PeerJ
type: channel
link: https://peerj.com/articles/
description: Articles published in PeerJ
publisher: PeerJ Inc.
publication name: PeerJ
issn: 2167-8359
items: Nutrient availability induces community shifts in seagrass meadows grazed by turtles
items: The reproductive system of the male and oviparous female of a model organism—the pea aphid, Acyrthosiphon pisum (Hemiptera, Aphididae)
items: Community composition of zooplankton exported from a shallow polymictic reservoir linked to wind conditions
items: Winter bird-window collisions: mitigation success, risk factors, and implementation challenges
items: Serine protease inhibitors and human wellbeing interplay: new insights for old friends
items: Post-fledging habitat use in a declining songbird
items: Echinoids from the Tesero Member (Werfen Formation) of the Dolomites (Italy): implications for extinction and survival of echinoids in the aftermath of the end-Permian mass extinction
items: Age, growth, reproduction and management of Southwestern Atlantic’s largest and endangered herbivorous reef fish, Scarus trispinosus Valenciennes, 1840
items: The adipokinetic hormones and their cognate receptor from the desert locust, Schistocerca gregaria: solution structure of endogenous peptides and models of their binding to the receptor
items: Expansion of sandhill cranes (Grus canadensis) in east Asia during the non-breeding period

Nutrient availability induces community shifts in seagrass meadows grazed by turtles
type: item
type: AcademicArticle
description: In the Caribbean, green turtles graze seagrass meadows dominated by Thalassia testudinum through rotational grazing, resulting in the creation of grazed and recovering (abandoned) patches surrounded by ungrazed seagrasses. We evaluated the seagrass community and its environment along a turtle grazing gradient; with the duration of (simulated) grazing as a proxy for the level of grazing pressure. The grazing levels consisted of Short-term (4 months clipping), Medium-term (8 months clipping), Long-term grazing (8 months of clipping in previously grazed areas), 8-months recovery of previously grazed patches, and ungrazed or unclipped patches as controls. We measured biomass and density of the seagrasses and rhizophytic algae, and changes in sediment parameters. Medium- and Long-term grazing promoted a shift in community species composition. At increasing grazing pressure, the total biomass of T. testudinum declined, whereas that of early-successional increased. Ammonium concentrations were highest in the patches of Medium-term (9.2 + 0.8 μM) and Long-term grazing levels (11.0 + 2.2 μM) and were lowest in the control areas (4.6 + 1.5 μM). T. testudinum is a late-successional species that maintains sediment nutrient concentrations at levels below the requirements of early-successional species when dominant. When the abundance of this species declines due to grazing, these resources become available, likely driving a shift in community composition toward a higher abundance of early-successional species.
format: application/pdf
format: text/html
creator: Isis Gabriela Martínez López
creator: Marloes van Den Akker
creator: Liene Walk
creator: Marieke M. van Katwijk
creator: Tjisse van Der Heide
creator: Brigitta I. van Tussenbroek
subject: Ecology
subject: Marine Biology
description: doi:10.7717/peerj.7570
publisher: PeerJ Inc.
rights: © 2019 Martínez López et al.
abstract: In the Caribbean, green turtles graze seagrass meadows dominated by Thalassia testudinum through rotational grazing, resulting in the creation of grazed and recovering (abandoned) patches surrounded by ungrazed seagrasses. We evaluated the seagrass community and its environment along a turtle grazing gradient; with the duration of (simulated) grazing as a proxy for the level of grazing pressure. The grazing levels consisted of Short-term (4 months clipping), Medium-term (8 months clipping), Long-term grazing (8 months of clipping in previously grazed areas), 8-months recovery of previously grazed patches, and ungrazed or unclipped patches as controls. We measured biomass and density of the seagrasses and rhizophytic algae, and changes in sediment parameters. Medium- and Long-term grazing promoted a shift in community species composition. At increasing grazing pressure, the total biomass of T. testudinum declined, whereas that of early-successional increased. Ammonium concentrations were highest in the patches of Medium-term (9.2 + 0.8 μM) and Long-term grazing levels (11.0 + 2.2 μM) and were lowest in the control areas (4.6 + 1.5 μM). T. testudinum is a late-successional species that maintains sediment nutrient concentrations at levels below the requirements of early-successional species when dominant. When the abundance of this species declines due to grazing, these resources become available, likely driving a shift in community composition toward a higher abundance of early-successional species.
bibliographic citation: Martínez López et al. (2019) Nutrient availability induces community shifts in seagrass meadows grazed by turtles. PeerJ 7:e7570 https://doi.org/10.7717/peerj.7570
date submitted: 2019-04-04
date accepted: 2019-07-29
issued: 2019-09-02
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Martínez López
  given name: Isis Gabriela
author list: Agent
  family name: van Den Akker
  given name: Marloes
author list: Agent
  family name: Walk
  given name: Liene
author list: Agent
  family name: van Katwijk
  given name: Marieke M.
author list: Agent
  family name: van Der Heide
  given name: Tjisse
author list: Agent
  family name: van Tussenbroek
  given name: Brigitta I.
doi: 10.7717/peerj.7570
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-09-02
copyright: © 2019 Martínez López et al.
attribution name: Martínez López et al.

The reproductive system of the male and oviparous female of a model organism—the pea aphid, Acyrthosiphon pisum (Hemiptera, Aphididae)
type: item
type: AcademicArticle
description: The structure of the reproductive system of the sexual generation—males and oviparous females—of the pea aphid Acyrthosiphon pisum (Harris) (Hemiptera, Aphididae), a serious pest of cultivated plants of Fabaceae, was investigated. For the first time we describe the morphology, histology and ultrastructure of the reproductive system in both morphs of the sexual generation of aphids within one species, using light and fluorescent microscopy, as well as transmission and scanning electron microscopy. The results revealed that males have testes composed of three follicles fused by the upper ends of the vasa efferentia, the vasa deferentia run independently, the accessory glands are asymmetric and the ejaculatory duct shortened. Oviparous females have ovaries composed of seven ovarioles each. The lateral oviducts join to a short common oviduct connected with the unpaired spermatheca and paired accessory glands. Yolky eggs with an aggregation of symbiotic bacteria at the posterior pole are produced. Histologically, the components of genital tracts are broadly similar: the epithelial cells of the walls of the vasa deferentia and accessory glands of the male and oviparous female have secretory functions which correlate with the age of the studied morphs. We also found symbiotic bacteria within the vasa deferentia epithelial cells in males and within the cells of the lateral oviducts of females. Because the pea aphid is listed among the 14 species that are of the greatest economic importance, our results will be useful for managing aphid populations, protecting plants and ensuring global food security.
format: application/pdf
format: text/html
creator: Karina Wieczorek
creator: Mariusz Kanturski
creator: Cezary Sempruch
creator: Piotr Świątek
subject: Agricultural Science
subject: Entomology
subject: Histology
description: doi:10.7717/peerj.7573
publisher: PeerJ Inc.
rights: © 2019 Wieczorek et al.
abstract: The structure of the reproductive system of the sexual generation—males and oviparous females—of the pea aphid Acyrthosiphon pisum (Harris) (Hemiptera, Aphididae), a serious pest of cultivated plants of Fabaceae, was investigated. For the first time we describe the morphology, histology and ultrastructure of the reproductive system in both morphs of the sexual generation of aphids within one species, using light and fluorescent microscopy, as well as transmission and scanning electron microscopy. The results revealed that males have testes composed of three follicles fused by the upper ends of the vasa efferentia, the vasa deferentia run independently, the accessory glands are asymmetric and the ejaculatory duct shortened. Oviparous females have ovaries composed of seven ovarioles each. The lateral oviducts join to a short common oviduct connected with the unpaired spermatheca and paired accessory glands. Yolky eggs with an aggregation of symbiotic bacteria at the posterior pole are produced. Histologically, the components of genital tracts are broadly similar: the epithelial cells of the walls of the vasa deferentia and accessory glands of the male and oviparous female have secretory functions which correlate with the age of the studied morphs. We also found symbiotic bacteria within the vasa deferentia epithelial cells in males and within the cells of the lateral oviducts of females. Because the pea aphid is listed among the 14 species that are of the greatest economic importance, our results will be useful for managing aphid populations, protecting plants and ensuring global food security.
bibliographic citation: Wieczorek et al. (2019) The reproductive system of the male and oviparous female of a model organism—the pea aphid, Acyrthosiphon pisum (Hemiptera, Aphididae). PeerJ 7:e7573 https://doi.org/10.7717/peerj.7573
date submitted: 2019-04-18
date accepted: 2019-07-29
issued: 2019-09-02
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Wieczorek
  given name: Karina
author list: Agent
  family name: Kanturski
  given name: Mariusz
author list: Agent
  family name: Sempruch
  given name: Cezary
author list: Agent
  family name: Świątek
  given name: Piotr
doi: 10.7717/peerj.7573
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-09-02
copyright: © 2019 Wieczorek et al.
attribution name: Wieczorek et al.

Community composition of zooplankton exported from a shallow polymictic reservoir linked to wind conditions
type: item
type: AcademicArticle
description: Zooplankton exported from lentic systems provision lotic systems with easily captured, consumed, and assimilated prey items. Previous studies have demonstrated that the community composition of zooplankton exports (CCZE) vary over time, which introduces temporal differences in lotic resource availability (zooplankton prey) in downstream habitats. In the study presented here, we monitored variation in CCZE from a polymictic reservoir outfall in response to physical–chemical and atmospheric conditions bi-hourly over three different 24-h periods. Community composition of zooplankton export varied over the course of the day, and exports were most closely associated with wind directionality. Future studies of temporal variation in CCZE should incorporate wind conditions, especially in shallow systems where holomixis occurs frequently. Polymictic reservoirs are becoming increasingly common as the global pace of small dam construction quickens, making both the identification of factors influencing CCZE and the impact of zooplankton exports on local biodiversity and ecosystem function increasingly important to understand.
format: application/pdf
format: text/html
creator: Nathan Ruhl
creator: Desireé Haban
creator: Caitlyn Czajkowski
creator: Michael Grove
creator: Courtney E. Richmond
subject: Ecology
subject: Ecosystem Science
subject: Freshwater Biology
description: doi:10.7717/peerj.7611
publisher: PeerJ Inc.
rights: © 2019 Ruhl et al.
abstract: Zooplankton exported from lentic systems provision lotic systems with easily captured, consumed, and assimilated prey items. Previous studies have demonstrated that the community composition of zooplankton exports (CCZE) vary over time, which introduces temporal differences in lotic resource availability (zooplankton prey) in downstream habitats. In the study presented here, we monitored variation in CCZE from a polymictic reservoir outfall in response to physical–chemical and atmospheric conditions bi-hourly over three different 24-h periods. Community composition of zooplankton export varied over the course of the day, and exports were most closely associated with wind directionality. Future studies of temporal variation in CCZE should incorporate wind conditions, especially in shallow systems where holomixis occurs frequently. Polymictic reservoirs are becoming increasingly common as the global pace of small dam construction quickens, making both the identification of factors influencing CCZE and the impact of zooplankton exports on local biodiversity and ecosystem function increasingly important to understand.
bibliographic citation: Ruhl et al. (2019) Community composition of zooplankton exported from a shallow polymictic reservoir linked to wind conditions. PeerJ 7:e7611 https://doi.org/10.7717/peerj.7611
date submitted: 2019-04-24
date accepted: 2019-08-05
issued: 2019-09-02
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Ruhl
  given name: Nathan
author list: Agent
  family name: Haban
  given name: Desireé
author list: Agent
  family name: Czajkowski
  given name: Caitlyn
author list: Agent
  family name: Grove
  given name: Michael
author list: Agent
  family name: Richmond
  given name: Courtney E.
doi: 10.7717/peerj.7611
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-09-02
copyright: © 2019 Ruhl et al.
attribution name: Ruhl et al.

Winter bird-window collisions: mitigation success, risk factors, and implementation challenges
type: item
type: AcademicArticle
description: Millions of birds die in bird-window collisions in the United States each year. In specialized test settings, researchers have developed methods to alter window designs to mitigate collisions. However, few published studies provide pretest and posttest evaluations of mitigation treatment areas and untreated control areas on existing buildings. We initially monitored bird-window collisions at a single building on the University of Utah campus in Salt Lake City, Utah, USA, during winter 1 (November 9, 2017–January 2, 2018). We found 15 bird-window collisions, most under a portion of the building with a mirrored façade. To test a mitigation treatment, we installed Feather Friendly® bird deterrent film on part of the mirrored façade after winter 1. The unmitigated areas of the same building served as a control area. We continued monitoring during the following winter 2 (November 15, 2018–January 12, 2019). The treated area collisions declined from seven before mitigation to two after mitigation, a 71% reduction. The control area had eight collisions at both times. Results of a generalized estimating equation yielded a significant area by season interaction effect (p = 0.03) and fewer collisions in the mitigated area than the control area at winter 2 (p = 0.03), supporting efficacy of the mitigation. In winter 2 we also expanded monitoring to eight total buildings to evaluate the risks of mirrored windows and proximity to fruiting pear trees (Prunus calleryana) and the benefits of bird-friendly glass. Bird-friendly glass, found on two buildings, included windows with permanent fritted dots or embedded ultraviolet patterns. We counted 22 collisions across the eight buildings. Mirrored windows and proximity to fruiting pear trees related to higher odds of bird-window collisions, based on separate generalized estimating equations. The best fit model included mirrored windows and pear trees. The two buildings with bird-friendly glass had only one collision, suggesting that t…
format: application/pdf
format: text/html
creator: Barbara B. Brown
creator: Erika Kusakabe
creator: Angelo Antonopoulos
creator: Sarah Siddoway
creator: Lisa Thompson
subject: Animal Behavior
subject: Conservation Biology
subject: Ecology
description: doi:10.7717/peerj.7620
publisher: PeerJ Inc.
rights: © 2019 Brown et al.
abstract: Millions of birds die in bird-window collisions in the United States each year. In specialized test settings, researchers have developed methods to alter window designs to mitigate collisions. However, few published studies provide pretest and posttest evaluations of mitigation treatment areas and untreated control areas on existing buildings. We initially monitored bird-window collisions at a single building on the University of Utah campus in Salt Lake City, Utah, USA, during winter 1 (November 9, 2017–January 2, 2018). We found 15 bird-window collisions, most under a portion of the building with a mirrored façade. To test a mitigation treatment, we installed Feather Friendly® bird deterrent film on part of the mirrored façade after winter 1. The unmitigated areas of the same building served as a control area. We continued monitoring during the following winter 2 (November 15, 2018–January 12, 2019). The treated area collisions declined from seven before mitigation to two after mitigation, a 71% reduction. The control area had eight collisions at both times. Results of a generalized estimating equation yielded a significant area by season interaction effect (p = 0.03) and fewer collisions in the mitigated area than the control area at winter 2 (p = 0.03), supporting efficacy of the mitigation. In winter 2 we also expanded monitoring to eight total buildings to evaluate the risks of mirrored windows and proximity to fruiting pear trees (Prunus calleryana) and the benefits of bird-friendly glass. Bird-friendly glass, found on two buildings, included windows with permanent fritted dots or embedded ultraviolet patterns. We counted 22 collisions across the eight buildings. Mirrored windows and proximity to fruiting pear trees related to higher odds of bird-window collisions, based on separate generalized estimating equations. The best fit model included mirrored windows and pear trees. The two buildings with bird-friendly glass had only one collision, suggesting that t…
bibliographic citation: Brown et al. (2019) Winter bird-window collisions: mitigation success, risk factors, and implementation challenges. PeerJ 7:e7620 https://doi.org/10.7717/peerj.7620
date submitted: 2019-05-10
date accepted: 2019-08-05
issued: 2019-09-02
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Brown
  given name: Barbara B.
author list: Agent
  family name: Kusakabe
  given name: Erika
author list: Agent
  family name: Antonopoulos
  given name: Angelo
author list: Agent
  family name: Siddoway
  given name: Sarah
author list: Agent
  family name: Thompson
  given name: Lisa
doi: 10.7717/peerj.7620
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-09-02
copyright: ©2019 Brown et al.
attribution name: Brown et al.

Serine protease inhibitors and human wellbeing interplay: new insights for old friends
type: item
type: AcademicArticle
description: Serine Protease Inhibitors (Serpins) control tightly regulated physiological processes and their dysfunction is associated to various diseases. Thus, increasing interest is given to these proteins as new therapeutic targets. Several studies provided functional and structural data about human serpins. By comparison, only little knowledge regarding bacterial serpins exists. Through the emergence of metagenomic studies, many bacterial serpins were identified from numerous ecological niches including the human gut microbiota. The origin, distribution and function of these proteins remain to be established. In this report, we shed light on the key role of human and bacterial serpins in health and disease. Moreover, we analyze their function, phylogeny and ecological distribution. This review highlights the potential use of bacterial serpins to set out new therapeutic approaches.
format: application/pdf
format: text/html
creator: Héla Mkaouar
creator: Nizar Akermi
creator: Aicha Kriaa
creator: Anne-Laure Abraham
creator: Amin Jablaoui
creator: Souha Soussou
creator: Raja Mokdad-Gargouri
creator: Emmanuelle Maguin
creator: Moez Rhimi
subject: Microbiology
subject: Gastroenterology and Hepatology
description: doi:10.7717/peerj.7224
publisher: PeerJ Inc.
rights: © 2019 Mkaouar et al.
abstract: Serine Protease Inhibitors (Serpins) control tightly regulated physiological processes and their dysfunction is associated to various diseases. Thus, increasing interest is given to these proteins as new therapeutic targets. Several studies provided functional and structural data about human serpins. By comparison, only little knowledge regarding bacterial serpins exists. Through the emergence of metagenomic studies, many bacterial serpins were identified from numerous ecological niches including the human gut microbiota. The origin, distribution and function of these proteins remain to be established. In this report, we shed light on the key role of human and bacterial serpins in health and disease. Moreover, we analyze their function, phylogeny and ecological distribution. This review highlights the potential use of bacterial serpins to set out new therapeutic approaches.
bibliographic citation: Mkaouar et al. (2019) Serine protease inhibitors and human wellbeing interplay: new insights for old friends. PeerJ 7:e7224 https://doi.org/10.7717/peerj.7224
date submitted: 2019-04-17
date accepted: 2019-05-31
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Mkaouar
  given name: Héla
author list: Agent
  family name: Akermi
  given name: Nizar
author list: Agent
  family name: Kriaa
  given name: Aicha
author list: Agent
  family name: Abraham
  given name: Anne-Laure
author list: Agent
  family name: Jablaoui
  given name: Amin
author list: Agent
  family name: Soussou
  given name: Souha
author list: Agent
  family name: Mokdad-Gargouri
  given name: Raja
author list: Agent
  family name: Maguin
  given name: Emmanuelle
author list: Agent
  family name: Rhimi
  given name: Moez
doi: 10.7717/peerj.7224
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: ©2019 Mkaouar et al.
attribution name: Mkaouar et al.

Post-fledging habitat use in a declining songbird
type: item
type: AcademicArticle
description: Background Fledglings of many mature forest-dependent Neotropical songbirds move from mature forest habitats into areas of thick vegetation such as regenerating clearcuts. The Cerulean Warbler (Setophaga cerulea), a Neotropical migratory songbird, is a species of conservation concern across its range and it is listed as endangered in Indiana. This species has declined faster than any other species of wood-warbler in North America. Most prior research on Cerulean Warblers has examined the breeding biology, but there are no data on habitat use by fledgling Cerulean Warblers. Our research aimed to determine where fledgling Cerulean Warblers dispersed after they left their nest, but before they migrated to their wintering grounds. Methods Since 2007, Cerulean Warbler breeding populations have been monitored in Yellowwood and Morgan–Monroe state forests in southern Indiana as part of a 100-year study called the Hardwood Ecosystem Experiment. To identify habitats used by fledgling Cerulean Warblers, we captured by hand or mist-nets, adult and juvenile Cerulean Warblers once young had fledged from a nest. We attached radio-transmitters to individuals and tracked each bird daily using radio-telemetry. Radio-telemetry data were collected from May to July 2015–2017, and microhabitat data on fledgling locations and random locations were collected during the same years in the month of July. Results Fledgling presence, when compared to random non-use sites, was positively correlated to presence of grapevines, greater vertical vegetation density, and greater ground and canopy cover. Fledgling presence was negatively correlated with white oak abundance, aspect, basal area, and the abundance of mature trees that Cerulean Warbler adults use for nesting. Conclusions Our study is the first to demonstrate that Cerulean Warbler fledglings occupy habitats that are characterized by specific habitat components. Fledgling sites were located in areas with high vegetation density, such as clu…
format: application/pdf
format: text/html
creator: Clayton D. Delancey
creator: Kamal Islam
subject: Animal Behavior
subject: Conservation Biology
subject: Ecology
subject: Zoology
description: doi:10.7717/peerj.7358
publisher: PeerJ Inc.
rights: © 2019 Delancey and Islam
abstract: Background Fledglings of many mature forest-dependent Neotropical songbirds move from mature forest habitats into areas of thick vegetation such as regenerating clearcuts. The Cerulean Warbler (Setophaga cerulea), a Neotropical migratory songbird, is a species of conservation concern across its range and it is listed as endangered in Indiana. This species has declined faster than any other species of wood-warbler in North America. Most prior research on Cerulean Warblers has examined the breeding biology, but there are no data on habitat use by fledgling Cerulean Warblers. Our research aimed to determine where fledgling Cerulean Warblers dispersed after they left their nest, but before they migrated to their wintering grounds. Methods Since 2007, Cerulean Warbler breeding populations have been monitored in Yellowwood and Morgan–Monroe state forests in southern Indiana as part of a 100-year study called the Hardwood Ecosystem Experiment. To identify habitats used by fledgling Cerulean Warblers, we captured by hand or mist-nets, adult and juvenile Cerulean Warblers once young had fledged from a nest. We attached radio-transmitters to individuals and tracked each bird daily using radio-telemetry. Radio-telemetry data were collected from May to July 2015–2017, and microhabitat data on fledgling locations and random locations were collected during the same years in the month of July. Results Fledgling presence, when compared to random non-use sites, was positively correlated to presence of grapevines, greater vertical vegetation density, and greater ground and canopy cover. Fledgling presence was negatively correlated with white oak abundance, aspect, basal area, and the abundance of mature trees that Cerulean Warbler adults use for nesting. Conclusions Our study is the first to demonstrate that Cerulean Warbler fledglings occupy habitats that are characterized by specific habitat components. Fledgling sites were located in areas with high vegetation density, such as clu…
bibliographic citation: Delancey et al. (2019) Post-fledging habitat use in a declining songbird. PeerJ 7:e7358 https://doi.org/10.7717/peerj.7358
date submitted: 2019-02-13
date accepted: 2019-06-26
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Delancey
  given name: Clayton D.
author list: Agent
  family name: Islam
  given name: Kamal
doi: 10.7717/peerj.7358
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: ©2019 Delancey and Islam
attribution name: Delancey and Islam

Echinoids from the Tesero Member (Werfen Formation) of the Dolomites (Italy): implications for extinction and survival of echinoids in the aftermath of the end-Permian mass extinction
type: item
type: AcademicArticle
description: The end-Permian mass extinction (∼252 Ma) was responsible for high rates of extinction and evolutionary bottlenecks in a number of animal groups. Echinoids, or sea urchins, were no exception, and the Permian to Triassic represents one of the most significant intervals of time in their macroevolutionary history. The extinction event was responsible for significant turnover, with the Permian–Triassic representing the transition from stem group echinoid-dominated faunas in the Palaeozoic to Mesozoic faunas dominated by crown group echinoids. This turnover is well-known, however, the environmental and taxonomic distribution of echinoids during the latest Permian and Early Triassic is not. Here we report on an echinoid fauna from the Tesero Member, Werfen Formation (latest Permian to Early Triassic) of the Dolomites (northern Italy). The fauna is largely known from disarticulated ossicles, but consists of both stem group taxa, and a new species of crown group echinoid, Eotiaris teseroensis n. sp. That these stem group echinoids were present in the Tesero Member indicates that stem group echinoids did not go extinct in the Dolomites coincident with the onset of extinction, further supporting other recent work indicating that stem group echinoids survived the end-Permian extinction. Furthermore, the presence of Eotiaris across a number of differing palaeoenvironments in the Early Triassic may have had implications for the survival of cidaroid echinoids during the extinction event.
format: application/pdf
format: text/html
creator: Jeffrey R. Thompson
creator: Renato Posenato
creator: David J. Bottjer
creator: Elizabeth Petsios
subject: Evolutionary Studies
subject: Paleontology
subject: Taxonomy
subject: Biosphere Interactions
description: doi:10.7717/peerj.7361
publisher: PeerJ Inc.
rights: © 2019 Thompson et al.
abstract: The end-Permian mass extinction (∼252 Ma) was responsible for high rates of extinction and evolutionary bottlenecks in a number of animal groups. Echinoids, or sea urchins, were no exception, and the Permian to Triassic represents one of the most significant intervals of time in their macroevolutionary history. The extinction event was responsible for significant turnover, with the Permian–Triassic representing the transition from stem group echinoid-dominated faunas in the Palaeozoic to Mesozoic faunas dominated by crown group echinoids. This turnover is well-known, however, the environmental and taxonomic distribution of echinoids during the latest Permian and Early Triassic is not. Here we report on an echinoid fauna from the Tesero Member, Werfen Formation (latest Permian to Early Triassic) of the Dolomites (northern Italy). The fauna is largely known from disarticulated ossicles, but consists of both stem group taxa, and a new species of crown group echinoid, Eotiaris teseroensis n. sp. That these stem group echinoids were present in the Tesero Member indicates that stem group echinoids did not go extinct in the Dolomites coincident with the onset of extinction, further supporting other recent work indicating that stem group echinoids survived the end-Permian extinction. Furthermore, the presence of Eotiaris across a number of differing palaeoenvironments in the Early Triassic may have had implications for the survival of cidaroid echinoids during the extinction event.
bibliographic citation: Thompson et al. (2019) Echinoids from the Tesero Member (Werfen Formation) of the Dolomites (Italy): implications for extinction and survival of echinoids in the aftermath of the end-Permian mass extinction. PeerJ 7:e7361 https://doi.org/10.7717/peerj.7361
date submitted: 2019-01-17
date accepted: 2019-06-27
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Thompson
  given name: Jeffrey R.
author list: Agent
  family name: Posenato
  given name: Renato
author list: Agent
  family name: Bottjer
  given name: David J.
author list: Agent
  family name: Petsios
  given name: Elizabeth
doi: 10.7717/peerj.7361
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: ©2019 Thompson et al.
attribution name: Thompson et al.

Age, growth, reproduction and management of Southwestern Atlantic’s largest and endangered herbivorous reef fish, Scarus trispinosus Valenciennes, 1840
type: item
type: AcademicArticle
description: The Brazilian-endemic greenbeack parrotfish, Scarus trispinosus Valenciennes, 1840, is the largest herbivorous reef fish in the South Atlantic. Following the sharp decline of large carnivorous reef fishes, parrotfishes (Labridae: Scarinae) were progressively targeted by commercial fisheries in Brazil, resulting in a global population decline of 50% for S. trispinosus. Most of its remnant population is concentrated in the Abrolhos Bank, where the present study was conducted. We present novel information on age, growth and the reproductive cycle of S. trispinosus, based on 814 individuals obtained from commercial fisheries’ landings and scientific collections, between 2010 and 2013. Sex ratio was biased toward females (1:8), and spawning occurred year-round with discrete peaks in February-March and June-December. Increment analysis indicated annual deposition of growth rings in otoliths, which presented 1–22 rings. The asymptotic length at which growth is zero (L∞) was estimated from a Bayesian logistic regression at 85.28 cm, growth rate (K) at 0.14 year−1, and the theoretical age at zero size (t0) at 0.16. Subregional demographic structuring was detected, with predominance of slower-growing individuals in shallower inshore reefs and predominance of faster-growing and older individuals in deeper offshore sites. We demonstrate that S. trispinosus is highly vulnerable to over-exploitation due to its large size, long live and slow-growth, and review the management measures proposed since its Red List assessment in 2012.
format: application/pdf
format: text/html
creator: Matheus O. Freitas
creator: Marília Previero
creator: Jonas R. Leite
creator: Ronaldo B. Francini-Filho
creator: Carolina V. Minte-Vera
creator: Rodrigo L. Moura
subject: Ecology
subject: Environmental Impacts
subject: Biological Oceanography
description: doi:10.7717/peerj.7459
publisher: PeerJ Inc.
rights: © 2019 Freitas et al.
abstract: The Brazilian-endemic greenbeack parrotfish, Scarus trispinosus Valenciennes, 1840, is the largest herbivorous reef fish in the South Atlantic. Following the sharp decline of large carnivorous reef fishes, parrotfishes (Labridae: Scarinae) were progressively targeted by commercial fisheries in Brazil, resulting in a global population decline of 50% for S. trispinosus. Most of its remnant population is concentrated in the Abrolhos Bank, where the present study was conducted. We present novel information on age, growth and the reproductive cycle of S. trispinosus, based on 814 individuals obtained from commercial fisheries’ landings and scientific collections, between 2010 and 2013. Sex ratio was biased toward females (1:8), and spawning occurred year-round with discrete peaks in February-March and June-December. Increment analysis indicated annual deposition of growth rings in otoliths, which presented 1–22 rings. The asymptotic length at which growth is zero (L∞) was estimated from a Bayesian logistic regression at 85.28 cm, growth rate (K) at 0.14 year−1, and the theoretical age at zero size (t0) at 0.16. Subregional demographic structuring was detected, with predominance of slower-growing individuals in shallower inshore reefs and predominance of faster-growing and older individuals in deeper offshore sites. We demonstrate that S. trispinosus is highly vulnerable to over-exploitation due to its large size, long live and slow-growth, and review the management measures proposed since its Red List assessment in 2012.
bibliographic citation: Freitas et al. (2019) Age, growth, reproduction and management of Southwestern Atlantic’s largest and endangered herbivorous reef fish, Scarus trispinosus Valenciennes, 1840. PeerJ 7:e7459 https://doi.org/10.7717/peerj.7459
date submitted: 2018-04-18
date accepted: 2019-07-11
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Freitas
  given name: Matheus O.
author list: Agent
  family name: Previero
  given name: Marília
author list: Agent
  family name: Leite
  given name: Jonas R.
author list: Agent
  family name: Francini-Filho
  given name: Ronaldo B.
author list: Agent
  family name: Minte-Vera
  given name: Carolina V.
author list: Agent
  family name: Moura
  given name: Rodrigo L.
doi: 10.7717/peerj.7459
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: ©2019 Freitas et al.
attribution name: Freitas et al.

The adipokinetic hormones and their cognate receptor from the desert locust, Schistocerca gregaria: solution structure of endogenous peptides and models of their binding to the receptor
type: item
type: AcademicArticle
description: Background Neuropeptides exert their activity through binding to G protein-coupled receptors (GPCRs). GPCRs are well-known drug targets in the pharmaceutical industry and are currently discussed as targets to control pest insects. Here, we investigate the neuropeptide adipokinetic hormone (AKH) system of the desert locust Schistocerca gregaria. The desert locust is known for its high reproduction, and for forming devastating swarms consisting of billions of individual insects. It is also known that S. gregaria produces three different AKHs as ligands but has only one AKH receptor (AKHR). The AKH system is known to be essential for metabolic regulation, which is necessary for reproduction and flight activity. Methods Nuclear magnetic resonance techniques (NMR) in a dodecylphosphocholin (DPC) micelle solution were used to determine the structure of the three AKHs. The primary sequence of the S. gregaria AKHR was used to construct a 3D molecular model. Next, the three AKHs were individually docked to the receptor, and dynamic simulation of the whole ligand–receptor complex in a model membrane was performed. Results Although the three endogenous AKHs of S. gregaria have quite different amino acids sequences and chain length (two octa- and one decapeptide), NMR experiments assigned a turn structure in DPC micelle solution for all. The GPCR-ModSim program identified human kappa opioid receptor to be the best template after which the S. gregaria AKHR was modeled. All three AKHs were found to have the same binding site on this receptor, interact with similar residues of the receptor and have comparable binding constants. Molecular switches were also identified; the movement of the receptor could be visually shown when ligands (AKHs) were docked and the receptor was activated. Conclusions The study proposes a model of binding of the three endogenous ligands to the one existing AKHR in the desert locust and paves the way to use such a model for the design of peptide analogs a…
format: application/pdf
format: text/html
creator: Graham E. Jackson
creator: Elumalai Pavadai
creator: Gerd Gäde
creator: Niels H. Andersen
subject: Computational Biology
subject: Entomology
subject: Molecular Biology
subject: Zoology
description: doi:10.7717/peerj.7514
publisher: PeerJ Inc.
rights: © 2019 Jackson et al.
abstract: Background Neuropeptides exert their activity through binding to G protein-coupled receptors (GPCRs). GPCRs are well-known drug targets in the pharmaceutical industry and are currently discussed as targets to control pest insects. Here, we investigate the neuropeptide adipokinetic hormone (AKH) system of the desert locust Schistocerca gregaria. The desert locust is known for its high reproduction, and for forming devastating swarms consisting of billions of individual insects. It is also known that S. gregaria produces three different AKHs as ligands but has only one AKH receptor (AKHR). The AKH system is known to be essential for metabolic regulation, which is necessary for reproduction and flight activity. Methods Nuclear magnetic resonance techniques (NMR) in a dodecylphosphocholin (DPC) micelle solution were used to determine the structure of the three AKHs. The primary sequence of the S. gregaria AKHR was used to construct a 3D molecular model. Next, the three AKHs were individually docked to the receptor, and dynamic simulation of the whole ligand–receptor complex in a model membrane was performed. Results Although the three endogenous AKHs of S. gregaria have quite different amino acids sequences and chain length (two octa- and one decapeptide), NMR experiments assigned a turn structure in DPC micelle solution for all. The GPCR-ModSim program identified human kappa opioid receptor to be the best template after which the S. gregaria AKHR was modeled. All three AKHs were found to have the same binding site on this receptor, interact with similar residues of the receptor and have comparable binding constants. Molecular switches were also identified; the movement of the receptor could be visually shown when ligands (AKHs) were docked and the receptor was activated. Conclusions The study proposes a model of binding of the three endogenous ligands to the one existing AKHR in the desert locust and paves the way to use such a model for the design of peptide analogs a…
bibliographic citation: Jackson et al. (2019) The adipokinetic hormones and their cognate receptor from the desert locust, Schistocerca gregaria: solution structure of endogenous peptides and models of their binding to the receptor. PeerJ 7:e7514 https://doi.org/10.7717/peerj.7514
date submitted: 2019-04-05
date accepted: 2019-07-18
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Jackson
  given name: Graham E.
author list: Agent
  family name: Pavadai
  given name: Elumalai
author list: Agent
  family name: Gäde
  given name: Gerd
author list: Agent
  family name: Andersen
  given name: Niels H.
doi: 10.7717/peerj.7514
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: © 2019 Jackson et al.
attribution name: Jackson et al.

Expansion of sandhill cranes (Grus canadensis) in east Asia during the non-breeding period
type: item
type: AcademicArticle
description: Aim Historically, the distribution of Sandhill Cranes included much of North America and extending in summer into northeast Russia. In recent years, observations of sandhill cranes in Asia during the non-breeding period have been frequently reported. However, the distribution and abundance of sandhill cranes during the non-breeding period in Asia have rarely been summarized and studied. Our study aimed to analyze the status of sandhill cranes that have spread south into East Asia during the non-breeding period and to assess the possible impacts of their potential spread. Methods Based on opportunistic data collected in the field and occurrence data collected online over the past half century, we used Geographic Information System to visualize the spatial distribution changes and regression analysis to analyze and visualize the changes in the amount of individuals over time. Results In the last 50 years, the distribution of sandhill cranes during the non-breeding season in Asia spanned 31 degrees in longitude to the west and 15 degrees in latitude to the south. Their distribution in Asia has expanded to 17 provinces and municipalities in China, Japan and South Korea. The amount of cranes in the non-breeding period in Asia increased significantly from 1963 to 2017. According to the historical records in East Asia, sandhill cranes were mixed with five other species of crane groups. Main conclusions These results indicate that the range and amount of sandhill cranes have expanded. Sandhill cranes were mixed with five other crane species, which indicate their adaptability to a range of habitat types and food resources. The implications of these trends in sandhill cranes in East Asia for this and other crane species warrants further research.
format: application/pdf
format: text/html
creator: Linqiang Gao
creator: Chunrong Mi
creator: Yumin Guo
subject: Conservation Biology
subject: Ecology
description: doi:10.7717/peerj.7545
publisher: PeerJ Inc.
rights: © 2019 Gao et al.
abstract: Aim Historically, the distribution of Sandhill Cranes included much of North America and extending in summer into northeast Russia. In recent years, observations of sandhill cranes in Asia during the non-breeding period have been frequently reported. However, the distribution and abundance of sandhill cranes during the non-breeding period in Asia have rarely been summarized and studied. Our study aimed to analyze the status of sandhill cranes that have spread south into East Asia during the non-breeding period and to assess the possible impacts of their potential spread. Methods Based on opportunistic data collected in the field and occurrence data collected online over the past half century, we used Geographic Information System to visualize the spatial distribution changes and regression analysis to analyze and visualize the changes in the amount of individuals over time. Results In the last 50 years, the distribution of sandhill cranes during the non-breeding season in Asia spanned 31 degrees in longitude to the west and 15 degrees in latitude to the south. Their distribution in Asia has expanded to 17 provinces and municipalities in China, Japan and South Korea. The amount of cranes in the non-breeding period in Asia increased significantly from 1963 to 2017. According to the historical records in East Asia, sandhill cranes were mixed with five other species of crane groups. Main conclusions These results indicate that the range and amount of sandhill cranes have expanded. Sandhill cranes were mixed with five other crane species, which indicate their adaptability to a range of habitat types and food resources. The implications of these trends in sandhill cranes in East Asia for this and other crane species warrants further research.
bibliographic citation: Gao et al. (2019) Expansion of sandhill cranes (Grus canadensis) in east Asia during the non-breeding period. PeerJ 7:e7545 https://doi.org/10.7717/peerj.7545
date submitted: 2019-04-07
date accepted: 2019-07-24
issued: 2019-08-30
is part of: PeerJ
license: https://creativecommons.org/licenses/by/4.0/
author list: Agent
  family name: Gao
  given name: Linqiang
author list: Agent
  family name: Mi
  given name: Chunrong
author list: Agent
  family name: Guo
  given name: Yumin
doi: 10.7717/peerj.7545
volume: 7
issn: 2167-8359
publication name: PeerJ
publication date: 2019-08-30
copyright: ©2019 Gao et al.
attribution name: Gao et al.

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