Tag Archives: BluePippin

Cost-Effective Microbiome Sequencing with 10x Genomics and Athena Assembler

If you missed Ami Bhatt’s talk at AGBT last month, a bioRxiv preprint is a great way to catch up on her team’s impressive work characterizing microbial communities — from the human gut to the sea floor. Bhatt and her … more »

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Small RNA populations revealed by blocking rRNA fragments in Drosophila melanogaster reproductive tissues

February 2018 Authors: Emily Fowler, Irina Mohorianu, Damian Smith, Tamas Dalmay, Tracey Chapman Info: Scientists present a method for removing highly abundant rRNAs for improved analysis of small RNAs in RNA interference studies. Results showed increased resolution of sRNAs, even … more »

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The DNA Methylome of the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius

February 2018 Authors: Mohea Couturier and Ann-Christin Lindås Info: Scientists from Stockholm University investigated the impact of DNA methylation in archaeal genomes by analyzing the complete DNA methylome of S. acidocaldarius using PacBio sequencing. The team used BluePippin to remove … more »

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Draft genome assembly of the Bengalese finch, Lonchura striata domestica, a model for motor skill variability and learning

February 2018 Authors: Bradley Colquitt, David Mets, and Michael Brainard Info: Scientists generated a high-quality draft genome and gene annotation for Bengalese finch, which has a more variable song than other finches, making it an important model for sensorimotor learning. … more »

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Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients

January 2018 Authors: K. Nudel, X. Zhao, S. Basu, X. Dong, et al. Info: Scientists from Harvard Medical School and other institutions used whole genome sequencing and MALDI/TOF to analyze seven C. striatum infections, all resistant to multiple drugs. They … more »

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Isoform Sequencing and State-of-Art Applications for Unravelling Complexity of Plant Transcriptomes

January 2018 Authors: Dong An, Hieu X. Cao, Changsheng Li, Klaus Humbeck and Wenqin Wang Info: In this paper, researchers offer best practices for using the Iso-Seq method with PacBio sequencing to analyze plant transcriptomes. They recommend BluePippin for size … more »

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Finding Nemo: Hybrid assembly with Oxford Nanopore and Illumina reads greatly improves the Clownfish (Amphiprion ocellaris) genome assembly

January 2018 Authors: Mun Hua Tan, Christopher Austin, Michael Hammer, Yin Peng Lee, Laurence Croft, Han Ming Gan Info: This paper presents the first hybrid genome assembly of Amphiprion ocellaris, the clown anemonefish. The team combined data from Illumina and … more »

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Characterization of plasmids harboring blaCTX-M and blaCMY genes in E. coli from French broilers

January 2018 Authors: Fabrice Touzain, Laetitia Le Devendec, Claire de Boisséson, Sandrine Baron, et al. Info: In this study of avian E. coli collected from slaughterhouses or diseased broilers, scientists analyzed resistance to extended-spectrum cephalosporins. Sequencing was performed with Illumina … more »

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New Mosquito Assembly to Accelerate Science and Insect Control

There’s a lot to love about the new preprint announcing the first-ever truly high-quality reference genome assembly for the Aedes aegypti mosquito. The large consortium of scientists — the paper features a total of 72 co-authors — came together on … more »

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Nemertean and phoronid genomes reveal lophotrochozoan evolution and the origin of bilaterian heads

December 2017 Authors: Yi-Jyun Luo, Miyuki Kanda, Ryo Koyanagi, Kanako Hisata, et al. Info: Scientists from the Okinawa Institute of Science and Technology Graduate University and Okayama University in Japan generated draft genomes and transcriptomes of ribbon worms and horseshoe … more »

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