vaccine uptake among university students in Saudi Arabia; a cross-sectional analysis

Macrophages play a key role in tissue repair and regeneration
type: item
type: AcademicArticle
description: Tissue regeneration after body injury has always been a complex problem to resolve for mammals. In adult mammals, the repair process after tissue injury is often accompanied by continuous and extensive fibrosis, which leads to scars. This process has been shown to severely hinder regeneration. Macrophages, as widely distributed innate immune cells, not only play an important role in various pathological processes, but also participate in the repair process before tissue regeneration and coordinate the regeneration process after repair. This review will discuss the various forms and indispensability of macrophages involved in repair and regeneration, and how macrophages play a role in the repair and regeneration of different tissues.
format: application/pdf
format: text/html
creator: Yajie Yu
creator: Zhongyu Yue
creator: Mengli Xu
creator: Meiling Zhang
creator: Xue Shen
creator: Zihan Ma
creator: Juan Li
creator: Xin Xie
subject: Cell Biology
subject: Developmental Biology
subject: Virology
subject: Immunology
description: doi:10.7717/peerj.14053
publisher: PeerJ Inc.
rights: © 2022 Yu et al.
abstract: Tissue regeneration after body injury has always been a complex problem to resolve for mammals. In adult mammals, the repair process after tissue injury is often accompanied by continuous and extensive fibrosis, which leads to scars. This process has been shown to severely hinder regeneration. Macrophages, as widely distributed innate immune cells, not only play an important role in various pathological processes, but also participate in the repair process before tissue regeneration and coordinate the regeneration process after repair. This review will discuss the various forms and indispensability of macrophages involved in repair and regeneration, and how macrophages play a role in the repair and regeneration of different tissues.
bibliographic citation: Yu et al. (2022) Macrophages play a key role in tissue repair and regeneration. PeerJ 10:e14053 https://doi.org/10.7717/peerj.14053
date submitted: 2022-03-07
date accepted: 2022-08-24
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Yu
  given name: Yajie
author list: Agent
  family name: Yue
  given name: Zhongyu
author list: Agent
  family name: Xu
  given name: Mengli
author list: Agent
  family name: Zhang
  given name: Meiling
author list: Agent
  family name: Shen
  given name: Xue
author list: Agent
  family name: Ma
  given name: Zihan
author list: Agent
  family name: Li
  given name: Juan
author list: Agent
  family name: Xie
  given name: Xin
doi: 10.7717/peerj.14053
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: ©2022 Yu et al.
attribution name: Yu et al.

The validity and reliability of the Test of Memory Strategies among Italian healthy adults
type: item
type: AcademicArticle
description: Background Previous literature has shown that executive functions (EF) are related to performance in memory (M) tasks. Nevertheless, there is a shortage of psychometric tests that examine these two constructs simultaneously. The Test of Memory Strategies (TMS; previously validated in Spain and Portugal) could be a useful verbal learning task that evaluates these two constructs at once. In this study, we aimed to evaluate the psychometric properties of the TMS in an Italian adult sample. Method One hundred twenty-one healthy volunteers (74 F, Mean age = 45.9 years old, SD = 20.4) who underwent a neuropsychological examination participated in this study. We conducted a Confirmatory factor analysis (CFA) to evaluate the structural validity of the TMS. We conducted a latent variable analysis to examine convergent and discriminant validity of the TMS sub-scale scores reflecting executive functions and memory. We also examined the TMS reliability in terms of internal consistency through the McDonald’s omega. Results The CFA confirmed the expectation that the TMS-1 and TMS-2 subtests reflect a factor and that the TMS-3, TMS-4, and TMS-5 subtests reflect a different factor. This result is in line with the prediction that TMS-1 and TMS-2 require the use of executive functions and memory simultaneously, and therefore we called this factor executive functions (EF); whereas the TMS-3, TMS-4, and TMS-5 subtests require less involvement of executive functions, thus reflecting a construct that we named memory (M). The TMS subtests for EF and M showed convergent validity with the test scores using a traditional neuropsychological battery, assessing memory and executive functions separately. Finally, the reliability of the subtests was good. Conclusions These preliminary findings suggest that TMS is a valid and reliable scale to simultaneously assess M and EF while among Italian healthy adults.
format: application/pdf
format: text/html
creator: Maria Grazia Vaccaro
creator: Marco Tullio Liuzza
creator: Massimiliano Pastore
creator: Nuria Paúl
creator: Raquel Yubero
creator: Andrea Quattrone
creator: Gabriella Antonucci
creator: Antonio Gambardella
creator: Fernando Maestú
subject: Cognitive Disorders
subject: Psychiatry and Psychology
subject: Statistics
description: doi:10.7717/peerj.14059
publisher: PeerJ Inc.
rights: © 2022 Vaccaro et al.
abstract: Background Previous literature has shown that executive functions (EF) are related to performance in memory (M) tasks. Nevertheless, there is a shortage of psychometric tests that examine these two constructs simultaneously. The Test of Memory Strategies (TMS; previously validated in Spain and Portugal) could be a useful verbal learning task that evaluates these two constructs at once. In this study, we aimed to evaluate the psychometric properties of the TMS in an Italian adult sample. Method One hundred twenty-one healthy volunteers (74 F, Mean age = 45.9 years old, SD = 20.4) who underwent a neuropsychological examination participated in this study. We conducted a Confirmatory factor analysis (CFA) to evaluate the structural validity of the TMS. We conducted a latent variable analysis to examine convergent and discriminant validity of the TMS sub-scale scores reflecting executive functions and memory. We also examined the TMS reliability in terms of internal consistency through the McDonald’s omega. Results The CFA confirmed the expectation that the TMS-1 and TMS-2 subtests reflect a factor and that the TMS-3, TMS-4, and TMS-5 subtests reflect a different factor. This result is in line with the prediction that TMS-1 and TMS-2 require the use of executive functions and memory simultaneously, and therefore we called this factor executive functions (EF); whereas the TMS-3, TMS-4, and TMS-5 subtests require less involvement of executive functions, thus reflecting a construct that we named memory (M). The TMS subtests for EF and M showed convergent validity with the test scores using a traditional neuropsychological battery, assessing memory and executive functions separately. Finally, the reliability of the subtests was good. Conclusions These preliminary findings suggest that TMS is a valid and reliable scale to simultaneously assess M and EF while among Italian healthy adults.
bibliographic citation: Vaccaro et al. (2022) The validity and reliability of the Test of Memory Strategies among Italian healthy adults. PeerJ 10:e14059 https://doi.org/10.7717/peerj.14059
date submitted: 2022-02-02
date accepted: 2022-08-25
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Vaccaro
  given name: Maria Grazia
author list: Agent
  family name: Liuzza
  given name: Marco Tullio
author list: Agent
  family name: Pastore
  given name: Massimiliano
author list: Agent
  family name: Paúl
  given name: Nuria
author list: Agent
  family name: Yubero
  given name: Raquel
author list: Agent
  family name: Quattrone
  given name: Andrea
author list: Agent
  family name: Antonucci
  given name: Gabriella
author list: Agent
  family name: Gambardella
  given name: Antonio
author list: Agent
  family name: Maestú
  given name: Fernando
doi: 10.7717/peerj.14059
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: © 2022 Vaccaro et al.
attribution name: Vaccaro et al.

A spectacular new species of Hyloscirtus (Anura: Hylidae) from the Cordillera de Los Llanganates in the eastern Andes of Ecuador
type: item
type: AcademicArticle
description: We have discovered a spectacular new species of frog in the genus Hyloscirtus, belonging to the H. larinopygion species group. The adult female is characterized by a mostly black body with large bright red spots on the dorsal and ventral surface, extremities, and toe pads. The adult male is unknown. Small juveniles are characterized by a yellow body with variable black markings on the flanks; while one larger juvenile displayed irregular orange or yellow marks on a black background color, with light orange or yellow toe pads. Additional distinctive external morphological features such as cloacal ornamentation are described, and some osteological details are imaged and analyzed. The performed phylogeny places the new species as the sister to a clade consisting of ten taxa, all of which are part of the H. larinopygion group. We use genetic distances to fit the new species into a published time-calibrated phylogeny of this group; our analysis based on the published chronology suggests that the divergence of the new species from its known congeners pre-dates the Quaternary period. The new species is currently only known only from Cerro Mayordomo, in Fundación EcoMinga´s Machay Reserve, at 2,900 m in the eastern Andes of Tungurahua province, Ecuador, near the southern edge of Los Llanganates National Park, but its real distribution may be larger.
format: application/pdf
format: text/html
creator: Juan P. Reyes-Puig
creator: Darwin Recalde
creator: Fausto Recalde
creator: Claudia Koch
creator: Juan M. Guayasamin
creator: Diego F. Cisneros-Heredia
creator: Lou Jost
creator: Mario H. Yánez-Muñoz
subject: Biodiversity
subject: Conservation Biology
subject: Molecular Biology
subject: Taxonomy
description: doi:10.7717/peerj.14066
publisher: PeerJ Inc.
rights: © 2022 Reyes-Puig et al.
abstract: We have discovered a spectacular new species of frog in the genus Hyloscirtus, belonging to the H. larinopygion species group. The adult female is characterized by a mostly black body with large bright red spots on the dorsal and ventral surface, extremities, and toe pads. The adult male is unknown. Small juveniles are characterized by a yellow body with variable black markings on the flanks; while one larger juvenile displayed irregular orange or yellow marks on a black background color, with light orange or yellow toe pads. Additional distinctive external morphological features such as cloacal ornamentation are described, and some osteological details are imaged and analyzed. The performed phylogeny places the new species as the sister to a clade consisting of ten taxa, all of which are part of the H. larinopygion group. We use genetic distances to fit the new species into a published time-calibrated phylogeny of this group; our analysis based on the published chronology suggests that the divergence of the new species from its known congeners pre-dates the Quaternary period. The new species is currently only known only from Cerro Mayordomo, in Fundación EcoMinga´s Machay Reserve, at 2,900 m in the eastern Andes of Tungurahua province, Ecuador, near the southern edge of Los Llanganates National Park, but its real distribution may be larger.
bibliographic citation: Reyes-Puig et al. (2022) A spectacular new species of Hyloscirtus (Anura: Hylidae) from the Cordillera de Los Llanganates in the eastern Andes of Ecuador. PeerJ 10:e14066 https://doi.org/10.7717/peerj.14066
date submitted: 2022-01-18
date accepted: 2022-08-26
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Reyes-Puig
  given name: Juan P.
author list: Agent
  family name: Recalde
  given name: Darwin
author list: Agent
  family name: Recalde
  given name: Fausto
author list: Agent
  family name: Koch
  given name: Claudia
author list: Agent
  family name: Guayasamin
  given name: Juan M.
author list: Agent
  family name: Cisneros-Heredia
  given name: Diego F.
author list: Agent
  family name: Jost
  given name: Lou
author list: Agent
  family name: Yánez-Muñoz
  given name: Mario H.
doi: 10.7717/peerj.14066
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: © 2022 Reyes-Puig et al.
attribution name: Reyes-Puig et al.

Evaluation of total immunoglobulin G and subclass antibodies in an enzyme-linked immunosorbent assay for serodiagnosis of human amebic liver abscess
type: item
type: AcademicArticle
description: Background Amebic liver abscess (ALA) caused by Entamoeba histolytica is usually diagnosed based on its clinical symptoms, medical imaging abnormalities of the liver, and serological tests, the most common being the enzyme-linked immunosorbent assay (ELISA). For more than three decades, no investigation has evaluated the diagnostic performance of immunoglobulin G (IgG) subclasses in the serodiagnosis of ALA. Herein, we assessed the efficiencies of anti-amebic IgG and IgG subclasses for diagnosing ALA. Methods A serological ELISA-based test was performed to assess its diagnostic performance using a total of 330 serum samples from ALA patients (n = 14), healthy individuals (n = 40), and patients with other diseases (n = 276). Results ELISA targeting the total IgG antibody to E. histolytica antigen exhibited 100% sensitivity 95% CI [76.8–100.0] and 97.8% specificity 95% CI [95.5–99.1], whereas the assay targeting IgG1 showed the same sensitivity (100% 95% CI [76.8–100.0]) and a slightly higher specificity (99.1% 95% CI [97.3–99.8]). The other IgG subclasses (IgG2, IgG3, and IgG4) displayed a lower sensitivity and specificity. The sensitivity and specificity did not significantly differ between tests measuring total IgG and IgG1 (Exact McNemar’s test; p > 0.05), with a concordance of 98.2%, represented by a Cohen’s kappa of 0.83 (p < 0.001), indicating almost perfect agreement. Conclusion ELISA targeting IgG1 can provide valuable information to clinicians in differentiating ALA from other parasitic diseases, cancers, cirrhosis, and viral hepatitis. However, enzyme-conjugated anti-human total IgG is cheaper than anti-human IgG subclasses. Therefore, we suggest that total IgG-based ELISA is sufficient for the routine serodiagnosis of human ALA and possibly other clinical manifestations of invasive amebiasis.
format: application/pdf
format: text/html
creator: Penchom Janwan
creator: Lakkhana Sadaow
creator: Rutchanee Rodpai
creator: Hiroshi Yamasaki
creator: Vor Luvira
creator: Wattana Sukeepaisarnjaroen
creator: Amnat Kitkhuandee
creator: Krisada Paonariang
creator: Oranuch Sanpool
creator: Patcharaporn Boonroumkaew
creator: Tongjit Thanchomnang
creator: Toshihiro Mita
creator: Pewpan M. Intapan
creator: Wanchai Maleewong
subject: Parasitology
subject: Hematology
subject: Immunology
subject: Infectious Diseases
subject: Translational Medicine
description: doi:10.7717/peerj.14085
publisher: PeerJ Inc.
rights: © 2022 Janwan et al.
abstract: Background Amebic liver abscess (ALA) caused by Entamoeba histolytica is usually diagnosed based on its clinical symptoms, medical imaging abnormalities of the liver, and serological tests, the most common being the enzyme-linked immunosorbent assay (ELISA). For more than three decades, no investigation has evaluated the diagnostic performance of immunoglobulin G (IgG) subclasses in the serodiagnosis of ALA. Herein, we assessed the efficiencies of anti-amebic IgG and IgG subclasses for diagnosing ALA. Methods A serological ELISA-based test was performed to assess its diagnostic performance using a total of 330 serum samples from ALA patients (n = 14), healthy individuals (n = 40), and patients with other diseases (n = 276). Results ELISA targeting the total IgG antibody to E. histolytica antigen exhibited 100% sensitivity 95% CI [76.8–100.0] and 97.8% specificity 95% CI [95.5–99.1], whereas the assay targeting IgG1 showed the same sensitivity (100% 95% CI [76.8–100.0]) and a slightly higher specificity (99.1% 95% CI [97.3–99.8]). The other IgG subclasses (IgG2, IgG3, and IgG4) displayed a lower sensitivity and specificity. The sensitivity and specificity did not significantly differ between tests measuring total IgG and IgG1 (Exact McNemar’s test; p > 0.05), with a concordance of 98.2%, represented by a Cohen’s kappa of 0.83 (p < 0.001), indicating almost perfect agreement. Conclusion ELISA targeting IgG1 can provide valuable information to clinicians in differentiating ALA from other parasitic diseases, cancers, cirrhosis, and viral hepatitis. However, enzyme-conjugated anti-human total IgG is cheaper than anti-human IgG subclasses. Therefore, we suggest that total IgG-based ELISA is sufficient for the routine serodiagnosis of human ALA and possibly other clinical manifestations of invasive amebiasis.
bibliographic citation: Janwan et al. (2022) Evaluation of total immunoglobulin G and subclass antibodies in an enzyme-linked immunosorbent assay for serodiagnosis of human amebic liver abscess. PeerJ 10:e14085 https://doi.org/10.7717/peerj.14085
date submitted: 2022-06-03
date accepted: 2022-08-29
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Janwan
  given name: Penchom
author list: Agent
  family name: Sadaow
  given name: Lakkhana
author list: Agent
  family name: Rodpai
  given name: Rutchanee
author list: Agent
  family name: Yamasaki
  given name: Hiroshi
author list: Agent
  family name: Luvira
  given name: Vor
author list: Agent
  family name: Sukeepaisarnjaroen
  given name: Wattana
author list: Agent
  family name: Kitkhuandee
  given name: Amnat
author list: Agent
  family name: Paonariang
  given name: Krisada
author list: Agent
  family name: Sanpool
  given name: Oranuch
author list: Agent
  family name: Boonroumkaew
  given name: Patcharaporn
author list: Agent
  family name: Thanchomnang
  given name: Tongjit
author list: Agent
  family name: Mita
  given name: Toshihiro
author list: Agent
  family name: Intapan
  given name: Pewpan M.
author list: Agent
  family name: Maleewong
  given name: Wanchai
doi: 10.7717/peerj.14085
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: ©2022 Janwan et al.
attribution name: Janwan et al.

Physiological, biochemical and phytohormone responses of Elymus nutans to α-pinene-induced allelopathy
type: item
type: AcademicArticle
description: The α-pinene is the main allelochemical of many weeds that inhibit the growth of Elymus nutans, an important forage and ecological restoration herbage. However, the response changes of α-pinene-induced allelopathy to E. nutans is still unclear. Here, we investigated the physiological, biochemical and phytohormone changes of E. nutans exposed to different α-pinene concentrations. The α-pinene-stress had no significant effect on height and fresh weight (FW) of seedlings. The water-soluble proteins, the soluble sugars and proline (Pro) strengthened seedlings immunity at 5 and 10 µL L−1 α-pinene. Superoxide dismutase (SOD) and ascorbate peroxidase (APX) increased at 5 µL L−1 α-pinene to resist stress. APX reduced the membrane lipid peroxidation quickly at 10 µL L−1 α-pinene. The high-activity of peroxidase (POD), APX along with the high level of GSH contributed to the cellular redox equilibrium at 15 µL L−1 α-pinene. The POD, glutathione reductase (GR) activity and glutathione (GSH) level remained stable at 20 µL L−1 α-pinene. The changes in antioxidant enzymes and antioxidants indicated that E. nutans was effective in counteracting the harmful effects generated by hydrogen peroxide (H2O2). The α-pinene caused severe phytotoxic effects in E. nutans seedlings at 15 and 20 µL L−1. Endogenous signal nitric oxide (NO) and cell membrane damage product Pro accumulated in leaves of E. nutans seedlings at 15 and 20 µL L−1 α-pinene, while lipid peroxidation product malondialdehyde (MDA) accumulated. The chlorophylls (Chls), chlorophyll a (Chl a), chlorophyll b (Chl b) content decreased, and biomass of seedlings was severely inhibited at 20 µL L−1 α-pinene. The α-pinene caused phytotoxic effects on E. nutans seedlings mainly through breaking the balance of the membrane system rather than with reactive oxygen species (ROS) productionat 15 and 20 µL L−1 α-pinene. Additionally, phytohormone levels were altered by α-pinene-stress. Abscisic acid (ABA) and indole acetic acid (IAA) of E…
format: application/pdf
format: text/html
creator: Mengci Chen
creator: Youming Qiao
creator: Xiaolong Quan
creator: Huilan Shi
creator: Zhonghua Duan
subject: Agricultural Science
subject: Ecology
subject: Plant Science
description: doi:10.7717/peerj.14100
publisher: PeerJ Inc.
rights: © 2022 Chen et al.
abstract: The α-pinene is the main allelochemical of many weeds that inhibit the growth of Elymus nutans, an important forage and ecological restoration herbage. However, the response changes of α-pinene-induced allelopathy to E. nutans is still unclear. Here, we investigated the physiological, biochemical and phytohormone changes of E. nutans exposed to different α-pinene concentrations. The α-pinene-stress had no significant effect on height and fresh weight (FW) of seedlings. The water-soluble proteins, the soluble sugars and proline (Pro) strengthened seedlings immunity at 5 and 10 µL L−1 α-pinene. Superoxide dismutase (SOD) and ascorbate peroxidase (APX) increased at 5 µL L−1 α-pinene to resist stress. APX reduced the membrane lipid peroxidation quickly at 10 µL L−1 α-pinene. The high-activity of peroxidase (POD), APX along with the high level of GSH contributed to the cellular redox equilibrium at 15 µL L−1 α-pinene. The POD, glutathione reductase (GR) activity and glutathione (GSH) level remained stable at 20 µL L−1 α-pinene. The changes in antioxidant enzymes and antioxidants indicated that E. nutans was effective in counteracting the harmful effects generated by hydrogen peroxide (H2O2). The α-pinene caused severe phytotoxic effects in E. nutans seedlings at 15 and 20 µL L−1. Endogenous signal nitric oxide (NO) and cell membrane damage product Pro accumulated in leaves of E. nutans seedlings at 15 and 20 µL L−1 α-pinene, while lipid peroxidation product malondialdehyde (MDA) accumulated. The chlorophylls (Chls), chlorophyll a (Chl a), chlorophyll b (Chl b) content decreased, and biomass of seedlings was severely inhibited at 20 µL L−1 α-pinene. The α-pinene caused phytotoxic effects on E. nutans seedlings mainly through breaking the balance of the membrane system rather than with reactive oxygen species (ROS) productionat 15 and 20 µL L−1 α-pinene. Additionally, phytohormone levels were altered by α-pinene-stress. Abscisic acid (ABA) and indole acetic acid (IAA) of E…
bibliographic citation: Chen et al. (2022) Physiological, biochemical and phytohormone responses of Elymus nutans to α-pinene-induced allelopathy. PeerJ 10:e14100 https://doi.org/10.7717/peerj.14100
date submitted: 2022-05-18
date accepted: 2022-09-01
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Chen
  given name: Mengci
author list: Agent
  family name: Qiao
  given name: Youming
author list: Agent
  family name: Quan
  given name: Xiaolong
author list: Agent
  family name: Shi
  given name: Huilan
author list: Agent
  family name: Duan
  given name: Zhonghua
doi: 10.7717/peerj.14100
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: ©2022 Chen et al.
attribution name: Chen et al.

Mutualist- and antagonist-mediated selection contribute to trait diversification of flowers
type: item
type: AcademicArticle
description: Flowers are generally short-lived, and they all face a multidimensional challenge because they have to attract mutualists, compel them to vector pollen with minimal investment in rewards, and repel floral enemies during this short time window. Their displays are under complex selection, either consistent or conflicting, to maximize reproductive fitness under heterogeneous environments. The phenological or morphological mismatches between flowers and visitors will influence interspecific competition, resource access, mating success and, ultimately, population and community dynamics. To better understand the effects of the plant visitors on floral traits, it is necessary to determine the functional significance of specific floral traits for the visitors; how plants respond to both mutualists and antagonists through adaptive changes; and to evaluate the net fitness effects of biological mutualisms and antagonism on plants. In this review, we bring together insights from fields as diverse as floral biology, insect behavioral responses, and evolutionary biology to explain the processes and patterns of floral diversity evolution. Then, we discuss the ecological significance of plant responses to mutualists and antagonists from a community perspective, and propose a set of research questions that can guide the research field to integrate studies of plant defense and reproduction.
format: application/pdf
format: text/html
creator: Luyao Huang
creator: Yang Liu
creator: Liwen Dou
creator: Shaobin Pan
creator: Zhuangzhuang Li
creator: Jin Zhang
creator: Jia Li
subject: Ecology
subject: Evolutionary Studies
subject: Plant Science
description: doi:10.7717/peerj.14107
publisher: PeerJ Inc.
rights: © 2022 Huang et al.
abstract: Flowers are generally short-lived, and they all face a multidimensional challenge because they have to attract mutualists, compel them to vector pollen with minimal investment in rewards, and repel floral enemies during this short time window. Their displays are under complex selection, either consistent or conflicting, to maximize reproductive fitness under heterogeneous environments. The phenological or morphological mismatches between flowers and visitors will influence interspecific competition, resource access, mating success and, ultimately, population and community dynamics. To better understand the effects of the plant visitors on floral traits, it is necessary to determine the functional significance of specific floral traits for the visitors; how plants respond to both mutualists and antagonists through adaptive changes; and to evaluate the net fitness effects of biological mutualisms and antagonism on plants. In this review, we bring together insights from fields as diverse as floral biology, insect behavioral responses, and evolutionary biology to explain the processes and patterns of floral diversity evolution. Then, we discuss the ecological significance of plant responses to mutualists and antagonists from a community perspective, and propose a set of research questions that can guide the research field to integrate studies of plant defense and reproduction.
bibliographic citation: Huang et al. (2022) Mutualist- and antagonist-mediated selection contribute to trait diversification of flowers. PeerJ 10:e14107 https://doi.org/10.7717/peerj.14107
date submitted: 2022-04-06
date accepted: 2022-09-01
issued: 2022-09-29
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Huang
  given name: Luyao
author list: Agent
  family name: Liu
  given name: Yang
author list: Agent
  family name: Dou
  given name: Liwen
author list: Agent
  family name: Pan
  given name: Shaobin
author list: Agent
  family name: Li
  given name: Zhuangzhuang
author list: Agent
  family name: Zhang
  given name: Jin
author list: Agent
  family name: Li
  given name: Jia
doi: 10.7717/peerj.14107
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-29
copyright: © 2022 Huang et al.
attribution name: Huang et al.

Cold water and harmful algal blooms linked to coral reef collapse in the Eastern Tropical Pacific
type: item
type: AcademicArticle
description: Background With conventional coral reef conservation methods proving ineffective against intensifying climate change, efforts have focussed on augmenting coral tolerance to warmer water—the primary driver of coral declines. We document coral cover and composition in relation to sea surface temperature (SST) over 25-years, of six marginal reefs in an upwelling area of Costa Rica’s Eastern Tropical Pacific. Methods Using reef survey data and sea surface temperature (SST) dating back over 25-years, we document coral cover and composition of six marginal reefs in an upwelling area of Costa Rica’s Eastern Tropical Pacific in relation to thermal highs and lows. Results. A ubiquitous and catastrophic coral die-off event occurred in 2009, driven by SST minima and likely by the presence of extreme harmful algal blooms. Coral cover was dramatically reduced and coral composition shifted from dominant branching Pocillopora to massive Pavona, Porites, and Gardineroseris. The lack of coral recovery in the decade since indicates a breach in ecosystem tipping-point and highlights a need for resilience-based management (RBM) and restoration. We propose a locally tailored and globally scalable approach to coral reef declines that is founded in RBM and informed by coral health dynamics.
format: application/pdf
format: text/html
creator: Caroline Palmer
creator: Carlos Jimenez
creator: Giovanni Bassey
creator: Eleazar Ruiz
creator: Tatiana Villalobos Cubero
creator: Maria Marta Chavarria Diaz
creator: Xavier A. Harrison
creator: Robert Puschendorf
subject: Conservation Biology
subject: Ecology
subject: Marine Biology
subject: Climate Change Biology
subject: Environmental Contamination and Remediation
description: doi:10.7717/peerj.14081
publisher: PeerJ Inc.
rights: © 2022 Palmer et al.
abstract: Background With conventional coral reef conservation methods proving ineffective against intensifying climate change, efforts have focussed on augmenting coral tolerance to warmer water—the primary driver of coral declines. We document coral cover and composition in relation to sea surface temperature (SST) over 25-years, of six marginal reefs in an upwelling area of Costa Rica’s Eastern Tropical Pacific. Methods Using reef survey data and sea surface temperature (SST) dating back over 25-years, we document coral cover and composition of six marginal reefs in an upwelling area of Costa Rica’s Eastern Tropical Pacific in relation to thermal highs and lows. Results. A ubiquitous and catastrophic coral die-off event occurred in 2009, driven by SST minima and likely by the presence of extreme harmful algal blooms. Coral cover was dramatically reduced and coral composition shifted from dominant branching Pocillopora to massive Pavona, Porites, and Gardineroseris. The lack of coral recovery in the decade since indicates a breach in ecosystem tipping-point and highlights a need for resilience-based management (RBM) and restoration. We propose a locally tailored and globally scalable approach to coral reef declines that is founded in RBM and informed by coral health dynamics.
bibliographic citation: Palmer et al. (2022) Cold water and harmful algal blooms linked to coral reef collapse in the Eastern Tropical Pacific. PeerJ 10:e14081 https://doi.org/10.7717/peerj.14081
date submitted: 2021-10-27
date accepted: 2022-08-29
issued: 2022-09-28
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Palmer
  given name: Caroline
author list: Agent
  family name: Jimenez
  given name: Carlos
author list: Agent
  family name: Bassey
  given name: Giovanni
author list: Agent
  family name: Ruiz
  given name: Eleazar
author list: Agent
  family name: Villalobos Cubero
  given name: Tatiana
author list: Agent
  family name: Chavarria Diaz
  given name: Maria Marta
author list: Agent
  family name: Harrison
  given name: Xavier A.
author list: Agent
  family name: Puschendorf
  given name: Robert
doi: 10.7717/peerj.14081
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-28
copyright: © 2022 Palmer et al.
attribution name: Palmer et al.

A phylogenetic analysis of Bromus (Poaceae: Pooideae: Bromeae) based on nuclear ribosomal and plastid data, with a focus on Bromus sect. Bromus
type: item
type: AcademicArticle
description: To investigate phylogenetic relationships among and within major lineages of Bromus, with focus on Bromus sect. Bromus, we analyzed DNA sequences from two nuclear ribosomal (ITS, ETS) and two plastid (rpl32-trnLUAG, matK) regions. We sampled 103 ingroup accessions representing 26 taxa of B. section Bromus and 15 species of other Bromus sections. Our analyses confirm the monophyly of Bromus s.l. and identify incongruence between nuclear ribosomal and plastid data partitions for relationships within and among major Bromus lineages. Results support classification of B. pumilio and B. gracillimus within B. sect. Boissiera and B. sect. Nevskiella, respectively. These species are sister groups and are closely related to B. densus (B. sect. Mexibromus) in nrDNA trees and Bromus sect. Ceratochloa in plastid trees. Bromus sect. Bromopsis is paraphyletic. In nrDNA trees, species of Bromus sects. Bromopsis, Ceratochloa, Neobromus, and Genea plus B. rechingeri of B. sect. Bromus form a clade, in which B. tomentellus is sister to a B. sect. Genea–B. rechingeri clade. In the plastid trees, by contrast, B. sect. Bromopsis species except B. tomentosus form a clade, and B. tomentosus is sister to a clade comprising B. sect. Bromus and B. sect. Genea species. Affinities of B. gedrosianus, B. pulchellus, and B. rechingeri (members of the B. pectinatus complex), as well as B. oxyodon and B. sewerzowii, are discordant between nrDNA and plastid trees. We infer these species may have obtained their plastomes via chloroplast capture from species of B. sect. Bromus and B. sect. Genea. Within B. sect. Bromus, B. alopecuros subsp. caroli-henrici, a clade comprising B. hordeaceus and B. interruptus, and B. scoparius are successive sister groups to the rest of the section in the nrDNA phylogeny. Most relationships among the remaining species of B. sect. Bromus are unresolved in the nrDNA and plastid trees. Given these results, we infer that most B. sect. Bromus species likely diversified relati…
format: application/pdf
format: text/html
creator: Akram Nasiri
creator: Shahrokh Kazempour-Osaloo
creator: Behnam Hamzehee
creator: Roger D. Bull
creator: Jeffery M. Saarela
subject: Biodiversity
subject: Evolutionary Studies
subject: Molecular Biology
subject: Plant Science
subject: Taxonomy
description: doi:10.7717/peerj.13884
publisher: PeerJ Inc.
rights: © 2022 Nasiri et al.
abstract: To investigate phylogenetic relationships among and within major lineages of Bromus, with focus on Bromus sect. Bromus, we analyzed DNA sequences from two nuclear ribosomal (ITS, ETS) and two plastid (rpl32-trnLUAG, matK) regions. We sampled 103 ingroup accessions representing 26 taxa of B. section Bromus and 15 species of other Bromus sections. Our analyses confirm the monophyly of Bromus s.l. and identify incongruence between nuclear ribosomal and plastid data partitions for relationships within and among major Bromus lineages. Results support classification of B. pumilio and B. gracillimus within B. sect. Boissiera and B. sect. Nevskiella, respectively. These species are sister groups and are closely related to B. densus (B. sect. Mexibromus) in nrDNA trees and Bromus sect. Ceratochloa in plastid trees. Bromus sect. Bromopsis is paraphyletic. In nrDNA trees, species of Bromus sects. Bromopsis, Ceratochloa, Neobromus, and Genea plus B. rechingeri of B. sect. Bromus form a clade, in which B. tomentellus is sister to a B. sect. Genea–B. rechingeri clade. In the plastid trees, by contrast, B. sect. Bromopsis species except B. tomentosus form a clade, and B. tomentosus is sister to a clade comprising B. sect. Bromus and B. sect. Genea species. Affinities of B. gedrosianus, B. pulchellus, and B. rechingeri (members of the B. pectinatus complex), as well as B. oxyodon and B. sewerzowii, are discordant between nrDNA and plastid trees. We infer these species may have obtained their plastomes via chloroplast capture from species of B. sect. Bromus and B. sect. Genea. Within B. sect. Bromus, B. alopecuros subsp. caroli-henrici, a clade comprising B. hordeaceus and B. interruptus, and B. scoparius are successive sister groups to the rest of the section in the nrDNA phylogeny. Most relationships among the remaining species of B. sect. Bromus are unresolved in the nrDNA and plastid trees. Given these results, we infer that most B. sect. Bromus species likely diversified relati…
bibliographic citation: Nasiri et al. (2022) A phylogenetic analysis of Bromus (Poaceae: Pooideae: Bromeae) based on nuclear ribosomal and plastid data, with a focus on Bromus sect. Bromus. PeerJ 10:e13884 https://doi.org/10.7717/peerj.13884
date submitted: 2022-01-07
date accepted: 2022-07-21
issued: 2022-09-28
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Nasiri
  given name: Akram
author list: Agent
  family name: Kazempour-Osaloo
  given name: Shahrokh
author list: Agent
  family name: Hamzehee
  given name: Behnam
author list: Agent
  family name: Bull
  given name: Roger D.
author list: Agent
  family name: Saarela
  given name: Jeffery M.
doi: 10.7717/peerj.13884
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-28
copyright: © 2022 Nasiri et al.
attribution name: Nasiri et al.

High resolution thermal remote sensing and the limits of species’ tolerance
type: item
type: AcademicArticle
description: Extinction risks for many insect species, particularly across very broad spatial extents, have been linked to the growing frequency and severity of temperatures that exceed the boundaries of their realized niches. Measurement and mitigation of such impacts is hindered by the availability of high-resolution measurements of species-specific severity of extreme weather, especially temperature. While techniques enabling interpolation of broad-scale remote sensing metrics are vital for such efforts, direct remote sensing measurements of thermal conditions could improve habitat management by providing detailed insights that interpolative approaches cannot. Advances in unmanned aerial vehicle (UAV) technology have created opportunities to better evaluate the role of microclimates in local species extinctions. Here, we develop a method to create high-resolution maps of microclimates using UAV and thermal imaging technology that use species’ realized niche boundaries to assess potential effects of severity of extreme temperatures. We generated air temperature maps (5 cm resolution) and canopy height maps (1 cm resolution) for 15 sites in a rare alvar ecosystem in eastern Ontario. We validated these remote sensing observations against independent, in situ temperature observations using iButtons. Temperature observations were accurate and related to physical heterogeneity in alvar habitats. We converted temperature measures into estimates of proximity of thermal niche boundaries for three butterfly species found during field surveys. This is the first time that this method has been applied to high resolution remote sensing observations and offers potential to assess the availability and adequacy of microclimates within habitats at resolutions relevant for conservation management.
format: application/pdf
format: text/html
creator: Gabrielle Ednie
creator: Jeremy T. Kerr
subject: Conservation Biology
subject: Ecology
subject: Ecosystem Science
subject: Climate Change Biology
subject: Spatial and Geographic Information Science
description: doi:10.7717/peerj.13911
publisher: PeerJ Inc.
rights: © 2022 Ednie and Kerr
abstract: Extinction risks for many insect species, particularly across very broad spatial extents, have been linked to the growing frequency and severity of temperatures that exceed the boundaries of their realized niches. Measurement and mitigation of such impacts is hindered by the availability of high-resolution measurements of species-specific severity of extreme weather, especially temperature. While techniques enabling interpolation of broad-scale remote sensing metrics are vital for such efforts, direct remote sensing measurements of thermal conditions could improve habitat management by providing detailed insights that interpolative approaches cannot. Advances in unmanned aerial vehicle (UAV) technology have created opportunities to better evaluate the role of microclimates in local species extinctions. Here, we develop a method to create high-resolution maps of microclimates using UAV and thermal imaging technology that use species’ realized niche boundaries to assess potential effects of severity of extreme temperatures. We generated air temperature maps (5 cm resolution) and canopy height maps (1 cm resolution) for 15 sites in a rare alvar ecosystem in eastern Ontario. We validated these remote sensing observations against independent, in situ temperature observations using iButtons. Temperature observations were accurate and related to physical heterogeneity in alvar habitats. We converted temperature measures into estimates of proximity of thermal niche boundaries for three butterfly species found during field surveys. This is the first time that this method has been applied to high resolution remote sensing observations and offers potential to assess the availability and adequacy of microclimates within habitats at resolutions relevant for conservation management.
bibliographic citation: Ednie et al. (2022) High resolution thermal remote sensing and the limits of species’ tolerance. PeerJ 10:e13911 https://doi.org/10.7717/peerj.13911
date submitted: 2022-02-17
date accepted: 2022-07-27
issued: 2022-09-28
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Ednie
  given name: Gabrielle
author list: Agent
  family name: Kerr
  given name: Jeremy T.
doi: 10.7717/peerj.13911
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-28
copyright: ©2022 Ednie and Kerr
attribution name: Ednie and Kerr

Evaluation of knowledge and barriers of influenza vaccine uptake among university students in Saudi Arabia; a cross-sectional analysis
type: item
type: AcademicArticle
description: Background Influenza vaccine hesitancy is a significant threat to global maneuvers for reducing the burden of seasonal and pandemic influenza. This study estimated the vaccine uptake, barriers, and willingness for influenza vaccines among university students in Saudi Arabia. Methods A cross-sectional survey was conducted among health science (HS) and non-health science (NHS) university students. A 31-item questionnaire was used to ascertain the vaccination rate, barriers, and willingness for the flu vaccine. Results This study included 790 students (mean age: 21.40 ± 1.94 years), 246 (31.1%) from HS and 544 (68.9%) from NHS disciplines. About 70% did not take flu shots before the arrival of the winter. The mean knowledge score was 7.81 ± 1.96, where 20.4%, 67.6%, and 12% of respondents had good, moderate, and poor knowledge regarding flu vaccines. The relative importance index (RII) analysis showed a lack of recommendation from physicians (51.5%, RI ranked: 1) was a top-ranked barrier to vaccine uptake, followed by negative perceptions and accessibility issues. Only 36.6% of the participants were willing to get vaccinated every year, 70% were willing to receive a vaccine on their doctor’s recommendations, and 46% agreed to vaccinate if vaccines were freely available in the university. The knowledge, barriers, and willingness widely varied across students from two disciplines. Conclusions Our analysis underscored low flu vaccine uptake among university students. In addition, the study participants’ knowledge was unsatisfactory, and they were less inclined to receive the flu vaccine in the future. Lack of recommendation from the physicians, negative perceptions towards the flu vaccine, and difficult accessibility were found as significant barriers to the vaccine uptake. A multidimensional approach at educational institutes to cover the knowledge gap and address the barriers curtailing the vaccination rate among students is recommended.
format: application/pdf
format: text/html
creator: Tauqeer Hussain Mallhi
creator: Nida Bokharee
creator: Munnaza Bukhsh
creator: Yusra Habib Khan
creator: Abdulaziz Ibrahim Alzarea
creator: Faiz Ullah Khan
creator: Salah-Ud-Din Khan
creator: Nasser Hadal Alotaibi
creator: Abdullah Salah Alanazi
creator: Muhammad Hammad Butt
creator: Ahmed D. Alatawi
creator: Muhammad Shahid Iqbal
subject: Epidemiology
subject: Global Health
subject: Immunology
subject: Infectious Diseases
subject: Public Health
description: doi:10.7717/peerj.13959
publisher: PeerJ Inc.
rights: © 2022 Mallhi et al.
abstract: Background Influenza vaccine hesitancy is a significant threat to global maneuvers for reducing the burden of seasonal and pandemic influenza. This study estimated the vaccine uptake, barriers, and willingness for influenza vaccines among university students in Saudi Arabia. Methods A cross-sectional survey was conducted among health science (HS) and non-health science (NHS) university students. A 31-item questionnaire was used to ascertain the vaccination rate, barriers, and willingness for the flu vaccine. Results This study included 790 students (mean age: 21.40 ± 1.94 years), 246 (31.1%) from HS and 544 (68.9%) from NHS disciplines. About 70% did not take flu shots before the arrival of the winter. The mean knowledge score was 7.81 ± 1.96, where 20.4%, 67.6%, and 12% of respondents had good, moderate, and poor knowledge regarding flu vaccines. The relative importance index (RII) analysis showed a lack of recommendation from physicians (51.5%, RI ranked: 1) was a top-ranked barrier to vaccine uptake, followed by negative perceptions and accessibility issues. Only 36.6% of the participants were willing to get vaccinated every year, 70% were willing to receive a vaccine on their doctor’s recommendations, and 46% agreed to vaccinate if vaccines were freely available in the university. The knowledge, barriers, and willingness widely varied across students from two disciplines. Conclusions Our analysis underscored low flu vaccine uptake among university students. In addition, the study participants’ knowledge was unsatisfactory, and they were less inclined to receive the flu vaccine in the future. Lack of recommendation from the physicians, negative perceptions towards the flu vaccine, and difficult accessibility were found as significant barriers to the vaccine uptake. A multidimensional approach at educational institutes to cover the knowledge gap and address the barriers curtailing the vaccination rate among students is recommended.
bibliographic citation: Mallhi et al. (2022) Evaluation of knowledge and barriers of influenza vaccine uptake among university students in Saudi Arabia; a cross-sectional analysis. PeerJ 10:e13959 https://doi.org/10.7717/peerj.13959
date submitted: 2022-04-11
date accepted: 2022-08-06
issued: 2022-09-28
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Mallhi
  given name: Tauqeer Hussain
author list: Agent
  family name: Bokharee
  given name: Nida
author list: Agent
  family name: Bukhsh
  given name: Munnaza
author list: Agent
  family name: Khan
  given name: Yusra Habib
author list: Agent
  family name: Alzarea
  given name: Abdulaziz Ibrahim
author list: Agent
  family name: Khan
  given name: Faiz Ullah
author list: Agent
  family name: Khan
  given name: Salah-Ud-Din
author list: Agent
  family name: Alotaibi
  given name: Nasser Hadal
author list: Agent
  family name: Alanazi
  given name: Abdullah Salah
author list: Agent
  family name: Butt
  given name: Muhammad Hammad
author list: Agent
  family name: Alatawi
  given name: Ahmed D.
author list: Agent
  family name: Iqbal
  given name: Muhammad Shahid
doi: 10.7717/peerj.13959
volume: 10
issn: 2167-8359
publication name: PeerJ
publication date: 2022-09-28
copyright: ©2022 Mallhi et al.
attribution name: Mallhi et al.

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