800-Kyr Land Temperature Variations Modulated by Vegetation Changes on Chinese Loess Plateau
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Revealing the Immune Perturbation of Black Phosphorus Nanomaterials to Macrophages by Understanding the Protein Corona
ARTICLE DOI: 10.1038/s41467-018-04873-7 OPEN Revealing the immune perturbation of black phosphorus nanomaterials to macrophages by understanding the protein corona Jianbin Mo 1,2, Qingyun Xie3, Wei Wei 1,2 & Jing Zhao 1 The increasing number of biological applications for black phosphorus (BP) nanomaterials has precipitated considerable concern about their interactions with physiological systems. 1234567890():,; Here we demonstrate the adsorption of plasma protein onto BP nanomaterials and the subsequent immune perturbation effect on macrophages. Using liquid chromatography tandem mass spectrometry, 75.8% of the proteins bound to BP quantum dots were immune relevant proteins, while that percentage for BP nanosheet–corona complexes is 69.9%. In particular, the protein corona dramatically reshapes BP nanomaterial–corona complexes, influenced cellular uptake, activated the NF-κB pathway and even increased cytokine secretion by 2–4-fold. BP nanomaterials induce immunotoxicity and immune per- turbation in macrophages in the presence of a plasma corona. These findings offer important insights into the development of safe and effective BP nanomaterial-based therapies. 1 State Key Laboratory of Coordination Chemistry, Institute of Chemistry and BioMedical Sciences, School of Chemistry and Chemical Engineering Nanjing University, Nanjing 210093, China. 2 State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China. 3 Department of Orthopedics, Chengdu Military General Hospital, Chengdu -
Ultra-Efficient Frequency Comb Generation in Algaas-On-Insulator
ARTICLE https://doi.org/10.1038/s41467-020-15005-5 OPEN Ultra-efficient frequency comb generation in AlGaAs-on-insulator microresonators ✉ Lin Chang1,7, Weiqiang Xie1,7 , Haowen Shu1,2,7, Qi-Fan Yang 3, Boqiang Shen 3, Andreas Boes 1,4, Jon D. Peters1, Warren Jin1, Chao Xiang1, Songtao Liu 1, Gregory Moille5, Su-Peng Yu6, Xingjun Wang2, ✉ Kartik Srinivasan 5, Scott B. Papp 6, Kerry Vahala 3 & John E. Bowers1 Recent advances in nonlinear optics have revolutionized integrated photonics, providing on- 1234567890():,; chip solutions to a wide range of new applications. Currently, state of the art integrated nonlinear photonic devices are mainly based on dielectric material platforms, such as Si3N4 and SiO2. While semiconductor materials feature much higher nonlinear coefficients and convenience in active integration, they have suffered from high waveguide losses that prevent the realization of efficient nonlinear processes on-chip. Here, we challenge this status quo and demonstrate a low loss AlGaAs-on-insulator platform with anomalous dispersion and quality (Q) factors beyond 1.5 × 106. Such a high quality factor, combined with high nonlinear coefficient and small mode volume, enabled us to demonstrate a Kerr frequency comb threshold of only ∼36 µW in a resonator with a 1 THz free spectral range, ∼100 times lower compared to that in previous semiconductor platforms. Moreover, combs with broad spans (>250 nm) have been generated with a pump power of ∼300 µW, which is lower than the threshold power of state-of the-art dielectric micro combs. A soliton-step transition has also been observed for the first time in an AlGaAs resonator. -
THE OA EFFECT: HOW DOES OPEN ACCESS AFFECT the USAGE of SCHOLARLY BOOKS? White Paper
springernature.com Illustration inspired by the work of Jean-Claude Bradley Open Research THE OA EFFECT: HOW DOES OPEN ACCESS AFFECT THE USAGE OF SCHOLARLY BOOKS? White paper Open Research: Journals, books, data and tools from: 2 The OA effect: How does open access affect the usage of scholarly books? springernature.com Contents Authors Foreword . 3 Christina Emery, Mithu Lucraft, Executive summary . 4 Agata Morka, Ros Pyne Introduction . 5 November 2017 Part 1: Quantitative findings . 6 Summary . 6 Downloads . 7 Citations and mentions . 11 Part 2: Qualitative findings . 13 Summary . 13 Reasons for publishing open access . 14 Experience of publishing open access . 15 The future of open access . 16 Discussion . 18 Conclusion and recommendations . 20 Acknowledgements . 22 Contacts . 23 About Springer Nature and OA books . 24 Appendices . 26 Appendix 1: Definitions and limitations . 26 Appendix 2: Methodology . 27 Appendix 3: Top 10 downloaded books . 29 Appendix 4: Interviewed authors and funders . 30 Appendix 5: Author questionnaire . 32 Appendix 6: Funder questionnaire . 33 Appendix 7: References . 34 This work is licensed under a Creative Commons Attribution International License (CC BY 4.0) The OA effect: How does open access affect the usage of scholarly books? springernature.com 3 Foreword Springer Nature was created in 2015, but from our earliest days as Springer, Palgrave Macmillan and Nature, we have been publishing monographs and long-form research for some 175 years. The changing environment for book publishing has created both opportunities and challenges for researchers and their funders, for publishers, and for the wider community of readers and educators. As a publisher, we have championed new models of scholarship, introducing ebooks in 2006, and our first open access (OA) book in 2011. -
Δ13c of Aromatic Compounds in Sediments, Oils And
1 δ13C of aromatic compounds in sediments, oils and 2 atmospheric emissions: a review 3 Alex I. Holman a, Kliti Grice a* 4 5 a Western Australia Organic and Isotope Geochemistry Centre, The Institute for 6 Geoscience Research, School of Earth and Planetary Sciences, Curtin University, 7 GPO Box U1987, Perth, WA 6845, Australia 8 9 * Corresponding author 10 Alex Holman: Tel.: +61(0) 8 9266 9723. E-mail address: [email protected] 11 Kliti Grice: Tel.: +61(0) 8 9266 2474. E-mail address: [email protected] 12 13 14 15 16 17 18 19 Abstract 20 This review discusses major applications of stable carbon isotopic 21 measurements of aromatic compounds, along with some specific technical aspects 22 including purification of aromatic fractions for baseline separation. δ13C 23 measurements of organic matter (OM) in sediments and oils are routine in all 24 fields of organic geochemistry, but they are predominantly done on saturated 25 compounds. Aromatic compounds are important contributors to sedimentary 26 organic matter, and provide indication of diagenetic processes, OM source, and 27 thermal maturity. Studies have found evidence for a small 13C-enrichment during 28 diagenetic aromatisation of approximately 1 to 2 ‰, but the formation of polycyclic 29 aromatic hydrocarbons (PAHs) from combustion and hydrothermal processes 30 seems to produce no effect. Likewise, maturation and biodegradation also produce 31 only small isotopic effects. An early application of δ13C of aromatic compounds was 32 in the classification of oil families by source. Bulk measurements have had some 33 success in differentiating marine and terrigenous oils, but were not accurate in all 34 settings. -
SUBMISSION from SPRINGER NATURE Making Plan S Successful
PLAN S IMPLEMENTATION GUIDANCE: SUBMISSION FROM SPRINGER NATURE Springer Nature welcomes the opportunity to provide feedback to the cOAlition S Implementation Guidance and contribute to the discussion on how the transition to Open Access (OA) can be accelerated. Our submission below focuses mainly on the second question posed in the consultation: Are there other mechanisms or requirements funders should consider to foster full and immediate Open Access of research outputs? Making Plan S successful: a commitment to open access Springer Nature is dedicated to accelerating the adoption of Open Access (OA) publishing and Open Research techniques. As the world’s largest OA publisher we are a committed partner for cOAlition S funders in achieving this goal which is also the primary focus of Plan S. Our recommendations below are therefore presented with the aim of achieving this goal. As a first mover, we know the (multiple) challenges that need to be overcome: funding flows that need to change, a lack of cooperation in funder policies, a lack of global coordination, the need for a cultural change in researcher assessment and metrics in research, academic disciplines that lack OA resources, geographic differences in levels of research output making global “Publish and Read” deals difficult and, critically, an author community that does not yet view publishing OA as a priority. While this uncertainty remains, we need the benefits of OA to be better described and promoted as well as support for the ways that enable us and other publishers to cope with the rapidly increasing demand. We therefore propose cOAlition S adopt the following six recommendations which we believe are necessary to deliver Plan S’s primary goal of accelerating the take-up of OA globally while minimising costs to funders and other stakeholders: 1. -
Nature: Communications
ARTICLE https://doi.org/10.1038/s41467-019-09736-3 OPEN Water quality improvements offset the climatic debt for stream macroinvertebrates over twenty years Ian P. Vaughan 1,2 & Nicholas J. Gotelli2 Many species are accumulating climatic debt as they fail to keep pace with increasing global temperatures. In theory, concomitant decreases in other stressors (e.g. pollution, fragmen- 1234567890():,; tation) could offset some warming effects, paying climatic debt with accrued environmental credit. This process may be occurring in many western European rivers. We fit a Markov chain model to ~20,000 macroinvertebrate samples from England and Wales, and demon- strate that despite large temperature increases 1991–2011, macroinvertebrate communities remained close to their predicted equilibrium with environmental conditions. Using a novel analysis of multiple stressors, an accumulated climatic debt of 0.64 (±0.13 standard error) °C of warming was paid by a water-quality credit equivalent to 0.89 (±0.04)°C of cooling. Although there is finite scope for mitigating additional climate warming in this way, water quality improvements appear to have offset recent temperature increases, and the concept of environmental credit may be a useful tool for communicating climate offsetting. 1 Cardiff School of Biosciences and Water Research Institute, Cardiff University, Cardiff CF10 3AX, UK. 2 Department of Biology, University of Vermont, Burlington, VT 05405, USA. Correspondence and requests for materials should be addressed to I.P.V. (email: [email protected]) NATURE COMMUNICATIONS | (2019) 10:1956 | https://doi.org/10.1038/s41467-019-09736-3 | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | https://doi.org/10.1038/s41467-019-09736-3 n response to global climate change, species will either shift in Across a series of analyses using ~20–26,000 high-quality, stan- distribution as they track their preferred climate, adapt locally, dardised benthic macroinvertebrate samples collected from I 1,2 or decline in abundance ultimately to extinction . -
Featured: Simon Brassell 9/18/2020 PRE-SCRIPT in the Fourth Episode
Featured: Simon Brassell 9/18/2020 PRE-SCRIPT In the fourth episode of BIOmarkers, the audio series that archives the oral history of organic geochemistry, we speak with Dr. Simon Brassell, Professor of Geological Sciences, Biogeochemistry, and Molecular Organic Geochemistry at the Department of Earth and Atmospheric Sciences at Indiana University Bloomington. In his interview, Simon discusses his time at the University of Bristol, proxies, and what piques his interest today. SCRIPT Fatima Husain: Welcome to BIOmarkers, an audio series that archives the oral history of organic geochemistry. I’m your host, Fatima Husain, and I’m here today with my series co-creators and fellow organic geochemists Angel Mojarro and Juliana Drozd. Angel Mojarro: For today’s episode, we spoke with Dr. Simon Brassell. Simon Brassell: I'm Simon Brassell, I'm a professor of Earth and Planetary Sciences at Indiana University. When anyone asked me what I am, I would say I'm a molecular organic geochemistry and molecular bio bio geochemist, because my area of expertise started in looking at biomarkers, and I have pretty much stayed in that area all along. Juliana Drozd: We spoke with Simon briefly in between sessions at the 2019 International Meeting on Organic Geochemistry about his career pathway and insights into the field. Fatima Husain: It turns out, this isn’t too hard to do: Simon Brassell: This is about something like the 14th, 15th time I've come to IMOG and every year there are two, two. There's one meeting each year that I always try and get to and it's the IMOG and then even years, it's the Gordon research conference on organic chemistry because I learn more at those meetings about the specifics of the subject than I do at any other bigger or meetings that aren't a less focused on organic geochemistry, and it's always great to come back and see people who I've known some for 10 years, some for 20 years, some 30 years, some 40 years. -
This Article Was Published in an Elsevier Journal. the Attached Copy
This article was published in an Elsevier journal. The attached copy is furnished to the author for non-commercial research and education use, including for instruction at the author’s institution, sharing with colleagues and providing to institution administration. Other uses, including reproduction and distribution, or selling or licensing copies, or posting to personal, institutional or third party websites are prohibited. In most cases authors are permitted to post their version of the article (e.g. in Word or Tex form) to their personal website or institutional repository. Authors requiring further information regarding Elsevier’s archiving and manuscript policies are encouraged to visit: http://www.elsevier.com/copyright Author's personal copy Available online at www.sciencedirect.com Geochimica et Cosmochimica Acta 72 (2008) 1396–1414 www.elsevier.com/locate/gca Okenane, a biomarker for purple sulfur bacteria (Chromatiaceae), and other new carotenoid derivatives from the 1640 Ma Barney Creek Formation Jochen J. Brocks a,*, Philippe Schaeffer b a Research School of Earth Sciences and Centre for Macroevolution and Macroecology, The Australian National University, Canberra, ACT 0200, Australia b Laboratoire de Ge´ochimie Bio-organique, CNRS UMR 7177, Ecole Europe´enne de Chimie, Polyme`res et Mate´riaux, 25 rue Becquerel, 67200 Strasbourg, France Received 20 June 2007; accepted in revised form 12 December 2007; available online 23 December 2007 Abstract Carbonates of the 1640 million years (Ma) old Barney Creek Formation (BCF), McArthur Basin, Australia, contain more than 22 different C40 carotenoid derivatives including lycopane, c-carotane, b-carotane, chlorobactane, isorenieratane, b-iso- renieratane, renieratane, b-renierapurpurane, renierapurpurane and the monoaromatic carotenoid okenane. -
Tracking the Popularity and Outcomes of All Biorxiv Preprints
1 Meta-Research: Tracking the popularity and outcomes of all bioRxiv 2 preprints 3 Richard J. Abdill1 and Ran Blekhman1,2 4 1 – Department of Genetics, Cell Biology, and Development, University of Minnesota, 5 Minneapolis, MN 6 2 – Department of Ecology, Evolution, and Behavior, University of Minnesota, St. Paul, 7 MN 8 9 ORCID iDs 10 RJA: 0000-0001-9565-5832 11 RB: 0000-0003-3218-613X 12 13 Correspondence 14 Ran Blekhman, PhD 15 University of Minnesota 16 MCB 6-126 17 420 Washington Avenue SE 18 Minneapolis, MN 55455 19 Email: [email protected] 1 20 Abstract 21 The growth of preprints in the life sciences has been reported widely and is 22 driving policy changes for journals and funders, but little quantitative information has 23 been published about preprint usage. Here, we report how we collected and analyzed 24 data on all 37,648 preprints uploaded to bioRxiv.org, the largest biology-focused preprint 25 server, in its first five years. The rate of preprint uploads to bioRxiv continues to grow 26 (exceeding 2,100 in October 2018), as does the number of downloads (1.1 million in 27 October 2018). We also find that two-thirds of preprints posted before 2017 were later 28 published in peer-reviewed journals, and find a relationship between the number of 29 downloads a preprint has received and the impact factor of the journal in which it is 30 published. We also describe Rxivist.org, a web application that provides multiple ways 31 to interact with preprint metadata. 32 Introduction 33 In the 30 days of September 2018, four leading biology journals – The Journal of 34 Biochemistry, PLOS Biology, Genetics and Cell – published 85 full-length research 35 articles. -
Impact on Citations and Altmetrics Peter E. Clayson*1, Scott
1 The Open Access Advantage for Studies of Human Electrophysiology: Impact on Citations and Altmetrics Peter E. Clayson*1, Scott A. Baldwin2, and Michael J. Larson2,3 1Department of Psychology, University of South Florida, Tampa, FL 2Department of Psychology, Brigham Young University, Provo, UT 3Neuroscience Center, Brigham Young University, Provo, UT *Corresponding author at: Department of Psychology, University of South Florida, 4202 East Fowler Avenue, Tampa, FL, US, 33620-7200. Email: [email protected] 2 Disclosure Michael J. Larson, PhD, is the Editor-in-Chief of the International Journal of Psychophysiology. Editing of the manuscript was handled by a separate editor and Dr. Larson was blinded from viewing the reviews or comments as well as the identities of the reviewers. 3 Abstract Barriers to accessing scientific findings contribute to knowledge inequalities based on financial resources and decrease the transparency and rigor of scientific research. Recent initiatives aim to improve access to research as well as methodological rigor via transparency and openness. We sought to determine the impact of such initiatives on open access publishing in the sub-area of human electrophysiology and the impact of open access on the attention articles received in the scholarly literature and other outlets. Data for 35,144 articles across 967 journals from the last 20 years were examined. Approximately 35% of articles were open access, and the rate of publication of open-access articles increased over time. Open access articles showed 9 to 21% more PubMed and CrossRef citations and 39% more Altmetric mentions than closed access articles. Green open access articles (i.e., author archived) did not differ from non-green open access articles (i.e., publisher archived) with respect to citations and were related to higher Altmetric mentions. -
And Its Sister Journals)
Updating image To update the background image, click on the picture placeholder icon 1. Windows Explorer or Finder will open 2. Find your required image and click ‘Insert’ 3. When cover image inserted, right-click in the grey area directly below this text box and select ‘Reset slide’ NOTE: If an image is already in place and you want to change it: 1. Select the image, and hit your delete key 2. Follow steps 1-4 above How to get published in Nature (and its sister journals) Ed Gerstner orcid.org/0000-0003-0369-0767 Regional Scientific Director, Springer Nature March 2018 1 Updating footer To update the footer: • Click into the text box on the slide master page and update the In the beginning… information Checking updates • The text updates may not flow … there was Nature through to all the slide layouts as some have been placed manually. Therefore you may need to check and manually update other slides • Founded in 1869 • The world’s leading, global, scientific journal Updating image To update the background image, click on • Across the full range of the picture placeholder icon scientific disciplines • Nature’s mission: 1. Windows Explorer or Finder will open 2. Find your required image and click ‘Insert’ 3. When cover image inserted, right-click in To communicate the world’s the grey area directly below this text box best and most important and select ‘Reset slide’ science to scientists across NOTE: If an image is already in place and you want the world and to the wider to change it: community interested in 1. -
Cross-Serotype Protection Against Group a Streptococcal Infections Induced by Immunization with Spy 2191
ARTICLE https://doi.org/10.1038/s41467-020-17299-x OPEN Cross-serotype protection against group A Streptococcal infections induced by immunization with SPy_2191 Pooja Sanduja 1,6,8, Manish Gupta 2,8, Vikas Kumar Somani 2,7, Vikas Yadav 1, Meenakshi Dua3, ✉ Emanuel Hanski 4, Abhinay Sharma 4, Rakesh Bhatnagar 5,9 & Atul Kumar Johri 1,9 Streptococcus 1234567890():,; Group A (GAS) infection causes a range of diseases, but vaccine development is hampered by the high number of serotypes. Here, using reverse vaccinology the authors identify SPy_2191 as a cross-protective vaccine candidate. From 18 initially identified surface proteins, only SPy_2191 is conserved, surface-exposed and inhibits both GAS adhesion and invasion. SPy_2191 immunization in mice generates bactericidal antibodies resulting in opsonophagocytic killing of prevalent and invasive GAS serotypes of different geographical regions, including M1 and M49 (India), M3.1 (Israel), M1 (UK) and M1 (USA). Resident splenocytes show higher interferon-γ and tumor necrosis factor-α secretion upon antigen re- stimulation, suggesting activation of cell-mediated immunity. SPy_2191 immunization sig- nificantly reduces streptococcal load in the organs and confers ~76-92% protection upon challenge with invasive GAS serotypes. Further, it significantly suppresses GAS pharyngeal colonization in mice mucosal infection model. Our findings suggest that SPy_2191 can act as a universal vaccine candidate against GAS infections. 1 School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India. 2 BSL-3 Unit, Molecular Biology and Genetic Engineering Laboratory, School of Biotechnology, Jawaharlal Nehru University, New Delhi 110067, India. 3 School of Environmental Sciences, Jawaharlal Nehru University, New Delhi 110067, India.