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Publications

We believe that basic research and the cultivation of scientific knowledge is critical for us to stay connected with our customers and to drive scientific breakthroughs. At NEB, over 30 labs participate in research projects, which are aided by post-doctoral fellows and students in Masters and Ph.D. programs. NEB researchers have authored or co-authored over 1,000 publications (as of 1/17) many of which are in peer-reviewed journals. Further, NEB products have been used successfully in numerous publications by scientists throughout the world.

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    Basic Research

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Year Title Journal Authors Application(s)
2016 Identification of Ecdysone Hormone Receptor Agonists as a Therapeutic Approach for Treating Filarial Infections. PLoS Negl Trop Dis. Mhashilkar, A.S., Vankayala, S.L., Liu, C., Kearns, F., Mehrotra, P., Tzertzinis, G., Palli, S.R., Woodcock, H.L. and Unnaschm, T.R.
2016 mRNA capping: biological functions and applications. Nucleic Acids Res Ramanathan, A., Robb, G.B. and Chan, S.H.
2016 Detecting DNA Methylation using the Oxford Nanopore Technologies MinION sequencer bioRxiv Simpson, J.T. et al.
2016 Emerging pathogens of gilthead seabream: characterisation and genomic analysis of novel intracellular β-proteobacteria. ISME J. Seth-Smith, M.B.P. et al.
2016 Type II restriction endonucleases - a historical perspective and more. Nucleic Acids Res Pingoud, A., Wilson, G.G. and Wende, W.
2016 Jmjd2/Kdm4 demethylases are required for expression of Il3ra and survival of acute myeloid leukemia cells Genes & Dev Agger, K. et al.
2016 Reminder to deposit DNA sequences Science Blaxter, M., Danchin, A., Savakis, B., Fukami-Kobayashi, K., Kurokawa, K., Sugano, S., Roberts, R.J., Salzberg, S.L. and Wu, C.I.
2016 Expression and purification of the modification-dependent restriction enzyme BisI and its homologous enzymes Sci Rep Xu, S.Y., Klein, P., Degtyarev, S.K.h. and Roberts, R.J.
2016 Advanced uracil DNA glycosylase-supplemented real-time reverse transcription loop-mediated isothermal amplification (UDG-rRT-LAMP) method for universal and specific detection of Tembusu virus Scientific Reports Tang Y, Chen H, Diao Y
2016 Folate-/FAD-dependent tRNA methyltransferase from Thermus thermophilus regulates other modifications in tRNA at low temperatures. Genes Cells Yamagami, R., Tomikawa, C., Shigi, N., Kazayama, A., Asai, S.I., Takuma, H., Hirata, A., Fourmy, D., Asahara, H., Watanabe, K., Yoshizawa, S. and Hori, H.
2016 Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling Genome Biology Flygare, S. et al.
2016 Increasing Genome Sampling and Improving SNP Genotyping for Genotyping-by-Sequencing with New Combinations of Restriction Enzymes G3 Fu YB, Peterson G. W., Dong Y Restriction Enzyme Digestion,Restriction Enzyme Digestion
2016 A DsbA-Deficient Periplasm Enables Functional Display of a Protein with Redox-Sensitive Folding on M13 Phage. Biochemistry Chen, M., Samuelson, J.C.
2016 Comparative Methylome Analysis of the Occasional Ruminant Respiratory Pathogen Bibersteinia trehalosi. PLoS One Anton, B.P., Harhay, G.P., Smith, T.P., Blom, J. and Roberts, R.J.
2016 Comparison of intraspecific, interspecific and intergeneric chloroplast diversity in Cycads. Sci Rep. Jiang, G.F. et al.
2016 Culture-independent genomic characterisation of Candidatus Chlamydia sanzinia, a novel uncultivated bacterium infecting snakes. BMC Genomics Taylor-Brown, A. et al.
2016 Comparison of a new visual isothermal nucleic acid amplification test with PCR and skin snip analysis for diagnosis of onchocerciasis in humans. Mol Biochem Parasitol. Alhassan, Aa, Osei-Atweneboana, M.Y., Kyeremeh, K.F., Poole, C.B., Li, Z., Tettevi, E., Tanner, N.A. and Carlow, C.K.
2016 Derivative Engineered To Be Deficient in All Methylcytosine and Methyladenine Restriction Systems. Genome Announc. Jobling, M.G., Raleigh, E.A. and Frank, D.N.
2016 Use of the Shuffle Strains in Production of Proteins. Curr Protoc Protein Sci. Ren, G., Ke, N. and Berkmen, M.
2016 Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction Nature Biotechnology Mooijman D, Dey S S, Boisset JC, Crosetto N, van Oudenaarden A Epigenetics
2016 Simple Isothermal Strategy for Multiplexed, Rapid, Sensitive, and Accurate miRNA Detection ACS Sens Wee E J H, Trau M,
2016 WGS for surveillance of antimicrobial resistance: a pilot study to detect the prevalence and mechanism of resistance to azithromycin in a UK population of non-typhoidal Salmonella. J Antimicrob Chemother. Nair, S. et al.
2016 High-efficiency generation of induced pluripotent mesenchymal stem cells from human dermal fibroblasts using recombinant proteins. Stem Cell Res Ther. Chen, F., Zhang, G., Yu, L., Feng, Y., Li, X., Zhang, Z., Wang, Y., Sun, D. and Pradhan, S.
2016 Heme acquisition in the parasitic filarial nematode Brugia malayi. FASEB J. Luck AN, Yuan X, Voronin D, Slatko BE, Hamza I, Foster JM.
2016 Erratum to: SHuffle, a novel Escherichia coli protein expression strain capable of correctly folding disulfide bonded proteins in its cytoplasm. Microb Cell Fact. Lobstein, J., Emrich, C.A., Jeans, C., Faulkner, M., Riggs, P. and Berkmen, M.
2016 Illuminating uveitis: metagenomic deep sequencing identifies common and rare pathogens. Genome Medicine Doan, T. et al.
2016 Rapid, Low-Cost Detection of Zika Virus Using Programmable Biomolecular Components Cell Pardee P, Green A A, Takahashi M K, Braff D, Lambert G, Lee J W, Ferrante T, Ma D, Donghia N, Fan M, Daringer N M, Bosch I, Dudley D M, O’Connor D H, Gehrke H, Collins J J
2016 Quantitative profiling of glycans and glycopeptides: an informatics' perspective Curr Opin Struct Biol. Walsh, I., Zhao, S., Campbell, M., Taron, C.H. and Rudd, P.M.
2016 Perpetuating the homing endonuclease life cycle: identification of mutations that modulate and change I-TevI cleavage preference. Nucleic Acids Res. Roy, A.C., Wilson, G.G. and Edgell, D.R.
2016 Phytochromes function as thermosensors in Arabidopsis. Science Jung, J-H. et al.
2016 Profiling of core fucosylated N-glycans using a novel bacterial lectin that specifically recognizes α1,6 fucosylated chitobiose. Sci Rep. Vainauskas, S., Duke, R.M., McFarland, J., McClung, C., Ruse, C. and Taron, C.H.
2016 Novel Methyltransferase Recognition Motif Identified in Chania multitudinisentens RB-25(T) gen. nov., sp. nov. Front Microbiol Ee, R., Lim, Y.L., Yin, W.F., See-Too, W.S., Roberts, R.J. and Chan, K.G.
2016 Reconstitution of Protein Translation of Mycobacterium Reveals Functional Conservation and Divergence with the Gram-Negative Bacterium Escherichia coli. PLoS One. Srivastava, A., Asahara, H., Zhang, M., Zhang, W., Liu, H., Cui, S., Jin, Q. and Chong, S.
2016 Redox pathway sensing bile salts activates virulence gene expression in Vibrio cholerae. Mol Microbiol. Xue, Y., Tue, F., Shi, M., Wu, C.Q., Ren, G., Wang, X., Fang, W., Song, H. and Yang, M.
2016 Novel m4C modification in type I restriction-modification systems. Nucleic Acids Res. Morgan, R.D., Luyten, Y.A., Johnson, S.A., Clough, E.M., Clark, T.A. and Roberts, R.J.
2016 Complete genome and methylome sequences of two Salmonella Genome Announcements Yao, K., Muruvanda, T., Roberts, R.J., Payne, J., Allard, M.W., Hoffmann, M.
2016 Denys-Drash syndrome associated WT1 glutamine 369 mutants have altered sequence-preferences and altered responses to epigenetic modifications. Nucleic Acids Res. Hashimoto, H., Zhang, X., Zheng, Y., Wilson, G.G. and Cheng, X.
2016 Metabolic Incorporation of Azide Functionality into Cellular RNA. Chembiochem Nainar, S., Beasley, S., Fazio, M., Kubota, M., Dai, N., Correa, I.R. Jr. and Spitale, R.C.
2016 Heme acquisition in the parasitic filarial nematode Brugia malayi. FASEB J. Luck, A.N., Yuan, X., Voronin, D., Slatko, B.E., Hamza, I. and Foster, J.M.
2016 Association of 5-hydroxymethylation and 5-methylation of DNA cytosine with tissue-specific gene expression Epigenetics. Ponnaluri, V.K., Ehrlich, K.C., Zhang, G., Lacey, M., Johnston, D., Pradhan, S. and Ehrlich, M.
2016 Binding of 14-3-3 reader proteins to phosphorylated DNMT1 facilitates aberrant DNA methylation and gene expression. Nucleic Acids Res. Esteve, P.O., Zhang, G., Ponnaluri, V.K., Deepti, K., Chin, H.G., Dai, N., Saqum, C., Black, K., Correa, I.R. Jr., Bedford, M.T., Cheng, X. and Pradhan, S.
2016 A Genetic Map for the Only Self-Fertilizing Vertebrate. G3 (Bethesda) Kanamori A, Sugita Y, Yuasa Y, Suzuki T, Kawamura K, Uno Y, Kamimura K, Matsuda Y, Wilson CA, Amores A, Postlethwait JH, Suga K, Sakakura Y.
2016 Characterizing Two Inter-specific Bin Maps for the Exploration of the QTLs/Genes that Confer Three Soybean Evolutionary Traits. Front Plant Sci. Wang W, Liu M, Wang Y, Li X, Cheng S, Shu L, Yu Z, Kong J, Zhao T, Gai J.
2016 RAD mapping reveals an evolving polymorphic and fuzzy boundary of a plant pseudoautosomal region Mol Ecol. Qiu S, Bergero R, Guirao-Rico S, Campos JL, Cezard T, Gharbi K, Charlesworth D.
2016 Adaptive genetic variation distinguishes Chilean blue mussels (Mytilus chilensis) from different marine environments. Ecol Evol. Araneda C, Larraín MA, Hecht B, Narum S.
2016 RAD-seq data point to a northern origin of the arctic-alpine genus Cassiope (Ericaceae). Mol Phylogenet Evol. Hou Y, Nowak MD, Mirré V, Bjorå CS, Brochmann C, Popp M.
2016 RAD-seq derived genome-wide nuclear markers resolve the phylogeny of tunas. Mol Phylogenet Evol. Díaz-Arce N, Arrizabalaga H, Murua H, Irigoien X, Rodríguez-Ezpeleta N.
2016 Mapping the sex determination locus in the hāpuku (Polyprion oxygeneios) using ddRAD sequencing. BMC Genomics. Brown JK, Taggart JB, Bekaert M, Wehner S, Palaiokostas C, Setiawan AN, Symonds JE, Penman DJ.
2016 Plasmid-based one-pot saturation mutagenesis Nature Methods Wrenbeck E.E., Klesmith J.R., Stapleton J.A., Adeniran A., Tyo K.E., & Whitehead T.A
2016 Simple and Highly Sensitive Molecular Diagnosis of Zika Virus by Lateral Flow Assays. Anal Chem. Lee D, Shin Y, Chung S, Hwang KS, Yoon DS, Lee JH