cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 11: Figure S4. of Genome-wide identification and expression analysis of calmodulin-like (CML) genes in Chinese cabbage (Brassica rapa L. ssp. pekinensis)
Creators: name: Shanshan Nie
name: Minjuan Zhang
name: Lugang Zhang
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Putative regulatory relationships between candidate miRNAs and BrCML genes. (PDF 76 kb)
Amendment to Add Parties to the Administrative Settlement Agreement and Order on Consent In the Matter of Lower Passaic River Study Area Portion of the Diamond Alkali Superfund Site, Alcan Corporation, et al.
Creators: name: No Name Supplied
Publisher: name: Environmental Protection Agency
Year: 2005

description: The settlement between the U.S. Environmental Protection Agency and the respondents, 32 companies that the EPA alleges to be responsible for contamination of the lower Passaic River, allowed the companies to make cash payments to resolve their alleged civil liability.  The settlement payments will be used by the EPA to fund the Remedial Investigation/Feasibility Study (RI/FS) portion of the Lower Passaic River Restoration Project.  This amendment to the settlement agreement adds twelve companies as settling parties and makes additional changes to the terms of the agreement.
Rat hepatitis E virus (Rocahepevirus ratti) exposure in cats and dogs, Hong Kong
Creators: name: Shun, Estie Hon-Kiu
name: Situ, Jianwen
name: Tsoi, James Yiu-Hung
name: Wu, Shusheng
name: Cai, Jianpiao
name: Lo, Kelvin Hon-Yin
name: Chew, Nicholas Foo-Siong
name: Li, Zhiyu
name: Poon, Rosana Wing-Shan
name: Teng, Jade Lee-Lee
name: Cheng, Vincent Chi-Chung
name: Yuen, Kwok-Yung
name: Sridhar, Siddharth
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences

description: Hepatitis E virus (HEV) variants infecting humans belong to two species: Paslahepevirus balayani (bHEV) and Rocahepevirus ratti (rat hepatitis E virus; rHEV). R. ratti is a ubiquitous rodent pathogen that has recently been recognized to cause hepatitis in humans. Transmission routes of rHEV from rats to humans are currently unknown. In this study, we examined rHEV exposure in cats and dogs to determine if they are potential reservoirs of this emerging human pathogen. Virus-like particle-based IgG enzymatic immunoassays (EIAs) capable of differentiating rHEV & bHEV antibody profiles and rHEV-specific real-time RT–PCR assays were used for this purpose. The EIAs could detect bHEV and rHEV patient-derived IgG spiked in dog and cat sera. Sera from 751 companion dogs and 130 companion cats in Hong Kong were tested with these IgG enzymatic immunoassays (EIAs). Overall, 13/751 (1.7%) dogs and 5/130 (3.8%) cats were sero-reactive to HEV. 9/751 (1.2%) dogs and 2/130 (1.5%) cats tested positive for rHEV IgG, which was further confirmed by rHEV immunoblots. Most rHEV-seropositive animals were from areas in or adjacent to districts reporting human rHEV infection. Neither 881 companion animals nor 652 stray animals carried rHEV RNA in serum or rectal swabs. Therefore, we could not confirm a role for cats and dogs in transmitting rHEV to humans. Further work is required to understand the reasons for low-level seropositivity in these animals.
Phareicranaus singularis H. Soares 1970, comb. n.
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Cranaidae
Phareicranaus
Phareicranaus singularis

description: Phareicranaus singularis (H. Soares, 1970) comb. n.
Carvalholeptes singularis H. Soares, 1970: 330 (male holotype, “ Brasil, Amazonas, Benjamin Constant, MNRJ-5080”, not examined).
Santinezia singularis; Pinto-da-Rocha & Kury 2003: 193, figs. 29–34; Kury 2003: 99.
Diagnosis. See Pinto-da-Rocha & Kury (2003: 193).
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 25, DOI: 10.5281/zenodo.207840
Cerceris albopectoris Empey 1973
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris albopectoris

description: Cerceris albopectoris Empey, 1973
Distribution in Jazan and collecting period: Damad on Moringa oleifera (December) (Gadallah et al., 2021).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 89, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Lower Passaic River Restoration Project, Environmental Resource Inventory, Draft Final Biological Literature Review
Creators: name: No Name Supplied
Publisher: name: TAMS, an Earth Tech Company
Year: 2004

description: This report presents a literature review of biological studies  performed within the Lower Passaic River Restoration Project boundaries. The Lower Passaic River has been identified by the U.S. Army Corps of Engineers  (Corps) as a priority restoration area. This area includes the tidal portion of the Lower  Passaic River Basin, extending from Newark Bay to the Dundee Dam (River Mile 17),  and its tributaries. The preliminary assessment of water resource problems and needs in  the Lower Passaic River Basin identified extensive habitat loss and degradation that has  greatly reduced the structural and functional integrity of ecosystems within the study  area. To design a successful restoration plan for the River, a dataset must be created that  identifies and measures appropriate parameters so that restoration areas may be selected,  created and monitored. This literature review examined data that were available as of November 12, 2004.
Lower Passaic River Restoration Project, Quality Assurance Project Plan
Creators: name: No Name Supplied
Publisher: name: Malcolm Pirnie, Inc.
Year: 2005

description: This Quality Assurance Project Plan (QAPP) was developed to address the quality  assurance and quality control (QA/QC) elements for the Lower Passaic River Restoration  Project. It details the planning processes for collecting data and describes the  implementation of the QA and QC activities developed for this program. The purpose of  this QAPP is to generate project data that are technically valid and legally defensible. The QAPP consists of four main components, Project Management, Measurement and Data Acquisition, Assessment and Oversight, Data Validation and Usability. The project includes the sampling and analysis of sediment, water, and biota  for wet chemistry, geotechnical parameters, and physical properties as well as chemicals  of potential concern (COPCs) and chemicals of potential ecological concern (COPECs).
Additional file 1: Table S1. of Prevalence of adhesions and associated postoperative complications after cesarean section in Ghana: a prospective cohort study
Creators: name: Mercy Nuamah
name: Browne, Joyce
name: ĂRy, Alexander
name: Damale, Nelson
name: Klipstein-Grobusch, Kerstin
name: Rijken, Marcus
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Marine Biology
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology
subject: Computational Biology

description: Presence and severity of adhesions by number of previous cesarean section. (DOCX 10Â kb)
Executive Summary of the Master Plan for Capital City State Park
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: This executive summary of the master plan for a new state park in Trenton summarizes the details of the plan, highlights key points, and provides color photos and illustrations of the location and envisioned design of the new park. In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. The area behind the State House has over  the years been cut off from the rest of the city and given over to  roadways and parking lots. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination. The competition vision developed by WRT and its  consultant team seized on the opportunity to remake Trenton as  a more livable, accessible, and dynamic capital city.  The Capital Park vision is based on five themes that are identified as key  to Re-casting Trenton: Government, Environment, Industry, History and  Infrastructure.
Phareicranaus soledadensis Gonzalez-Sponga 2003, comb. n.
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Cranaidae
Phareicranaus
Phareicranaus soledadensis

description: Phareicranaus soledadensis (González-Sponga, 2003) comb. n.
Santinezia soledadensis González-Sponga, 2003: 17, figs. 32–39 (Holotype male, MAGS-463a; paratype female, MAGS-463b, “ Venezuela, Barínas, Bolívar, La Soledad, carretera Barinitas-Las Piedras”, not examined).
Diagnosis. See González-Sponga (2003: 17).
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 26, DOI: 10.5281/zenodo.207840
Master Plan for Capital City State Park, Introduction
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. The area behind the State House has over  the years been cut off from the rest of the city and given over to  roadways and parking lots. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination. The competition vision developed by WRT and its  consultant team seized on the opportunity to remake Trenton as  a more livable, accessible, and dynamic capital city.  The Capital Park vision is based on five themes that are identified as key  to Re-casting Trenton: Government, Environment, Industry, History and  Infrastructure.  The introduction to the master plan includes a brief summary of the plan and the goals of the design for the park, an aerial view of the design for the park, the members of the design team and steering committee, and the table of contents of the plan.
Master Plan for Capital City State Park, Chapter 1, Vision
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. The area behind the State House has over  the years been cut off from the rest of the city and given over to  roadways and parking lots. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination.  The first chapter of the master plan describes the design team's vision for the park as a way to reconnect the residents of and visitors to Trenton to the city's riverfront, restore the environment, and provide space for recreation.  Chapter one describes the process that went into creating the plan and sets out the goals of the plan.
Master Plan for Capital City State Park, Chapter 2, Reality
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination.  The second chapter of the master plan describes the reality of the conditions in and around the site of the planned park. A number of other local rehabilitation and restoration projects are identified.  The need for sensitivity to and integration of the historic and archaeological resources  within the park are discussed.  A section on cultural programming and needs analysis is included in this chapter.
Trypoxylon splendidum Antropov 2011
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Trypoxylon
Trypoxylon splendidum

description: Trypoxylon splendidum Antropov, 2011
Distribution in Jazan and collecting period: Farasan (September) (Abu El-Ghiet et al., 2023), Damad (Samba) on Moringa oleifera (December) (Gadallah et al., 2021).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 89, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Master Plan for Capital City State Park, Chapter 3, Solutions
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination.  The third chapter of the master plan provides more details about some of the aspects of the park's design described in the first chapter, including solutions for improved pedestrian access, specific ideas for planting schemes, the creation of a civic campus, ecological restoration along the Assunpink, among others.
Evaluating the clinical utility of semi-quantitative luciferase immunosorbent assay using Treponema pallidum antigens in syphilis diagnosis and treatment monitoring
Creators: name: Ke, Wujian
name: Ao, Cailing
name: Wei, Ran
name: Zhu, Xiaozhen
name: Shui, Jingwei
name: Zhao, Jianhui
name: Zhang, Xiaohui
name: Wang, Liuyuan
name: Huang, Liping
name: Leng, Xinying
name: Zhu, Rui
name: Wu, Jiaxin
name: Huang, Lixia
name: Huang, Nanxuan
name: Wang, Haiying
name: Weng, Wenjia
name: Yang, Ligang
name: Tang, Shixing
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Science Policy
subject: Hematology

description: To assess the clinical applicability of a semi-quantitative luciferase immunosorbent assay (LISA) for detecting antibodies against Treponema pallidum antigens TP0171 (TP15), TP0435 (TP17), and TP0574 (TP47) in diagnosing and monitoring syphilis. LISA for detection of anti-TP15, TP17, and TP47 antibodies were developed and evaluated for syphilis diagnosis using 261 serum samples (161 syphilis, 100 non-syphilis). Ninety serial serum samples from 6 syphilis rabbit models (3 treated, 3 untreated) and 110 paired serum samples from 55 syphilis patients were used to assess treatment effects by utilizing TRUST as a reference. Compared to TPPA, LISA-TP15, LISA-TP17, and LISA-TP47 showed a sensitivity of 91.9%, 96.9%, and 98.8%, specificity of 99%, 99%, and 98%, and AUC of 0.971, 0.992, and 0.995, respectively, in diagnosing syphilis. Strong correlations (rs = 0.89–0.93) with TPPA were observed. In serial serum samples from rabbit models, significant differences in the relative light unit (RLU) were observed between the treatment and control group for LISA-TP17 (days 31–51) and LISA-TP47 (day 41). In paired serum samples from syphilis patients, TRUST titres and the RLU of LISA-TP15, LISA-TP17, and LISA-TP47 decreased post-treatment (P < .001). When TRUST titres decreased by 0, 2, 4, or ≥8-folds, the RLU decreased by 17.53%, 31.34%, 48.62%, and 72.79% for LISA-TP15; 8.84%, 17.00%, 28.37%, and 50.57% for LISA-TP17; 22.25%, 29.79%, 51.75%, and 70.28% for LISA-TP47, respectively. Semi-quantitative LISA performs well for syphilis diagnosis while LISA-TP17 is more effective for monitoring syphilis treatment in rabbit models and clinical patients.
Master Plan for Capital City State Park, Chapter 4, Action
Creators: name: No Name Supplied
Publisher: name: Wallace, Roberts and Todd
Year: 2008

description: In 2006, the State of New Jersey held a competition to transform  a portion of Trenton's historic, yet underutilized, waterfront into  an urban state park. Wallace Roberts & Todd's (WRT) winning  proposal for the New Jersey Capital Park re-casts Trenton as a  great waterfront city and a heritage destination.  The fourth and final chapter of the master plan sets out strategies for creating the park, including an environmental plan, provides a preliminary estimate of costs, and suggested phasing.  It describes strategies for coordinating with the various state and local agencies and private organizations involved.  It provides a strategy to expedite regulatory approvals.
Phareicranaus spinulatus Goodnight & Goodnight 1943, comb. n.
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Cranaidae
Phareicranaus
Phareicranaus spinulatus

description: Phareicranaus spinulatus (Goodnight & Goodnight, 1943) comb. n.
(Fig. 18 C, D)
Santinezia spinulata Goodnight & Goodnight, 1943: 9, figs. 26–28 (male holotype, “ Colombia, AMNH”, examined); Pinto-da- Rocha & Kury 2003: 177, 197, 198, 202, 204, 205, fig. 51; Kury 2003: 99 ..
Diagnosis. Male genitalia. Ventral plate slightly pyriform;shallow cleft on distal border (corner prominent); lateral borders slightly convex on median region, with 6–7 long setae in line (basalmost longer), antepenultimate bifid and one small more internal (above bifid one). Dorsal process absent. Stylus straight, apex flattened apically, without stylar apophysis (Fig. 18 C, D). For the complete diagnosis see Pinto-da-Rocha & Kury (2003: 205).
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 26, DOI: 10.5281/zenodo.207840
Lower Passaic River Restoration Project, Work Plan
Creators: name: No Name Supplied
Publisher: name: Malcolm Pirnie, Inc.
Year: 2005

description: The U.S. Environmental Protection Agency (USEPA), the U.S. Army Corps of  Engineers (USACE), the New Jersey Department of Transportation (NJDOT) and the  New Jersey Department of Environmental Protection (NJDEP) have partnered to conduct  a comprehensive study of the Lower Passaic River and its tributaries. The LPRRP will take a comprehensive  look at the problems within the Lower Passaic River Basin and identify remediation and  restoration options to address those problems. This Work Plan (WP) presents the technical approach for conducting sampling  and investigation activities for the Lower Passaic River Restoration Project,  which includes a Remedial Investigation/Feasibility Study (RI/FS) under the  Comprehensive Environmental Response, Compensation, and Liability Act (CERCLA),  and a Water Resources Development Act (WRDA) FS.
Cerceris fischeri Spinola 1839
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris fischeri

description: Cerceris fischeri Spinola, 1839
Distribution in Jazan and collecting period: Abu Arish (January), Fayfa (March) (Guichard, 1993).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 90, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Lower Passaic River Restoration Project, Draft Sampling Plan for Summer/Fall 2004
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2004

description: The purpose of this plan is to describe the 2004-2005 hydrodynamic sampling that will be  conducted in the Lower Passaic River and provide guidance for the proposed field work  through detailed descriptions of the sampling and data gathering methods. Two complementary studies are proposed, one to aid the N.J. Department of  Transportation - Office of Maritime Research (NJDOT-OMR) in the implementation of a  pilot dredge study planned by NJDOT-OMR for 2005, and the other for the Superfund project team, led by the  U.S. Environmental Protection Agency (USEPA) Region 2, for the entire 17-mile tidal  stretch of the Lower Passaic River.  This document discusses the data to be collected through both studies and  provides details on the Superfund sampling.
Phareicranaus subparamera Gonzalez-Sponga 2003, comb. n.
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Cranaidae
Phareicranaus
Phareicranaus subparamera

description: Phareicranaus subparamera (González-Sponga, 2003) comb. n.
Santinezia subparamera González-Sponga, 2003: 19, figs. 40–47 (holotype male, MAGS-484a; paratype female MAGS-484b, “ Venezuela, Táchira, Jáuregui, carretera La Grita-LasPorqueras”, not examined).
Diagnosis. See González-Sponga (2003: 13). Phareicranaus x-albus Roewer, 1932
Phareicranaus x-albus Roewer, 1932: 301, fig. 17; Kury, 2003: 97.
Note. The status of this species is difficult to assign at this moment since it is known only by a female.
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 26, DOI: 10.5281/zenodo.207840
Cerceris amakosa Brauns 1926
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris amakosa

description: Cerceris amakosa Brauns, 1926
Distribution in Jazan and collecting period: Abu Arish (January), Fayfa (March) (Guichard, 1993).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 89, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Lower Passaic River Restoration Project, Field Sampling Plan, Volume 1
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2006

description: The Field Sampling Plan (FSP) presents the technical approach for conducting  site characterization activities for the Lower Passaic River Study Area.  Field Sampling Plan Volume 1 includes investigations to characterize  sediment and surface water quality in the Passaic River and in major tributaries. These  investigations are being done to gain chemical and physical data necessary to evaluate the  spatial extent of contamination, to prepare human and ecological health risk assessments,  and to understand the fate and transport of contamination within the system (including  measurements of hydrodynamic and sediment transport characteristics of the Lower  Passaic River and major tributaries). To this end, Hydrodynamic, Sediment Transport,  Fate and Transport, and Bioaccumulation Models will be developed and calibrated based  on the collected data.
Novel recombinant vaccinia virus-vectored vaccine affords complete protection against homologous Borrelia burgdorferi infection in mice
Creators: name: Pfeifle, Annabelle
name: Zhang, Wanyue
name: Cao, Jingxin
name: Raman, Sathya N. Thulasi
name: Anderson-Duvall, Rose
name: Tamming, Levi
name: Gravel, Caroline
name: Coatsworth, Heather
name: Chen, Wangxue
name: Johnston, Michael JW
name: Sauve, Simon
name: Rosu-Myles, Michael
name: Wang, Lisheng
name: Li, Xuguang
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: The rising prevalence of Lyme disease (LD) in North America and Europe has emerged as a pressing public health concern. Despite the availability of veterinary LD vaccines, no vaccine is currently available for human use. Outer surface protein C (OspC) found on the outer membrane of the causative agent, Borrelia burgdorferi, has been identified as a promising target for LD vaccine development due to its sustained expression during mammalian infection. However, the efficacy and immunological mechanisms of LD vaccines solely targeting OspC are not well characterized. In this study, we developed an attenuated Vaccinia virus (VV) vectored vaccine encoding type A OspC (VV-OspC-A). Two doses of the VV-OspC-A vaccine conferred complete protection against homologous B. burgdorferi challenge in mice. Furthermore, the candidate vaccine also prevented the development of carditis and lymph node hyperplasia associated with LD. When investigating the humoral immune response to vaccination, VV-OspC-A was found to induce a robust antibody response predominated by the IgG2a subtype, indicating a Th1-bias. Using a novel quantitative flow cytometry assay, we also determined that elicited antibodies were capable of inducing antibody-dependent cellular phagocytosis in vitro. Finally, we demonstrated that VV-OspC-A vaccination generated a strong antigen-specific CD4+ T-cell response characterized by the secretion of numerous cytokines upon stimulation of splenocytes with OspC peptides. This study suggests a promising avenue for LD vaccine development utilizing viral vectors targeting OspC and provides insights into the immunological mechanisms that confer protection against B. burgdorferi infection.
Cerceris hausa Arnold 1931
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris hausa

description: Cerceris hausa Arnold, 1931
Distribution in Jazan and collecting period: Abu Arish (March) (Guichard, 1993; Schmid-Egger, 2011).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 90, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Lower Passaic River Restoration Project, Field Sampling Plan, Volume 2 (Biota)
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2006

description: The Field Sampling Plan for the Lower Passaic River Restoration Project is a  three-volume document that presents the technical approach for conducting site  characterization activities for the Lower Passaic River Study Area.  Field Sampling Plan Volume 2 pertains to the study of biota and ecological  aspects of the Lower Passaic River and its riparian corridor (but not the floodplains).  Investigation of other areas of the Lower Passaic River, including major and minor  tributaries and upland sites, will be addressed in supplemental field sampling plans once  potential restoration areas are prioritized (refer to Section 1.4 "Potential Restoration  Areas"). Investigations include inventorying and cataloging the species found within and  around the Lower Passaic River, obtaining tissue samples to determine contaminant  concentrations, and characterizing the condition or "health" of the various ecological  communities.
Rat hepatitis E virus (Rocahepevirus ratti) exposure in cats and dogs, Hong Kong
Creators: name: Shun, Estie Hon-Kiu
name: Situ, Jianwen
name: Tsoi, James Yiu-Hung
name: Wu, Shusheng
name: Cai, Jianpiao
name: Lo, Kelvin Hon-Yin
name: Chew, Nicholas Foo-Siong
name: Li, Zhiyu
name: Poon, Rosana Wing-Shan
name: Teng, Jade Lee-Lee
name: Cheng, Vincent Chi-Chung
name: Yuen, Kwok-Yung
name: Sridhar, Siddharth
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences

description: Hepatitis E virus (HEV) variants infecting humans belong to two species: Paslahepevirus balayani (bHEV) and Rocahepevirus ratti(rat hepatitis E virus; rHEV). R. ratti is a ubiquitous rodent pathogen that has recently been recognized to cause hepatitis in humans. Transmission routes of rHEV from rats to humans are currently unknown. In this study, we examined rHEV exposure in cats and dogs to determine if they are potential reservoirs of this emerging human pathogen. Virus-like particle-based IgG enzymatic immunoassays (EIAs) capable of differentiating rHEV & bHEV antibody profiles and rHEV-specific real-time RT-PCR assays were used for this purpose. The EIAs could detect bHEV and rHEV patient-derived IgG spiked in dog and cat sera. Sera from 751 companion dogs and 130 companion cats in Hong Kong were tested with these IgG enzymatic immunoassays (EIAs). Overall, 13/751 (1.7%) dogs and 5/130 (3.8%) cats were sero-reactive to HEV. 9/751 (1.2%) dogs and 2/130 (1.5%) cats tested positive for rHEV IgG, which was further confirmed by rHEV immunoblots. Most rHEV-seropositive animals were from areas in or adjacent to districts reporting human rHEV infection. Neither 881 companion animals nor 652 stray animals carried rHEV RNA in serum or rectal swabs. Therefore, we could not confirm a role for cats and dogs in transmitting rHEV to humans. Further work is required to understand the reasons for low-level seropositivity in these animals.
Phareicranaus
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Cranaidae
Phareicranaus

description: “ Phareicranaus ” albigranulatus Roewer, 1913
Phareicranaus albigranulatus Roewer, 1913: 404, fig. 160; Kury, 2003: 96 (male holotype, “ Colombia, Tolima, Honda”, examined).
Note. The holotype does not present a ventral spur or tubercle on coxa IV, which puts into doubt its generic placement.
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 27, DOI: 10.5281/zenodo.207840
Cerceris hathor Pulawski 1983
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris hathor

description: Cerceris hathor Pulawski, 1983
Distribution in Jazan and collecting period: Fayfa (January) (Guichard, 1993 as C. eugenia).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 90, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Rational optimization of glycoprotein E (gE)-encoding mRNA for improved Varicella-zoster virus mRNA vaccine development
Creators: name: Huang, Lulu
name: Zhang, Shun
name: Zhao, Tongyi
name: Cai, Ting
name: Bu, Lingling
name: Di, Zhenhua
name: Zhang, Yujie
name: Yang, Chen
name: Yang, Yong
name: Lin, Ang
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: Pharmacology
subject: Immunology
subject: FOS: Clinical medicine
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology
subject: Computational Biology

description: mRNA platform holds promise for next-generation Varicella-zoster Virus (VZV) vaccine development due to its high potency at inducing strong T-cell response. Built upon the design of our 1st-generation VZV mRNA vaccine that encodes for full-length gE antigen, in this study we reported on a novel combinatorial strategy to further optimize the gE-encoding mRNA sequence through signal peptide replacement, C-terminal modification, and insertion of mRNA-stabilizing motif, which collectively contributed to significantly improved vaccine immunogenicity. In adult mice, aged mice, and immunocompromised mice, this optimized VZV mRNA vaccine showed strong superiority in multiple aspects including the induction of gE-specific antibodies, specific memory B-cell response, as well as Th1-type T-cell response.
Lower Passaic River Restoration Project, Field Sampling Plan, Volume 3
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2005

description: The Field Sampling Plan for the Lower Passaic River Restoration Project is a  three-volume document that presents the technical approach for conducting site  characterization activities for the Lower Passaic River Study Area. Field Sampling Plan Volume 3 includes additional investigations on candidate  restoration sites, upland areas, and wetland areas in the Study Area but outside the main  stem of the Passaic River. FSP Volume 3 also includes the 17-mile bathymetric survey  of the Lower Passaic River conducted in 2004 (USACE, 2004a). Data obtained from  candidate restoration site screening will also be used to support the field sampling where appropriate.
Rational optimization of glycoprotein E (gE)-encoding mRNA for improved Varicella-zoster Virus mRNA vaccine development
Creators: name: Huang, Lulu
name: Zhang, Shun
name: Zhao, Tongyi
name: Cai, Ting
name: Bu, Lingling
name: Di, Zhenhua
name: Zhang, Yujie
name: Yang, Chen
name: Yang, Yong
name: Lin, Ang
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences

description: The past decades have seen increasingly rapid advances in the field of mRNA technology and its successful applications in prophylactic vaccine development [1,2]. Recently, we reported on the development of a novel Varicella-zoster virus (VZV) mRNA vaccine (named as ZOSAL) that contains mRNAs encoding for full-length gE immunogen (623 aa) encapsulated into a novel lipid nanoparticle (LNP) system [3]. In mice and rhesus macaques, ZOSAL induced superior virus-specific immunity over licensed subunit vaccine Shingrix, which potentiated the power of mRNA platform in next-generation VZV vaccine development [3].
MOESM7 of Purification of target proteins from intracellular inclusions mediated by intein cleavable polyhydroxyalkanoate synthase fusions
Creators: name: Jinping Du
name: Rehm, Bernd
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Inorganic Chemistry

description: Additional file 7: Figure S7. LC-MS/MS analysis result for the co-purified carrying-over proteins.
Quality Assurance Project Plan/Field Survey Plan Addendum for Lower Passaic River Restoration Project Empirical Mass Balance Evaluation
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2007

description: This Quality Assurance Project Plan and Field Sampling Plan (QAPP/FSP) Addendum is an  addendum to the August 2005 Lower Passaic River Restoration Project (herein referred to as the  Study) QAPP and January 2006 FSP Volume 1. This QAPP/FSP Addendum details the planning  and sampling processes for collecting surficial sediment samples, large volume water column  suspended solids samples, suspended solids transported in CSO/SWO system and sediment cores to  refine the Empirical Mass Balance Model (EMBM) (presented in Appendix D of the Draft Source  Control Early Action Focused Feasibility Study, June 2007). It describes the implementation of the  sampling, Quality Assurance (QA), and Quality Control (QC) activities developed for this program.  The purpose of this addendum is to generate project data that will be used to gain a better  understanding of the chemical signatures of the contaminants sources to the Lower Passaic River  and to further refine estimates of the relative contribution of solids and contaminants from these  sources. This document consists of applicable Uniform Federal Policy (UFP) QAPP worksheets,  necessary Standard Operating Procedures (SOPs) for the field activities, and applicable FSP  sections in Appendix A.
Meridia palpalis Roewer 1913
Creators: name: Pinto-Da-Rocha, Ricardo
name: Bonaldo, Alexandre B.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Opiliones
Manaosbiidae
Meridia
Meridia palpalis

description: Meridia palpalis Roewer, 1913 familial assignment restored
Meridia palpalis Roewer, 1913: 385 (female holotype, “ Venezuela, Mérida, SMF-852”, examined); Kury 2003: 380.
Note. The monotypic genus Meridia was originally described in Gonyleptidae (inCranainae, later, transferred to Manaosbiidae by Kury (1997)). The holotype is the only specimen known and is a female, thus it is impossible to observe the spindled male basitarsus I that distinguishes manaosbiids. However, it possesses a body size much larger than any manaosbiid, the dorsal scutum shape is markedly pyriform, and the armature of dorsal scutum is typical of cranaines. For these reasons, it is transferred back to Cranaidae and allocated in the Cranainae subfamily.
description: Published as part of Pinto-Da-Rocha, Ricardo & Bonaldo, Alexandre B., 2011, Species relationships in the Neotropical genus Phareicranaus Roewer 1913 (Opiliones: Cranaidae): two new species and new data from Penial morphology, pp. 1-34 in Zootaxa 3135 on page 27, DOI: 10.5281/zenodo.207840
title: Spatial Modeling of Vesicle Transport and the Cytoskeleton: The Challenge of Hitting the Right Road
Creators: name: Johannes, Ludger
name: Klann, Michael
name: Koeppl, Heinz
name: Reuss, Matthias
Publisher: name: PLoS
Year: 2024

description: The membrane trafficking machinery provides a transport and sorting system for many cellular proteins. We propose a mechanistic agent-based computer simulation to integrate and test the hypothesis of vesicle transport embedded into a detailed model cell. The method tracks both the number and location of the vesicles. Thus both the stochastic properties due to the low numbers and the spatial aspects are preserved. The underlying molecular interactions that control the vesicle actions are included in a multi-scale manner based on the model of Heinrich and Rapoport (2005). By adding motor proteins we can improve the recycling process of SNAREs and model cell polarization. Our model also predicts that coat molecules should have a high turnover at the compartment membranes, while the turnover of motor proteins has to be slow. The modular structure of the underlying model keeps it tractable despite the overall complexity of the vesicle system. We apply our model to receptor-mediated endocytosis and show how a polarized cytoskeleton structure leads to polarized distributions in the plasma membrane both of SNAREs and the Ste2p receptor in yeast. In addition, we can couple signal transduction and membrane trafficking steps in one simulation, which enables analyzing the effect of receptor-mediated endocytosis on signaling.
Passaic River Erosion Testing and Core Collection : Field Report and Data Summary
Creators: name: No Name Supplied
Publisher: name: Lower Passaic River Restoration Project
Year: 2006

description: Chesapeake Biogeochemical Associates collected cores for  erosion experiments and radionuclide analysis for the Lower Passaic River Restoration Project, a  joint study being conducted by the U.S. Environmental Protection Agency (EPA), U.S. Army  Corps of Engineers (USACE) and New Jersey Department of Transportation. The major  emphasis of this program was the determination of Gust microcosm erosion rates using the exact  approach used in Dr. Larry Sanford's research laboratory at the University of Maryland Center  for Environmental Science (Sanford and Maa 2001). In addition, we collected cores for other  project purposes including: surficial (0.0-0.5 cm) sediments for Malcolm Pirnie for radionuclides  analysis, water column properties using Conductivity-Temperature-Depth (CTD), Laser In Situ  Scattering Transmissiometer (LISST) and optical backscatter sensor (OBS) for Malcolm Pirnie,  and sediment cores for the USACE "Sedflume" experiments (Borrowman et al., 2006). Field  descriptions of sediment cores collected for other project purposes are provided in Appendix A.  Results of measurements unrelated to Gust Microcosm experiments were provided to Malcolm  Pirnie and are not presented in this report. All field work was carried out from May 16-20, 2005.
Cerceris laterifurcata Empey 1973
Creators: name: Gadallah, Neveen S.
name: Abu El-Ghiet, Usama M.
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Crabronidae
Cerceris
Cerceris laterifurcata

description: Cerceris laterifurcata Empey, 1973
Distribution in Jazan and collecting period: Fayfa (January) (Guichard, 1993).
description: Published as part of Gadallah, Neveen S. & Abu El-Ghiet, Usama M., 2024, Sphecidae sensu lato (Hymenoptera: Apoidea) of the Jazan Province, south-west of Saudi Arabia, with the description of two new species, pp. 71-95 in Zootaxa 5492 (1) on page 90, DOI: 10.11646/zootaxa.5492.1.4, http://zenodo.org/record/13212094
Erodibility Study Of Passaic River Sediments  Using USACE Sedflume
Creators: name: No Name Supplied
Publisher: name: US Army Engineer Research and Development Center
Year: 2006

description: Cohesive sediment erosion differs significantly from coarse-grained, non-cohesive  (sand) erosion phenomena. Non-cohesive sediment erosion can generally be quantified  based on applied shear stress and grain size distribution. Cohesive sediment erosion is  related to these factors and to sediment bulk properties, including bulk density,  mineralogy, pore-water chemistry, and organic content. Although it is known  qualitatively how many of these parameters may affect erosion, a priori quantitative  methods of relating cohesive sediment erosion to these bulk properties are not available.  Methods have been developed to determine a site-specific relationship between erosion  rate and shear stress using rate results obtained through sediment sample testing on the  U.S. Army Corps of Engineers' (USACE) Sedflume. The objectives of this study were to extract a total of 28 sediment cores 30-60 cm  deep from 14 locations along the Passaic River in order to: Measure the erodibility as a function of depth for different shear stresses using  the Sedflume; Measure and analyze bulk density, organic content, and grain-size distribution  data vs. depth for the Sedflume coring sites; Qualitatively analyze the response of erosion rates to changes in bulk  properties.
Lower Passaic River Restoration Project: Final Data Summary and Evaluation Report
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2005

description: The purpose of the study was to conduct a hydrographic survey, side scan sonar  survey, and sediment coring in order to perform a detailed characterization of the Pilot Study  Survey Area for the Environmental Dredging Demonstration and Sediment Decontamination  Technology Demonstration - Treatability Study. The hydrographic survey was conducted to develop a bathymetric map of the Passaic River bed  along a 1,000-foot stretch at the river centerline in the Harrison Reach between the Jackson  Street Bridge and the New Jersey Turnpike Bridge (hereinafter referred to as the Pilot Study  Survey Area). The side scan sonar survey was conducted to characterize the texture of the  sediments and to identify any debris in the Pilot Study Survey Area.  The sediment coring was conducted to establish a representative chemical and geotechnical  characterization of the sediments in the upper four feet of the Passaic River bed in the Potential  Dredging Area. All of this information is being utilized to support the objectives of the  combined dredging and sediment decontamination demonstration project.
Technical Report: Environmental Dredging and Sediment Decontamination Technology Demonstration Pilot Study:  Hydrographic Survey and Side-Scan Sonar Survey
Creators: name: No Name Supplied
Publisher: name: U.S. Environmental Protection Agency (EPA)
Year: 2004

description: The objective of this study was to perform hydrographic and side-scan sonar surveys of an  approximate 1000-foot section of the Lower Passaic River within the Harrison Reach. This  information will be used, in conjunction with subsequent sediment chemistry data, to accurately  characterize the site. The hydrographic and side-scan sonar surveys were conducted in a section of the Lower  Passaic River within the Harrison Reach using the R/V Delaware, a 21-foot survey  vessel. The vessel was equipped with a real-time kinematic (RTK) system for  positioning. Hypack Max survey management software was used for survey control and  ship track recording. An Innerspace 455 survey grade fathometer was used to collect the  water depth data. The RTK system used was a Trimble 5700. Specification for both  pieces of equipment can be found in the Appendix Section of this report.