Tag: BEAST

Mitogenome organization, composition, and skewness The complete mitochondrial genome of B. dussumieri is (GenBank accession XX) 16,685 bp of length, which is similar to other mudskippers mitogenomes (16,470–17,243 bp) (Tables 1 and 2). The mitochondrial genome and the structure were also typical of the mudskipper species and with highly conservative sites, comprising…

Hey there, fellow code wranglers and AI enthusiasts! I’m Cami, your friendly neighborhood tech explorer, and I’m about to take you on a wild ride through my latest adventure: contributing to PyTorch without being an expert in it. Yes, you read that right! My Unexpected Journey into PyTorch So, I…

Alston JM, Sambucci O. Grapes in the world economy. In: Cantu D, Walker MA, editors. The grape genome. Springer International Publishing; 2019. p. 1–24. Google Scholar  Rahemi A, Dodson Peterson JC, Lund KT. Grape rootstocks and related species. Cham: Springer International Publishing; 2022. Walker MA, Heinitz C, Riaz S, Uretsky…

Wang, A. L. & Wang, C. C. Viruses of the protozoa. Annu. Rev. Microbiol. 45, 251–263 (1991). Article  CAS  PubMed  Google Scholar  Banik, G., Stark, D., Rashid, H. & Ellis, J. Recent advances in molecular biology of parasitic viruses. Infect. Disord. – Drug Targets 14, 155–167 (2015). Article  Google Scholar …

Google Gemini Pro AI is rocking day by day in the AI field, now It is available on Vertex AI. This fantastic conversational AI model is here to empower developers like you to create mind-blowing intelligent applications. Let us delve into its outstanding characteristics and embark on an AI innovation…

Inclusion and ethics The DNA samples analysed in this project form part of a collection of biospecimens, including historically collected samples, maintained under Indigenous governance by the NCIG11 at the John Curtin School of Medical Research at the Australian National University (ANU). NCIG, a statutory body within ANU, was founded…

Zachos, J., Pagani, H., Sloan, L., Thomas, E. & Billups, K. Trends, rhythms, and aberrations in global climate 65 Ma to present. Science 292, 686–693 (2001). Article  ADS  CAS  PubMed  Google Scholar  Favre, A. et al. The role of the uplift of the Qinghai-Tibetan Plateau for the evolution of Tibetan…

Throughout the time, religion and science have choreographed a dance of discord, from the historic Galileo to contemporary debates on evolution and cosmic creation. This dance revolves around the perceived threat scientific discoveries pose to sacred scripts, challenging religious doctrines entrenched in the binary code of belief. In this techno-theological…

November 30, 2023 By Not a Tesla App Staff Tesla just finished its Cybertruck delivery event and has now announced final specs and pricing for its three Cybertruck variants. Specifications and Prices RWD Cybertruck Estimated Price: $60,990 Availability: 2025 Estimated Range: 250 miles Acceleration: 0-60 mph in 6.5 seconds AWD…

No, your eyes are not deceiving you. The Tesla Cybertruck is finally here. The production-spec electric pickup was revealed at an event at Tesla’s Gigafactory in Austin, Texas, that was livestreamed on X, formerly known as Twitter. CEO Elon Musk started off the event by proclaiming, “You have a car…

With just one day left until the heavily anticipated Tesla Cybertruck delivery event, more details are starting to spill online about the angular pickup. Those now include trim levels, 3D visualizations and more about the “Beast Mode” function, all courtesy of one intrepid software developer. Thanks to a dev who goes by…

Loftus, R. T., MacHugh, D. E., Bradley, D. G., Sharp, P. M. & Cunningham, P. Evidence for two independent domestications of cattle. Proc. Natl Acad. Sci. USA 91, 2757–2761 (1994). Article  ADS  CAS  PubMed  PubMed Central  Google Scholar  Verdugo Marta, P. et al. Ancient cattle genomics, origins, and rapid turnover…

Irish, S. R., Kyalo, D., Snow, R. W. & Coetzee, M. Updated list of Anopheles species (Diptera: Culicidae) by country in the Afrotropical Region and associated islands. Zootaxa 4747(3), 401–449. doi.org/10.1646/zootaxa.4747.3.1 (2020). Article  Google Scholar  Jacques, B. Les moustiques de l’archipel Comores. Série Entomologie Médicale et Parasitologie 15(2), 153–170 (1977)….

Andrews S (2010) FastQC: a quality control tool for high throughput sequence data. www.bioinformatics.babraham.ac.uk/projects/fastqc Avise JC (1986) Mitochondrial DNA and the evolutionary genetics of higher animals. Philos Trans R Soc Lond B 312:325–342. doi.org/10.1098/rstb.1986.0011 Article  CAS  Google Scholar  Baker CS, Steel D, Calambokidis J, Falcone E, González-Peral U, Barlow J,…

Investigators collected water samples from the famous Scottish lake’s Borlum Bay during the largest search for Nessie in over 50 years. Matty Wiles, 49 and Aga Balinska, 42 were volunteering as part of the search, which took place over the last weekend of August this year. They went for an…

Higham, C. Early Mainland Southeast Asia (Antiquity (River Books Press Dist A C, 2014). Google Scholar  O’Connell, J. F. et al. When did homo sapiens first reach Southeast Asia and Sahul?. Proc. Natl. Acad. Sci. U. S. A. 115, 8482–8490 (2018). Article  ADS  PubMed  PubMed Central  Google Scholar  Freidline, S….

Vertex OTO 1st – 7th Reviews: There is a front end offer & 7 other OTOs. The 1st is Vertex Unlimited Edition, the 2nd Vertex OTO is Vertex Done For You, the 3rd is Vertex Automation, the 4th Vertex OTO is Vertex Machine Edition, the 5th Vertex OTO is Vertex…

Blood samples, DNA extraction, mitochondrial genome amplification and sequencing Following established procedures, bat blood samples were collected from designated sampling sites in Kanchanaburi, located in western Thailand, during the years 2019 and 202123,33,34. For this study, four bat samples (2 Myotis siligoensis and 2 Hipposideros gentilis) were utilized. These samples…

Introduction In the ever-expanding field of Natural Language Processing (NLP), attention mechanisms have emerged as a game-changer. They allow models to focus selectively on parts of the input sequence, enhancing their ability to understand context. This blog post will guide you through building a custom attention model for text classification…

Andersen HF, Jordal BH, Kambestad M, Kirkendall LR (2012) Improbable but true: the invasive inbreeding ambrosia beetle Xylosandrus morigerus has generalist genotypes. Ecol Evol 2:247–257 Article  PubMed  PubMed Central  Google Scholar  Arif S, Gerth M, Hone‐Millard WG, Nunes MDS, Dapporto L, Shreeve TG (2021) Evidence for multiple colonisations and Wolbachia…

In a world where tech ‘game-changers’ are as common as memes, Apple has just dropped a bombshell- the new MacBook Pro line-up, featuring the magnificent M3 chips. So, let’s get ready as I am about to take you on a rollercoaster of information and some laughter as we dive into…

In summary They revive rumors in Japan about Putin using doubles and AI technology in his public appearances to appear more real. AI deepfakes pose challenges in the authenticity of images and videos. Strategies such as watermarking and combating deepfakes continue to be an evolving challenge. A media segment in…

Home Bioconductor 3.18 Released October 25, 2023 Bioconductors: We are pleased to announce Bioconductor 3.18, consisting of 2266 software packages, 429 experiment data packages, 920 annotation packages, 30 workflows and 4 books. There are 69 new software packages, 10 new data experiment packages, 8 new annotation packages, no new workflows,…

This week’s Media Briefing looks at what was on publishers’ minds at the Prebid Summit on Monday. There are still a lot of unknowns coming down the pike for how the programmatic advertising market will function following the removal of third-party cookies from Google’s Chrome browser next year, if the…

Participants James H. Friedland; Director of IR; Alphabet Inc. Philipp Schindler; Senior VP & Chief Business Officer; Google LLC Ruth M. Porat; President, CIO, Senior VP & CFO; Alphabet Inc. Sundar Pichai; CEO & Director; Alphabet Inc. Brian Thomas Nowak; Research Analyst; Morgan Stanley, Research Division Douglas Till Anmuth; MD;…

Importing nexus-formatted tree (e.g. BEAST tree) into R as a phylo object with node labels 0 I’m trying to import a nexus tree (from BEAST) as a phylo object with node information (I’m specifically interested in the “posterior” values). The methods I tried fail: 1) importing with ape::read.nexus() does not…

Rubin, S., Parr, T., Da Costa, L. & Friston, K. Future climates: Markov blankets and active inference in the biosphere. J. R. Soc. Interface 17, 20200503 (2020). Article  CAS  PubMed  PubMed Central  Google Scholar  Cantonati, M. et al. Characteristics, main impacts, and stewardship of natural and artificial freshwater environments: Consequences…

Yang, L. E. et al. Redefining Pyropia (Bangiales, Rhodophyta): Four new genera, resurrection of Porphyrella and description of Calidia pseudolobata sp. Nov. from China. J. Phycol. 56, 862–879 (2020). Article  CAS  PubMed  Google Scholar  Mumford Jr, T. F. Porphyra as Food: Cultivation and Economics in Algae and Human Affairs (ed….

Fine Dissection of Human Mitochondrial DNA Haplogroup HV Lineages Reveals Paleolithic Signatures from European Glacial Refugia Sara De Fanti et al (Sarno and Metspalu are also listed authors See:journals.plos.org/plosone/article?id=10.1371/journal.pone.0144391 Abstract “Genetic signatures from the Paleolithic inhabitants of Eurasia can be traced from the early divergent mitochondrial DNA lineages still present…

EUR 860,00 Compralo Subito o Proposta d’acquisto, Spedizione gratuita, 30-Giorno Restituzione, Garanzia cliente eBay Venditore: liangli65 ✉️ (1.555) 98.7%, Luogo in cui si trova l’oggetto: China, CN, Spedizione verso: WORLDWIDE, Numero oggetto: 325803120466 Statua comandante antica dinastia bronzo Gengis Khan Jenghiz Khan Temujin. Vase.Flower Pot Bowl. Incense Burner. buddha statues….

Futurama has many classic episodes that have delighted fans again and again. All sorts of adventures can happen in the series’ futuristic world. Many episodes are homages to classic stories, especially other well-known science-fiction works. Some Futurama stories are so popular that they’ve gotten their own follow-up episodes. MOVIEWEB VIDEO…

“Simplifying” a very fragmented genome for visualisation? 3 Hi there, I have a very fragmented reference genome that I want to visualize (with jbrowse or similar) This is the paper for the genome: link Here the genome can be found: link2 Here are the quast statistics: ######## QUAST Results ########…

Johnson, W. E. et al. The late Miocene radiation of modern felidae: a genetic assessment. Science 311, 73–77 (2006). Article  CAS  PubMed  Google Scholar  Li, G., Davis, B. W., Eizirik, E. & Murphy, W. J. Phylogenomic evidence for ancient hybridization in the genomes of living cats (Felidae). Genome Res. 26,…

What programs allow you to find the mutation rate of many sequences without needing to calculate by hand? 0 Many methodologies require extensive calculation to determine mutation rate, but I am looking for a program (MAFFT, MEGA 11, BEAST, Arlequin, etc.) that has a feature that allows for the calculation…

Dear all, We are excited to announce our upcoming online course on Phylogenomics, focused on Phylogenetic Inference and Divergence-Time Estimation with Genomic Data Sets. This course aims to provide researchers with the necessary tools and techniques to harness the power of genomic data for understanding evolutionary relationships and divergence times….

Skaletsky, H. et al. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature 423, 825–837 (2003). Article  ADS  CAS  PubMed  Google Scholar  Porubsky, D. et al. Recurrent inversion polymorphisms in humans associate with genetic instability and genomic disorders. Cell 185, 1986–2005 (2022). Article …

Since its debut on Fox in 1999, animated sci-fi sitcom Futurama, by David X. Cohen and The Simpsons and Disenchantment creator Matt Groening, has been adored by fans and critics alike as it followed the adventures of pizza delivery guy Fry, voiced by Billy West, after he is accidentally frozen…

Miller, W. et al. Sequencing the nuclear genome of the extinct woolly mammoth. Nature 456, 387–390 (2008). Article  ADS  CAS  PubMed  Google Scholar  Soubrier, J. et al. Early cave art and ancient DNA record the origin of European bison. Nat. Commun. 7, 13158 (2016). Article  ADS  PubMed  PubMed Central  Google…

Fresh from a strongly supported $35 million placement, ASX-listed immuno-oncology medtech Imugene is on a steadfast mission to activate the immune system of cancer patients to help treat and eradicate tumours. The company recently entered into an agreement with Precision Biosciences to acquire a world-wide exclusive license for its off-the-shelf…

Oilseeds yield not only oil for cooking and frying. Their so-called meal – the residual cake after extraction of oil from the seeds – is a protein-rich ingredient used in livestock, poultry and aqua feed. India’s most significant domestically-grown oilseed is rapeseed-mustard. Its share in the country’s production of vegetable…

Wu, Z. Antibiotic Use and Antibiotic Resistance in Food-Producing Animals in China OECD Food, Agriculture and Fisheries Paper No. 134 (OECD, 2019); doi.org/10.1787/4adba8c1-en Looft, T. et al. In-feed antibiotic effects on the swine intestinal microbiome. Proc. Natl Acad. Sci. USA 109, 1691–1696 (2012). Article  ADS  CAS  PubMed  PubMed Central  Google…

Divergence dates change when pruning chronogram 0 Hi there, I am trying to prune a dated species tree with >10,000 taxa down to ~700. I want to keep the dates as they are in the full tree, however, when using the drop.tip function in the ape package in R to…

Check out the new receipes at www.instagram.com/adamhandling/reels/?hl=en credit:Bang Showbiz Adam Handling has created two dishes inspired by ‘Dungeons and Dragons’. The 34-year-old chef won BBC’s ‘Great British Menu Champion of Champions’ award earlier this year and following a survey that found that 77% of Brits want to sample the foods…

Gen Z and Millennials love escaping into fantasy worlds – and now celebrity chef Adam Handling has created two recipes to help them eat fictional foods for real. The Michelin Star chef and recently crowned Great British Menu’s ‘Champion of Champions’ has worked out how home cooks can magic up…

If I’ve interpreted correctly, you want the time to the most recent common ancestor of any two species in the tree? If so, something like the following works: library(“ggtree”) library(“treeio”) require(“dplyr”) beast_file <- system.file(“examples/MCC_FluA_H3.tree”, package=”ggtree”) beast_tree <- read.beast(beast_file) beast_tree@data %>% dplyr::select(node,height) # choose some random tips for the purpose of…

Mourad, O., Makhani, L. & Chen, L. H. Chikungunya: an emerging public health concern. Curr. Infect. Dis. Rep. 24, 217–228 (2022). Article  PubMed  PubMed Central  Google Scholar  Chala, B. & Hamde, F. Emerging and re-emerging vector-borne infectious diseases and the challenges for control: a review. Front. Public Health 9, 715759…

Dark, P. & Gent, H. Pests and diseases of prehistoric crops: a yield ‘honeymoon’ for early grain crops in Europe? Oxford J. Archaeol. 20, 59–78 (2001). Article  Google Scholar  Mira, A., Pushker, R. & Rodriguez-Valera, F. The Neolithic revolution of bacterial genomes. Trends Microbiol. 14, 200–206 (2006). Article  CAS  PubMed …

RABV sequence and metadata acquisition and composition All 25,787 available sequences for the five genes of the RABV genome were downloaded from the NCBI Virus database5. After quality control, the RABV data set was reduced to 14,752 sequences that spanned 121 countries and were extracted from 192 different host species…

Shapiro, B. et al. Rise and fall of the Beringian steppe bison. Science 306, 1561–1565 (2004). Article  ADS  CAS  PubMed  Google Scholar  Zver, L., Toškan, B. & Bužan, E. Phylogeny of Late Pleistocene and Holocene Bison species in Europe and North America. Quat. Int. 595, 30–38 (2021). Article  Google Scholar …

Weird (very large) values for branch lengths in BEAST MCC trees? 0 Hi all, I am learning to use BEAST2 and have made some Maximum Clade Credibility phylogenetic trees from a handful of virus isolates I have sequenced. I am trying to learn how to interpret my trees. My posterior…

Callaway, E. Oldest Homo sapiens fossil claim rewrites our species’ history. Nature. doi.org/10.1038/NATURE.2017.22114 (2017). Article  PubMed  Google Scholar  Lucas-Sánchez, M., Serradell, J. M. & Comas, D. Population history of North Africa based on modern and ancient genomes. Hum. Mol. Genet. 30(R1), R17–R23. doi.org/10.1093/HMG/DDAA261 (2021). Article  PubMed  Google Scholar  Scerri, E….

Simpson, G. G. The Principles of Classification and a Classification of Mammals Vol. 85 (American Museum of Natural History, 1945). Jarvis, E. D. et al. Whole-genome analyses resolve early branches in the tree of life of modern birds. Science 346, 1320–1331 (2014). Article  CAS  PubMed  PubMed Central  Google Scholar  Parks,…

Uetz, P., Slavenko, A., Meiri, S. & Heinicke, M. P. Gecko diversity: A history of global discovery. Israel J. Ecol. Evol. 66, 117–125 (2020). Article  Google Scholar  Grismer, L. L. et al. Phylogenetic partitioning of the third-largest vertebrate genus in the world, Cyrtodactylus Gray, 1827 (Reptilia; Squamata; Gekkonidae) and its…

We recently covered the new Sidereal Essence and Titan Rune Dungeon Update coming in Phase 3, which will launch on June 20th. Sidereal Essence and Titan Rune Beta Dungeons will have significant impact on Pre-Raid Best in Slot Gear. Thankfully, our Guide Writers have updated Pre-Raid Best in Slot Gear…

Wrath of the Lich King Classic Phase 3 will launch on June 20th and Trial of the Crusader will open on June 22nd, at 3:00 PM PT! Our writers have prepared Best in Slot Gear Guides for every class and specialization, as well as Raid guides for Trial of the…

The news was deafening: The marketing technology landscape “Supergraphic” now included more than 11,000 solutions. If you’ve never seen this feat of organizational wonder, every year a graphic is produced that aims to aggregate, categorize, and make sense of the MarTech landscape. And every year, like a hungry amoeba, it…

Phase 3 General Information Tier 9 and the Argent Crusade Tribute Chest Phase 3 Emblems and Currencies Phase 3 Raids Koralon the Flame Watcher Trial of the Crusader Onyxia’s Lair Death Knight Gearing Blood Frost Unholy Druid Gearing Balance Feral (DPS) Feral (Tank) Restoration Hunter Gearing Beast Mastery Marksmanship Survival…

Abstract Cotinus is an oligo‐specific ornamentally valuable genus with a disjunct distribution in the Northern Hemisphere. Traditionally, the taxonomy of Cotinus was mainly based on leaf morphological characteristics. However, the limited availability of genomic information greatly hindered the study of molecular evolution and phylogeny of this genus. This study sequenced…

BEAST Divergence time Analysis 0 I have gene of interest for lepidoptera that I want to analyse. I blasted my gene to ncbi and got many related sequences within different species of bees. I have already alligned my sequences. I have included 1 gene from tricoptera. Which I want to…

As of October 2021, two years since the start of the pandemic, coronavirus disease 2019 (COVID-19)-related deaths have surpassed 4,800,000 worldwide and 700,000 in the United States. Due to the severity of the pandemic combined with the advent of sequencing technologies, the amount of sequencing data within such a short…

NEW YORK – Google is the latest of the major cloud platform service providers to make a formal foray into the world of genome analysis and artificial intelligence-driven genome interpretation. The firm last week introduced Google Cloud Multiomics Suite and a companion product for drug discovery called Target and Lead…

Bol’shakov, S.G., Some features of biology, growth, and age of Far Eastern redfins—Pacific redfin Tribolodon brandti and big-scaled redfin Tribolodon hakonensis—in southern Primorskii krai, Izv. Tikhookean. Nauchno-Issled. Inst. Rybn. Khoz. Okeanogr., 2013, pp. 141–158. Google Scholar  Brykov, V.A., Polyakova, N.E., and Semina, A.V., Comparative analysis of mitochondrial DNA variability in four…

Part of what made Futurama so great is its ability to combine comedy and drama. One minute we’re laughing, and the next we’re grabbing for a box of tissues. This list will focus on the latter. With the show’s revival in the works, we’re looking at some of the saddest moments…

Building phylogenetic tree accounting for spatial information 0 Hello everyone, I am a newbie to bioinformatics. I am trying to build phylogenetic trees using sequence data from multiple countries. For example, assume I have SARS-CoV-2 sequences from the UK and Brazil, with the difference being that the Gamma variants are…

Liu, J. et al. Integrating a comprehensive DNA barcode reference library with a global map of yews (Taxus L.) for forensic identification. Mol. Ecol. Resour. 18, 1115–1131 (2018). Article  CAS  Google Scholar  Parveen, I., Singh, H. K., Raghuvanshi, S., Pradhan, U. C. & Babbar, S. B. DNA barcoding of endangered…

Success Podcast Biotecnika Exclusive – An Exclusive CSIR NET Podcast – Episode 7 cdn.biotecnika.org/wp-content/uploads/2023/05/The-Success-Podcast-Episode-7.mp3 Welcome to Episode 7 of the Success Podcast An exclusive CSIR NET podcast initiative by Biotecnika. We are on the journey towards the CSIR NET June 2023 exam. With barely 35 days left, it is of…

Biotecnika Success Podcast – An Exclusive CSIR NET Podcast – Episode 3 cdn.biotecnika.org/wp-content/uploads/2023/04/The-Success-Podcast-Ep-3-Biotecnika.mp3 Welcome to Episode 3 of the Success Podcast An exclusive CSIR NET podcast initiative by Biotecnika. We are on the journey towards the CSIR NET June 2023 exam. With barely 60 days left, it is of utmost…

Success Podcast Biotecnika – An Exclusive CSIR NET Podcast – Episode 4 cdn.biotecnika.org/wp-content/uploads/2023/04/Success-Podcast-Biotecnika-Ep-4.mp3 Welcome to Episode 4 of the Success Podcast An exclusive CSIR NET podcast initiative by Biotecnika. We are on the journey towards the CSIR NET June 2023 exam. With barely 60 days left, it is of utmost…

Biotecnika’s Success Podcast – An Exclusive CSIR NET Podcast – Episode 2 cdn.biotecnika.org/wp-content/uploads/2023/04/Success-Podcast-By-Biotecnika-Episode-2.mp3 Welcome to Episode 2 of the Success Podcast An exclusive CSIR NET podcast initiative by Biotecnika. We are on the journey towards the CSIR NET June 2023 exam. With barely 60 days left, it is of utmost…

Zhao, T. et al. Scutellaria baicalensis Georgi. (Lamiaceae): A review of its traditional uses, botany, phytochemistry, pharmacology and toxicology. J. Pharm. Pharmacol. 71, 1353–1369 (2019). Article  CAS  PubMed  Google Scholar  National Pharmacopoeia Committee, N. Pharmacopoeia of the People’s Republic of China (2020). Wang, Z. et al. A Comprehensive review on…

Photo Illustration by The Daily Beast / Pexels It should go without saying by now: You should get your shots. However, your traditional syringe only goes so far. Sometimes, it’s helpful to get an even more precise inoculation on a cellular level. This type of injection could help pave the…

The expanded repertoire of isolate genomes in CGR2 In continuation of our previous work on cultivation and sequencing gut-resident microbes, a total of ~20,000 bacterial isolates were cultivated. 4066 of these isolates were selected for whole-genome sequencing generating 3324 high-quality genomes with more than 90% completeness and less than 10%…

30-second intro The official version of PyTorch 2.0 comes out today (March 15 2023)! With the main improvement being speed. This comes via a single backwards-compatible line. torch.compile() In other words, after you create your model, you can pass it to torch.compile() to recieve a compiled model and in turn…

Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, et al. Evolution of mammals and their gut microbes. Science. 2008;320:1647–51. Article  CAS  PubMed  PubMed Central  Google Scholar  Ochman H, Worobey M, Kuo CH, Ndjango JB, Peeters M, Hahn BH, et al. Evolutionary relationships of wild hominids recapitulated…

WoW WotLK Classic: Phase 3 preview. We’re fighting here in WoW: Wrath of the Lich King Classic began in Ulduar a few weeks ago. It’s time to look at things that’re new in the third edition of a nostalgic Northend trip. In this, we don’t expect raids like Ulduar, who…

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Claude, J., Paradis, E., Tong, H. & Auffray, J. C. A geometric morphometric assessment of the effects of environment and cladogenesis on the evolution of the turtle shell. Biol. J. Linn. Soc. 79, 485–501 (2003). Article  Google Scholar  Klingenberg, C. P., Duttke, S., Whelan, S. & Kim, M. Developmental plasticity,…

A recent Emerging Infectious Diseases study investigated the death of a hippopotamus at a zoo in Hanoi, Vietnam. Interestingly, this study detected the presence of the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) virus in the hippopotamus. SARS-CoV-2 is the causal agent of the ongoing coronavirus disease 2019 (COVID-19) pandemic. Study:…

Even though the series Rick and Morty hates copying other animated series’ work, it straight up stole the grossest joke in the history of Futurama. Despite Rick’s total disdain for outright copying another animated series (with ‘putting one’s own spin on it’ apparently being the only suitable exception), Rick and…

Jones, M. E. H. et al. Integration of molecules and new fossils supports a Triassic origin for Lepidosauria (lizards, snakes, and tuatara). BMC Evol. Biol. 13, 208 (2013). Article  PubMed  PubMed Central  Google Scholar  Pyron, R. A., Burbrink, F. T. & Wiens, J. J. A phylogeny and revised classification of…

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Neetu Arnold, Senior Research Associate of the National Association of Scholars (NAS) has done what amounts to an expose of the politicization of campus Middle East studies centers. What began as – let’s say, a coincidence of timing between generous Arab donations to university study centers offering a pro-Arab, anti-Israel…

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Hughes, C. E. & Atchinson, G. W. The ubiquity of alpine plant radiations: from the Andes to the Hengduan Mountains. N. Phytol. 207, 275–282 (2015). Article  Google Scholar  Rahbek, C. et al. Humboldt’s enigma: what causes global patterns of mountain biodiversity? Science 365, 1108–1113 (2019). ADS  CAS  PubMed  Article  Google…

Introduction Incipient species are critical for evolutionary biologists to study speciation, but they also challenge taxonomy due to gene flow or ancestral polymorphism. The former and contrasting population size lead to larger intraspecific than interspecific variations, a phenomenon called the species-definition anomaly zone (Jiao and Yang, 2021). The latter results…

Substitution model selection in BEAST 1 I have constructed phylogenomic tree using the protein-coding genes of plant mitogenome using maximum likelihood method. Now I want to compare it using Bayesian method using BEAST. The alignment file is amino acids instead of DNA. What is the best recommendation of substitution model…

Song Y, Zhang Y, Han Z, Xu W, Xiao J, Wang X, et al. Genetic recombination in fast-spreading coxsackievirus A6 variants: a potential role in evolution and pathogenicity. Virus Evol. 2020;6:2. doi.org/10.1093/ve/veaa048. Article  Google Scholar  Chen J, Han Z, Wu H, Xu W, Yu D, Zhang Y. A large-scale outbreak…

Sampling Six dioecious fig species (F. erecta, F. formosana, F. vaccinioides, F. abelii, F. pyriformis, and F. variolosa) and their pollinator wasp species were examined in this study. As mentioned in the Introduction, these fig species were considered to be well suited for this study because they are distributed in…

Stölting KN, Wilson AB. Male pregnancy in seahorses and pipefish: beyond the mammalian model. Bioessays. 2007;29:884–96. PubMed  Google Scholar  Whittington CM, Friesen CR. The evolution and physiology of male pregnancy in syngnathid fishes. Biol Rev Camb Philos Soc. 2020;95:1252–72. PubMed  Google Scholar  Rosenqvist G, Berglund A. Sexual signals and mating…

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Wu, W. et al. NDM metallo-β-lactamases and their bacterial producers in health care settings. Clin. Microbiol. Rev. 32, e00115–18 (2019). Yong, D. et al. Characterization of a new metallo-β-lactamase gene, bla NDM-1, and a novel erythromycin esterase gene carried on a unique genetic structure in Klebsiella pneumoniae sequence type 14…

If you’ve tried OpenAPI spec generators, you know how it goes. They get you about 60-80% there, but you end up having to modify the code by hand. For one of the specs (GitHub REST API spec), a popular code generator I tried produced more than 300 compile-time errors. With…

Dataset construction, cluster identification and definition of DCCs Whole genome sequencing of two collections of isolates from Manchester, UK, and the Netherlands was carried out as previously described2. Briefly, DNA was extracted from colony sweeps of subcultured samples before to paired-end sequencing using the Illumina HiSeq platform. These samples were…

This repo gathers all the input files and scripts related to our study entitled “Exploiting genomic surveillance to map the spatio-temporal dispersal of SARS-CoV-2 spike mutations in Belgium across 2020” (Bollen et al. submitted): R scripts to prepare, analyse, and visualise the phylogeographic analyses performed in this study, Geographic Information…

1. Dudas, G. et al. Virus genomes reveal factors that spread and sustained the Ebola epidemic. Nature 544, 309–315 (2017). ADS  CAS  Article  Google Scholar  2. Kafetzopoulou, L. E. et al. Metagenomic sequencing at the epicenter of the Nigeria 2018 Lassa fever outbreak. Science 363, 74–77 (2019). ADS  CAS  Article …

Identification and analysis of the early transmission dynamics, importations and local circulation of SARS-CoV-2 in Ecuador inferred from genomic data. Bernardo Gutierrez1,2, Sully Márquez3, Belén Prado-Vivar3, Mónica Becerra-Wong3, Juan José Guadalupe4, Darlan da Silva Candido1, Juan Carlos Fernandez-Cadena5, Gabriel Morey-Leon6, Rubén Armas-Gonzalez7, Derly Madeleiny Andrade-Molina5, Alfredo Bruno8,9, Domenica de Mora8,…

If science fiction has taught us anything over the years, it’s that there stands an inherent danger whenever humankind decides to play God. And yet the temptation to seek progress, to satiate curiosity, and gain knowledge is often too strong to ignore. Sometimes, these desires can lead to some truly fascinating innovations….

Gromacs 4.5.4 manual OntheStabilityofNegativelyChargedPlatelets inCalcium g_energy(1) [debian man page] Gromacs User Manual Version 4.6The defence of Königsberg had cost the lives of 42,000 German soldiers and 25,000 civilians. He yanked the seaman out and shouted at him to report straight to…

Job DescriptionThe University of Maryland, Baltimore (UMB), Institute of Human Virology (IHV) is currently recruiting for a Senior Bioinformatics Analyst. The Senior Bioinformatics Analyst provides complex support to Principal Investigator in the Division of Epidemiology and Prevention. The range of duties include, but are not restricted to, designing statistical analysis,…