PeerJ
type: channel
link: https://peerj.com/articles/
description: Articles published in PeerJ
publisher: PeerJ Inc.
publication name: PeerJ
issn: 2167-8359
items: One becomes two: second species of the Euwallacea fornicatus (Coleoptera: Curculionidae: Scolytinae) species complex is established on two Hawaiian Islands
items: Adaptive Metropolis-coupled MCMC for BEAST 2
items: Density and diversity of macroinvertebrates in Colombian Andean streams impacted by mining, agriculture and cattle production
items: Psychometric properties of the Automatic Thoughts Questionnaire-8 in two Spanish nonclinical samples
items: Dual-tasking effects on static and dynamic postural balance performance: a comparison between endurance and team sport athletes
items: If you build it, they will come: rapid colonization by dragonflies in a new effluent-dependent river reach
items: Biological function of Klebsiella variicola and its effect on the rhizosphere soil of maize seedlings
items: Entomopathogenic fungi decrease Rhizoctonia disease in potato in field conditions
items: Community based actions save Yellow-spotted river turtle (Podocnemis unifilis) eggs and hatchlings flooded by rapid river level rises
items: Ultraviolet-reflective film applied to windows reduces the likelihood of collisions for two species of songbird

One becomes two: second species of the Euwallacea fornicatus (Coleoptera: Curculionidae: Scolytinae) species complex is established on two Hawaiian Islands
type: item
type: AcademicArticle
description: The cryptic species that make up the Euwallacea fornicatus species complex can be readily distinguished via their DNA sequences. Until recently, it was believed that the Hawaiian Islands had been invaded by only one of these cryptic species, E. perbrevis (tea shot hole borer; TSHB). However, following the 2016 deposition of a DNA sequence in the public repository GenBank, it became evident that another species, E. fornicatus (polyphagous shot hole borer; PSHB), had been detected in macadamia orchards on Hawaiʻi Island (the Big Island). We surveyed the two most-populous islands of Hawaiʻi, Big Island and Oʻahu, and herein confirm that populations of TSHB and PSHB are established on both. Beetles were collected using a variety of techniques in macadamia orchards and natural areas. Individual specimens were identified to species using a high-resolution melt assay, described herein and validated by subsequent sequencing of specimens. It remains unclear how long each species has been present in the state, and while neither is currently recognized as causing serious economic or ecological damage in Hawaiʻi, the similarity of the newly-confirmed PSHB population to other damaging invasive PSHB populations around the world is discussed. Although the invasive PSHB populations in Hawaiʻi and California likely have different geographic origins within the beetle’s native range, they share identical Fusarium and Graphium fungal symbionts, neither of which have been isolated from PSHB in that native range.
format: application/pdf
format: text/html
creator: Paul F. Rugman-Jones
creator: Michelle Au
creator: Valeh Ebrahimi
creator: Akif Eskalen
creator: Conrad P.D.T. Gillett
creator: David Honsberger
creator: Deena Husein
creator: Mark G. Wright
creator: Fazila Yousuf
creator: Richard Stouthamer
subject: Agricultural Science
subject: Ecology
subject: Entomology
subject: Molecular Biology
subject: Taxonomy
description: doi:10.7717/peerj.9987
publisher: PeerJ Inc.
rights: © 2020 Rugman-Jones et al.
abstract: The cryptic species that make up the Euwallacea fornicatus species complex can be readily distinguished via their DNA sequences. Until recently, it was believed that the Hawaiian Islands had been invaded by only one of these cryptic species, E. perbrevis (tea shot hole borer; TSHB). However, following the 2016 deposition of a DNA sequence in the public repository GenBank, it became evident that another species, E. fornicatus (polyphagous shot hole borer; PSHB), had been detected in macadamia orchards on Hawaiʻi Island (the Big Island). We surveyed the two most-populous islands of Hawaiʻi, Big Island and Oʻahu, and herein confirm that populations of TSHB and PSHB are established on both. Beetles were collected using a variety of techniques in macadamia orchards and natural areas. Individual specimens were identified to species using a high-resolution melt assay, described herein and validated by subsequent sequencing of specimens. It remains unclear how long each species has been present in the state, and while neither is currently recognized as causing serious economic or ecological damage in Hawaiʻi, the similarity of the newly-confirmed PSHB population to other damaging invasive PSHB populations around the world is discussed. Although the invasive PSHB populations in Hawaiʻi and California likely have different geographic origins within the beetle’s native range, they share identical Fusarium and Graphium fungal symbionts, neither of which have been isolated from PSHB in that native range.
bibliographic citation: Rugman-Jones et al. (2020) One becomes two: second species of the Euwallacea fornicatus (Coleoptera: Curculionidae: Scolytinae) species complex is established on two Hawaiian Islands. PeerJ 8:e9987 https://doi.org/10.7717/peerj.9987
date submitted: 2020-08-04
date accepted: 2020-08-27
issued: 2020-09-17
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Rugman-Jones
  given name: Paul F.
author list: Agent
  family name: Au
  given name: Michelle
author list: Agent
  family name: Ebrahimi
  given name: Valeh
author list: Agent
  family name: Eskalen
  given name: Akif
author list: Agent
  family name: Gillett
  given name: Conrad P.D.T.
author list: Agent
  family name: Honsberger
  given name: David
author list: Agent
  family name: Husein
  given name: Deena
author list: Agent
  family name: Wright
  given name: Mark G.
author list: Agent
  family name: Yousuf
  given name: Fazila
author list: Agent
  family name: Stouthamer
  given name: Richard
doi: 10.7717/peerj.9987
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-17
copyright: ©2020 Rugman-Jones et al.
attribution name: Rugman-Jones et al.

Adaptive Metropolis-coupled MCMC for BEAST 2
type: item
type: AcademicArticle
description: With ever more complex models used to study evolutionary patterns, approaches that facilitate efficient inference under such models are needed. Metropolis-coupled Markov chain Monte Carlo (MCMC) has long been used to speed up phylogenetic analyses and to make use of multi-core CPUs. Metropolis-coupled MCMC essentially runs multiple MCMC chains in parallel. All chains are heated except for one cold chain that explores the posterior probability space like a regular MCMC chain. This heating allows chains to make bigger jumps in phylogenetic state space. The heated chains can then be used to propose new states for other chains, including the cold chain. One of the practical challenges using this approach, is to find optimal temperatures of the heated chains to efficiently explore state spaces. We here provide an adaptive Metropolis-coupled MCMC scheme to Bayesian phylogenetics, where the temperature difference between heated chains is automatically tuned to achieve a target acceptance probability of states being exchanged between individual chains. We first show the validity of this approach by comparing inferences of adaptive Metropolis-coupled MCMC to MCMC on several datasets. We then explore where Metropolis-coupled MCMC provides benefits over MCMC. We implemented this adaptive Metropolis-coupled MCMC approach as an open source package licenced under GPL 3.0 to the Bayesian phylogenetics software BEAST 2, available from https://github.com/nicfel/CoupledMCMC.
format: application/pdf
format: text/html
creator: Nicola F. Müller
creator: Remco R. Bouckaert
subject: Bioinformatics
subject: Computational Biology
description: doi:10.7717/peerj.9473
publisher: PeerJ Inc.
rights: © 2020 Müller and Bouckaert
abstract: With ever more complex models used to study evolutionary patterns, approaches that facilitate efficient inference under such models are needed. Metropolis-coupled Markov chain Monte Carlo (MCMC) has long been used to speed up phylogenetic analyses and to make use of multi-core CPUs. Metropolis-coupled MCMC essentially runs multiple MCMC chains in parallel. All chains are heated except for one cold chain that explores the posterior probability space like a regular MCMC chain. This heating allows chains to make bigger jumps in phylogenetic state space. The heated chains can then be used to propose new states for other chains, including the cold chain. One of the practical challenges using this approach, is to find optimal temperatures of the heated chains to efficiently explore state spaces. We here provide an adaptive Metropolis-coupled MCMC scheme to Bayesian phylogenetics, where the temperature difference between heated chains is automatically tuned to achieve a target acceptance probability of states being exchanged between individual chains. We first show the validity of this approach by comparing inferences of adaptive Metropolis-coupled MCMC to MCMC on several datasets. We then explore where Metropolis-coupled MCMC provides benefits over MCMC. We implemented this adaptive Metropolis-coupled MCMC approach as an open source package licenced under GPL 3.0 to the Bayesian phylogenetics software BEAST 2, available from https://github.com/nicfel/CoupledMCMC.
bibliographic citation: Müller et al. (2020) Adaptive Metropolis-coupled MCMC for BEAST 2. PeerJ 8:e9473 https://doi.org/10.7717/peerj.9473
date submitted: 2020-01-15
date accepted: 2020-06-12
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Müller
  given name: Nicola F.
author list: Agent
  family name: Bouckaert
  given name: Remco R.
doi: 10.7717/peerj.9473
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: © 2020 Müller and Bouckaert
attribution name: Müller and Bouckaert

Density and diversity of macroinvertebrates in Colombian Andean streams impacted by mining, agriculture and cattle production
type: item
type: AcademicArticle
description: Background Mining, agriculture and cattle production are activities that threaten the quality and quantity of water resources in the Colombian Andes. However, many drainage basins in this region have not been subjected to simultaneous evaluation of the impact these activities have on the density, diversity and composition of aquatic macroinvertebrates (AMI). The first two of these ecological variables are expected to decrease drastically from zones with no apparent impact towards areas with anthropogenic activity, which areas with mining will present the most impoverished AMI community. Methods We evaluated the density, diversity and composition dissimilarity of AMI in streams impacted by gold mining, agriculture and cattle production. Two reference streams were also studied. Six benthic samplings were conducted bimonthly (Feb 2014–Feb 2015) using a Surber net. Water samples were taken in order to make environmental evaluation among the aforementioned streams, including hydrological, physicochemical and bacteriological parameters (HPCB). Diversity was evaluated as the effective number of RTUs—recognizable taxonomic units—by comparing the richness, typical diversity, and effective number of the most abundant RTUs. Compositional dissimilarity was examined with nMDS and CCA analysis. Results A total of 7,483 organisms were collected: 14 orders, 42 families and 71 RTUs. Our prediction regarding the density and diversity of AMI (Reference > Cattle production > Agriculture > Mining) was partially fulfilled, since the agriculture-dominated stream presented a more impoverished AMI community than that of the gold mining stream. However, these streams presented lower diversity than the cattle production and reference streams, and the AMI density only differed significantly between one reference stream and the agriculture stream. The AMI composition in the agriculture-dominated stream clearly differed from that of the other streams. Discussion The observation of a more impover…
format: application/pdf
format: text/html
creator: Ana M. Meza-Salazar
creator: Giovany Guevara
creator: Lucimar Gomes-Dias
creator: Carlos A. Cultid-Medina
subject: Biodiversity
subject: Conservation Biology
subject: Ecology
subject: Freshwater Biology
description: doi:10.7717/peerj.9619
publisher: PeerJ Inc.
rights: © 2020 Meza-Salazar et al.
abstract: Background Mining, agriculture and cattle production are activities that threaten the quality and quantity of water resources in the Colombian Andes. However, many drainage basins in this region have not been subjected to simultaneous evaluation of the impact these activities have on the density, diversity and composition of aquatic macroinvertebrates (AMI). The first two of these ecological variables are expected to decrease drastically from zones with no apparent impact towards areas with anthropogenic activity, which areas with mining will present the most impoverished AMI community. Methods We evaluated the density, diversity and composition dissimilarity of AMI in streams impacted by gold mining, agriculture and cattle production. Two reference streams were also studied. Six benthic samplings were conducted bimonthly (Feb 2014–Feb 2015) using a Surber net. Water samples were taken in order to make environmental evaluation among the aforementioned streams, including hydrological, physicochemical and bacteriological parameters (HPCB). Diversity was evaluated as the effective number of RTUs—recognizable taxonomic units—by comparing the richness, typical diversity, and effective number of the most abundant RTUs. Compositional dissimilarity was examined with nMDS and CCA analysis. Results A total of 7,483 organisms were collected: 14 orders, 42 families and 71 RTUs. Our prediction regarding the density and diversity of AMI (Reference > Cattle production > Agriculture > Mining) was partially fulfilled, since the agriculture-dominated stream presented a more impoverished AMI community than that of the gold mining stream. However, these streams presented lower diversity than the cattle production and reference streams, and the AMI density only differed significantly between one reference stream and the agriculture stream. The AMI composition in the agriculture-dominated stream clearly differed from that of the other streams. Discussion The observation of a more impover…
bibliographic citation: Meza-Salazar et al. (2020) Density and diversity of macroinvertebrates in Colombian Andean streams impacted by mining, agriculture and cattle production. PeerJ 8:e9619 https://doi.org/10.7717/peerj.9619
date submitted: 2019-06-11
date accepted: 2020-07-06
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Meza-Salazar
  given name: Ana M.
author list: Agent
  family name: Guevara
  given name: Giovany
author list: Agent
  family name: Gomes-Dias
  given name: Lucimar
author list: Agent
  family name: Cultid-Medina
  given name: Carlos A.
doi: 10.7717/peerj.9619
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: ©2020 Meza-Salazar et al.
attribution name: Meza-Salazar et al.

Psychometric properties of the Automatic Thoughts Questionnaire-8 in two Spanish nonclinical samples
type: item
type: AcademicArticle
description: Background The ATQ is a widely used instrument consisting of 30 items that assess the frequency of negative automatic thoughts. However, the extensive length of the ATQ could compromise its measurement efficiency in survey research. Consequently, an 8-item shortened version of the ATQ has been developed. This study aims to analyze the validity of the ATQ-8 in two Spanish samples. Method The ATQ-8 was administered to a total sample of 1,148 participants (302 undergraduates and 846 general online population). To analyze convergent construct validity, the questionnaire package also included the Dysfunctional Attitude Scale-Revised (DAS-R), Depression Anxiety and Stress Scale-21 (DASS-21), Acceptance Action Questionnaire-II (AAQ-II), Cognitive Fusion Questionnaire (CFQ), Generalized Pliance Questionnaire (GPQ), and Satisfaction with Life Scale (SWLS). To analyze internal consistency, we computed Cronbach’s alpha and McDonald’s omega. A confirmatory factor analysis was conducted to test the one-factor structure of the ATQ-8. In so doing, a robust diagonally weighted least square estimation method (Robust DWLS) was adopted using polychoric correlations. Afterward, we analyzed measurement invariance across samples, gender, groupage, and education level. Lastly, we evaluated convergent construct validity by computing Pearson correlations between the ATQ-8 and the remaining instruments. Results The internal consistency across samples was adequate (alpha and omega = .89). The one-factor model demonstrated a good fit to the data (RMSEA = 0.10, 90% CI [0.089, 0.112], CFI = 0.98, NNFI = 0.97, and SRMR = 0.048). The ATQ-8 showed scalar metric invariance across samples, gender, groupage, and education level. The ATQ-8 scores were significantly associated with emotional symptoms (DASS-21), satisfaction with life (SWLS), dysfunctional schemas (DAS-R), cognitive fusion (CFQ), experiential avoidance (AAQ-II), and generalized pliance (GPQ). In conclusion, the Spanish version of the ATQ…
format: application/pdf
format: text/html
creator: Francisco J. Ruiz
creator: Miguel A. Segura-Vargas
creator: Paula Odriozola-González
creator: Juan C. Suárez-Falcón
subject: Psychiatry and Psychology
description: doi:10.7717/peerj.9747
publisher: PeerJ Inc.
rights: © 2020 Ruiz et al.
abstract: Background The ATQ is a widely used instrument consisting of 30 items that assess the frequency of negative automatic thoughts. However, the extensive length of the ATQ could compromise its measurement efficiency in survey research. Consequently, an 8-item shortened version of the ATQ has been developed. This study aims to analyze the validity of the ATQ-8 in two Spanish samples. Method The ATQ-8 was administered to a total sample of 1,148 participants (302 undergraduates and 846 general online population). To analyze convergent construct validity, the questionnaire package also included the Dysfunctional Attitude Scale-Revised (DAS-R), Depression Anxiety and Stress Scale-21 (DASS-21), Acceptance Action Questionnaire-II (AAQ-II), Cognitive Fusion Questionnaire (CFQ), Generalized Pliance Questionnaire (GPQ), and Satisfaction with Life Scale (SWLS). To analyze internal consistency, we computed Cronbach’s alpha and McDonald’s omega. A confirmatory factor analysis was conducted to test the one-factor structure of the ATQ-8. In so doing, a robust diagonally weighted least square estimation method (Robust DWLS) was adopted using polychoric correlations. Afterward, we analyzed measurement invariance across samples, gender, groupage, and education level. Lastly, we evaluated convergent construct validity by computing Pearson correlations between the ATQ-8 and the remaining instruments. Results The internal consistency across samples was adequate (alpha and omega = .89). The one-factor model demonstrated a good fit to the data (RMSEA = 0.10, 90% CI [0.089, 0.112], CFI = 0.98, NNFI = 0.97, and SRMR = 0.048). The ATQ-8 showed scalar metric invariance across samples, gender, groupage, and education level. The ATQ-8 scores were significantly associated with emotional symptoms (DASS-21), satisfaction with life (SWLS), dysfunctional schemas (DAS-R), cognitive fusion (CFQ), experiential avoidance (AAQ-II), and generalized pliance (GPQ). In conclusion, the Spanish version of the ATQ…
bibliographic citation: Ruiz et al. (2020) Psychometric properties of the Automatic Thoughts Questionnaire-8 in two Spanish nonclinical samples. PeerJ 8:e9747 https://doi.org/10.7717/peerj.9747
date submitted: 2020-05-15
date accepted: 2020-07-27
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Ruiz
  given name: Francisco J.
author list: Agent
  family name: Segura-Vargas
  given name: Miguel A.
author list: Agent
  family name: Odriozola-González
  given name: Paula
author list: Agent
  family name: Suárez-Falcón
  given name: Juan C.
doi: 10.7717/peerj.9747
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: ©2020 Ruiz et al.
attribution name: Ruiz et al.

Dual-tasking effects on static and dynamic postural balance performance: a comparison between endurance and team sport athletes
type: item
type: AcademicArticle
description: In sports, postural balance control has been demonstrated to be one of the limiting factors of performance and a necessary component to achieve any sport technique. Team players (TP) must process and react to multiple external stimuli while executing at the same time the skills of the game. By contrast, endurance athletes (END) must perform the same gesture repetitively without a concurrent coordination of continuous stimuli-related actions. However, END are used to facilitate their physical performance by adopting cognitive strategies while performing their sport gesture. Therefore, we aimed to investigate static and dynamic balance performance in these two types of athletes, both in single and dual-task conditions. Nineteen END and sixteen TP underwent a static and a dynamic balance assessment on a dynamometric platform and an instrumented oscillating board, respectively. Among TP static but not dynamic postural balance performance was negatively affected by dual-tasking considering the area of the confidence ellipse (p < 0.001; d = 0.52) and the sway path mean speed (p < 0.001; d = 0.93). Conversely, END unaltered static balance performance but showed an overall improvement in the dynamic one when dual-tasking occurred. The limited human processing capacity accounted the worsening of the cognitive performance in both TP (p < 0.05; d = 0.22) and END (p < 0.001; d = 0.37). Although TP are more used coping dual tasking, the better performance of END could be accounted for by the employment of the external attentive focus (i.e. counting backward aloud) that called into play a strategy close to those adopted during training and competitions. These surprising results should be considered when driving and developing new trainings for team players in dual-tasking conditions.
format: application/pdf
format: text/html
creator: Fabio Sarto
creator: Giorgia Cona
creator: Francesco Chiossi
creator: Antonio Paoli
creator: Patrizia Bisiacchi
creator: Elisabetta Patron
creator: Giuseppe Marcolin
subject: Neuroscience
subject: Kinesiology
description: doi:10.7717/peerj.9765
publisher: PeerJ Inc.
rights: © 2020 Sarto et al.
abstract: In sports, postural balance control has been demonstrated to be one of the limiting factors of performance and a necessary component to achieve any sport technique. Team players (TP) must process and react to multiple external stimuli while executing at the same time the skills of the game. By contrast, endurance athletes (END) must perform the same gesture repetitively without a concurrent coordination of continuous stimuli-related actions. However, END are used to facilitate their physical performance by adopting cognitive strategies while performing their sport gesture. Therefore, we aimed to investigate static and dynamic balance performance in these two types of athletes, both in single and dual-task conditions. Nineteen END and sixteen TP underwent a static and a dynamic balance assessment on a dynamometric platform and an instrumented oscillating board, respectively. Among TP static but not dynamic postural balance performance was negatively affected by dual-tasking considering the area of the confidence ellipse (p < 0.001; d = 0.52) and the sway path mean speed (p < 0.001; d = 0.93). Conversely, END unaltered static balance performance but showed an overall improvement in the dynamic one when dual-tasking occurred. The limited human processing capacity accounted the worsening of the cognitive performance in both TP (p < 0.05; d = 0.22) and END (p < 0.001; d = 0.37). Although TP are more used coping dual tasking, the better performance of END could be accounted for by the employment of the external attentive focus (i.e. counting backward aloud) that called into play a strategy close to those adopted during training and competitions. These surprising results should be considered when driving and developing new trainings for team players in dual-tasking conditions.
bibliographic citation: Sarto et al. (2020) Dual-tasking effects on static and dynamic postural balance performance: a comparison between endurance and team sport athletes. PeerJ 8:e9765 https://doi.org/10.7717/peerj.9765
date submitted: 2020-04-30
date accepted: 2020-07-29
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Sarto
  given name: Fabio
author list: Agent
  family name: Cona
  given name: Giorgia
author list: Agent
  family name: Chiossi
  given name: Francesco
author list: Agent
  family name: Paoli
  given name: Antonio
author list: Agent
  family name: Bisiacchi
  given name: Patrizia
author list: Agent
  family name: Patron
  given name: Elisabetta
author list: Agent
  family name: Marcolin
  given name: Giuseppe
doi: 10.7717/peerj.9765
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: ©2020 Sarto et al.
attribution name: Sarto et al.

If you build it, they will come: rapid colonization by dragonflies in a new effluent-dependent river reach
type: item
type: AcademicArticle
description: Background Aquatic ecosystems are greatly altered by urban development, including the complete loss of natural habitat due to water diversions or channel burial. However, novel freshwater habitats also are created in cities, such as effluent-dependent streams that rely on treated wastewater for flow. It is unclear how diverse these novel ecosystems are, or how quickly aquatic species are able to colonize them. In this study, we (1) quantify odonate (Insecta, Odonata) colonization of a novel effluent-dependent river reach, (2) examine how drying events affect odonates in these novel habitats, and (3) explore whether effluent-dependent streams can support diverse odonate assemblages. Methods We conducted monthly odonate surveys at three sites along the Santa Cruz River (Tucson, AZ, USA) between June 2019 and May 2020. One site was in a long-established effluent-dependent reach (flowing since the 1970s) that served as a reference site and two sites were in a newly-established reach that began flowing on June 24, 2019 (it was previously dry). We compared odonate species richness, assemblage composition, and colonization patterns across these reaches, and examined how these factors responded to flow cessation events in the new reach. Results Seven odonate species were observed at the study sites in the new reach within hours of flow initiation, and species rapidly continued to arrive thereafter. Within 3 months, species richness and assemblage composition of adult odonates were indistinguishable in the new and reference reaches. However, drying events resulted in short-term and chronic reductions in species richness at one of the sites. Across all three sites, we found over 50 odonate species, which represent nearly 40% of species known from the state of Arizona. Discussion Odonates were surprisingly diverse in the effluent-dependent Santa Cruz River and rapidly colonized a newly established reach. Richness levels remained high at study sites that did not experience dryi…
format: application/pdf
format: text/html
creator: Michael T. Bogan
creator: Drew Eppehimer
creator: Hamdhani Hamdhani
creator: Kelsey Hollien
subject: Biodiversity
subject: Ecology
subject: Entomology
subject: Zoology
subject: Freshwater Biology
description: doi:10.7717/peerj.9856
publisher: PeerJ Inc.
rights: © 2020 Bogan et al.
abstract: Background Aquatic ecosystems are greatly altered by urban development, including the complete loss of natural habitat due to water diversions or channel burial. However, novel freshwater habitats also are created in cities, such as effluent-dependent streams that rely on treated wastewater for flow. It is unclear how diverse these novel ecosystems are, or how quickly aquatic species are able to colonize them. In this study, we (1) quantify odonate (Insecta, Odonata) colonization of a novel effluent-dependent river reach, (2) examine how drying events affect odonates in these novel habitats, and (3) explore whether effluent-dependent streams can support diverse odonate assemblages. Methods We conducted monthly odonate surveys at three sites along the Santa Cruz River (Tucson, AZ, USA) between June 2019 and May 2020. One site was in a long-established effluent-dependent reach (flowing since the 1970s) that served as a reference site and two sites were in a newly-established reach that began flowing on June 24, 2019 (it was previously dry). We compared odonate species richness, assemblage composition, and colonization patterns across these reaches, and examined how these factors responded to flow cessation events in the new reach. Results Seven odonate species were observed at the study sites in the new reach within hours of flow initiation, and species rapidly continued to arrive thereafter. Within 3 months, species richness and assemblage composition of adult odonates were indistinguishable in the new and reference reaches. However, drying events resulted in short-term and chronic reductions in species richness at one of the sites. Across all three sites, we found over 50 odonate species, which represent nearly 40% of species known from the state of Arizona. Discussion Odonates were surprisingly diverse in the effluent-dependent Santa Cruz River and rapidly colonized a newly established reach. Richness levels remained high at study sites that did not experience dryi…
bibliographic citation: Bogan et al. (2020) If you build it, they will come: rapid colonization by dragonflies in a new effluent-dependent river reach. PeerJ 8:e9856 https://doi.org/10.7717/peerj.9856
date submitted: 2020-05-26
date accepted: 2020-08-11
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Bogan
  given name: Michael T.
author list: Agent
  family name: Eppehimer
  given name: Drew
author list: Agent
  family name: Hamdhani
  given name: Hamdhani
author list: Agent
  family name: Hollien
  given name: Kelsey
doi: 10.7717/peerj.9856
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: © 2020 Bogan et al.
attribution name: Bogan et al.

Biological function of Klebsiella variicola and its effect on the rhizosphere soil of maize seedlings
type: item
type: AcademicArticle
description: Background Deterioration of the ecological environment in recent years has led to increasing soil salinization, which severely affects the cultivation of agricultural crops. While research has focused on improving soil environment through the application of pollution-free microbial fertilizers, there are relatively few plant growth-promoting bacteria suitable for saline-alkali environments. Although Klebsiella variicola can adapt to saline-alkali environments to successfully colonize rhizosphere microenvironments, only a few studies have investigated its role in promoting crop growth. Its effect on the crop rhizosphere soil microenvironment is especially unclear. Methods In this study, the biological function of K. variicola and its colonization in maize seedling rhizosphere soil were studied in detail through selective media and ultraviolet spectrophotometry. The effects of K. variicola on the rhizosphere soil microenvironment and the growth of maize seedlings in saline-alkali and neutral soils were systematically analysed using the colorimetric method, the potassium dichromate volumetric method, and the diffusion absorption method. Results Our results showed that K. variicola played a role in indole acetic acid, acetoin, ammonia, phosphorus, and potassium production, as well as in nitrogen fixation. A high level of colonization was observed in the rhizosphere soil of maize seedlings. Following the application of K. variicola in neutral and saline-alkali soils, the nutrient composition of rhizosphere soil of maize seedlings increased in varying degrees, more notably in saline-alkali soil. The content of organic matter, alkali-hydrolysable nitrogen, available phosphorus, available potassium, alkaline phosphatase, sucrase, urease, and catalase increased by 64.22%, 117.39%, 175.64%, 28.63%, 146.08%, 76.77%, 86.60%, and 45.29%, respectively, insaline-alkalisoil. Conclusion K.variicola, therefore, performed a variety of biological functions to promote the growth of maiz…
format: application/pdf
format: text/html
creator: Lijuan Yang
creator: Kejun Yang
subject: Agricultural Science
subject: Microbiology
subject: Mycology
subject: Plant Science
subject: Soil Science
description: doi:10.7717/peerj.9894
publisher: PeerJ Inc.
rights: © 2020 Yang and Yang
abstract: Background Deterioration of the ecological environment in recent years has led to increasing soil salinization, which severely affects the cultivation of agricultural crops. While research has focused on improving soil environment through the application of pollution-free microbial fertilizers, there are relatively few plant growth-promoting bacteria suitable for saline-alkali environments. Although Klebsiella variicola can adapt to saline-alkali environments to successfully colonize rhizosphere microenvironments, only a few studies have investigated its role in promoting crop growth. Its effect on the crop rhizosphere soil microenvironment is especially unclear. Methods In this study, the biological function of K. variicola and its colonization in maize seedling rhizosphere soil were studied in detail through selective media and ultraviolet spectrophotometry. The effects of K. variicola on the rhizosphere soil microenvironment and the growth of maize seedlings in saline-alkali and neutral soils were systematically analysed using the colorimetric method, the potassium dichromate volumetric method, and the diffusion absorption method. Results Our results showed that K. variicola played a role in indole acetic acid, acetoin, ammonia, phosphorus, and potassium production, as well as in nitrogen fixation. A high level of colonization was observed in the rhizosphere soil of maize seedlings. Following the application of K. variicola in neutral and saline-alkali soils, the nutrient composition of rhizosphere soil of maize seedlings increased in varying degrees, more notably in saline-alkali soil. The content of organic matter, alkali-hydrolysable nitrogen, available phosphorus, available potassium, alkaline phosphatase, sucrase, urease, and catalase increased by 64.22%, 117.39%, 175.64%, 28.63%, 146.08%, 76.77%, 86.60%, and 45.29%, respectively, insaline-alkalisoil. Conclusion K.variicola, therefore, performed a variety of biological functions to promote the growth of maiz…
bibliographic citation: Yang et al. (2020) Biological function of Klebsiella variicola and its effect on the rhizosphere soil of maize seedlings. PeerJ 8:e9894 https://doi.org/10.7717/peerj.9894
date submitted: 2020-05-14
date accepted: 2020-08-17
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Yang
  given name: Lijuan
author list: Agent
  family name: Yang
  given name: Kejun
doi: 10.7717/peerj.9894
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: ©2020 Yang and Yang
attribution name: Yang and Yang

Entomopathogenic fungi decrease Rhizoctonia disease in potato in field conditions
type: item
type: AcademicArticle
description: Rhizoctonia potato disease is widespread in the world and causes substantial yield and quality losses in potato. This study aimed to evaluate the efficacy of entomopathogenic fungi Metarhizium robertsii and Beauveria bassiana in the inhibition of potato Rhizoctonia complex disease. The efficacy of the entomopathogenic fungi M. robertsii and B. bassiana in the defense of potato against Rhizoctonia disease (stem cancer, black scrulf and other forms of manifestation on tubers) was estimated under field conditions in Western Siberia. Preplanting treatment of the tubers with B. bassiana decreased Rhizoctonia disease in the stems and stolons. At the same time, treatment with M. robertsii did not cause a decrease in Rhizoctonia disease in these organs. However, both fungi decreased the sclerotium index on the tubers of new crops. We demonstrated two mechanisms of inhibition of Rhizoctonia solani by M. robertsii and B. bassiana, including (1) direct effect, expressed as inhibition of R. solani sclerotium formation in cocultivation assays, and (2) indirect effect, which is associated with increased peroxidase activity in potato roots under the influence of colonization by entomopathogenic fungi. We suggest that the treatment of seed tubers with B. basiana can effectively manage Rhizoctonia disease during the plant vegetative season and that both fungi significantly improve the quality of the new tuber crop.
format: application/pdf
format: text/html
creator: Oksana G. Tomilova
creator: Elena M. Shaldyaeva
creator: Natalia A. Kryukova
creator: Yulia V. Pilipova
creator: Natalia S. Schmidt
creator: Viktor P. Danilov
creator: Vadim Y. Kryukov
creator: Viktor V. Glupov
subject: Agricultural Science
subject: Ecology
subject: Mycology
subject: Plant Science
description: doi:10.7717/peerj.9895
publisher: PeerJ Inc.
rights: © 2020 Tomilova et al.
abstract: Rhizoctonia potato disease is widespread in the world and causes substantial yield and quality losses in potato. This study aimed to evaluate the efficacy of entomopathogenic fungi Metarhizium robertsii and Beauveria bassiana in the inhibition of potato Rhizoctonia complex disease. The efficacy of the entomopathogenic fungi M. robertsii and B. bassiana in the defense of potato against Rhizoctonia disease (stem cancer, black scrulf and other forms of manifestation on tubers) was estimated under field conditions in Western Siberia. Preplanting treatment of the tubers with B. bassiana decreased Rhizoctonia disease in the stems and stolons. At the same time, treatment with M. robertsii did not cause a decrease in Rhizoctonia disease in these organs. However, both fungi decreased the sclerotium index on the tubers of new crops. We demonstrated two mechanisms of inhibition of Rhizoctonia solani by M. robertsii and B. bassiana, including (1) direct effect, expressed as inhibition of R. solani sclerotium formation in cocultivation assays, and (2) indirect effect, which is associated with increased peroxidase activity in potato roots under the influence of colonization by entomopathogenic fungi. We suggest that the treatment of seed tubers with B. basiana can effectively manage Rhizoctonia disease during the plant vegetative season and that both fungi significantly improve the quality of the new tuber crop.
bibliographic citation: Tomilova et al. (2020) Entomopathogenic fungi decrease Rhizoctonia disease in potato in field conditions. PeerJ 8:e9895 https://doi.org/10.7717/peerj.9895
date submitted: 2020-05-27
date accepted: 2020-08-17
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Tomilova
  given name: Oksana G.
author list: Agent
  family name: Shaldyaeva
  given name: Elena M.
author list: Agent
  family name: Kryukova
  given name: Natalia A.
author list: Agent
  family name: Pilipova
  given name: Yulia V.
author list: Agent
  family name: Schmidt
  given name: Natalia S.
author list: Agent
  family name: Danilov
  given name: Viktor P.
author list: Agent
  family name: Kryukov
  given name: Vadim Y.
author list: Agent
  family name: Glupov
  given name: Viktor V.
doi: 10.7717/peerj.9895
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: ©2020 Tomilova et al.
attribution name: Tomilova et al.

Community based actions save Yellow-spotted river turtle (Podocnemis unifilis) eggs and hatchlings flooded by rapid river level rises
type: item
type: AcademicArticle
description: The conservation and recovery of increasingly threatened tropical freshwater turtle populations depends on effective management plans and actions. Here we show that community-based actions saved Yellow-spotted river turtle (Podocnemis unifilis) eggs submerged by unseasonal flooding and ensured the release of hatchlings. We recovered 926 eggs and 65 premature hatchlings from 74 submerged nests at 16 flooded nesting areas along 75 km of waterways. The rescued eggs were transferred to a rearing center and incubated. Hatchlings emerged from eggs that had remained underwater for up to two days. Hatchlings were maintained in 250–500 L nursery tanks until yolk sac scars had closed. Healthy hatchlings were then immediately released around the original nesting areas. We released 599 hatchlings (60.4%) from 991 submerged eggs and hatchlings. Egg survival (61.7% (571/926)) was substantially less than hatchling survival (94.2% (599/636)) but within the expected range of values reported for this species. These findings suggest that Yellow-spotted river turtle eggs and embryos are resistant to short-term submersion, which could help explain the widespread distribution of this species across highly seasonal Amazonian rivers. Management plans should take the possible survival of submerged eggs into consideration as part of species conservation and recovery actions.
format: application/pdf
format: text/html
creator: Darren Norris
creator: Fernanda Michalski
creator: James P. Gibbs
subject: Conservation Biology
subject: Ecology
subject: Zoology
subject: Freshwater Biology
subject: Natural Resource Management
description: doi:10.7717/peerj.9921
publisher: PeerJ Inc.
rights: © 2020 Norris et al.
abstract: The conservation and recovery of increasingly threatened tropical freshwater turtle populations depends on effective management plans and actions. Here we show that community-based actions saved Yellow-spotted river turtle (Podocnemis unifilis) eggs submerged by unseasonal flooding and ensured the release of hatchlings. We recovered 926 eggs and 65 premature hatchlings from 74 submerged nests at 16 flooded nesting areas along 75 km of waterways. The rescued eggs were transferred to a rearing center and incubated. Hatchlings emerged from eggs that had remained underwater for up to two days. Hatchlings were maintained in 250–500 L nursery tanks until yolk sac scars had closed. Healthy hatchlings were then immediately released around the original nesting areas. We released 599 hatchlings (60.4%) from 991 submerged eggs and hatchlings. Egg survival (61.7% (571/926)) was substantially less than hatchling survival (94.2% (599/636)) but within the expected range of values reported for this species. These findings suggest that Yellow-spotted river turtle eggs and embryos are resistant to short-term submersion, which could help explain the widespread distribution of this species across highly seasonal Amazonian rivers. Management plans should take the possible survival of submerged eggs into consideration as part of species conservation and recovery actions.
bibliographic citation: Norris et al. (2020) Community based actions save Yellow-spotted river turtle (Podocnemis unifilis) eggs and hatchlings flooded by rapid river level rises. PeerJ 8:e9921 https://doi.org/10.7717/peerj.9921
date submitted: 2020-06-02
date accepted: 2020-08-21
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Norris
  given name: Darren
author list: Agent
  family name: Michalski
  given name: Fernanda
author list: Agent
  family name: Gibbs
  given name: James P.
doi: 10.7717/peerj.9921
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: © 2020 Norris et al.
attribution name: Norris et al.

Ultraviolet-reflective film applied to windows reduces the likelihood of collisions for two species of songbird
type: item
type: AcademicArticle
description: Perhaps a billion birds die annually from colliding with residential and commercial windows. Therefore, there is a societal need to develop technologies that reduce window collisions by birds. Many current window films that are applied to the external surface of windows have human-visible patterns that are not esthetically preferable. BirdShades have developed a short wavelength (ultraviolet) reflective film that appears as a slight tint to the human eye but should be highly visible to many bird species that see in this spectral range. We performed flight tunnel tests of whether the BirdShades external window film reduced the likelihood that two species of song bird (zebra finch, Taeniopygia guttata and brown-headed cowbird, Molothrus ater) collide with windows during daylight. We paid particular attention to simulate the lighting conditions that birds will experience while flying during the day. Our results indicate a 75–90% reduction in the likelihood of collision with BirdShades-treated compared with control windows, in forced choice trials. In more ecologically relevant comparison between trials where all windows were either treated or control windows, the estimated reduction in probability of collision was 30–50%. Further, both bird species slow their flight by approximately 25% when approaching windows treated with the BirdShades film, thereby reducing the force of collisions if they were to happen. Therefore, we conclude that the BirdShades external window film will be effective in reducing the risk of and damage caused to populations and property by birds’ collision with windows. As this ultraviolet-reflective film has no human-visible patterning to it, the product might be an esthetically more acceptable low cost solution to reducing bird-window collisions. Further, we call for testing of other mitigation technologies in lighting and ecological conditions that are more similar to what birds experience in real human-built environments and make suggestions fo…
format: application/pdf
format: text/html
creator: John P. Swaddle
creator: Lauren C. Emerson
creator: Robin G. Thady
creator: Timothy J. Boycott
subject: Animal Behavior
subject: Conservation Biology
subject: Ecology
description: doi:10.7717/peerj.9926
publisher: PeerJ Inc.
rights: © 2020 Swaddle et al.
abstract: Perhaps a billion birds die annually from colliding with residential and commercial windows. Therefore, there is a societal need to develop technologies that reduce window collisions by birds. Many current window films that are applied to the external surface of windows have human-visible patterns that are not esthetically preferable. BirdShades have developed a short wavelength (ultraviolet) reflective film that appears as a slight tint to the human eye but should be highly visible to many bird species that see in this spectral range. We performed flight tunnel tests of whether the BirdShades external window film reduced the likelihood that two species of song bird (zebra finch, Taeniopygia guttata and brown-headed cowbird, Molothrus ater) collide with windows during daylight. We paid particular attention to simulate the lighting conditions that birds will experience while flying during the day. Our results indicate a 75–90% reduction in the likelihood of collision with BirdShades-treated compared with control windows, in forced choice trials. In more ecologically relevant comparison between trials where all windows were either treated or control windows, the estimated reduction in probability of collision was 30–50%. Further, both bird species slow their flight by approximately 25% when approaching windows treated with the BirdShades film, thereby reducing the force of collisions if they were to happen. Therefore, we conclude that the BirdShades external window film will be effective in reducing the risk of and damage caused to populations and property by birds’ collision with windows. As this ultraviolet-reflective film has no human-visible patterning to it, the product might be an esthetically more acceptable low cost solution to reducing bird-window collisions. Further, we call for testing of other mitigation technologies in lighting and ecological conditions that are more similar to what birds experience in real human-built environments and make suggestions fo…
bibliographic citation: Swaddle et al. (2020) Ultraviolet-reflective film applied to windows reduces the likelihood of collisions for two species of songbird. PeerJ 8:e9926 https://doi.org/10.7717/peerj.9926
date submitted: 2020-06-16
date accepted: 2020-08-21
issued: 2020-09-16
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Swaddle
  given name: John P.
author list: Agent
  family name: Emerson
  given name: Lauren C.
author list: Agent
  family name: Thady
  given name: Robin G.
author list: Agent
  family name: Boycott
  given name: Timothy J.
doi: 10.7717/peerj.9926
volume: 8
issn: 2167-8359
publication name: PeerJ
publication date: 2020-09-16
copyright: © 2020 Swaddle et al.
attribution name: Swaddle et al.

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