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  1. Research article

    Effects of exposure to Streptococcus iniae on microRNA expression in the head kidney of genetically improved farmed tilapia (Oreochromis niloticus)

    Genetically improved farmed tilapia (GIFT, Oreochromis niloticus) are susceptible to infection by Streptococcus iniae when maintained in modern intensive culture systems. GIFT are commercially important fishes th...

    Jun Qiang, Fanyi Tao, Jie He, Lanyi Sun, Pao Xu and Wenjin Bao

    BMC Genomics 2017 18:190

    Published on: 20 February 2017

  2. Research article

    Integrating genetic maps in bambara groundnut [Vigna subterranea (L) Verdc.] and their syntenic relationships among closely related legumes

    Bambara groundnut [Vigna subterranea (L) Verdc.] is an indigenous legume crop grown mainly in subsistence and small-scale agriculture in sub-Saharan Africa for its nutritious seeds and its tolerance to drought an...

    Wai Kuan Ho, Hui Hui Chai, Presidor Kendabie, Nariman Salih Ahmad, Jaeyres Jani, Festo Massawe, Andrzej Kilian and Sean Mayes

    BMC Genomics 2017 18:192

    Published on: 20 February 2017

  3. Commentary

    Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research

    Advancing the production efficiency and profitability of aquaculture is dependent upon the ability to utilize a diverse array of genetic resources. The ultimate goals of aquaculture genomics, genetics and bree...

    Hisham Abdelrahman, Mohamed ElHady, Acacia Alcivar-Warren, Standish Allen, Rafet Al-Tobasei, Lisui Bao, Ben Beck, Harvey Blackburn, Brian Bosworth, John Buchanan, Jesse Chappell, William Daniels, Sheng Dong, Rex Dunham, Evan Durland, Ahmed Elaswad…

    BMC Genomics 2017 18:191

    Published on: 20 February 2017

  4. Research article

    Origin and phylogenetic status of the local Ashanti Dwarf pig (ADP) of Ghana based on genetic analysis

    The Ashanti Dwarf Pig (ADP) of Ghana is an endangered pig breed with hardy and disease resistant traits. Characterisation of animal genetic resources provides relevant data for their conservation and sustainab...

    Richard Osei-Amponsah, Benjamin M. Skinner, Dennis O. Adjei, Julien Bauer, Greger Larson, Nabeel A. Affara and Carole A. Sargent

    BMC Genomics 2017 18:193

    Published on: 20 February 2017

  5. Research article

    Deep Illumina sequencing reveals conserved and novel microRNAs in grass carp in response to grass carp reovirus infection

    The grass carp hemorrhagic disease caused by the grass carp reovirus (GCRV) is a major disease that hampers the development of grass carp aquaculture. The mechanism underlying GCRV pathogenesis and hemorrhagic...

    Libo He, Aidi Zhang, Pengfei Chu, Yongming Li, Rong Huang, Lanjie Liao, Zuoyan Zhu and Yaping Wang

    BMC Genomics 2017 18:195

    Published on: 20 February 2017

  6. Research article

    Chronic nicotine differentially affects murine transcriptome profiling in isolated cortical interneurons and pyramidal neurons

    Nicotine is known to differentially regulate cortical interneuron and pyramidal neuron activities in the neocortex, while the underlying molecular mechanisms have not been well studied. In this study, RNA-sequ...

    Jie Yang, Ai-Yi Liu, Bo Tang, Dong Luo, Yu-Jie Lai, Bing-Lin Zhu, Xue-Feng Wang, Zhen Yan and Guo-Jun Chen

    BMC Genomics 2017 18:194

    Published on: 20 February 2017

  7. Research article

    Transcriptomic dynamics of breast cancer progression in the MMTV-PyMT mouse model

    Malignant breast cancer with complex molecular mechanisms of progression and metastasis remains a leading cause of death in women. To improve diagnosis and drug development, it is critical to identify panels o...

    Ying Cai, Ruben Nogales-Cadenas, Quanwei Zhang, Jhih-Rong Lin, Wen Zhang, Kelly O’Brien, Cristina Montagna and Zhengdong D. Zhang

    BMC Genomics 2017 18:185

    Published on: 17 February 2017

  8. Research article

    Genome-wide identification of direct HBx genomic targets

    The Hepatitis B Virus (HBV) HBx regulatory protein is required for HBV replication and involved in HBV-related carcinogenesis. HBx interacts with chromatin modifying enzymes and transcription factors to modula...

    Francesca Guerrieri, Laura Belloni, Daniel D’Andrea, Natalia Pediconi, Loredana Le Pera, Barbara Testoni, Cecilia Scisciani, Oceane Floriot, Fabien Zoulim, Anna Tramontano and Massimo Levrero

    BMC Genomics 2017 18:184

    Published on: 17 February 2017

  9. Research article

    Understanding the response to endurance exercise using a systems biology approach: combining blood metabolomics, transcriptomics and miRNomics in horses

    Endurance exercise in horses requires adaptive processes involving physiological, biochemical, and cognitive-behavioral responses in an attempt to regain homeostasis. We hypothesized that the identification of...

    Núria Mach, Yuliaxis Ramayo-Caldas, Allison Clark, Marco Moroldo, Céline Robert, Eric Barrey, Jesús Maria López and Laurence Le Moyec

    BMC Genomics 2017 18:187

    Published on: 17 February 2017

  10. Research article

    Impact of novel SNPs identified in Cynara cardunculus genes on functionality of proteins regulating phenylpropanoid pathway and their association with biological activities

    Cynara cardunculus L. offers a natural source of phenolic compounds with the predominant molecule being chlorogenic acid. Chlorogenic acid is gaining interest due to its involvement in...

    Ana Margarida Ferro, Patrícia Ramos, Olinda Guerreiro, Eliana Jerónimo, Inês Pires, Carmen Capel, Juan Capel, Rafael Lozano, Maria F. Duarte, M. Margarida Oliveira and Sónia Gonçalves

    BMC Genomics 2017 18:183

    Published on: 17 February 2017

  11. Research article

    The origin of chow chows in the light of the East Asian breeds

    East Asian dog breeds are one of the most ancient groups of dogs that radiated after the domestication of the dog and represent the most basal lineages of dog evolution. Among these, the Chow Chow is an ancien...

    Hechuan Yang, Guodong Wang, Meng Wang, Yaping Ma, Tingting Yin, Ruoxi Fan, Hong Wu, Li Zhong, David M. Irwin, Weiwei Zhai and Yaping Zhang

    BMC Genomics 2017 18:174

    Published on: 16 February 2017

  12. Research article

    House spider genome uncovers evolutionary shifts in the diversity and expression of black widow venom proteins associated with extreme toxicity

    Black widow spiders are infamous for their neurotoxic venom, which can cause extreme and long-lasting pain. This unusual venom is dominated by latrotoxins and latrodectins, two protein families virtually unkno...

    Kerry L. Gendreau, Robert A. Haney, Evelyn E. Schwager, Torsten Wierschin, Mario Stanke, Stephen Richards and Jessica E. Garb

    BMC Genomics 2017 18:178

    Published on: 16 February 2017

  13. Research article

    De novo sequencing and comparative transcriptome analysis of adventitious root development induced by exogenous indole-3-butyric acid in cuttings of tetraploid black locust

    Indole-3-butyric acid (IBA) is applied to the cuttings of various plant species to induce formation of adventitious roots (ARs) in commercial settings. Tetraploid black locust is an attractive ornamental tree ...

    Jine Quan, Seng Meng, Erhui Guo, Sheng Zhang, Zhong Zhao and Xitian Yang

    BMC Genomics 2017 18:179

    Published on: 16 February 2017

  14. Research article

    Using whole genome sequencing to investigate transmission in a multi-host system: bovine tuberculosis in New Zealand

    Bovine tuberculosis (bTB), caused by Mycobacterium bovis, is an important livestock disease raising public health and economic concerns around the world. In New Zealand, a number of wildlife species are implicate...

    Joseph Crispell, Ruth N. Zadoks, Simon R. Harris, Brent Paterson, Desmond M. Collins, Geoffrey W. de-Lisle, Paul Livingstone, Mark A. Neill, Roman Biek, Samantha J. Lycett, Rowland R. Kao and Marian Price-Carter

    BMC Genomics 2017 18:180

    Published on: 16 February 2017

  15. Research article

    Plastome phylogeny and early diversification of Brassicaceae

    The family Brassicaceae encompasses diverse species, many of which have high scientific and economic importance. Early diversifications and phylogenetic relationships between major lineages or clades remain un...

    Xinyi Guo, Jianquan Liu, Guoqian Hao, Lei Zhang, Kangshan Mao, Xiaojuan Wang, Dan Zhang, Tao Ma, Quanjun Hu, Ihsan A. Al-Shehbaz and Marcus A. Koch

    BMC Genomics 2017 18:176

    Published on: 16 February 2017

  16. Research article

    The mitochondrial genome sequences of the round goby and the sand goby reveal patterns of recent evolution in gobiid fish

    Vertebrate mitochondrial genomes are optimized for fast replication and low cost of RNA expression. Accordingly, they are devoid of introns, are transcribed as polycistrons and contain very little intergenic s...

    Irene Adrian-Kalchhauser, Ola Svensson, Verena E. Kutschera, Magnus Alm Rosenblad, Martin Pippel, Sylke Winkler, Siegfried Schloissnig, Anders Blomberg and Patricia Burkhardt-Holm

    BMC Genomics 2017 18:177

    Published on: 16 February 2017

  17. Research article

    Plasmid diversity and phylogenetic consistency in the Lyme disease agent Borrelia burgdorferi

    Bacteria from the genus Borrelia are known to harbor numerous linear and circular plasmids. We report here a comparative analysis of the nucleotide sequences of 236 plasmids present in fourteen independent isolat...

    Sherwood R. Casjens, Eddie B. Gilcrease, Marija Vujadinovic, Emmanuel F. Mongodin, Benjamin J. Luft, Steven E. Schutzer, Claire M. Fraser and Wei-Gang Qiu

    BMC Genomics 2017 18:165

    Published on: 15 February 2017

  18. Research article

    Structure and variation of CRISPR and CRISPR-flanking regions in deleted-direct repeat region Mycobacterium tuberculosis complex strains

    CRISPR and CRISPR-flanking genomic regions are important for molecular epidemiology of Mycobacterium tuberculosis complex (MTBC) strains, and potentially for adaptive immunity to phage and plasmid DNA, and endoge...

    Paul Jeffrey Freidlin, Israel Nissan, Anna Luria, Drora Goldblatt, Lana Schaffer, Hasia Kaidar-Shwartz, Daniel Chemtob, Zeev Dveyrin, Steven Robert Head and Efrat Rorman

    BMC Genomics 2017 18:168

    Published on: 15 February 2017

  19. Research article

    An integrative metabolomics and transcriptomics study to identify metabolic alterations in aged skin of humans in vivo

    Aging human skin undergoes significant morphological and functional changes such as wrinkle formation, reduced wound healing capacity, and altered epidermal barrier function. Besides known age-related alterati...

    Andreas Kuehne, Janosch Hildebrand, Joern Soehle, Horst Wenck, Lara Terstegen, Stefan Gallinat, Anja Knott, Marc Winnefeld and Nicola Zamboni

    BMC Genomics 2017 18:169

    Published on: 15 February 2017

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