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  1. Research article

    Comprehensive proteome profiling in Aedes albopictus to decipher Wolbachia-arbovirus interference phenomenon

    Aedes albopictus is a vector of arboviruses that cause severe diseases in humans such as Chikungunya, Dengue and Zika fevers. The vector competence of Ae. albopictus varies depending o...

    Yoann Saucereau, Claire Valiente Moro, Cindy Dieryckx, Jean-William Dupuy, Florence-Hélène Tran, Vincent Girard, Patrick Potier and Patrick Mavingui

    BMC Genomics 2017 18:635

    Published on: 18 August 2017

  2. Research article

    Maternal nutrient restriction in mid-to-late gestation influences fetal mRNA expression in muscle tissues in beef cattle

    Manipulating maternal nutrition during specific periods of gestation can result in re-programming of fetal and post-natal development. In this experiment we investigated how a feed restriction of 85% compared ...

    Francois Paradis, Katie M. Wood, Kendall C. Swanson, Stephen P. Miller, Brian W. McBride and Carolyn Fitzsimmons

    BMC Genomics 2017 18:632

    Published on: 18 August 2017

  3. Research article

    Genomic, transcriptomic, and proteomic approaches towards understanding the molecular mechanisms of salt tolerance in Frankia strains isolated from Casuarina trees

    Soil salinization is a worldwide problem that is intensifying because of the effects of climate change. An effective method for the reclamation of salt-affected soils involves initiating plant succession using...

    Rediet Oshone, Mariama Ngom, Feixia Chu, Samira Mansour, Mame Ourèye Sy, Antony Champion and Louis S. Tisa

    BMC Genomics 2017 18:633

    Published on: 18 August 2017

  4. Research

    AvBD1 nucleotide polymorphisms, peptide antimicrobial activities and microbial colonisation of the broiler chicken gut

    The importance of poultry as a global source of protein underpins the chicken genome and associated SNP data as key tools in selecting and breeding healthy robust birds with improved disease resistance. SNPs a...

    Kevin Cadwell, Sherko S. Niranji, Vanessa L. Armstrong, Catherine A. Mowbray, Richard Bailey, Kellie A Watson and Judith Hall

    BMC Genomics 2017 18:637

    Published on: 18 August 2017

  5. Research article

    Genome-wide analysis of LTR-retrotransposon diversity and its impact on the evolution of the genus Helianthus (L.)

    Genome divergence by mobile elements activity and recombination is a continuous process that plays a key role in the evolution of species. Nevertheless, knowledge on retrotransposon-related variability among s...

    Flavia Mascagni, Tommaso Giordani, Marilena Ceccarelli, Andrea Cavallini and Lucia Natali

    BMC Genomics 2017 18:634

    Published on: 18 August 2017

  6. Research article

    A genome-wide transcriptome map of pistachio (Pistacia vera L.) provides novel insights into salinity-related genes and marker discovery

    Pistachio (Pistacia vera L.) is one of the most important commercial nut crops worldwide. It is a salt-tolerant and long-lived tree, with the largest cultivation area in Iran. Climate change and subsequent increa...

    Maryam Moazzzam Jazi, Seyed Mahdi Seyedi, Esmaeil Ebrahimie, Mansour Ebrahimi, Gianluca De Moro and Christopher Botanga

    BMC Genomics 2017 18:627

    Published on: 17 August 2017

  7. Research article

    Role of the type VI secretion systems during disease interactions of Erwinia amylovora with its plant host

    Type VI secretion systems (T6SS) are widespread among Gram-negative bacteria and have a potential role as essential virulence factors or to maintain symbiotic interactions. Three T6SS gene clusters were identi...

    Tim Kamber, Joël F. Pothier, Cosima Pelludat, Fabio Rezzonico, Brion Duffy and Theo H. M. Smits

    BMC Genomics 2017 18:628

    Published on: 17 August 2017

  8. Research article

    Effects of the vertically transmitted microsporidian Facilispora margolisi and the parasiticide emamectin benzoate on salmon lice (Lepeophtheirus salmonis)

    Microsporidia are highly specialized, parasitic fungi that infect a wide range of eukaryotic hosts from all major taxa. Infections cause a variety of damaging effects on host physiology from increased stress t...

    Jordan D. Poley, Ben J. G. Sutherland, Mark D. Fast, Ben F. Koop and Simon R. M. Jones

    BMC Genomics 2017 18:630

    Published on: 17 August 2017

  9. Methodology Article

    Assisted clustering of gene expression data using ANCut

    In biomedical research, gene expression profiling studies have been extensively conducted. The analysis of gene expression data has led to a deeper understanding of human genetics as well as practically useful...

    Sebastian J. Teran Hidalgo, Mengyun Wu and Shuangge Ma

    BMC Genomics 2017 18:623

    Published on: 16 August 2017

  10. Research article

    Transcriptional analysis of abdominal fat in chickens divergently selected on bodyweight at two ages reveals novel mechanisms controlling adiposity: validating visceral adipose tissue as a dynamic endocrine and metabolic organ

    Decades of intensive genetic selection in the domestic chicken (Gallus gallus domesticus) have enabled the remarkable rapid growth of today’s broiler (meat-type) chickens. However, this enhanced growth rate was a...

    C. W. Resnyk, W. Carré, X. Wang, T. E. Porter, J. Simon, E. Le Bihan-Duval, M. J. Duclos, S. E. Aggrey and L. A. Cogburn

    BMC Genomics 2017 18:626

    Published on: 16 August 2017

  11. Research article

    The genomic architecture of mastitis resistance in dairy sheep

    Mastitis is the most prevalent disease in dairy sheep with major economic, hygienic and welfare implications. The disease persists in all dairy sheep production systems despite the implementation of improved m...

    G. Banos, G. Bramis, S. J. Bush, E. L. Clark, M. E.B. McCulloch, J. Smith, G. Schulze, G. Arsenos, D. A. Hume and A. Psifidi

    BMC Genomics 2017 18:624

    Published on: 16 August 2017

  12. Research article

    Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas euvesicatoria

    Bacteria of the genus Xanthomonas are economically important plant pathogens. Pathogenicity of Xanthomonas spp. depends on the type III-secretion system and additional virulence determinants. The number of sequen...

    Ulrike Abendroth, Norman Adlung, Andreas Otto, Benjamin Grüneisen, Dörte Becher and Ulla Bonas

    BMC Genomics 2017 18:625

    Published on: 16 August 2017

  13. Research article

    Sex and tissue specific gene expression patterns identified following de novo transcriptomic analysis of the Norway lobster, Nephrops norvegicus

    The Norway lobster, Nephrops norvegicus, is economically important in European fisheries and is a key organism in local marine ecosystems. Despite multi-faceted scientific interest in this species, our current kn...

    Guiomar Rotllant, Tuan Viet Nguyen, Valerio Sbragaglia, Lifat Rahi, Kevin J. Dudley, David Hurwood, Tomer Ventura, Joan B. Company, Vincent Chand, Jacopo Aguzzi and Peter B. Mather

    BMC Genomics 2017 18:622

    Published on: 16 August 2017

  14. Research article

    Application of a Bayesian non-linear model hybrid scheme to sequence data for genomic prediction and QTL mapping

    Using whole genome sequence data might improve genomic prediction accuracy, when compared with high-density SNP arrays, and could lead to identification of casual mutations affecting complex traits. For some t...

    Tingting Wang, Yi-Ping Phoebe Chen, Iona M. MacLeod, Jennie E. Pryce, Michael E. Goddard and Ben J. Hayes

    BMC Genomics 2017 18:618

    Published on: 15 August 2017

  15. Research article

    Validation of β-lactam minimum inhibitory concentration predictions for pneumococcal isolates with newly encountered penicillin binding protein (PBP) sequences

    Genomic sequence-based deduction of antibiotic minimum inhibitory concentration (MIC) has great potential to enhance the speed and sensitivity of antimicrobial susceptibility testing. We previously developed a...

    Yuan Li, Benjamin J. Metcalf, Sopio Chochua, Zhongya Li, Robert E. Gertz Jr, Hollis Walker, Paulina A. Hawkins, Theresa Tran, Lesley McGee and Bernard W. Beall

    BMC Genomics 2017 18:621

    Published on: 15 August 2017

  16. Research article

    Suitable reference gene for quantitative real-time PCR analysis of gene expression in gonadal tissues of minnow Puntius sophore under high-temperature stress

    High ambient temperature is known to affect fish gonadal development and physiology in a variety of ways depending on the severity and duration of exposure; however, the underlying molecular mechanisms are poo...

    Arabinda Mahanty, Gopal Krishna Purohit, Sasmita Mohanty, Nihar Ranjan Nayak and Bimal Prasanna Mohanty

    BMC Genomics 2017 18:617

    Published on: 15 August 2017

  17. Research article

    Integrated analysis of mRNA-seq and miRNA-seq reveals the potential roles of sex-biased miRNA-mRNA pairs in gonad tissue of dark sleeper (Odontobutis potamophila)

    The dark sleeper (Odontobutis potamophila) is an important commercial fish species which shows a sexually dimorphic growth pattern. However, the lack of sex transcriptomic data is hindering further research and g...

    Cheng Zhao, Guosong Zhang, Shaowu Yin, Zecheng Li, Qintao Wang, Shuqiao Chen and Guoqin Zhou

    BMC Genomics 2017 18:613

    Published on: 14 August 2017

  18. Research Article

    Draft de novo transcriptome assembly and proteome characterization of the electric lobe of Tetronarce californica: a molecular tool for the study of cholinergic neurotransmission in the electric organ

    The electric organ of Tetronarce californica (an electric ray formerly known as Torpedo californica) is a classic preparation for biochemical studies of cholinergic neurotransmission. To broaden the usefulness of...

    Maria Stavrianakou, Ricardo Perez, Cheng Wu, Matthew S. Sachs, Rodolfo Aramayo and Mark Harlow

    BMC Genomics 2017 18:611

    Published on: 14 August 2017

  19. Research

    Transcriptomic analysis of the response of Acropora millepora to hypo-osmotic stress provides insights into DMSP biosynthesis by corals

    Dimethylsulfoniopropionate (DMSP) is a small sulphur compound which is produced in prodigious amounts in the oceans and plays a pivotal role in the marine sulfur cycle. Until recently, DMSP was believed to be ...

    Catalina Aguilar, Jean-Baptiste Raina, Cherie A. Motti, Sylvain Fôret, David C. Hayward, Bruno Lapeyre, David G. Bourne and David J. Miller

    BMC Genomics 2017 18:612

    Published on: 14 August 2017

  20. Research article

    Genomic data illuminates demography, genetic structure and selection of a popular dog breed

    Genomic methods have proved to be important tools in the analysis of genetic diversity across the range of species and can be used to reveal processes underlying both short- and long-term evolutionary change. ...

    Pamela Wiener, Enrique Sánchez-Molano, Dylan N. Clements, John A. Woolliams, Marie J. Haskell and Sarah C. Blott

    BMC Genomics 2017 18:609

    Published on: 14 August 2017

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